Citrus Sinensis ID: 005966

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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-------
Protein Sequence
MNGPSHHTLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNILTA
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccHHHHHHHHHHHcccHHHHHHHcccccccccHHHHHHHHHHHccccHHHHHHHHHHHHccccccccccHHHHHHHHHccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHcHHHHHHHHHHHHHHcccccEEHHHHHHHHHHHcccHHHHHHHHcccccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHccccHHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHccccccccHHHHHHHHHHHccccHHHHHHHHHHHHcccccccccEEEEEccEEcc
Secondary Structure Prediction (SSPRO)
cccccccccccccHHHHHHHHHHHccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHcHHHHHHHHHHccccccEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHcHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHcHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccccEEHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccEEEEEccEEcc
Coil and Loop (DISEMBL)
mngpshhtlpkTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYaqngashdsLKMFLGMLrlgeynpdnytypIVIKACTDLAWRKLGIALHGrvlitgfdmdtFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLksgvepdcasvvsvlpacgylkeIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLmqfegvrpnsltIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARtskkktvpwnaILAGCVHNGLARKAVELFRQMLVEVvepndatlNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFseipikdkdiVVWSVIIAgygmhghgETAVSLFKEMVqsgvqpnevTFTSALHacshgglldEGLDLFNFMLenhqtcsradhYTCIVDLLGRAGRLDEAYDLirtmplkpthAVWGALLGACVIHGNVELGEVAAKWLFelepenpgnyVLLSKLYSAVRRWKdaenvrdvmdekglrkapahsLIEVRNILTA
Flexible Loop (DISEMBL)
mngpshhtlpkTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFseipikdkdIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAEnvrdvmdekglrkapahslievrnilta
Low Complexity Region (SEG)
MNGPSHHTLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGsllsacsslyylKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNILTA
Disordered region (IsUnstruct)
***********TTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDV***********************
Disordered Region (DISOPRED)
******HTLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNILT*
Disordered Region (DISEMBL)
*********PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNILTA
Disordered Region (DISPRO)
******HTLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNIL**
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MNGPSHHTLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNILTA
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	667	2.2.26 [Sep-21-2011]
Q9FLZ9	677	Pentatricopeptide repeat-	yes	no	0.967	0.952	0.569	0.0
Q9SN39	871	Pentatricopeptide repeat-	no	no	0.977	0.748	0.387	1e-134
Q3E6Q1	809	Pentatricopeptide repeat-	no	no	0.988	0.814	0.372	1e-125
Q9SS97	660	Putative pentatricopeptid	no	no	0.907	0.916	0.375	1e-121
Q9LFL5	850	Pentatricopeptide repeat-	no	no	0.946	0.742	0.371	1e-119
Q9STE1	857	Pentatricopeptide repeat-	no	no	0.959	0.746	0.353	1e-118
Q9ZQ74	689	Pentatricopeptide repeat-	no	no	0.904	0.875	0.370	1e-115
Q9LUJ2	842	Pentatricopeptide repeat-	no	no	0.878	0.695	0.366	1e-114
Q9M9E2	866	Pentatricopeptide repeat-	no	no	0.908	0.699	0.364	1e-113
Q9SVA5	834	Pentatricopeptide repeat-	no	no	0.935	0.748	0.352	1e-113

>sp|Q9FLZ9|PP405_ARATH Pentatricopeptide repeat-containing protein At5g39350 OS=Arabidopsis thaliana GN=PCMP-E16 PE=2 SV=1

 Score =  780 bits (2013), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 371/651 (56%), Positives = 484/651 (74%), Gaps = 6/651 (0%)

Query: 19  LVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAY---GHVSNVRILFDEMSERSS 75
           L+  +AAT+SI+ TK LH  +IT G +  H+ S+L   Y   GH++  R LF+EM + S 
Sbjct: 21  LLNHFAATQSISKTKALHCHVITGGRVSGHILSTLSVTYALCGHITYARKLFEEMPQSSL 80

Query: 76  FLYNTVMKMYAQNGASHDSLKMFLGMLRLG-EYNPDNYTYPIVIKACTDLAWRKLGIALH 134
             YN V++MY + G  HD++ +F+ M+  G +  PD YTYP V KA  +L   KLG+ +H
Sbjct: 81  LSYNIVIRMYVREGLYHDAISVFIRMVSEGVKCVPDGYTYPFVAKAAGELKSMKLGLVVH 140

Query: 135 GRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAK 194
           GR+L + F  D +V N L+AMYMNFG+V+ AR VFD M    V+SWNT+ISGY++N Y  
Sbjct: 141 GRILRSWFGRDKYVQNALLAMYMNFGKVEMARDVFDVMKNRDVISWNTMISGYYRNGYMN 200

Query: 195 EALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV 254
           +AL++FDWM+   V+ D A++VS+LP CG+LK++EMGR +H+LV   RLG  I   NALV
Sbjct: 201 DALMMFDWMVNESVDLDHATIVSMLPVCGHLKDLEMGRNVHKLVEEKRLGDKIEVKNALV 260

Query: 255 DMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL 314
           +MY+KCG ++EAR VFDRM  RDV+TWT MINGY  +GDV NAL L +LMQFEGVRPN++
Sbjct: 261 NMYLKCGRMDEARFVFDRMERRDVITWTCMINGYTEDGDVENALELCRLMQFEGVRPNAV 320

Query: 315 TIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFART 374
           TI SL+S C     +  G+ LH W ++Q +  ++I+ET+LI MYAKC  V L F+VF+  
Sbjct: 321 TIASLVSVCGDALKVNDGKCLHGWAVRQQVYSDIIIETSLISMYAKCKRVDLCFRVFSGA 380

Query: 375 SKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM 434
           SK  T PW+AI+AGCV N L   A+ LF++M  E VEPN ATLNSLLPAYA LADL+QAM
Sbjct: 381 SKYHTGPWSAIIAGCVQNELVSDALGLFKRMRREDVEPNIATLNSLLPAYAALADLRQAM 440

Query: 435 NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPI--KDKDIVVWSVIIAGY 492
           NIHCYL + GF+S ++ +TGL+ +YSKCG+LESAHKIF+ I    K KD+V+W  +I+GY
Sbjct: 441 NIHCYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKIFNGIQEKHKSKDVVLWGALISGY 500

Query: 493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR 552
           GMHG G  A+ +F EMV+SGV PNE+TFTSAL+ACSH GL++EGL LF FMLE+++T +R
Sbjct: 501 GMHGDGHNALQVFMEMVRSGVTPNEITFTSALNACSHSGLVEEGLTLFRFMLEHYKTLAR 560

Query: 553 ADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLF 612
           ++HYTCIVDLLGRAGRLDEAY+LI T+P +PT  VWGALL ACV H NV+LGE+AA  LF
Sbjct: 561 SNHYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTVWGALLAACVTHENVQLGEMAANKLF 620

Query: 613 ELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRN 663
           ELEPEN GNYVLL+ +Y+A+ RWKD E VR +M+  GLRK P HS IE+R+
Sbjct: 621 ELEPENTGNYVLLANIYAALGRWKDMEKVRSMMENVGLRKKPGHSTIEIRS 671

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 =  479 bits (1234), Expect = e-134,   Method: Compositional matrix adjust.
 Identities = 258/666 (38%), Positives = 390/666 (58%), Gaps = 14/666 (2%)

Query: 10  PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRSSLVRAY---GHVSNVRI 65
           P+T   V++L    A +KS+   K++  FI  +G +  ++L S L   Y   G +     
Sbjct: 94  PRTLCSVLQLC---ADSKSLKDGKEVDNFIRGNGFVIDSNLGSKLSLMYTNCGDLKEASR 150

Query: 66  LFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLA 125
           +FDE+    +  +N +M   A++G    S+ +F  M+  G    D+YT+  V K+ + L 
Sbjct: 151 VFDEVKIEKALFWNILMNELAKSGDFSGSIGLFKKMMSSG-VEMDSYTFSCVSKSFSSLR 209

Query: 126 WRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLIS 185
               G  LHG +L +GF     VGN L+A Y+    V +ARKVFD M E  V+SWN++I+
Sbjct: 210 SVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIIN 269

Query: 186 GYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGK 245
           GY  N  A++ L VF  ML SG+E D A++VSV   C   + I +GR +H +       +
Sbjct: 270 GYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSR 329

Query: 246 NIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQ 305
                N L+DMY KCG ++ A+ VF  MS+R VV++TSMI GYA  G    A+ LF+ M+
Sbjct: 330 EDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEME 389

Query: 306 FEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVK 365
            EG+ P+  T+ ++L+ C+    L  G+ +H W  + +L  ++ V  AL+DMYAKC  ++
Sbjct: 390 EEGISPDVYTVTAVLNCCARYRLLDEGKRVHEWIKENDLGFDIFVSNALMDMYAKCGSMQ 449

Query: 366 LSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEV-VEPNDATLNSLLPAY 424
            +  VF+    K  + WN I+ G   N  A +A+ LF  +L E    P++ T+  +LPA 
Sbjct: 450 EAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPAC 509

Query: 425 AILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVV 484
           A L+   +   IH Y++R G+ S   V+  L+D+Y+KCG+L  AH +F +I    KD+V 
Sbjct: 510 ASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIA--SKDLVS 567

Query: 485 WSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFML 544
           W+V+IAGYGMHG G+ A++LF +M Q+G++ +E++F S L+ACSH GL+DEG   FN M 
Sbjct: 568 WTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIMR 627

Query: 545 ENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELG 604
              +     +HY CIVD+L R G L +AY  I  MP+ P   +WGALL  C IH +V+L 
Sbjct: 628 HECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKLA 687

Query: 605 EVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVR-- 662
           E  A+ +FELEPEN G YVL++ +Y+   +W+  + +R  + ++GLRK P  S IE++  
Sbjct: 688 EKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKGR 747

Query: 663 -NILTA 667
            NI  A
Sbjct: 748 VNIFVA 753

Arabidopsis thaliana (taxid: 3702)

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

 Score =  448 bits (1152), Expect = e-125,   Method: Compositional matrix adjust.
 Identities = 251/673 (37%), Positives = 377/673 (56%), Gaps = 14/673 (2%)

Query: 2   NGPSHHT--LPKTTHLVIKLVQQYAA-----TKSIAGTKQLHAFIITSGPLFTHLRS--- 51
           N PS H   L +  ++   + +  AA       S+   +Q+   +  +G    H      
Sbjct: 16  NPPSRHRHFLSERNYIPANVYEHPAALLLERCSSLKELRQILPLVFKNGLYQEHFFQTKL 75

Query: 52  -SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPD 110
            SL   YG V     +F+ +  + + LY+T++K +A+      +L+ F+ M R  +  P 
Sbjct: 76  VSLFCRYGSVDEAARVFEPIDSKLNVLYHTMLKGFAKVSDLDKALQFFVRM-RYDDVEPV 134

Query: 111 NYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFD 170
            Y +  ++K C D A  ++G  +HG ++ +GF +D F    L  MY    +V  ARKVFD
Sbjct: 135 VYNFTYLLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFD 194

Query: 171 AMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEM 230
            M E  +VSWNT+++GY +N  A+ AL +   M +  ++P   ++VSVLPA   L+ I +
Sbjct: 195 RMPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISV 254

Query: 231 GRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYAL 290
           G+ IH           +    ALVDMY KCGS+  AR +FD M ER+VV+W SMI+ Y  
Sbjct: 255 GKEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQ 314

Query: 291 NGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIV 350
           N + + A+ +FQ M  EGV+P  +++   L AC+ L  L+RGR +H  +++  L+  V V
Sbjct: 315 NENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSV 374

Query: 351 ETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVV 410
             +LI MY KC  V  +  +F +   +  V WNA++ G   NG    A+  F QM    V
Sbjct: 375 VNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTV 434

Query: 411 EPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHK 470
           +P+  T  S++ A A L+    A  IH  ++R      V V+T L+D+Y+KCG++  A  
Sbjct: 435 KPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARL 494

Query: 471 IFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG 530
           IF    + ++ +  W+ +I GYG HG G+ A+ LF+EM +  ++PN VTF S + ACSH 
Sbjct: 495 IFDM--MSERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHS 552

Query: 531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGA 590
           GL++ GL  F  M EN+      DHY  +VDLLGRAGRL+EA+D I  MP+KP   V+GA
Sbjct: 553 GLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGA 612

Query: 591 LLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL 650
           +LGAC IH NV   E AA+ LFEL P++ G +VLL+ +Y A   W+    VR  M  +GL
Sbjct: 613 MLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGL 672

Query: 651 RKAPAHSLIEVRN 663
           RK P  S++E++N
Sbjct: 673 RKTPGCSMVEIKN 685

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SS97|PP205_ARATH Putative pentatricopeptide repeat-containing protein At3g01580 OS=Arabidopsis thaliana GN=PCMP-E87 PE=3 SV=2

 Score =  434 bits (1117), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 230/612 (37%), Positives = 364/612 (59%), Gaps = 7/612 (1%)

Query: 55  RAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTY 114
           R +    + R +F EM++RS + +NT++K  ++     + L  F  M R  E  PDN+T 
Sbjct: 5   RKFSSSVDARQMFGEMTKRSLYQWNTLLKSLSREKQWEEVLYHFSHMFR-DEEKPDNFTL 63

Query: 115 PIVIKACTDLAWRKLGIALHGRVLI-TGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMW 173
           P+ +KAC +L     G  +HG V        D +VG+ LI MY+  G +  A ++FD + 
Sbjct: 64  PVALKACGELREVNYGEMIHGFVKKDVTLGSDLYVGSSLIYMYIKCGRMIEALRMFDELE 123

Query: 174 EHSVVSWNTLISGYFKNAYAKEALVVFDWM-LKSGVEPDCASVVSVLPACGYLKEIEMGR 232
           +  +V+W++++SG+ KN    +A+  F  M + S V PD  ++++++ AC  L    +GR
Sbjct: 124 KPDIVTWSSMVSGFEKNGSPYQAVEFFRRMVMASDVTPDRVTLITLVSACTKLSNSRLGR 183

Query: 233 MIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNG 292
            +H  V       +++  N+L++ Y K  +  EA  +F  ++E+DV++W+++I  Y  NG
Sbjct: 184 CVHGFVIRRGFSNDLSLVNSLLNCYAKSRAFKEAVNLFKMIAEKDVISWSTVIACYVQNG 243

Query: 293 DVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVET 352
               AL +F  M  +G  PN  T+  +L AC++ + L++GR  H   I++ LE EV V T
Sbjct: 244 AAAEALLVFNDMMDDGTEPNVATVLCVLQACAAAHDLEQGRKTHELAIRKGLETEVKVST 303

Query: 353 ALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEV-VE 411
           AL+DMY KC   + ++ VF+R  +K  V W A+++G   NG+A +++E F  ML+E    
Sbjct: 304 ALVDMYMKCFSPEEAYAVFSRIPRKDVVSWVALISGFTLNGMAHRSIEEFSIMLLENNTR 363

Query: 412 PNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKI 471
           P+   +  +L + + L  L+QA   H Y+I+YGF S   +   L+++YS+CGSL +A K+
Sbjct: 364 PDAILMVKVLGSCSELGFLEQAKCFHSYVIKYGFDSNPFIGASLVELYSRCGSLGNASKV 423

Query: 472 FSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSG-VQPNEVTFTSALHACSHG 530
           F+ I +KD   VVW+ +I GYG+HG G  A+  F  MV+S  V+PNEVTF S L ACSH 
Sbjct: 424 FNGIALKD--TVVWTSLITGYGIHGKGTKALETFNHMVKSSEVKPNEVTFLSILSACSHA 481

Query: 531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGA 590
           GL+ EGL +F  M+ +++     +HY  +VDLLGR G LD A ++ + MP  PT  + G 
Sbjct: 482 GLIHEGLRIFKLMVNDYRLAPNLEHYAVLVDLLGRVGDLDTAIEITKRMPFSPTPQILGT 541

Query: 591 LLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL 650
           LLGAC IH N E+ E  AK LFELE  + G Y+L+S +Y     W++ E +R+ + ++G+
Sbjct: 542 LLGACRIHQNGEMAETVAKKLFELESNHAGYYMLMSNVYGVKGEWENVEKLRNSVKQRGI 601

Query: 651 RKAPAHSLIEVR 662
           +K  A SLIE+R
Sbjct: 602 KKGLAESLIEIR 613

Arabidopsis thaliana (taxid: 3702)

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

 Score =  431 bits (1107), Expect = e-119,   Method: Compositional matrix adjust.
 Identities = 255/687 (37%), Positives = 375/687 (54%), Gaps = 56/687 (8%)

Query: 27  KSIAGTKQLHAFIITSGPLFTHLRSSLVRAY---GHVSNVRILFDEM--SERSSFLYNTV 81
           K+I+  K +H  +++ G L  +L S L+  Y   G +S+   L      S+   + +N++
Sbjct: 39  KTISQVKLIHQKLLSFGILTLNLTSHLISTYISVGCLSHAVSLLRRFPPSDAGVYHWNSL 98

Query: 82  MKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITG 141
           ++ Y  NG ++  L +F G++    + PDNYT+P V KAC +++  + G + H   L+TG
Sbjct: 99  IRSYGDNGCANKCLYLF-GLMHSLSWTPDNYTFPFVFKACGEISSVRCGESAHALSLVTG 157

Query: 142 FDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFD 201
           F  + FVGN L+AMY     +  ARKVFD M    VVSWN++I  Y K    K AL +F 
Sbjct: 158 FISNVFVGNALVAMYSRCRSLSDARKVFDEMSVWDVVSWNSIIESYAKLGKPKVALEMFS 217

Query: 202 WMLKS-GVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKC 260
            M    G  PD  ++V+VLP C  L    +G+ +H       + +N+   N LVDMY KC
Sbjct: 218 RMTNEFGCRPDNITLVNVLPPCASLGTHSLGKQLHCFAVTSEMIQNMFVGNCLVDMYAKC 277

Query: 261 GSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFE------------- 307
           G ++EA  VF  MS +DVV+W +M+ GY+  G   +A+ LF+ MQ E             
Sbjct: 278 GMMDEANTVFSNMSVKDVVSWNAMVAGYSQIGRFEDAVRLFEKMQEEKIKMDVVTWSAAI 337

Query: 308 ----------------------GVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLE 345
                                 G++PN +T+ S+LS C+S+  L  G+ +H + IK  ++
Sbjct: 338 SGYAQRGLGYEALGVCRQMLSSGIKPNEVTLISVLSGCASVGALMHGKEIHCYAIKYPID 397

Query: 346 C-------EVIVETALIDMYAKCNLVKLSFQVFARTSKKK--TVPWNAILAGCVHNGLAR 396
                   E +V   LIDMYAKC  V  +  +F   S K+   V W  ++ G   +G A 
Sbjct: 398 LRKNGHGDENMVINQLIDMYAKCKKVDTARAMFDSLSPKERDVVTWTVMIGGYSQHGDAN 457

Query: 397 KAVELFRQMLVEVVE--PNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSV-VEVST 453
           KA+EL  +M  E  +  PN  T++  L A A LA L+    IH Y +R    +V + VS 
Sbjct: 458 KALELLSEMFEEDCQTRPNAFTISCALVACASLAALRIGKQIHAYALRNQQNAVPLFVSN 517

Query: 454 GLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV 513
            LID+Y+KCGS+  A  +F  +  K++  V W+ ++ GYGMHG+GE A+ +F EM + G 
Sbjct: 518 CLIDMYAKCGSISDARLVFDNMMAKNE--VTWTSLMTGYGMHGYGEEALGIFDEMRRIGF 575

Query: 514 QPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAY 573
           + + VT    L+ACSH G++D+G++ FN M          +HY C+VDLLGRAGRL+ A 
Sbjct: 576 KLDGVTLLVVLYACSHSGMIDQGMEYFNRMKTVFGVSPGPEHYACLVDLLGRAGRLNAAL 635

Query: 574 DLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR 633
            LI  MP++P   VW A L  C IHG VELGE AA+ + EL   + G+Y LLS LY+   
Sbjct: 636 RLIEEMPMEPPPVVWVAFLSCCRIHGKVELGEYAAEKITELASNHDGSYTLLSNLYANAG 695

Query: 634 RWKDAENVRDVMDEKGLRKAPAHSLIE 660
           RWKD   +R +M  KG++K P  S +E
Sbjct: 696 RWKDVTRIRSLMRHKGVKKRPGCSWVE 722

Arabidopsis thaliana (taxid: 3702)

>sp|Q9STE1|PP333_ARATH Pentatricopeptide repeat-containing protein At4g21300 OS=Arabidopsis thaliana GN=PCMP-E36 PE=3 SV=1

 Score =  427 bits (1099), Expect = e-118,   Method: Compositional matrix adjust.
 Identities = 229/648 (35%), Positives = 373/648 (57%), Gaps = 8/648 (1%)

Query: 19  LVQQYAATKSIAGTKQLHAFIITSG-PLFTHLRSSLVRAY---GHVSNVRILFDEMSERS 74
           LV+   A K+  G   L   + + G      + SSL++AY   G +     LFD + ++ 
Sbjct: 144 LVKACVALKNFKGIDFLSDTVSSLGMDCNEFVASSLIKAYLEYGKIDVPSKLFDRVLQKD 203

Query: 75  SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALH 134
             ++N ++  YA+ GA    +K F  ++R+ + +P+  T+  V+  C       LG+ LH
Sbjct: 204 CVIWNVMLNGYAKCGALDSVIKGF-SVMRMDQISPNAVTFDCVLSVCASKLLIDLGVQLH 262

Query: 135 GRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAK 194
           G V+++G D +  + N L++MY   G    A K+F  M     V+WN +ISGY ++   +
Sbjct: 263 GLVVVSGVDFEGSIKNSLLSMYSKCGRFDDASKLFRMMSRADTVTWNCMISGYVQSGLME 322

Query: 195 EALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV 254
           E+L  F  M+ SGV PD  +  S+LP+    + +E  + IH  +    +  +I   +AL+
Sbjct: 323 ESLTFFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIHCYIMRHSISLDIFLTSALI 382

Query: 255 DMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL 314
           D Y KC  V+ A+ +F + +  DVV +T+MI+GY  NG   ++L +F+ +    + PN +
Sbjct: 383 DAYFKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYIDSLEMFRWLVKVKISPNEI 442

Query: 315 TIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFART 374
           T+ S+L     L  LK GR LH + IK+  +    +  A+IDMYAKC  + L++++F R 
Sbjct: 443 TLVSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVIDMYAKCGRMNLAYEIFERL 502

Query: 375 SKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM 434
           SK+  V WN+++  C  +     A+++FRQM V  +  +  ++++ L A A L       
Sbjct: 503 SKRDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSISAALSACANLPSESFGK 562

Query: 435 NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGM 494
            IH ++I++   S V   + LID+Y+KCG+L++A  +F    +K+K+IV W+ IIA  G 
Sbjct: 563 AIHGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKT--MKEKNIVSWNSIIAACGN 620

Query: 495 HGHGETAVSLFKEMVQ-SGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRA 553
           HG  + ++ LF EMV+ SG++P+++TF   + +C H G +DEG+  F  M E++    + 
Sbjct: 621 HGKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVRFFRSMTEDYGIQPQQ 680

Query: 554 DHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFE 613
           +HY C+VDL GRAGRL EAY+ +++MP  P   VWG LLGAC +H NVEL EVA+  L +
Sbjct: 681 EHYACVVDLFGRAGRLTEAYETVKSMPFPPDAGVWGTLLGACRLHKNVELAEVASSKLMD 740

Query: 614 LEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEV 661
           L+P N G YVL+S  ++  R W+    VR +M E+ ++K P +S IE+
Sbjct: 741 LDPSNSGYYVLISNAHANAREWESVTKVRSLMKEREVQKIPGYSWIEI 788

Arabidopsis thaliana (taxid: 3702)

>sp|Q9ZQ74|PP146_ARATH Pentatricopeptide repeat-containing protein At2g03380, mitochondrial OS=Arabidopsis thaliana GN=PCMP-E47 PE=3 SV=1

 Score =  416 bits (1068), Expect = e-115,   Method: Compositional matrix adjust.
 Identities = 227/612 (37%), Positives = 356/612 (58%), Gaps = 9/612 (1%)

Query: 52  SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDN 111
           SL   +G+  + R++FD++ E   +L+  +++ Y  N  S + +K++  +++ G +  D+
Sbjct: 84  SLYGFFGYTKDARLVFDQIPEPDFYLWKVMLRCYCLNKESVEVVKLYDLLMKHG-FRYDD 142

Query: 112 YTYPIVIKACTDLAWRKLGIALHGR-VLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFD 170
             +   +KACT+L     G  +H + V +  FD     G  L+ MY   GE+K+A KVF+
Sbjct: 143 IVFSKALKACTELQDLDNGKKIHCQLVKVPSFDNVVLTG--LLDMYAKCGEIKSAHKVFN 200

Query: 171 AMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEM 230
            +   +VV W ++I+GY KN   +E LV+F+ M ++ V  +  +  +++ AC  L  +  
Sbjct: 201 DITLRNVVCWTSMIAGYVKNDLCEEGLVLFNRMRENNVLGNEYTYGTLIMACTKLSALHQ 260

Query: 231 GRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYAL 290
           G+  H  +    +  +     +L+DMYVKCG ++ AR VF+  S  D+V WT+MI GY  
Sbjct: 261 GKWFHGCLVKSGIELSSCLVTSLLDMYVKCGDISNARRVFNEHSHVDLVMWTAMIVGYTH 320

Query: 291 NGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIV 350
           NG V  AL LFQ M+   ++PN +TI S+LS C  +  L+ GRS+H  +IK  +  +  V
Sbjct: 321 NGSVNEALSLFQKMKGVEIKPNCVTIASVLSGCGLIENLELGRSVHGLSIKVGIW-DTNV 379

Query: 351 ETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVV 410
             AL+ MYAKC   + +  VF   S+K  V WN+I++G   NG   +A+ LF +M  E V
Sbjct: 380 ANALVHMYAKCYQNRDAKYVFEMESEKDIVAWNSIISGFSQNGSIHEALFLFHRMNSESV 439

Query: 411 EPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFL--SVVEVSTGLIDIYSKCGSLESA 468
            PN  T+ SL  A A L  L    ++H Y ++ GFL  S V V T L+D Y+KCG  +SA
Sbjct: 440 TPNGVTVASLFSACASLGSLAVGSSLHAYSVKLGFLASSSVHVGTALLDFYAKCGDPQSA 499

Query: 469 HKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACS 528
             IF    I++K+ + WS +I GYG  G    ++ LF+EM++   +PNE TFTS L AC 
Sbjct: 500 RLIFD--TIEEKNTITWSAMIGGYGKQGDTIGSLELFEEMLKKQQKPNESTFTSILSACG 557

Query: 529 HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVW 588
           H G+++EG   F+ M +++       HYTC+VD+L RAG L++A D+I  MP++P    +
Sbjct: 558 HTGMVNEGKKYFSSMYKDYNFTPSTKHYTCMVDMLARAGELEQALDIIEKMPIQPDVRCF 617

Query: 589 GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK 648
           GA L  C +H   +LGE+  K + +L P++   YVL+S LY++  RW  A+ VR++M ++
Sbjct: 618 GAFLHGCGMHSRFDLGEIVIKKMLDLHPDDASYYVLVSNLYASDGRWNQAKEVRNLMKQR 677

Query: 649 GLRKAPAHSLIE 660
           GL K   HS +E
Sbjct: 678 GLSKIAGHSTME 689

Arabidopsis thaliana (taxid: 3702)

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

 Score =  413 bits (1061), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 228/622 (36%), Positives = 352/622 (56%), Gaps = 36/622 (5%)

Query: 74  SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIAL 133
           + F+YN++++ YA +G  ++++ +FL M+  G  +PD YT+P  + AC     +  GI +
Sbjct: 98  TCFMYNSLIRGYASSGLCNEAILLFLRMMNSG-ISPDKYTFPFGLSACAKSRAKGNGIQI 156

Query: 134 HGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYA 193
           HG ++  G+  D FV N L+  Y   GE+ +ARKVFD M E +VVSW ++I GY +  +A
Sbjct: 157 HGLIVKMGYAKDLFVQNSLVHFYAECGELDSARKVFDEMSERNVVSWTSMICGYARRDFA 216

Query: 194 KEALVVFDWMLKSG-VEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNA 252
           K+A+ +F  M++   V P+  ++V V+ AC  L+++E G  ++  +    +  N    +A
Sbjct: 217 KDAVDLFFRMVRDEEVTPNSVTMVCVISACAKLEDLETGEKVYAFIRNSGIEVNDLMVSA 276

Query: 253 LVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPN 312
           LVDMY+KC +++ A+ +FD     ++    +M + Y   G  R ALG+F LM   GVRP+
Sbjct: 277 LVDMYMKCNAIDVAKRLFDEYGASNLDLCNAMASNYVRQGLTREALGVFNLMMDSGVRPD 336

Query: 313 SLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFA 372
            +++ S +S+CS L  +  G+S H + ++   E    +  ALIDMY KC+    +F++F 
Sbjct: 337 RISMLSAISSCSQLRNILWGKSCHGYVLRNGFESWDNICNALIDMYMKCHRQDTAFRIFD 396

Query: 373 RTSKKKTVPWNAILAGCVHNG-------------------------------LARKAVEL 401
           R S K  V WN+I+AG V NG                               L  +A+E+
Sbjct: 397 RMSNKTVVTWNSIVAGYVENGEVDAAWETFETMPEKNIVSWNTIISGLVQGSLFEEAIEV 456

Query: 402 FRQMLV-EVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYS 460
           F  M   E V  +  T+ S+  A   L  L  A  I+ Y+ + G    V + T L+D++S
Sbjct: 457 FCSMQSQEGVNADGVTMMSIASACGHLGALDLAKWIYYYIEKNGIQLDVRLGTTLVDMFS 516

Query: 461 KCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTF 520
           +CG  ESA  IF+ +   ++D+  W+  I    M G+ E A+ LF +M++ G++P+ V F
Sbjct: 517 RCGDPESAMSIFNSLT--NRDVSAWTAAIGAMAMAGNAERAIELFDDMIEQGLKPDGVAF 574

Query: 521 TSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP 580
             AL ACSHGGL+ +G ++F  ML+ H       HY C+VDLLGRAG L+EA  LI  MP
Sbjct: 575 VGALTACSHGGLVQQGKEIFYSMLKLHGVSPEDVHYGCMVDLLGRAGLLEEAVQLIEDMP 634

Query: 581 LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAEN 640
           ++P   +W +LL AC + GNVE+   AA+ +  L PE  G+YVLLS +Y++  RW D   
Sbjct: 635 MEPNDVIWNSLLAACRVQGNVEMAAYAAEKIQVLAPERTGSYVLLSNVYASAGRWNDMAK 694

Query: 641 VRDVMDEKGLRKAPAHSLIEVR 662
           VR  M EKGLRK P  S I++R
Sbjct: 695 VRLSMKEKGLRKPPGTSSIQIR 716

Arabidopsis thaliana (taxid: 3702)

>sp|Q9M9E2|PPR45_ARATH Pentatricopeptide repeat-containing protein At1g15510, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H73 PE=2 SV=1

 Score =  411 bits (1056), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 223/611 (36%), Positives = 352/611 (57%), Gaps = 5/611 (0%)

Query: 57  YGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPI 116
           +G++ +   +F +MSER+ F +N ++  YA+ G   +++ ++  ML +G   PD YT+P 
Sbjct: 142 FGNLVDAWYVFGKMSERNLFSWNVLVGGYAKQGYFDEAMCLYHRMLWVGGVKPDVYTFPC 201

Query: 117 VIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHS 176
           V++ C  +     G  +H  V+  G+++D  V N LI MY+  G+VK+AR +FD M    
Sbjct: 202 VLRTCGGIPDLARGKEVHVHVVRYGYELDIDVVNALITMYVKCGDVKSARLLFDRMPRRD 261

Query: 177 VVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHE 236
           ++SWN +ISGYF+N    E L +F  M    V+PD  ++ SV+ AC  L +  +GR IH 
Sbjct: 262 IISWNAMISGYFENGMCHEGLELFFAMRGLSVDPDLMTLTSVISACELLGDRRLGRDIHA 321

Query: 237 LVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRN 296
            V       +I+  N+L  MY+  GS  EA  +F RM  +D+V+WT+MI+GY  N     
Sbjct: 322 YVITTGFAVDISVCNSLTQMYLNAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDK 381

Query: 297 ALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALID 356
           A+  +++M  + V+P+ +T+ ++LSAC++L  L  G  LH   IK  L   VIV   LI+
Sbjct: 382 AIDTYRMMDQDSVKPDEITVAAVLSACATLGDLDTGVELHKLAIKARLISYVIVANNLIN 441

Query: 357 MYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDAT 416
           MY+KC  +  +  +F    +K  + W +I+AG   N    +A+   RQM +  ++PN  T
Sbjct: 442 MYSKCKCIDKALDIFHNIPRKNVISWTSIIAGLRLNNRCFEALIFLRQMKM-TLQPNAIT 500

Query: 417 LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIP 476
           L + L A A +  L     IH +++R G      +   L+D+Y +CG + +A   +S+  
Sbjct: 501 LTAALAACARIGALMCGKEIHAHVLRTGVGLDDFLPNALLDMYVRCGRMNTA---WSQFN 557

Query: 477 IKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEG 536
            + KD+  W++++ GY   G G   V LF  MV+S V+P+E+TF S L  CS   ++ +G
Sbjct: 558 SQKKDVTSWNILLTGYSERGQGSMVVELFDRMVKSRVRPDEITFISLLCGCSKSQMVRQG 617

Query: 537 LDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACV 596
           L  F+ M E++       HY C+VDLLGRAG L EA+  I+ MP+ P  AVWGALL AC 
Sbjct: 618 LMYFSKM-EDYGVTPNLKHYACVVDLLGRAGELQEAHKFIQKMPVTPDPAVWGALLNACR 676

Query: 597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAH 656
           IH  ++LGE++A+ +FEL+ ++ G Y+LL  LY+   +W++   VR +M E GL      
Sbjct: 677 IHHKIDLGELSAQHIFELDKKSVGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGC 736

Query: 657 SLIEVRNILTA 667
           S +EV+  + A
Sbjct: 737 SWVEVKGKVHA 747

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SVA5|PP357_ARATH Pentatricopeptide repeat-containing protein At4g39530 OS=Arabidopsis thaliana GN=PCMP-E52 PE=1 SV=1

 Score =  410 bits (1053), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 224/635 (35%), Positives = 356/635 (56%), Gaps = 11/635 (1%)

Query: 34  QLHAFIITSG-PLFTHLRSSLVRAY---GHVSNVRILFDEMSERSSFLYNTVMKMYAQNG 89
           QL +F++ SG     ++ + L+  Y   G++   R++FD + E+S+  + T++    + G
Sbjct: 169 QLQSFLVKSGFDRDVYVGTLLIDFYLKDGNIDYARLVFDALPEKSTVTWTTMISGCVKMG 228

Query: 90  ASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVG 149
            S+ SL++F  ++      PD Y    V+ AC+ L + + G  +H  +L  G +MD  + 
Sbjct: 229 RSYVSLQLFYQLME-DNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYGLEMDASLM 287

Query: 150 NCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVE 209
           N LI  Y+  G V AA K+F+ M   +++SW TL+SGY +NA  KEA+ +F  M K G++
Sbjct: 288 NVLIDSYVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAMELFTSMSKFGLK 347

Query: 210 PDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLV 269
           PD  +  S+L +C  L  +  G  +H       LG +    N+L+DMY KC  + +AR V
Sbjct: 348 PDMYACSSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYAKCDCLTDARKV 407

Query: 270 FDRMSERDVVTWTSMINGYALNG---DVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSL 326
           FD  +  DVV + +MI GY+  G   ++  AL +F+ M+F  +RP+ LT  SLL A +SL
Sbjct: 408 FDIFAAADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLTFVSLLRASASL 467

Query: 327 YYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAIL 386
             L   + +H    K  L  ++   +ALID+Y+ C  +K S  VF     K  V WN++ 
Sbjct: 468 TSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNSMF 527

Query: 387 AGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFL 446
           AG V      +A+ LF ++ +    P++ T  +++ A   LA +Q     HC L++ G  
Sbjct: 528 AGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRGLE 587

Query: 447 SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFK 506
               ++  L+D+Y+KCGS E AHK F       +D+V W+ +I+ Y  HG G+ A+ + +
Sbjct: 588 CNPYITNALLDMYAKCGSPEDAHKAFDSAA--SRDVVCWNSVISSYANHGEGKKALQMLE 645

Query: 507 EMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA 566
           +M+  G++PN +TF   L ACSH GL+++GL  F  ML         +HY C+V LLGRA
Sbjct: 646 KMMSEGIEPNYITFVGVLSACSHAGLVEDGLKQFELMLR-FGIEPETEHYVCMVSLLGRA 704

Query: 567 GRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS 626
           GRL++A +LI  MP KP   VW +LL  C   GNVEL E AA+     +P++ G++ +LS
Sbjct: 705 GRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDPKDSGSFTMLS 764

Query: 627 KLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEV 661
            +Y++   W +A+ VR+ M  +G+ K P  S I +
Sbjct: 765 NIYASKGMWTEAKKVRERMKVEGVVKEPGRSWIGI 799

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	667
225452956	676	PREDICTED: pentatricopeptide repeat-cont	0.994	0.980	0.642	0.0
147819295	676	hypothetical protein VITISV_019277 [Viti	0.994	0.980	0.641	0.0
224077710	676	predicted protein [Populus trichocarpa]	0.992	0.979	0.646	0.0
356495419	666	PREDICTED: pentatricopeptide repeat-cont	0.968	0.969	0.615	0.0
297805814	674	pentatricopeptide repeat-containing prot	0.967	0.956	0.574	0.0
449439011	787	PREDICTED: pentatricopeptide repeat-cont	0.949	0.804	0.589	0.0
15241714	677	pentatricopeptide repeat-containing prot	0.967	0.952	0.569	0.0
449476598	709	PREDICTED: pentatricopeptide repeat-cont	0.938	0.882	0.567	0.0
255570240	502	pentatricopeptide repeat-containing prot	0.698	0.928	0.570	1e-164
50251760	667	pentatricopeptide (PPR) repeat-containin	0.901	0.901	0.464	1e-153

>gi|225452956|ref|XP_002279032.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39350 [Vitis vinifera] gi|296082987|emb|CBI22288.3| unnamed protein product [Vitis vinifera]

 Score =  911 bits (2354), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 435/677 (64%), Positives = 534/677 (78%), Gaps = 14/677 (2%)

Query: 1   MNGPSHHTLPKTTHLVI------KLVQQYAATKSIAGTKQLHAFIIT----SGPLFTHLR 50
           M+GPS   L K+ HL+        L+Q+  + KSI  TKQ+HA  IT    S P   HL 
Sbjct: 1   MDGPSQ-ALSKSKHLLTATARYQSLLQRCTSRKSIPNTKQIHAHTITLGLLSSPYSHHLL 59

Query: 51  SSLVRAY---GHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEY 107
           SSL  AY   G   + R LFDE+   S F +N +++MY  +G S+D+L +F+ ML  G  
Sbjct: 60  SSLAAAYAMFGCAPHARKLFDELRNPSLFSWNAMIRMYTNSGLSYDALGLFVQMLASGRR 119

Query: 108 NPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARK 167
            PDNYTYP VIKAC D    ++G  +H R +++GFD D FV N L+AMYMN GE++ AR+
Sbjct: 120 WPDNYTYPFVIKACGDYLLPEMGALIHARTVMSGFDSDAFVQNSLMAMYMNCGEMEVARR 179

Query: 168 VFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKE 227
           VFD M E ++VSWNT+I+GYFKN   KEAL+VFDWM+  G+EPDCA+VVSVLP C YLKE
Sbjct: 180 VFDLMRERTLVSWNTMINGYFKNGCVKEALMVFDWMIGKGIEPDCATVVSVLPVCSYLKE 239

Query: 228 IEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMING 287
           +E+GR +H LV    LG++I+ WN+L+DMY KCG+++EA+++F  M +RDVV+WT+M+NG
Sbjct: 240 LEVGRRVHALVEVKNLGEDISVWNSLLDMYAKCGNMDEAQMIFYEMDKRDVVSWTTMMNG 299

Query: 288 YALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECE 347
           Y LNGD R+AL L Q+MQFE V+PN +T+ S+LSAC+SLY LK GR LH W I+Q LE E
Sbjct: 300 YILNGDARSALLLCQMMQFESVKPNFVTLASVLSACASLYSLKHGRCLHGWAIRQKLESE 359

Query: 348 VIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLV 407
           VIVETALIDMYAKCN V LSF+VF++TSK++T PWNAI++GC+HNGL+RKA+ELF+QML+
Sbjct: 360 VIVETALIDMYAKCNNVNLSFRVFSKTSKQRTAPWNAIISGCIHNGLSRKAIELFKQMLM 419

Query: 408 EVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLES 467
           E V+PNDATLNSLLPAYA L DLQQA N+H YLIR GFLS +EV+T LIDIYSKCGSLES
Sbjct: 420 EAVDPNDATLNSLLPAYAFLTDLQQARNMHGYLIRSGFLSRIEVATILIDIYSKCGSLES 479

Query: 468 AHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC 527
           AH IF+ IP KDKDI+ WS IIAGYGMHGHGETA+SLF +MVQSGV+PNE+TFTS LHAC
Sbjct: 480 AHNIFNGIPKKDKDIITWSAIIAGYGMHGHGETAISLFDQMVQSGVKPNEITFTSILHAC 539

Query: 528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAV 587
           SH GL+DEGL LF FMLE++Q   R DHYTC++DLLGRAGRL+EAY+LIRTM  +P HAV
Sbjct: 540 SHAGLVDEGLGLFKFMLEDNQMSLRTDHYTCVIDLLGRAGRLEEAYELIRTMAFRPNHAV 599

Query: 588 WGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE 647
           WGALLG+CVIH NVELGEVAAKWLFELEP N GNYVLL+ +YSAV RW+DAE+VR +M+ 
Sbjct: 600 WGALLGSCVIHENVELGEVAAKWLFELEPGNTGNYVLLANIYSAVGRWRDAEHVRLMMNN 659

Query: 648 KGLRKAPAHSLIEVRNI 664
            GLRK PAHSLIEVRNI
Sbjct: 660 IGLRKTPAHSLIEVRNI 676

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147819295|emb|CAN68962.1| hypothetical protein VITISV_019277 [Vitis vinifera]

 Score =  909 bits (2348), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 434/677 (64%), Positives = 533/677 (78%), Gaps = 14/677 (2%)

Query: 1   MNGPSHHTLPKTTHLVI------KLVQQYAATKSIAGTKQLHAFIIT----SGPLFTHLR 50
           M+GPS   L K+ HL+        L+Q+  + KSI  TKQ+HA  IT    S P   HL 
Sbjct: 1   MDGPSQ-ALSKSKHLLTATARYQSLLQRCTSRKSIPNTKQIHAHTITLGLLSSPYSHHLL 59

Query: 51  SSLVRAY---GHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEY 107
           SSL  AY   G   + R LFDE+   S F +N +++MY  +G S+D+L +F+ ML  G  
Sbjct: 60  SSLAAAYAMCGCAPHARKLFDELRNPSLFSWNAMIRMYTNSGLSYDALGLFVQMLASGRR 119

Query: 108 NPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARK 167
            PDNYTYP VIKAC D    ++G  +H R +++GFD D FV N L+AMYMN GE++ AR+
Sbjct: 120 WPDNYTYPFVIKACGDYLLPEMGALIHARTVMSGFDSDAFVQNSLMAMYMNCGEMEVARR 179

Query: 168 VFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKE 227
           VFD M E ++VSWNT+I+GYFKN   KEAL+VFDWM+  G+EPDCA+VVSVLP C YLKE
Sbjct: 180 VFDLMRERTLVSWNTMINGYFKNGCVKEALMVFDWMIGKGIEPDCATVVSVLPVCSYLKE 239

Query: 228 IEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMING 287
           +E+GR +H LV    LG++I+ WN+L+DMY KCG+++EA+++F  M +RDVV+WT+M+NG
Sbjct: 240 LEVGRRVHALVEVKNLGEDISVWNSLLDMYAKCGNMDEAQMIFYEMDKRDVVSWTTMMNG 299

Query: 288 YALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECE 347
           Y LNGD R+AL L Q+MQFE V+PN +T+ S+LSAC+SLY LK GR LH W I+Q LE E
Sbjct: 300 YILNGDARSALLLCQMMQFESVKPNFVTLASVLSACASLYSLKHGRCLHGWAIRQKLESE 359

Query: 348 VIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLV 407
           VIVETALIDMYAKCN V LSF+VF++ SK++T PWNAI++GC+HNGL+RKA+ELF+QML+
Sbjct: 360 VIVETALIDMYAKCNNVNLSFRVFSKXSKQRTAPWNAIISGCIHNGLSRKAIELFKQMLM 419

Query: 408 EVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLES 467
           E V+PNDATLNSLLPAYA L DLQQA N+H YLIR GFLS +EV+T LIDIYSKCGSLES
Sbjct: 420 EAVDPNDATLNSLLPAYAFLTDLQQARNMHGYLIRSGFLSRIEVATILIDIYSKCGSLES 479

Query: 468 AHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC 527
           AH IF+ IP KDKDI+ WS IIAGYGMHGHGETA+SLF +MVQSGV+PNE+TFTS LHAC
Sbjct: 480 AHNIFNGIPKKDKDIITWSAIIAGYGMHGHGETAISLFDQMVQSGVKPNEITFTSILHAC 539

Query: 528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAV 587
           SH GL+DEGL LF FMLE++Q   R DHYTC++DLLGRAGRL+EAY+LIRTM  +P HAV
Sbjct: 540 SHAGLVDEGLGLFKFMLEDNQMSLRTDHYTCVIDLLGRAGRLEEAYELIRTMAFRPNHAV 599

Query: 588 WGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE 647
           WGALLG+CVIH NVELGEVAAKWLFELEP N GNYVLL+ +YSAV RW+DAE+VR +M+ 
Sbjct: 600 WGALLGSCVIHENVELGEVAAKWLFELEPGNTGNYVLLANIYSAVGRWRDAEHVRLMMNN 659

Query: 648 KGLRKAPAHSLIEVRNI 664
            GLRK PAHSLIEVRNI
Sbjct: 660 IGLRKTPAHSLIEVRNI 676

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224077710|ref|XP_002305373.1| predicted protein [Populus trichocarpa] gi|222848337|gb|EEE85884.1| predicted protein [Populus trichocarpa]

 Score =  877 bits (2267), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 437/676 (64%), Positives = 523/676 (77%), Gaps = 14/676 (2%)

Query: 1   MNGPSHHTL---------PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRS 51
           MNGP+  T+         PKTT     L++ Y A +S+  TKQLHA +ITSG L   +RS
Sbjct: 1   MNGPTKTTISKTTKLLLAPKTTQYQ-SLLKHYGAAQSLTSTKQLHAHLITSGLLSIDIRS 59

Query: 52  SLVRAYGH---VSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYN 108
            LV  Y H   V N R LFDE+ +R + LYN ++KMY   G   +++K+FL ML   +  
Sbjct: 60  VLVATYAHCGYVHNARKLFDELRQRGTLLYNFMIKMYIAKGDYFEAMKVFLEMLGSKDCC 119

Query: 109 PDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKV 168
           PDNYTYP VIKAC++L   + G  LHG  L++ F    FV N L+AMYMN GEV+ ARKV
Sbjct: 120 PDNYTYPFVIKACSELLLVEYGRVLHGLTLVSKFGSHLFVLNSLLAMYMNCGEVEEARKV 179

Query: 169 FDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEI 228
           FDAM E SVVSWNT+I+GYFKN +A  ALVVF+ M+ SGVE D ASVVSVLPACGYLKE+
Sbjct: 180 FDAMKEKSVVSWNTMINGYFKNGFANTALVVFNQMVDSGVEIDGASVVSVLPACGYLKEL 239

Query: 229 EMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGY 288
           E+GR +H LV    LGK I + NALVDMY KCGS++EARLVFD M ERDVV+WTSMINGY
Sbjct: 240 EVGRRVHGLVEEKVLGKKIVS-NALVDMYAKCGSMDEARLVFDNMVERDVVSWTSMINGY 298

Query: 289 ALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEV 348
            LNGD ++AL LF++MQ EG+RPNS+TI  +L AC+SL  LK GR LH W +KQ L  EV
Sbjct: 299 ILNGDAKSALSLFKIMQIEGLRPNSVTIALILLACASLNNLKDGRCLHGWVMKQRLYSEV 358

Query: 349 IVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVE 408
            VET+LIDMYAKCN + LSF VF RTS+KKTVPWNA+L+GCVHN LA +A+ LF++ML+E
Sbjct: 359 AVETSLIDMYAKCNCLGLSFSVFTRTSRKKTVPWNALLSGCVHNKLATEAIGLFKKMLME 418

Query: 409 VVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESA 468
            VE N AT NSLLPAY ILADLQ   NI+ YL+R GF+S ++V+T LIDIYSKCGSLESA
Sbjct: 419 GVEINAATCNSLLPAYGILADLQPVNNINSYLMRSGFVSNIQVATSLIDIYSKCGSLESA 478

Query: 469 HKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACS 528
           HKIF+ IP+  +DI VWS+IIAGYGMHGHGETAVSLFK+MVQSGV+PN+VTFTS L +CS
Sbjct: 479 HKIFNTIPVDVQDIFVWSIIIAGYGMHGHGETAVSLFKQMVQSGVKPNDVTFTSVLQSCS 538

Query: 529 HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVW 588
           H G++D+GL LF FML++HQT    DHYTC+VDLLGRAGR+DEAYDLI+TMP  P HAVW
Sbjct: 539 HAGMVDDGLYLFKFMLKDHQTIPNDDHYTCMVDLLGRAGRMDEAYDLIKTMPFMPGHAVW 598

Query: 589 GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK 648
           GALLGACV+H NVELGEVAA+WLFELEP N GNYVLL+KLY+A+ RW+DAENVR  MD+ 
Sbjct: 599 GALLGACVMHENVELGEVAARWLFELEPGNTGNYVLLAKLYAALGRWEDAENVRQRMDDI 658

Query: 649 GLRKAPAHSLIEVRNI 664
           GLRKAPAHSLIE   +
Sbjct: 659 GLRKAPAHSLIEAGTV 674

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356495419|ref|XP_003516575.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39350-like [Glycine max]

 Score =  808 bits (2087), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 400/650 (61%), Positives = 502/650 (77%), Gaps = 4/650 (0%)

Query: 19  LVQQYAATKSIAGTKQLHAFIITSGPLFT-HLRSSLVRAYG---HVSNVRILFDEMSERS 74
           L+ +++A++S + TK+LHA I+T G   + +L S L   Y    H S    LFD++S+  
Sbjct: 17  LLGKFSASQSHSETKRLHALILTLGIFSSSNLCSKLATTYAQCHHASYASHLFDKLSQPC 76

Query: 75  SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALH 134
            F +N +M+MY Q G   D+L +F+ ML  G   PD +TYP+VIKAC DL+   +G+ +H
Sbjct: 77  LFSWNAMMRMYVQIGRPFDALNLFVEMLGSGRTLPDKFTYPVVIKACGDLSLIDVGVGIH 136

Query: 135 GRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAK 194
           G+    G+D DTFV N L+AMYMN GE +AA+ VFD M E +V+SWNT+I+GYF+N  A+
Sbjct: 137 GQTFKFGYDSDTFVQNTLLAMYMNAGEKEAAQLVFDPMQERTVISWNTMINGYFRNNCAE 196

Query: 195 EALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV 254
           +A+ V+  M+  GVEPDCA+VVSVLPACG LK +E+GR +H LV       NI   NALV
Sbjct: 197 DAVNVYGRMMDVGVEPDCATVVSVLPACGLLKNVELGREVHTLVQEKGFWGNIVVRNALV 256

Query: 255 DMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL 314
           DMYVKCG + EA L+   M ++DVVTWT++INGY LNGD R+AL L  +MQ EGV+PNS+
Sbjct: 257 DMYVKCGQMKEAWLLAKGMDDKDVVTWTTLINGYILNGDARSALMLCGMMQCEGVKPNSV 316

Query: 315 TIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFART 374
           +I SLLSAC SL YL  G+ LHAW I+Q +E EVIVETALI+MYAKCN   LS++VF  T
Sbjct: 317 SIASLLSACGSLVYLNHGKCLHAWAIRQKIESEVIVETALINMYAKCNCGNLSYKVFMGT 376

Query: 375 SKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM 434
           SKK+T PWNA+L+G + N LAR+A+ELF+QMLV+ V+P+ AT NSLLPAYAILADLQQAM
Sbjct: 377 SKKRTAPWNALLSGFIQNRLAREAIELFKQMLVKDVQPDHATFNSLLPAYAILADLQQAM 436

Query: 435 NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGM 494
           NIHCYLIR GFL  +EV++ L+DIYSKCGSL  AH+IF+ I +KDKDI++WS IIA YG 
Sbjct: 437 NIHCYLIRSGFLYRLEVASILVDIYSKCGSLGYAHQIFNIISLKDKDIIIWSAIIAAYGK 496

Query: 495 HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRAD 554
           HGHG+ AV LF +MVQSGV+PN VTFTS LHACSH GL++EG  LFNFML+ HQ  S  D
Sbjct: 497 HGHGKMAVKLFNQMVQSGVKPNHVTFTSVLHACSHAGLVNEGFSLFNFMLKQHQIISHVD 556

Query: 555 HYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFEL 614
           HYTC++DLLGRAGRL++AY+LIRTMP+ P HAVWGALLGACVIH NVELGEVAA+W F+L
Sbjct: 557 HYTCMIDLLGRAGRLNDAYNLIRTMPITPNHAVWGALLGACVIHENVELGEVAARWTFKL 616

Query: 615 EPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNI 664
           EPEN GNYVLL+KLY+AV RW DAE VRD+++E GLRK PAHSLIEVR++
Sbjct: 617 EPENTGNYVLLAKLYAAVGRWGDAERVRDMVNEVGLRKLPAHSLIEVRDM 666

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297805814|ref|XP_002870791.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata] gi|297316627|gb|EFH47050.1| pentatricopeptide repeat-containing protein [Arabidopsis lyrata subsp. lyrata]

 Score =  790 bits (2039), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 374/651 (57%), Positives = 488/651 (74%), Gaps = 6/651 (0%)

Query: 19  LVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAY---GHVSNVRILFDEMSERSS 75
           L+  YAAT+SI+ TK LH  +IT G +  H+ S+L   Y   GH++  R LFDEM + S 
Sbjct: 21  LLNHYAATQSISKTKALHCHVITGGRVSGHILSTLSVTYALCGHIAYARKLFDEMPQSSL 80

Query: 76  FLYNTVMKMYAQNGASHDSLKMFLGMLRLG-EYNPDNYTYPIVIKACTDLAWRKLGIALH 134
             YN V++MY ++G  HD++ +F+ M+  G +  PD YTYP V KA  +L    LG+ +H
Sbjct: 81  LSYNIVIRMYVRDGLYHDAINVFIRMVSEGIKCVPDGYTYPFVAKAAGELKSISLGLVIH 140

Query: 135 GRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAK 194
           GR+L + F MD +V N L+AMYMNFG V+ AR VFD M    V+SWNT+ISGY++N Y  
Sbjct: 141 GRILRSWFGMDKYVQNALLAMYMNFGRVEMARNVFDVMKNRDVISWNTMISGYYRNGYMN 200

Query: 195 EALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV 254
           +AL++FDWM+  GV+PD A++VS+LP CG+LK +EMGR +H+LV   RLG  I   NALV
Sbjct: 201 DALMMFDWMVNEGVDPDHATIVSMLPVCGHLKGLEMGRNVHKLVEEKRLGDKIEVKNALV 260

Query: 255 DMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL 314
           +MY+KCG ++EAR VF RM  RDV+TWT MINGY  +GDV NAL L +LMQFEGVRPN++
Sbjct: 261 NMYLKCGRMDEARFVFGRMERRDVITWTCMINGYIEDGDVENALELCRLMQFEGVRPNAV 320

Query: 315 TIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFART 374
           TI SL+SAC     L  G+ LH W I+Q +  ++I+ET+LI MYAKC  + L F+VF+  
Sbjct: 321 TIASLVSACGDALKLNDGKCLHGWAIRQKVCSDIIIETSLISMYAKCKHIDLCFRVFSGA 380

Query: 375 SKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM 434
           S+  T PW+AI+AGCV N L R A++LF++M  E VEPN ATLNSLLPAYA LADL+Q M
Sbjct: 381 SRNHTGPWSAIIAGCVQNELVRDALDLFKRMRREDVEPNIATLNSLLPAYATLADLRQTM 440

Query: 435 NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPI--KDKDIVVWSVIIAGY 492
           NIHCYL + GF+S ++ +TGL+ +YSKCG+LESAHKIF+ I    K KD+V+W  +I+GY
Sbjct: 441 NIHCYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKIFNGIQEKHKSKDVVLWGALISGY 500

Query: 493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR 552
           GMHG G  A+ +F EMV+SGV PNE+TFTSAL+ACSH GL++EGL LF+FMLE+++T +R
Sbjct: 501 GMHGDGHNALQVFMEMVRSGVTPNEITFTSALNACSHSGLVEEGLTLFSFMLEHYKTLAR 560

Query: 553 ADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLF 612
           ++HYTCIVDLLGRAGRLDEAY+LI T+P +PT  +WGALL ACV H NV+LGE+AA  LF
Sbjct: 561 SNHYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTIWGALLAACVTHENVQLGEMAANKLF 620

Query: 613 ELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRN 663
           ELEPEN GNYVLL+ +Y+A+ RWKD E VR++M+  GLRK P HS IE+R+
Sbjct: 621 ELEPENTGNYVLLANIYAALGRWKDMEKVRNMMENVGLRKKPGHSTIEIRS 671

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449439011|ref|XP_004137281.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39350-like [Cucumis sativus]

 Score =  788 bits (2035), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 377/640 (58%), Positives = 490/640 (76%), Gaps = 7/640 (1%)

Query: 8   TLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSG----PLFTHLRSSLVRAY---GHV 60
           +L    H    L+  YAAT+S+  TK LH   ITSG    P F HL S L  +Y   G V
Sbjct: 74  SLIANVHRCDSLLCHYAATRSLNKTKILHGHTITSGLLHSPNFIHLPSHLAVSYAFCGCV 133

Query: 61  SNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKA 120
              R LFD++S+ S FL+N ++KMY   G   D+L++F  M+  G+  PD YT+P+VIKA
Sbjct: 134 PLARKLFDDLSDPSLFLWNAIIKMYVDKGFHFDALRVFDSMICSGKCWPDKYTFPLVIKA 193

Query: 121 CTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSW 180
           C+ ++   +G+ +HGR L++GF  + FV N L+AMYMN G+V  AR+VF+ M + SVVSW
Sbjct: 194 CSVMSMLNVGVLIHGRALVSGFSSNMFVQNSLLAMYMNCGKVGLARQVFNVMLKRSVVSW 253

Query: 181 NTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAG 240
           NT+ISG+F+N   +EAL VF+ M+ + VEPD A++VS LP+CG+LKE+E+G  +H+LV  
Sbjct: 254 NTMISGWFQNGRPEEALAVFNSMMDARVEPDSATIVSALPSCGHLKELELGIKVHKLVQK 313

Query: 241 GRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGL 300
             L + I   NALVDMY +CG ++EA LVF    E+DV+TWTSMINGY +NG+ ++AL L
Sbjct: 314 NHLQEKIEVRNALVDMYSRCGGMDEASLVFAETKEKDVITWTSMINGYIMNGNAKSALAL 373

Query: 301 FQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAK 360
              MQ +GV PN++T+ SLLSAC+SL  LK+G+SLHAW +++ L+ +V+V TALIDMYAK
Sbjct: 374 CPAMQLDGVVPNAVTLASLLSACASLCCLKQGKSLHAWVMRKKLDSDVLVVTALIDMYAK 433

Query: 361 CNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSL 420
           CN V  SFQVFA+TS K+TVPWNA+L+G +HN LAR+AV LF+ ML+E VE N AT NS+
Sbjct: 434 CNAVSYSFQVFAKTSMKRTVPWNALLSGLIHNELAREAVGLFKSMLIEEVEANHATFNSV 493

Query: 421 LPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK 480
           +PAYAILADL+Q MN+H YL+R GF+S + V TGLID+YSKCGSL+ AHKIF EIP K+K
Sbjct: 494 IPAYAILADLKQVMNLHSYLVRSGFISKIAVITGLIDMYSKCGSLDYAHKIFDEIPNKEK 553

Query: 481 DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLF 540
           DI+VWSV+IAGYGMHGHGETAV LF +MV SG+QPNE+TFTS LHACSH GL+D+GL LF
Sbjct: 554 DIIVWSVLIAGYGMHGHGETAVLLFNQMVHSGMQPNEITFTSVLHACSHRGLVDDGLTLF 613

Query: 541 NFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGN 600
            +M+EN+ +    +HYTC+VDLLGRAGRLDEAYDLI++MP +  H++WGALLGAC+IH N
Sbjct: 614 KYMIENYPSSPLPNHYTCVVDLLGRAGRLDEAYDLIKSMPFQQNHSIWGALLGACLIHQN 673

Query: 601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAEN 640
           VELGEVAA+ LFELEPE+ GNY+LL+ +Y+AV RWKDAEN
Sbjct: 674 VELGEVAAERLFELEPESTGNYILLANIYAAVGRWKDAEN 713

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|15241714|ref|NP_198751.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75171567|sp|Q9FLZ9.1|PP405_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g39350 gi|10177683|dbj|BAB11009.1| selenium-binding protein-like [Arabidopsis thaliana] gi|332007040|gb|AED94423.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  780 bits (2013), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 371/651 (56%), Positives = 484/651 (74%), Gaps = 6/651 (0%)

Query: 19  LVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAY---GHVSNVRILFDEMSERSS 75
           L+  +AAT+SI+ TK LH  +IT G +  H+ S+L   Y   GH++  R LF+EM + S 
Sbjct: 21  LLNHFAATQSISKTKALHCHVITGGRVSGHILSTLSVTYALCGHITYARKLFEEMPQSSL 80

Query: 76  FLYNTVMKMYAQNGASHDSLKMFLGMLRLG-EYNPDNYTYPIVIKACTDLAWRKLGIALH 134
             YN V++MY + G  HD++ +F+ M+  G +  PD YTYP V KA  +L   KLG+ +H
Sbjct: 81  LSYNIVIRMYVREGLYHDAISVFIRMVSEGVKCVPDGYTYPFVAKAAGELKSMKLGLVVH 140

Query: 135 GRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAK 194
           GR+L + F  D +V N L+AMYMNFG+V+ AR VFD M    V+SWNT+ISGY++N Y  
Sbjct: 141 GRILRSWFGRDKYVQNALLAMYMNFGKVEMARDVFDVMKNRDVISWNTMISGYYRNGYMN 200

Query: 195 EALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV 254
           +AL++FDWM+   V+ D A++VS+LP CG+LK++EMGR +H+LV   RLG  I   NALV
Sbjct: 201 DALMMFDWMVNESVDLDHATIVSMLPVCGHLKDLEMGRNVHKLVEEKRLGDKIEVKNALV 260

Query: 255 DMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL 314
           +MY+KCG ++EAR VFDRM  RDV+TWT MINGY  +GDV NAL L +LMQFEGVRPN++
Sbjct: 261 NMYLKCGRMDEARFVFDRMERRDVITWTCMINGYTEDGDVENALELCRLMQFEGVRPNAV 320

Query: 315 TIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFART 374
           TI SL+S C     +  G+ LH W ++Q +  ++I+ET+LI MYAKC  V L F+VF+  
Sbjct: 321 TIASLVSVCGDALKVNDGKCLHGWAVRQQVYSDIIIETSLISMYAKCKRVDLCFRVFSGA 380

Query: 375 SKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM 434
           SK  T PW+AI+AGCV N L   A+ LF++M  E VEPN ATLNSLLPAYA LADL+QAM
Sbjct: 381 SKYHTGPWSAIIAGCVQNELVSDALGLFKRMRREDVEPNIATLNSLLPAYAALADLRQAM 440

Query: 435 NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPI--KDKDIVVWSVIIAGY 492
           NIHCYL + GF+S ++ +TGL+ +YSKCG+LESAHKIF+ I    K KD+V+W  +I+GY
Sbjct: 441 NIHCYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKIFNGIQEKHKSKDVVLWGALISGY 500

Query: 493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR 552
           GMHG G  A+ +F EMV+SGV PNE+TFTSAL+ACSH GL++EGL LF FMLE+++T +R
Sbjct: 501 GMHGDGHNALQVFMEMVRSGVTPNEITFTSALNACSHSGLVEEGLTLFRFMLEHYKTLAR 560

Query: 553 ADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLF 612
           ++HYTCIVDLLGRAGRLDEAY+LI T+P +PT  VWGALL ACV H NV+LGE+AA  LF
Sbjct: 561 SNHYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTVWGALLAACVTHENVQLGEMAANKLF 620

Query: 613 ELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRN 663
           ELEPEN GNYVLL+ +Y+A+ RWKD E VR +M+  GLRK P HS IE+R+
Sbjct: 621 ELEPENTGNYVLLANIYAALGRWKDMEKVRSMMENVGLRKKPGHSTIEIRS 671

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449476598|ref|XP_004154781.1| PREDICTED: pentatricopeptide repeat-containing protein At5g39350-like [Cucumis sativus]

 Score =  772 bits (1993), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 375/661 (56%), Positives = 484/661 (73%), Gaps = 35/661 (5%)

Query: 8   TLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSG----PLFTHLRSSLVRAY---GHV 60
           +L    H    L++ YAAT+S+  TK LH   ITSG    P F HL S L  +Y   G V
Sbjct: 74  SLIANVHRCDSLLRHYAATRSLNKTKILHGHTITSGLLHSPNFIHLPSHLAVSYAFCGCV 133

Query: 61  SNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKA 120
              R LFD++S+ S FL+N ++KMY   G   D+L++F  M+  G++ PD YT+P+VIKA
Sbjct: 134 PLARKLFDDLSDPSLFLWNAIIKMYVDKGFHFDALRVFDSMICSGKFWPDKYTFPLVIKA 193

Query: 121 CTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSW 180
           C+ ++   +G+ +HGR L++GF  + FV N L+AMYMN G+V  AR+VF+ M + SVVSW
Sbjct: 194 CSVMSMLNVGVLIHGRALVSGFSSNMFVQNSLLAMYMNCGKVGLARQVFNVMLKRSVVSW 253

Query: 181 NTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAG 240
           NT+ISG+F+N   +EAL VF+ M+ + VEPD A++VS LP+CGYLKE+E+G  +H+LV  
Sbjct: 254 NTMISGWFQNGRPEEALAVFNSMMDARVEPDSATIVSALPSCGYLKELELGIKVHKLVQK 313

Query: 241 GRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGL 300
             L + I   NALVDMY +CG ++EA LVF    E+DV+TWTSMINGY +NG+ ++AL L
Sbjct: 314 NHLQEKIEVRNALVDMYSRCGGIDEASLVFAETKEKDVITWTSMINGYIMNGNAKSALAL 373

Query: 301 FQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAK 360
              MQ +GV PN++T+ SLLSAC+SL Y                            MYAK
Sbjct: 374 CPAMQLDGVVPNAVTLASLLSACASLCY----------------------------MYAK 405

Query: 361 CNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSL 420
           CN V  SFQVFA+TSKK+TVPWNA+L+G +HN LAR+AV LF+ ML+E VE N AT NS+
Sbjct: 406 CNAVSYSFQVFAKTSKKRTVPWNALLSGLIHNELAREAVGLFKSMLIEEVEANHATFNSV 465

Query: 421 LPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK 480
           +PAYAILADL+Q MN+H YL+R GF+S + V TGLID+YSKCGSL+ AHKIF EIP K+K
Sbjct: 466 IPAYAILADLKQVMNLHSYLVRSGFISKIAVITGLIDMYSKCGSLDYAHKIFDEIPNKEK 525

Query: 481 DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLF 540
           DI+VWSV+IAGYGMHGHGETAV LF +MV SG+QPNE+TFTS LHACSH GL+D+GL LF
Sbjct: 526 DIIVWSVLIAGYGMHGHGETAVLLFNQMVHSGMQPNEITFTSVLHACSHRGLVDDGLTLF 585

Query: 541 NFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGN 600
            +M+EN+ +    +HYTC+VDLLGRAGRLDEAYDLI++MP +  H++WGALLGAC+IH N
Sbjct: 586 KYMIENYPSSPLPNHYTCVVDLLGRAGRLDEAYDLIKSMPFQQNHSIWGALLGACLIHQN 645

Query: 601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIE 660
           VELGEVAA+ LFELEPE+ GNY+LL+ +Y+AV RWKDAENVR +M + GLRK PA S + 
Sbjct: 646 VELGEVAAERLFELEPESTGNYILLANIYAAVGRWKDAENVRHIMSKIGLRKTPAQSSVG 705

Query: 661 V 661
           V
Sbjct: 706 V 706

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255570240|ref|XP_002526080.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223534577|gb|EEF36274.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  585 bits (1509), Expect = e-164,   Method: Compositional matrix adjust.
 Identities = 298/522 (57%), Positives = 371/522 (71%), Gaps = 56/522 (10%)

Query: 17  IKLVQQYAATKSIAGTKQLHAFIITSG---PLFTHLRSSLVRAYGHVSNVRILFDEMSER 73
           + L++ +AATKS+  TKQLHA  IT+    P   HL+S L R+Y H              
Sbjct: 10  LSLLKHFAATKSLTETKQLHAHTITASLLEPTSAHLQSGLARSYMHCG------------ 57

Query: 74  SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIAL 133
                    K+Y       D+LK++  MLR G   PDNYTYP+VIKAC++L   +LG  +
Sbjct: 58  ---------KLY------FDALKVYSEMLRSGYCFPDNYTYPVVIKACSELGLIELGKMI 102

Query: 134 HGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYA 193
           HG+ +                        +AA ++FD M E SV+SWN +I+GYFKN  A
Sbjct: 103 HGQTV-----------------------KEAAERIFDVMKERSVISWNIMINGYFKNGCA 139

Query: 194 KEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNAL 253
           ++AL+VF+ M+  GVE DCASVVSVLPACG+LKE+EMGR +H  V    LG  IAA NAL
Sbjct: 140 EKALMVFNQMVDLGVEIDCASVVSVLPACGHLKELEMGRRVHATVEDKDLGNKIAARNAL 199

Query: 254 VDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNS 313
           +DMY KCGS+ EARLVFD M ERDV++WTSMINGY LNGD ++AL LF+ MQ E + P+S
Sbjct: 200 IDMYAKCGSMAEARLVFDGMDERDVISWTSMINGYILNGDEKSALTLFRTMQMERIIPSS 259

Query: 314 LTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFAR 373
           +TI S+LSAC +L   K GR  H WT++QNL+ E+IVET+LIDMYAKCN V LS+ V  R
Sbjct: 260 VTIASVLSACINL---KDGRCFHGWTMRQNLDSEIIVETSLIDMYAKCNRVDLSYGVLRR 316

Query: 374 TSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQA 433
           TS ++T PWNA+L+GC+HN LA +A+ LF+QML++ VEP+ AT NSLLPAYAILADL  A
Sbjct: 317 TSGERTAPWNAMLSGCIHNDLATEAITLFKQMLLKKVEPDGATFNSLLPAYAILADLLPA 376

Query: 434 MNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYG 493
            NIHCYL + GFLS +EV+T LIDIYSKCGSLESAH+IF+ IPI  +DI  WSVII+GYG
Sbjct: 377 KNIHCYLKKTGFLSGLEVATCLIDIYSKCGSLESAHRIFNAIPIGVRDIFAWSVIISGYG 436

Query: 494 MHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE 535
           MHGHGETAVSLF++MVQSGV+PNEVTFTS LHACSH GL+DE
Sbjct: 437 MHGHGETAVSLFRQMVQSGVRPNEVTFTSILHACSHAGLVDE 478

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|50251760|dbj|BAD27693.1| pentatricopeptide (PPR) repeat-containing protein-like [Oryza sativa Japonica Group] gi|222623393|gb|EEE57525.1| hypothetical protein OsJ_07836 [Oryza sativa Japonica Group]

 Score =  550 bits (1416), Expect = e-153,   Method: Compositional matrix adjust.
 Identities = 284/612 (46%), Positives = 393/612 (64%), Gaps = 11/612 (1%)

Query: 56  AYGHVSNVRILFDEMSERSSFLY-NTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTY 114
           A G  S+   L  +M +     + N++++ Y   G   ++L ++  M        D+ T+
Sbjct: 57  ACGRPSSAHNLLAQMPQPPPVSFSNSLLRSYTGLGCHREALAVYSAMRAF-----DHLTF 111

Query: 115 PIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE 174
           P   KAC  L   + G A+H R L  GF  DT+V N LI+MYM+ G+V AA  VF AM  
Sbjct: 112 PFAAKACAGLRLGRHGRAVHCRALAAGFGGDTYVQNALISMYMSCGDVGAAEAVFGAMRN 171

Query: 175 HSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMI 234
            +VVSWN +I+G  KN YA+ AL VF  M   GV  D A+VVSVLPAC   K++  GR +
Sbjct: 172 RTVVSWNAVIAGCVKNGYAERALEVFGEMAADGVGIDRATVVSVLPACAQAKDLNTGRAV 231

Query: 235 HELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMS-ERDVVTWTSMINGYALNGD 293
           H LV    LG  +A  NAL+DMY KC S+ +AR VFD    ++DVV+WT+MI  Y LN  
Sbjct: 232 HRLVEDKGLGDYVAVKNALIDMYGKCRSLEDARRVFDHCKHDKDVVSWTAMIGAYVLNDR 291

Query: 294 VRNALGLFQLMQFEGVR-PNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVET 352
              A+ L   M   G   PN +T+  LLSAC+S+   K  +  HA  I+  L+ ++ VET
Sbjct: 292 AFEAISLGCQMLMSGAAWPNGVTMVYLLSACASMPSGKHAKCTHALCIRLGLKSDIAVET 351

Query: 353 ALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEP 412
           ALID YA+C  +KL      R S +    WNA L+G   +G  +KA+ELF++M+ E V P
Sbjct: 352 ALIDAYARCGKMKLMRLTLERGSWRAET-WNAALSGYTVSGREKKAIELFKRMIAESVRP 410

Query: 413 NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIF 472
           + AT+ S+LPAYA  ADL++  NIHC+L+  GFL   E++TGLID+YSK G L++A  +F
Sbjct: 411 DSATMASILPAYAESADLKEGKNIHCFLLTLGFLRSTEIATGLIDVYSKAGDLDAAWALF 470

Query: 473 SEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGL 532
             +P  +KD+V W+ IIAGYG+HGH  TA+ L+  MV+SG +PN VT  + L+ACSH G+
Sbjct: 471 QWLP--EKDVVAWTTIIAGYGIHGHARTAILLYDRMVESGGKPNTVTIATLLYACSHAGM 528

Query: 533 LDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALL 592
           +DEG+ +F  M   H      +HY+C+VD+LGRAGR++EA+ LI+ MP +P+ +VWGALL
Sbjct: 529 IDEGIKVFKDMRNVHGLMPNGEHYSCLVDMLGRAGRIEEAHRLIQDMPFEPSTSVWGALL 588

Query: 593 GACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRK 652
           GACV+H NVE GEVAAK LF+L+PEN G+YVLL  +Y+A  RW+D ++VR +M E+GL K
Sbjct: 589 GACVLHKNVEFGEVAAKRLFQLDPENTGSYVLLGNIYAAADRWRDVQDVRRMMVERGLLK 648

Query: 653 APAHSLIEVRNI 664
            P  SL+E R++
Sbjct: 649 EPGSSLVEARSV 660

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	667
TAIR|locus:2175653	677	AT5G39350 "AT5G39350" [Arabido	0.967	0.952	0.563	1.5e-200
TAIR|locus:2124137	871	DOT4 "DEFECTIVELY ORGANIZED TR	0.976	0.747	0.386	1.1e-119
TAIR|locus:2202074	809	CRR22 "CHLORORESPIRATORY REDUC	0.988	0.814	0.365	5.9e-112
TAIR|locus:2141171	857	AT4G21300 [Arabidopsis thalian	0.959	0.746	0.345	1.7e-107
TAIR|locus:2118964	823	EMB2758 "embryo defective 2758	0.935	0.758	0.367	4.6e-105
TAIR|locus:2063771	689	AT2G03380 [Arabidopsis thalian	0.940	0.910	0.353	7.5e-105
TAIR|locus:2196583	866	ECB2 "EARLY CHLOROPLAST BIOGEN	0.901	0.693	0.356	1.6e-104
TAIR|locus:2122551	834	AT4G39530 [Arabidopsis thalian	0.935	0.748	0.341	8.6e-104
TAIR|locus:2131631	804	AT4G35130 "AT4G35130" [Arabido	0.884	0.733	0.352	3.7e-103
TAIR|locus:2131939	792	MEF29 "AT4G30700" [Arabidopsis	0.976	0.821	0.338	1.6e-102

TAIR|locus:2175653 AT5G39350 "AT5G39350" [Arabidopsis thaliana (taxid:3702)]

 Score = 1941 (688.3 bits), Expect = 1.5e-200, P = 1.5e-200
 Identities = 367/651 (56%), Positives = 478/651 (73%)

Query:    19 LVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAY---GHVSNVRILFDEMSERSS 75
             L+  +AAT+SI+ TK LH  +IT G +  H+ S+L   Y   GH++  R LF+EM + S 
Sbjct:    21 LLNHFAATQSISKTKALHCHVITGGRVSGHILSTLSVTYALCGHITYARKLFEEMPQSSL 80

Query:    76 FLYNTVMKMYAQNGASHDSLKMFLGMLRLG-EYNPDNYTYPIVIKACTDLAWRKLGIALH 134
               YN V++MY + G  HD++ +F+ M+  G +  PD YTYP V KA  +L   KLG+ +H
Sbjct:    81 LSYNIVIRMYVREGLYHDAISVFIRMVSEGVKCVPDGYTYPFVAKAAGELKSMKLGLVVH 140

Query:   135 GRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAK 194
             GR+L + F  D +V N L+AMYMNFG+V+ AR VFD M    V+SWNT+ISGY++N Y  
Sbjct:   141 GRILRSWFGRDKYVQNALLAMYMNFGKVEMARDVFDVMKNRDVISWNTMISGYYRNGYMN 200

Query:   195 EALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV 254
             +AL++FDWM+   V+ D A++VS+LP CG+LK++EMGR +H+LV   RLG  I   NALV
Sbjct:   201 DALMMFDWMVNESVDLDHATIVSMLPVCGHLKDLEMGRNVHKLVEEKRLGDKIEVKNALV 260

Query:   255 DMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL 314
             +MY+KCG ++EAR VFDRM  RDV+TWT MINGY  +GDV NAL L +LMQFEGVRPN++
Sbjct:   261 NMYLKCGRMDEARFVFDRMERRDVITWTCMINGYTEDGDVENALELCRLMQFEGVRPNAV 320

Query:   315 TIGXXXXXXXXXXXXKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFART 374
             TI               G+ LH W ++Q +  ++I+ET+LI MYAKC  V L F+VF+  
Sbjct:   321 TIASLVSVCGDALKVNDGKCLHGWAVRQQVYSDIIIETSLISMYAKCKRVDLCFRVFSGA 380

Query:   375 SKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM 434
             SK  T PW+AI+AGCV N L   A+ LF++M  E VEPN ATLNSLLPAYA LADL+QAM
Sbjct:   381 SKYHTGPWSAIIAGCVQNELVSDALGLFKRMRREDVEPNIATLNSLLPAYAALADLRQAM 440

Query:   435 NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIK--DKDIVVWSVIIAGY 492
             NIHCYL + GF+S ++ +TGL+ +YSKCG+LESAHKIF+ I  K   KD+V+W  +I+GY
Sbjct:   441 NIHCYLTKTGFMSSLDAATGLVHVYSKCGTLESAHKIFNGIQEKHKSKDVVLWGALISGY 500

Query:   493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR 552
             GMHG G  A+ +F EMV+SGV PNE+TFTSAL+ACSH GL++EGL LF FMLE+++T +R
Sbjct:   501 GMHGDGHNALQVFMEMVRSGVTPNEITFTSALNACSHSGLVEEGLTLFRFMLEHYKTLAR 560

Query:   553 ADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLF 612
             ++HYTCIVDLLGRAGRLDEAY+LI T+P +PT  VWGALL ACV H NV+LGE+AA  LF
Sbjct:   561 SNHYTCIVDLLGRAGRLDEAYNLITTIPFEPTSTVWGALLAACVTHENVQLGEMAANKLF 620

Query:   613 ELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRN 663
             ELEPEN GNYVLL+ +Y+A+ RWKD E VR +M+  GLRK P HS IE+R+
Sbjct:   621 ELEPENTGNYVLLANIYAALGRWKDMEKVRSMMENVGLRKKPGHSTIEIRS 671

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 = 1178 (419.7 bits), Expect = 1.1e-119, P = 1.1e-119
 Identities = 258/667 (38%), Positives = 385/667 (57%)

Query:    10 PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRSSLVRAY---GHVSNVRI 65
             P+T   V++L    A +KS+   K++  FI  +G +  ++L S L   Y   G +     
Sbjct:    94 PRTLCSVLQLC---ADSKSLKDGKEVDNFIRGNGFVIDSNLGSKLSLMYTNCGDLKEASR 150

Query:    66 LFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLA 125
             +FDE+    +  +N +M   A++G    S+ +F  M+  G    D+YT+  V K+ + L 
Sbjct:   151 VFDEVKIEKALFWNILMNELAKSGDFSGSIGLFKKMMSSG-VEMDSYTFSCVSKSFSSLR 209

Query:   126 WRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLIS 185
                 G  LHG +L +GF     VGN L+A Y+    V +ARKVFD M E  V+SWN++I+
Sbjct:   210 SVHGGEQLHGFILKSGFGERNSVGNSLVAFYLKNQRVDSARKVFDEMTERDVISWNSIIN 269

Query:   186 GYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGK 245
             GY  N  A++ L VF  ML SG+E D A++VSV   C   + I +GR +H +       +
Sbjct:   270 GYVSNGLAEKGLSVFVQMLVSGIEIDLATIVSVFAGCADSRLISLGRAVHSIGVKACFSR 329

Query:   246 NIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQ 305
                  N L+DMY KCG ++ A+ VF  MS+R VV++TSMI GYA  G    A+ LF+ M+
Sbjct:   330 EDRFCNTLLDMYSKCGDLDSAKAVFREMSDRSVVSYTSMIAGYAREGLAGEAVKLFEEME 389

Query:   306 FEGVRPNSLTIGXXXXXXXXXXXXKRGRSLHAWTIKQN-LECEVIVETALIDMYAKCNLV 364
              EG+ P+  T+               G+ +H W IK+N L  ++ V  AL+DMYAKC  +
Sbjct:   390 EEGISPDVYTVTAVLNCCARYRLLDEGKRVHEW-IKENDLGFDIFVSNALMDMYAKCGSM 448

Query:   365 KLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEV-VEPNDATLNSLLPA 423
             + +  VF+    K  + WN I+ G   N  A +A+ LF  +L E    P++ T+  +LPA
Sbjct:   449 QEAELVFSEMRVKDIISWNTIIGGYSKNCYANEALSLFNLLLEEKRFSPDERTVACVLPA 508

Query:   424 YAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIV 483
              A L+   +   IH Y++R G+ S   V+  L+D+Y+KCG+L  AH +F +I    KD+V
Sbjct:   509 CASLSAFDKGREIHGYIMRNGYFSDRHVANSLVDMYAKCGALLLAHMLFDDIA--SKDLV 566

Query:   484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFM 543
              W+V+IAGYGMHG G+ A++LF +M Q+G++ +E++F S L+ACSH GL+DEG   FN M
Sbjct:   567 SWTVMIAGYGMHGFGKEAIALFNQMRQAGIEADEISFVSLLYACSHSGLVDEGWRFFNIM 626

Query:   544 LENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVEL 603
                 +     +HY CIVD+L R G L +AY  I  MP+ P   +WGALL  C IH +V+L
Sbjct:   627 RHECKIEPTVEHYACIVDMLARTGDLIKAYRFIENMPIPPDATIWGALLCGCRIHHDVKL 686

Query:   604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVR- 662
              E  A+ +FELEPEN G YVL++ +Y+   +W+  + +R  + ++GLRK P  S IE++ 
Sbjct:   687 AEKVAEKVFELEPENTGYYVLMANIYAEAEKWEQVKRLRKRIGQRGLRKNPGCSWIEIKG 746

Query:   663 --NILTA 667
               NI  A
Sbjct:   747 RVNIFVA 753

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

 Score = 1105 (394.0 bits), Expect = 5.9e-112, P = 5.9e-112
 Identities = 246/673 (36%), Positives = 373/673 (55%)

Query:     2 NGPSHHT--LPKTTHLVIKLVQQYAAT-----KSIAGTKQLHAFIITSGPLFTHL-RSSL 53
             N PS H   L +  ++   + +  AA       S+   +Q+   +  +G    H  ++ L
Sbjct:    16 NPPSRHRHFLSERNYIPANVYEHPAALLLERCSSLKELRQILPLVFKNGLYQEHFFQTKL 75

Query:    54 VRA---YGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPD 110
             V     YG V     +F+ +  + + LY+T++K +A+      +L+ F+ M R  +  P 
Sbjct:    76 VSLFCRYGSVDEAARVFEPIDSKLNVLYHTMLKGFAKVSDLDKALQFFVRM-RYDDVEPV 134

Query:   111 NYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFD 170
              Y +  ++K C D A  ++G  +HG ++ +GF +D F    L  MY    +V  ARKVFD
Sbjct:   135 VYNFTYLLKVCGDEAELRVGKEIHGLLVKSGFSLDLFAMTGLENMYAKCRQVNEARKVFD 194

Query:   171 AMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEM 230
              M E  +VSWNT+++GY +N  A+ AL +   M +  ++P   ++VSVLPA   L+ I +
Sbjct:   195 RMPERDLVSWNTIVAGYSQNGMARMALEMVKSMCEENLKPSFITIVSVLPAVSALRLISV 254

Query:   231 GRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYAL 290
             G+ IH           +    ALVDMY KCGS+  AR +FD M ER+VV+W SMI+ Y  
Sbjct:   255 GKEIHGYAMRSGFDSLVNISTALVDMYAKCGSLETARQLFDGMLERNVVSWNSMIDAYVQ 314

Query:   291 NGDVRNALGLFQLMQFEGVRPNSLTIGXXXXXXXXXXXXKRGRSLHAWTIKQNLECEVIV 350
             N + + A+ +FQ M  EGV+P  +++             +RGR +H  +++  L+  V V
Sbjct:   315 NENPKEAMLIFQKMLDEGVKPTDVSVMGALHACADLGDLERGRFIHKLSVELGLDRNVSV 374

Query:   351 ETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVV 410
               +LI MY KC  V  +  +F +   +  V WNA++ G   NG    A+  F QM    V
Sbjct:   375 VNSLISMYCKCKEVDTAASMFGKLQSRTLVSWNAMILGFAQNGRPIDALNYFSQMRSRTV 434

Query:   411 EPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHK 470
             +P+  T  S++ A A L+    A  IH  ++R      V V+T L+D+Y+KCG++  A  
Sbjct:   435 KPDTFTYVSVITAIAELSITHHAKWIHGVVMRSCLDKNVFVTTALVDMYAKCGAIMIARL 494

Query:   471 IFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG 530
             IF  +   ++ +  W+ +I GYG HG G+ A+ LF+EM +  ++PN VTF S + ACSH 
Sbjct:   495 IFDMM--SERHVTTWNAMIDGYGTHGFGKAALELFEEMQKGTIKPNGVTFLSVISACSHS 552

Query:   531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGA 590
             GL++ GL  F  M EN+      DHY  +VDLLGRAGRL+EA+D I  MP+KP   V+GA
Sbjct:   553 GLVEAGLKCFYMMKENYSIELSMDHYGAMVDLLGRAGRLNEAWDFIMQMPVKPAVNVYGA 612

Query:   591 LLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL 650
             +LGAC IH NV   E AA+ LFEL P++ G +VLL+ +Y A   W+    VR  M  +GL
Sbjct:   613 MLGACQIHKNVNFAEKAAERLFELNPDDGGYHVLLANIYRAASMWEKVGQVRVSMLRQGL 672

Query:   651 RKAPAHSLIEVRN 663
             RK P  S++E++N
Sbjct:   673 RKTPGCSMVEIKN 685

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:2141171 AT4G21300 [Arabidopsis thaliana (taxid:3702)]

 Score = 1063 (379.3 bits), Expect = 1.7e-107, P = 1.7e-107
 Identities = 224/648 (34%), Positives = 368/648 (56%)

Query:    19 LVQQYAATKSIAGTKQLHAFIITSG-PLFTHLRSSLVRAYGHVSNVRI---LFDEMSERS 74
             LV+   A K+  G   L   + + G      + SSL++AY     + +   LFD + ++ 
Sbjct:   144 LVKACVALKNFKGIDFLSDTVSSLGMDCNEFVASSLIKAYLEYGKIDVPSKLFDRVLQKD 203

Query:    75 SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALH 134
               ++N ++  YA+ GA    +K F  ++R+ + +P+  T+  V+  C       LG+ LH
Sbjct:   204 CVIWNVMLNGYAKCGALDSVIKGF-SVMRMDQISPNAVTFDCVLSVCASKLLIDLGVQLH 262

Query:   135 GRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAK 194
             G V+++G D +  + N L++MY   G    A K+F  M     V+WN +ISGY ++   +
Sbjct:   263 GLVVVSGVDFEGSIKNSLLSMYSKCGRFDDASKLFRMMSRADTVTWNCMISGYVQSGLME 322

Query:   195 EALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV 254
             E+L  F  M+ SGV PD  +  S+LP+    + +E  + IH  +    +  +I   +AL+
Sbjct:   323 ESLTFFYEMISSGVLPDAITFSSLLPSVSKFENLEYCKQIHCYIMRHSISLDIFLTSALI 382

Query:   255 DMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL 314
             D Y KC  V+ A+ +F + +  DVV +T+MI+GY  NG   ++L +F+ +    + PN +
Sbjct:   383 DAYFKCRGVSMAQNIFSQCNSVDVVVFTAMISGYLHNGLYIDSLEMFRWLVKVKISPNEI 442

Query:   315 TIGXXXXXXXXXXXXKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFART 374
             T+             K GR LH + IK+  +    +  A+IDMYAKC  + L++++F R 
Sbjct:   443 TLVSILPVIGILLALKLGRELHGFIIKKGFDNRCNIGCAVIDMYAKCGRMNLAYEIFERL 502

Query:   375 SKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM 434
             SK+  V WN+++  C  +     A+++FRQM V  +  +  ++++ L A A L       
Sbjct:   503 SKRDIVSWNSMITRCAQSDNPSAAIDIFRQMGVSGICYDCVSISAALSACANLPSESFGK 562

Query:   435 NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGM 494
              IH ++I++   S V   + LID+Y+KCG+L++A  +F  +  K+K+IV W+ IIA  G 
Sbjct:   563 AIHGFMIKHSLASDVYSESTLIDMYAKCGNLKAAMNVFKTM--KEKNIVSWNSIIAACGN 620

Query:   495 HGHGETAVSLFKEMVQ-SGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRA 553
             HG  + ++ LF EMV+ SG++P+++TF   + +C H G +DEG+  F  M E++    + 
Sbjct:   621 HGKLKDSLCLFHEMVEKSGIRPDQITFLEIISSCCHVGDVDEGVRFFRSMTEDYGIQPQQ 680

Query:   554 DHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFE 613
             +HY C+VDL GRAGRL EAY+ +++MP  P   VWG LLGAC +H NVEL EVA+  L +
Sbjct:   681 EHYACVVDLFGRAGRLTEAYETVKSMPFPPDAGVWGTLLGACRLHKNVELAEVASSKLMD 740

Query:   614 LEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEV 661
             L+P N G YVL+S  ++  R W+    VR +M E+ ++K P +S IE+
Sbjct:   741 LDPSNSGYYVLISNAHANAREWESVTKVRSLMKEREVQKIPGYSWIEI 788

GO:0005739 "mitochondrion" evidence=ISM

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

 Score = 1040 (371.2 bits), Expect = 4.6e-105, P = 4.6e-105
 Identities = 237/645 (36%), Positives = 357/645 (55%)

Query:    28 SIAGTKQLHAFIITSGPLFTH-LRSSLVRAYGHVSNV---RILFDEMSERSSFLYNTVMK 83
             ++   K LHA ++ S  +    + + LV  Y ++ NV   R  FD +  R  + +N ++ 
Sbjct:    66 NLQSAKCLHARLVVSKQIQNVCISAKLVNLYCYLGNVALARHTFDHIQNRDVYAWNLMIS 125

Query:    84 MYAQNGASHDSLKMF-LGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGF 142
              Y + G S + ++ F L ML  G   PD  T+P V+KAC  +     G  +H   L  GF
Sbjct:   126 GYGRAGNSSEVIRCFSLFMLSSG-LTPDYRTFPSVLKACRTVID---GNKIHCLALKFGF 181

Query:   143 DMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDW 202
               D +V   LI +Y  +  V  AR +FD M    + SWN +ISGY ++  AKEAL     
Sbjct:   182 MWDVYVAASLIHLYSRYKAVGNARILFDEMPVRDMGSWNAMISGYCQSGNAKEALT---- 237

Query:   203 MLKSGVEP-DCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCG 261
              L +G+   D  +VVS+L AC    +   G  IH       L   +   N L+D+Y + G
Sbjct:   238 -LSNGLRAMDSVTVVSLLSACTEAGDFNRGVTIHSYSIKHGLESELFVSNKLIDLYAEFG 296

Query:   262 SVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGXXXX 321
              + + + VFDRM  RD+++W S+I  Y LN     A+ LFQ M+   ++P+ LT+     
Sbjct:   297 RLRDCQKVFDRMYVRDLISWNSIIKAYELNEQPLRAISLFQEMRLSRIQPDCLTLISLAS 356

Query:   322 XXXXXXXXKRGRSLHAWTIKQN--LECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKT 379
                     +  RS+  +T+++   LE ++ +  A++ MYAK  LV  +  VF        
Sbjct:   357 ILSQLGDIRACRSVQGFTLRKGWFLE-DITIGNAVVVMYAKLGLVDSARAVFNWLPNTDV 415

Query:   380 VPWNAILAGCVHNGLARKAVELFRQMLVE-VVEPNDATLNSLLPAYAILADLQQAMNIHC 438
             + WN I++G   NG A +A+E++  M  E  +  N  T  S+LPA +    L+Q M +H 
Sbjct:   416 ISWNTIISGYAQNGFASEAIEMYNIMEEEGEIAANQGTWVSVLPACSQAGALRQGMKLHG 475

Query:   439 YLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHG 498
              L++ G    V V T L D+Y KCG LE A  +F +IP  +   V W+ +IA +G HGHG
Sbjct:   476 RLLKNGLYLDVFVVTSLADMYGKCGRLEDALSLFYQIPRVNS--VPWNTLIACHGFHGHG 533

Query:   499 ETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTC 558
             E AV LFKEM+  GV+P+ +TF + L ACSH GL+DEG   F  M  ++       HY C
Sbjct:   534 EKAVMLFKEMLDEGVKPDHITFVTLLSACSHSGLVDEGQWCFEMMQTDYGITPSLKHYGC 593

Query:   559 IVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPEN 618
             +VD+ GRAG+L+ A   I++M L+P  ++WGALL AC +HGNV+LG++A++ LFE+EPE+
Sbjct:   594 MVDMYGRAGQLETALKFIKSMSLQPDASIWGALLSACRVHGNVDLGKIASEHLFEVEPEH 653

Query:   619 PGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRN 663
              G +VLLS +Y++  +W+  + +R +   KGLRK P  S +EV N
Sbjct:   654 VGYHVLLSNMYASAGKWEGVDEIRSIAHGKGLRKTPGWSSMEVDN 698

GO:0005739 "mitochondrion" evidence=ISM

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

TAIR|locus:2063771 AT2G03380 [Arabidopsis thaliana (taxid:3702)]

 Score = 1038 (370.5 bits), Expect = 7.5e-105, P = 7.5e-105
 Identities = 226/640 (35%), Positives = 361/640 (56%)

Query:    28 SIAGTKQLHAFIITSGPLFT-HLRSSLVRAYG---HVSNVRILFDEMSERSSFLYNTVMK 83
             +I   +Q H  +  +G +    + + LV  YG   +  + R++FD++ E   +L+  +++
Sbjct:    56 NIDSLRQSHGVLTGNGLMGDISIATKLVSLYGFFGYTKDARLVFDQIPEPDFYLWKVMLR 115

Query:    84 MYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVL-ITGF 142
              Y  N  S + +K++  +++ G +  D+  +   +KACT+L     G  +H +++ +  F
Sbjct:   116 CYCLNKESVEVVKLYDLLMKHG-FRYDDIVFSKALKACTELQDLDNGKKIHCQLVKVPSF 174

Query:   143 DMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDW 202
             D     G  L+ MY   GE+K+A KVF+ +   +VV W ++I+GY KN   +E LV+F+ 
Sbjct:   175 DNVVLTG--LLDMYAKCGEIKSAHKVFNDITLRNVVCWTSMIAGYVKNDLCEEGLVLFNR 232

Query:   203 MLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGS 262
             M ++ V  +  +  +++ AC  L  +  G+  H  +    +  +     +L+DMYVKCG 
Sbjct:   233 MRENNVLGNEYTYGTLIMACTKLSALHQGKWFHGCLVKSGIELSSCLVTSLLDMYVKCGD 292

Query:   263 VNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGXXXXX 322
             ++ AR VF+  S  D+V WT+MI GY  NG V  AL LFQ M+   ++PN +TI      
Sbjct:   293 ISNARRVFNEHSHVDLVMWTAMIVGYTHNGSVNEALSLFQKMKGVEIKPNCVTIASVLSG 352

Query:   323 XXXXXXXKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPW 382
                    + GRS+H  +IK  +  +  V  AL+ MYAKC   + +  VF   S+K  V W
Sbjct:   353 CGLIENLELGRSVHGLSIKVGI-WDTNVANALVHMYAKCYQNRDAKYVFEMESEKDIVAW 411

Query:   383 NAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIR 442
             N+I++G   NG   +A+ LF +M  E V PN  T+ SL  A A L  L    ++H Y ++
Sbjct:   412 NSIISGFSQNGSIHEALFLFHRMNSESVTPNGVTVASLFSACASLGSLAVGSSLHAYSVK 471

Query:   443 YGFL--SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGET 500
              GFL  S V V T L+D Y+KCG  +SA  IF  I  ++K+ + WS +I GYG  G    
Sbjct:   472 LGFLASSSVHVGTALLDFYAKCGDPQSARLIFDTI--EEKNTITWSAMIGGYGKQGDTIG 529

Query:   501 AVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIV 560
             ++ LF+EM++   +PNE TFTS L AC H G+++EG   F+ M +++       HYTC+V
Sbjct:   530 SLELFEEMLKKQQKPNESTFTSILSACGHTGMVNEGKKYFSSMYKDYNFTPSTKHYTCMV 589

Query:   561 DLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG 620
             D+L RAG L++A D+I  MP++P    +GA L  C +H   +LGE+  K + +L P++  
Sbjct:   590 DMLARAGELEQALDIIEKMPIQPDVRCFGAFLHGCGMHSRFDLGEIVIKKMLDLHPDDAS 649

Query:   621 NYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIE 660
              YVL+S LY++  RW  A+ VR++M ++GL K   HS +E
Sbjct:   650 YYVLVSNLYASDGRWNQAKEVRNLMKQRGLSKIAGHSTME 689

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2196583 ECB2 "EARLY CHLOROPLAST BIOGENESIS2" [Arabidopsis thaliana (taxid:3702)]

 Score = 1035 (369.4 bits), Expect = 1.6e-104, P = 1.6e-104
 Identities = 216/606 (35%), Positives = 340/606 (56%)

Query:    57 YGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPI 116
             +G++ +   +F +MSER+ F +N ++  YA+ G   +++ ++  ML +G   PD YT+P 
Sbjct:   142 FGNLVDAWYVFGKMSERNLFSWNVLVGGYAKQGYFDEAMCLYHRMLWVGGVKPDVYTFPC 201

Query:   117 VIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHS 176
             V++ C  +     G  +H  V+  G+++D  V N LI MY+  G+VK+AR +FD M    
Sbjct:   202 VLRTCGGIPDLARGKEVHVHVVRYGYELDIDVVNALITMYVKCGDVKSARLLFDRMPRRD 261

Query:   177 VVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHE 236
             ++SWN +ISGYF+N    E L +F  M    V+PD  ++ SV+ AC  L +  +GR IH 
Sbjct:   262 IISWNAMISGYFENGMCHEGLELFFAMRGLSVDPDLMTLTSVISACELLGDRRLGRDIHA 321

Query:   237 LVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRN 296
              V       +I+  N+L  MY+  GS  EA  +F RM  +D+V+WT+MI+GY  N     
Sbjct:   322 YVITTGFAVDISVCNSLTQMYLNAGSWREAEKLFSRMERKDIVSWTTMISGYEYNFLPDK 381

Query:   297 ALGLFQLMQFEGVRPNSLTIGXXXXXXXXXXXXKRGRSLHAWTIKQNLECEVIVETALID 356
             A+  +++M  + V+P+ +T+               G  LH   IK  L   VIV   LI+
Sbjct:   382 AIDTYRMMDQDSVKPDEITVAAVLSACATLGDLDTGVELHKLAIKARLISYVIVANNLIN 441

Query:   357 MYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDAT 416
             MY+KC  +  +  +F    +K  + W +I+AG   N    +A+   RQM +  ++PN  T
Sbjct:   442 MYSKCKCIDKALDIFHNIPRKNVISWTSIIAGLRLNNRCFEALIFLRQMKM-TLQPNAIT 500

Query:   417 LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIP 476
             L + L A A +  L     IH +++R G      +   L+D+Y +CG + +A   +S+  
Sbjct:   501 LTAALAACARIGALMCGKEIHAHVLRTGVGLDDFLPNALLDMYVRCGRMNTA---WSQFN 557

Query:   477 IKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEG 536
              + KD+  W++++ GY   G G   V LF  MV+S V+P+E+TF S L  CS   ++ +G
Sbjct:   558 SQKKDVTSWNILLTGYSERGQGSMVVELFDRMVKSRVRPDEITFISLLCGCSKSQMVRQG 617

Query:   537 LDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACV 596
             L  F+ M E++       HY C+VDLLGRAG L EA+  I+ MP+ P  AVWGALL AC 
Sbjct:   618 LMYFSKM-EDYGVTPNLKHYACVVDLLGRAGELQEAHKFIQKMPVTPDPAVWGALLNACR 676

Query:   597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAH 656
             IH  ++LGE++A+ +FEL+ ++ G Y+LL  LY+   +W++   VR +M E GL      
Sbjct:   677 IHHKIDLGELSAQHIFELDKKSVGYYILLCNLYADCGKWREVAKVRRMMKENGLTVDAGC 736

Query:   657 SLIEVR 662
             S +EV+
Sbjct:   737 SWVEVK 742

GO:0009507 "chloroplast" evidence=ISM;IDA

GO:0009451 "RNA modification" evidence=IMP

GO:0009658 "chloroplast organization" evidence=IMP

GO:0040007 "growth" evidence=IMP

GO:0009416 "response to light stimulus" evidence=IEP

TAIR|locus:2122551 AT4G39530 [Arabidopsis thaliana (taxid:3702)]

 Score = 1028 (366.9 bits), Expect = 8.6e-104, P = 8.6e-104
 Identities = 217/635 (34%), Positives = 348/635 (54%)

Query:    34 QLHAFIITSG-PLFTHLRSSLVRAY---GHVSNVRILFDEMSERSSFLYNTVMKMYAQNG 89
             QL +F++ SG     ++ + L+  Y   G++   R++FD + E+S+  + T++    + G
Sbjct:   169 QLQSFLVKSGFDRDVYVGTLLIDFYLKDGNIDYARLVFDALPEKSTVTWTTMISGCVKMG 228

Query:    90 ASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVG 149
              S+ SL++F  ++      PD Y    V+ AC+ L + + G  +H  +L  G +MD  + 
Sbjct:   229 RSYVSLQLFYQLME-DNVVPDGYILSTVLSACSILPFLEGGKQIHAHILRYGLEMDASLM 287

Query:   150 NCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVE 209
             N LI  Y+  G V AA K+F+ M   +++SW TL+SGY +NA  KEA+ +F  M K G++
Sbjct:   288 NVLIDSYVKCGRVIAAHKLFNGMPNKNIISWTTLLSGYKQNALHKEAMELFTSMSKFGLK 347

Query:   210 PDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLV 269
             PD  +  S+L +C  L  +  G  +H       LG +    N+L+DMY KC  + +AR V
Sbjct:   348 PDMYACSSILTSCASLHALGFGTQVHAYTIKANLGNDSYVTNSLIDMYAKCDCLTDARKV 407

Query:   270 FDRMSERDVVTWTSMINGYALNG---DVRNALGLFQLMQFEGVRPNSLTIGXXXXXXXXX 326
             FD  +  DVV + +MI GY+  G   ++  AL +F+ M+F  +RP+ LT           
Sbjct:   408 FDIFAAADVVLFNAMIEGYSRLGTQWELHEALNIFRDMRFRLIRPSLLTFVSLLRASASL 467

Query:   327 XXXKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAIL 386
                   + +H    K  L  ++   +ALID+Y+ C  +K S  VF     K  V WN++ 
Sbjct:   468 TSLGLSKQIHGLMFKYGLNLDIFAGSALIDVYSNCYCLKDSRLVFDEMKVKDLVIWNSMF 527

Query:   387 AGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFL 446
             AG V      +A+ LF ++ +    P++ T  +++ A   LA +Q     HC L++ G  
Sbjct:   528 AGYVQQSENEEALNLFLELQLSRERPDEFTFANMVTAAGNLASVQLGQEFHCQLLKRGLE 587

Query:   447 SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFK 506
                 ++  L+D+Y+KCGS E AHK F       +D+V W+ +I+ Y  HG G+ A+ + +
Sbjct:   588 CNPYITNALLDMYAKCGSPEDAHKAFDSAA--SRDVVCWNSVISSYANHGEGKKALQMLE 645

Query:   507 EMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA 566
             +M+  G++PN +TF   L ACSH GL+++GL  F  ML         +HY C+V LLGRA
Sbjct:   646 KMMSEGIEPNYITFVGVLSACSHAGLVEDGLKQFELMLR-FGIEPETEHYVCMVSLLGRA 704

Query:   567 GRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS 626
             GRL++A +LI  MP KP   VW +LL  C   GNVEL E AA+     +P++ G++ +LS
Sbjct:   705 GRLNKARELIEKMPTKPAAIVWRSLLSGCAKAGNVELAEHAAEMAILSDPKDSGSFTMLS 764

Query:   627 KLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEV 661
              +Y++   W +A+ VR+ M  +G+ K P  S I +
Sbjct:   765 NIYASKGMWTEAKKVRERMKVEGVVKEPGRSWIGI 799

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2131631 AT4G35130 "AT4G35130" [Arabidopsis thaliana (taxid:3702)]

 Score = 1022 (364.8 bits), Expect = 3.7e-103, P = 3.7e-103
 Identities = 211/599 (35%), Positives = 339/599 (56%)

Query:    66 LFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLA 125
             LFDEM++  +FL+N ++K +   G   ++++ +  M+  G    D +TYP VIK+   ++
Sbjct:    86 LFDEMNKADAFLWNVMIKGFTSCGLYIEAVQFYSRMVFAG-VKADTFTYPFVIKSVAGIS 144

Query:   126 WRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLIS 185
               + G  +H  V+  GF  D +V N LI++YM  G    A KVF+ M E  +VSWN++IS
Sbjct:   145 SLEEGKKIHAMVIKLGFVSDVYVCNSLISLYMKLGCAWDAEKVFEEMPERDIVSWNSMIS 204

Query:   186 GYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGK 245
             GY        +L++F  MLK G +PD  S +S L AC ++   +MG+ IH      R+  
Sbjct:   205 GYLALGDGFSSLMLFKEMLKCGFKPDRFSTMSALGACSHVYSPKMGKEIHCHAVRSRIET 264

Query:   246 -NIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLM 304
              ++    +++DMY K G V+ A  +F+ M +R++V W  MI  YA NG V +A   FQ M
Sbjct:   265 GDVMVMTSILDMYSKYGEVSYAERIFNGMIQRNIVAWNVMIGCYARNGRVTDAFLCFQKM 324

Query:   305 QFE-GVRPNSLTIGXXXXXXXXXXXXKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNL 363
               + G++P+ +T                GR++H + +++     +++ETALIDMY +C  
Sbjct:   325 SEQNGLQPDVIT----SINLLPASAILEGRTIHGYAMRRGFLPHMVLETALIDMYGECGQ 380

Query:   364 VKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPA 423
             +K +  +F R ++K  + WN+I+A  V NG    A+ELF+++    + P+  T+ S+LPA
Sbjct:   381 LKSAEVIFDRMAEKNVISWNSIIAAYVQNGKNYSALELFQELWDSSLVPDSTTIASILPA 440

Query:   424 YAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIV 483
             YA    L +   IH Y+++  + S   +   L+ +Y+ CG LE A K F+ I +KD  +V
Sbjct:   441 YAESLSLSEGREIHAYIVKSRYWSNTIILNSLVHMYAMCGDLEDARKCFNHILLKD--VV 498

Query:   484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFM 543
              W+ II  Y +HG G  +V LF EM+ S V PN+ TF S L ACS  G++DEG + F  M
Sbjct:   499 SWNSIIMAYAVHGFGRISVWLFSEMIASRVNPNKSTFASLLAACSISGMVDEGWEYFESM 558

Query:   544 LENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVEL 603
                +      +HY C++DL+GR G    A   +  MP  PT  +WG+LL A   H ++ +
Sbjct:   559 KREYGIDPGIEHYGCMLDLIGRTGNFSAAKRFLEEMPFVPTARIWGSLLNASRNHKDITI 618

Query:   604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVR 662
              E AA+ +F++E +N G YVLL  +Y+   RW+D   ++ +M+ KG+ +  + S +E +
Sbjct:   619 AEFAAEQIFKMEHDNTGCYVLLLNMYAEAGRWEDVNRIKLLMESKGISRTSSRSTVEAK 677

GO:0008150 "biological_process" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

TAIR|locus:2131939 MEF29 "AT4G30700" [Arabidopsis thaliana (taxid:3702)]

 Score = 1016 (362.7 bits), Expect = 1.6e-102, P = 1.6e-102
 Identities = 225/665 (33%), Positives = 351/665 (52%)

Query:     5 SHHTLPKTTHLVIK--LVQQYAATKSIAGTKQLHAFIITSG-----PLFTHLRSSLVRAY 57
             S  T   T  L+ K   +  +  + SI+   Q HA II  G      L T L   L    
Sbjct:     7 SSATAETTAALISKNTYLDFFKRSTSISHLAQTHAQIILHGFRNDISLLTKLTQRL-SDL 65

Query:    58 GHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIV 117
             G +   R +F  +     FL+N +M+ ++ N + H SL +F  + +  +  P++ TY   
Sbjct:    66 GAIYYARDIFLSVQRPDVFLFNVLMRGFSVNESPHSSLSVFAHLRKSTDLKPNSSTYAFA 125

Query:   118 IKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSV 177
             I A +     + G  +HG+ ++ G D +  +G+ ++ MY  F  V+ ARKVFD M E   
Sbjct:   126 ISAASGFRDDRAGRVIHGQAVVDGCDSELLLGSNIVKMYFKFWRVEDARKVFDRMPEKDT 185

Query:   178 VSWNTLISGYFKNAYAKEALVVF-DWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHE 236
             + WNT+ISGY KN    E++ VF D + +S    D  +++ +LPA   L+E+ +G  IH 
Sbjct:   186 ILWNTMISGYRKNEMYVESIQVFRDLINESCTRLDTTTLLDILPAVAELQELRLGMQIHS 245

Query:   237 LVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRN 296
             L        +       + +Y KCG +     +F    + D+V + +MI+GY  NG+   
Sbjct:   246 LATKTGCYSHDYVLTGFISLYSKCGKIKMGSALFREFRKPDIVAYNAMIHGYTSNGETEL 305

Query:   297 ALGLFQLMQFEGVRPNSLTIGXXXXXXXXXXXXKRGRSLHAWTIKQNLECEVIVETALID 356
             +L LF+ +   G R  S T+                 ++H + +K N      V TAL  
Sbjct:   306 SLSLFKELMLSGARLRSSTLVSLVPVSGHLMLIY---AIHGYCLKSNFLSHASVSTALTT 362

Query:   357 MYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDAT 416
             +Y+K N ++ + ++F  + +K    WNA+++G   NGL   A+ LFR+M      PN  T
Sbjct:   363 VYSKLNEIESARKLFDESPEKSLPSWNAMISGYTQNGLTEDAISLFREMQKSEFSPNPVT 422

Query:   417 LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIP 476
             +  +L A A L  L     +H  +    F S + VST LI +Y+KCGS+  A ++F ++ 
Sbjct:   423 ITCILSACAQLGALSLGKWVHDLVRSTDFESSIYVSTALIGMYAKCGSIAEARRLF-DLM 481

Query:   477 IKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEG 536
              K K+ V W+ +I+GYG+HG G+ A+++F EM+ SG+ P  VTF   L+ACSH GL+ EG
Sbjct:   482 TK-KNEVTWNTMISGYGLHGQGQEALNIFYEMLNSGITPTPVTFLCVLYACSHAGLVKEG 540

Query:   537 LDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACV 596
              ++FN M+  +       HY C+VD+LGRAG L  A   I  M ++P  +VW  LLGAC 
Sbjct:   541 DEIFNSMIHRYGFEPSVKHYACMVDILGRAGHLQRALQFIEAMSIEPGSSVWETLLGACR 600

Query:   597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAH 656
             IH +  L    ++ LFEL+P+N G +VLLS ++SA R +  A  VR    ++ L KAP +
Sbjct:   601 IHKDTNLARTVSEKLFELDPDNVGYHVLLSNIHSADRNYPQAATVRQTAKKRKLAKAPGY 660

Query:   657 SLIEV 661
             +LIE+
Sbjct:   661 TLIEI 665

GO:0003674 "molecular_function" evidence=ND

GO:0000963 "mitochondrial RNA processing" evidence=IMP

GO:0005739 "mitochondrion" evidence=IDA

GO:0009507 "chloroplast" evidence=IDA

GO:0016554 "cytidine to uridine editing" evidence=IMP

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

---

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)
Q9FLZ9	PP405_ARATH	No assigned EC number	0.5698	0.9670	0.9527	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	667
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-167
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-112
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	4e-92
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	1e-57
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-50
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-11
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-10
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	4e-09
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-09
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-07
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	6e-07
pfam01535	31	pfam01535, PPR, PPR repeat	5e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	7e-06
pfam13041	50	pfam13041, PPR_2, PPR repeat family	9e-06
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	1e-05
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	3e-05
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	6e-05
pfam01535	31	pfam01535, PPR, PPR repeat	8e-05
pfam12854	34	pfam12854, PPR_1, PPR repeat	8e-05
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	4e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.002
pfam12854	34	pfam12854, PPR_1, PPR repeat	0.002
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam13812	34	pfam13812, PPR_3, Pentatricopeptide repeat domain	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.004
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	0.004

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

 Score =  500 bits (1289), Expect = e-167
 Identities = 245/619 (39%), Positives = 358/619 (57%), Gaps = 6/619 (0%)

Query: 49  LRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYN 108
           + S  VR +G + +   +F +M ER  F +N ++  YA+ G   ++L ++  ML  G   
Sbjct: 127 MLSMFVR-FGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAG-VR 184

Query: 109 PDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKV 168
           PD YT+P V++ C  +     G  +H  V+  GF++D  V N LI MY+  G+V +AR V
Sbjct: 185 PDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLV 244

Query: 169 FDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEI 228
           FD M     +SWN +ISGYF+N    E L +F  M +  V+PD  ++ SV+ AC  L + 
Sbjct: 245 FDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDE 304

Query: 229 EMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGY 288
            +GR +H  V       +++  N+L+ MY+  GS  EA  VF RM  +D V+WT+MI+GY
Sbjct: 305 RLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGY 364

Query: 289 ALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEV 348
             NG    AL  + LM+ + V P+ +TI S+LSAC+ L  L  G  LH    ++ L   V
Sbjct: 365 EKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYV 424

Query: 349 IVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVE 408
           +V  ALI+MY+KC  +  + +VF    +K  + W +I+AG   N    +A+  FRQML+ 
Sbjct: 425 VVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLT 484

Query: 409 VVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESA 468
           + +PN  TL + L A A +  L     IH +++R G      +   L+D+Y +CG +  A
Sbjct: 485 L-KPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA 543

Query: 469 HKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACS 528
              F+     +KD+V W++++ GY  HG G  AV LF  MV+SGV P+EVTF S L ACS
Sbjct: 544 WNQFN---SHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACS 600

Query: 529 HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVW 588
             G++ +GL+ F+ M E +       HY C+VDLLGRAG+L EAY+ I  MP+ P  AVW
Sbjct: 601 RSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVW 660

Query: 589 GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK 648
           GALL AC IH +VELGE+AA+ +FEL+P + G Y+LL  LY+   +W +   VR  M E 
Sbjct: 661 GALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRKTMREN 720

Query: 649 GLRKAPAHSLIEVRNILTA 667
           GL   P  S +EV+  + A
Sbjct: 721 GLTVDPGCSWVEVKGKVHA 739

Length = 857

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

 Score =  353 bits (906), Expect = e-112
 Identities = 170/446 (38%), Positives = 258/446 (57%), Gaps = 2/446 (0%)

Query: 217 SVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSER 276
           +++ AC  LK I   + ++  V       +    N ++ M+VKCG + +AR +FD M ER
Sbjct: 128 ALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPER 187

Query: 277 DVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLH 336
           ++ +W ++I G    G+ R A  LF+ M  +G      T   +L A + L   + G+ LH
Sbjct: 188 NLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLH 247

Query: 337 AWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLAR 396
              +K  +  +  V  ALIDMY+KC  ++ +  VF    +K TV WN++LAG   +G + 
Sbjct: 248 CCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSE 307

Query: 397 KAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLI 456
           +A+ L+ +M    V  +  T + ++  ++ LA L+ A   H  LIR GF   +  +T L+
Sbjct: 308 EALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALV 367

Query: 457 DIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPN 516
           D+YSK G +E A  +F  +P K+  ++ W+ +IAGYG HG G  AV +F+ M+  GV PN
Sbjct: 368 DLYSKWGRMEDARNVFDRMPRKN--LISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPN 425

Query: 517 EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLI 576
            VTF + L AC + GL ++G ++F  M ENH+   RA HY C+++LLGR G LDEAY +I
Sbjct: 426 HVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMI 485

Query: 577 RTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWK 636
           R  P KPT  +W ALL AC IH N+ELG +AA+ L+ + PE   NYV+L  LY++  R  
Sbjct: 486 RRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYVVLLNLYNSSGRQA 545

Query: 637 DAENVRDVMDEKGLRKAPAHSLIEVR 662
           +A  V + +  KGL   PA + IEV+
Sbjct: 546 EAAKVVETLKRKGLSMHPACTWIEVK 571

Length = 697

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

 Score =  304 bits (779), Expect = 4e-92
 Identities = 178/538 (33%), Positives = 280/538 (52%), Gaps = 17/538 (3%)

Query: 71  SERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKL- 129
           S  S+   N+ ++    +G    +LK+   M  L     D   Y  + + C    W++  
Sbjct: 47  SSSSTHDSNSQLRALCSHGQLEQALKLLESMQEL-RVPVDEDAYVALFRLCE---WKRAV 102

Query: 130 --GIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGY 187
             G  +  R L +   +   +GN +++M++ FGE+  A  VF  M E  + SWN L+ GY
Sbjct: 103 EEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGY 162

Query: 188 FKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNI 247
            K  Y  EAL ++  ML +GV PD  +   VL  CG + ++  GR +H  V       ++
Sbjct: 163 AKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDV 222

Query: 248 AAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFE 307
              NAL+ MYVKCG V  ARLVFDRM  RD ++W +MI+GY  NG+    L LF  M+  
Sbjct: 223 DVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMREL 282

Query: 308 GVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLS 367
            V P+ +TI S++SAC  L   + GR +H + +K     +V V  +LI MY        +
Sbjct: 283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEA 342

Query: 368 FQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAIL 427
            +VF+R   K  V W A+++G   NGL  KA+E +  M  + V P++ T+ S+L A A L
Sbjct: 343 EKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACL 402

Query: 428 ADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSV 487
            DL   + +H    R G +S V V+  LI++YSKC  ++ A ++F  IP  +KD++ W+ 
Sbjct: 403 GDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIP--EKDVISWTS 460

Query: 488 IIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENH 547
           IIAG  ++     A+  F++M+ + ++PN VT  +AL AC+  G L  G ++   +L   
Sbjct: 461 IIAGLRLNNRCFEALIFFRQMLLT-LKPNSVTLIAALSACARIGALMCGKEIHAHVL--- 516

Query: 548 QTCSRADHY--TCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVEL 603
           +T    D +    ++DL  R GR++ A++   +   +     W  LL   V HG   +
Sbjct: 517 RTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSM 572

Length = 857

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

 Score =  206 bits (526), Expect = 1e-57
 Identities = 125/462 (27%), Positives = 218/462 (47%), Gaps = 18/462 (3%)

Query: 49  LRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYN 108
           L+   +R     S    L D    +S     + ++     G   ++L++F  +     + 
Sbjct: 61  LKPEPIRIEVSESKDARLDDTQIRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFT 120

Query: 109 PDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKV 168
               TY  +++AC  L   +   A++  V  +GF+ D ++ N ++ M++  G +  AR++
Sbjct: 121 LPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRL 180

Query: 169 FDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEI 228
           FD M E ++ SW T+I G       +EA  +F  M + G + +  + V +L A   L   
Sbjct: 181 FDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSA 240

Query: 229 EMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGY 288
             G+ +H  V    +  +     AL+DMY KCG + +AR VFD M E+  V W SM+ GY
Sbjct: 241 RAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGY 300

Query: 289 ALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEV 348
           AL+G    AL L+  M+  GV  +  T   ++   S L  L+  +  HA  I+     ++
Sbjct: 301 ALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDI 360

Query: 349 IVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVE 408
           +  TAL+D+Y+K   ++ +  VF R  +K  + WNA++AG  ++G   KAVE+F +M+ E
Sbjct: 361 VANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAE 420

Query: 409 VVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVS---------TGLIDIY 459
            V PN  T  ++L A       +Q   I        F S+ E             +I++ 
Sbjct: 421 GVAPNHVTFLAVLSACRYSGLSEQGWEI--------FQSMSENHRIKPRAMHYACMIELL 472

Query: 460 SKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETA 501
            + G L+ A+ +    P K   + +W+ ++    +H + E  
Sbjct: 473 GREGLLDEAYAMIRRAPFK-PTVNMWAALLTACRIHKNLELG 513

Length = 697

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

 Score =  184 bits (469), Expect = 9e-50
 Identities = 121/407 (29%), Positives = 206/407 (50%), Gaps = 12/407 (2%)

Query: 8   TLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSG-PLFTHLRSSLVRAY---GHVSNV 63
           TLP +T+    LV+   A KSI   K ++  + +SG     ++ + ++  +   G + + 
Sbjct: 120 TLPASTYDA--LVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDA 177

Query: 64  RILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTD 123
           R LFDEM ER+   + T++      G   ++  +F  M   G  + +  T+ ++++A   
Sbjct: 178 RRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGS-DAEPRTFVVMLRASAG 236

Query: 124 LAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTL 183
           L   + G  LH  VL TG   DTFV   LI MY   G+++ AR VFD M E + V+WN++
Sbjct: 237 LGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSM 296

Query: 184 ISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRL 243
           ++GY  + Y++EAL ++  M  SGV  D  +   ++     L  +E  +  H  +     
Sbjct: 297 LAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGF 356

Query: 244 GKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQL 303
             +I A  ALVD+Y K G + +AR VFDRM  +++++W ++I GY  +G    A+ +F+ 
Sbjct: 357 PLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFER 416

Query: 304 MQFEGVRPNSLTIGSLLSACSSLYYLKRG-RSLHAWTIKQNLECEVIVETALIDMYAKCN 362
           M  EGV PN +T  ++LSAC      ++G     + +    ++   +    +I++  +  
Sbjct: 417 MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREG 476

Query: 363 LVKLSFQVFARTSKKKTVP-WNAILAGC-VHNG--LARKAVELFRQM 405
           L+  ++ +  R   K TV  W A+L  C +H    L R A E    M
Sbjct: 477 LLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGM 523

Length = 697

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

 Score = 59.0 bits (144), Expect = 2e-11
 Identities = 16/50 (32%), Positives = 27/50 (54%)

Query: 480 KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH 529
            D+V ++ +I GY   G  E A+ LF EM + G++PN  T++  +     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 54.7 bits (133), Expect = 6e-10
 Identities = 19/47 (40%), Positives = 27/47 (57%)

Query: 277 DVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSAC 323
           DVVT+ ++I+GY   G V  AL LF  M+  G++PN  T   L+   
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 61.4 bits (149), Expect = 1e-09
 Identities = 72/360 (20%), Positives = 145/360 (40%), Gaps = 53/360 (14%)

Query: 196 ALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIE-MGRMIHELVAGGRLGKNIAAWNALV 254
           AL V   + ++G++ DC    +++  C    +++ M  + HE+V  G +  N+  + AL+
Sbjct: 456 ALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAG-VEANVHTFGALI 514

Query: 255 DMYVKCGSVNEARLVFDRMSERDV----VTWTSMINGYALNGDVRNALGLFQLMQFEG-- 308
           D   + G V +A   +  M  ++V    V + ++I+    +G V  A  +   M+ E   
Sbjct: 515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHP 574

Query: 309 VRPNSLTIGSLLSACSSLYYLKRGR----SLHAWTIKQNLECEVIVETALIDMYAKCNLV 364
           + P+ +T+G+L+ AC++   + R +     +H + IK   E      T  ++  ++    
Sbjct: 575 IDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVY----TIAVNSCSQKGDW 630

Query: 365 KLSFQVFARTSKKKTVPWNAILAGCV----HNGLARKAVELFRQMLVEVVEPNDATLNSL 420
             +  ++    KK   P     +  V    H G   KA E+ +    + ++    + +SL
Sbjct: 631 DFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSL 690

Query: 421 LPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK 480
           + A +   + ++A+ ++  +        V     LI    +   L  A ++ SE      
Sbjct: 691 MGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSE------ 744

Query: 481 DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLF 540
                                      M + G+ PN +T++  L A       D GLDL 
Sbjct: 745 ---------------------------MKRLGLCPNTITYSILLVASERKDDADVGLDLL 777

Length = 1060

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

 Score = 52.8 bits (128), Expect = 3e-09
 Identities = 17/36 (47%), Positives = 25/36 (69%)

Query: 176 SVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPD 211
            VV++NTLI GY K    +EAL +F+ M K G++P+
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPN 37

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 = 59.9 bits (145), Expect = 4e-09
 Identities = 66/328 (20%), Positives = 128/328 (39%), Gaps = 70/328 (21%)

Query: 219 LPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMS---- 274
           +  C   ++I+    +  LV    L  +   +  L+    K G V+    VF  M     
Sbjct: 444 MSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGV 503

Query: 275 ERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRS 334
           E +V T+ ++I+G A  G V  A G + +M+ + V+P+ +   +L+SAC     + R   
Sbjct: 504 EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDR--- 560

Query: 335 LHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGL 394
             A+ +             L +M A+                   +   A++  C + G 
Sbjct: 561 --AFDV-------------LAEMKAE-----------THPIDPDHITVGALMKACANAGQ 594

Query: 395 ARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTG 454
             +A E+++                                IH Y I+ G     EV T 
Sbjct: 595 VDRAKEVYQ-------------------------------MIHEYNIK-GTP---EVYTI 619

Query: 455 LIDIYSKCGSLESAHKIFSEIPIKD--KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSG 512
            ++  S+ G  + A  I+ ++  K    D V +S ++   G  G  + A  + ++  + G
Sbjct: 620 AVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQG 679

Query: 513 VQPNEVTFTSALHACSHGGLLDEGLDLF 540
           ++   V+++S + ACS+     + L+L+
Sbjct: 680 IKLGTVSYSSLMGACSNAKNWKKALELY 707

Length = 1060

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

 Score = 58.7 bits (142), Expect = 8e-09
 Identities = 70/320 (21%), Positives = 123/320 (38%), Gaps = 94/320 (29%)

Query: 293 DVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRS------LHAWTIKQNLEC 346
           D+  AL + +L+Q  G++ +     +L+S C+     K G+        H      N   
Sbjct: 452 DIDGALRVLRLVQEAGLKADCKLYTTLISTCA-----KSGKVDAMFEVFHEMV---NAGV 503

Query: 347 EVIVET--ALIDMYAKCNLVKLSFQVFARTSKKKTVP----WNAILAGCVHNGLARKAVE 400
           E  V T  ALID  A+   V  +F  +     K   P    +NA+++ C  +G   +A +
Sbjct: 504 EANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFD 563

Query: 401 LFRQMLVEV--VEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDI 458
           +  +M  E   ++P+  T+ +L+ A A    + +A  ++  +  Y      EV T  ++ 
Sbjct: 564 VLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNS 623

Query: 459 YSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV 518
            S+ G  + A  I+                                  +M + GV+P+EV
Sbjct: 624 CSQKGDWDFALSIY---------------------------------DDMKKKGVKPDEV 650

Query: 519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLI-- 576
            F SAL                                   VD+ G AG LD+A++++  
Sbjct: 651 -FFSAL-----------------------------------VDVAGHAGDLDKAFEILQD 674

Query: 577 -RTMPLKPTHAVWGALLGAC 595
            R   +K     + +L+GAC
Sbjct: 675 ARKQGIKLGTVSYSSLMGAC 694

Length = 1060

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

 Score = 50.9 bits (123), Expect = 1e-08
 Identities = 16/49 (32%), Positives = 28/49 (57%), Gaps = 4/49 (8%)

Query: 245 KNIAAWNALVDMYVKCGSVNEARLVFDRMSER----DVVTWTSMINGYA 289
            ++  +N L+D Y K G V EA  +F+ M +R    +V T++ +I+G  
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 46.2 bits (111), Expect = 6e-07
 Identities = 12/47 (25%), Positives = 23/47 (48%)

Query: 379 TVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYA 425
            V +N ++ G    G   +A++LF +M    ++PN  T + L+    
Sbjct: 3   VVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 49

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

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

 Score = 52.6 bits (126), Expect = 6e-07
 Identities = 29/104 (27%), Positives = 51/104 (49%), Gaps = 6/104 (5%)

Query: 504 LFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL 563
           +F EMV +GV+ N  TF + +  C+  G + +    +  M   +    R   +  ++   
Sbjct: 494 VFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVV-FNALISAC 552

Query: 564 GRAGRLDEAYDLIRTM-----PLKPTHAVWGALLGACVIHGNVE 602
           G++G +D A+D++  M     P+ P H   GAL+ AC   G V+
Sbjct: 553 GQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVD 596

Length = 1060

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

 Score = 43.2 bits (103), Expect = 5e-06
 Identities = 14/31 (45%), Positives = 21/31 (67%)

Query: 279 VTWTSMINGYALNGDVRNALGLFQLMQFEGV 309
           VT+ S+I+GY   G +  AL LF+ M+ +GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 49.1 bits (117), Expect = 7e-06
 Identities = 51/250 (20%), Positives = 105/250 (42%), Gaps = 18/250 (7%)

Query: 178 VSWNTLISGYFKNAYAKEALVVFDWMLKSG--VEPDCASVVSVLPACGYLKEIEMGR--- 232
           V +N LIS   ++     A  V   M      ++PD  +V +++ AC    +++  +   
Sbjct: 543 VVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVY 602

Query: 233 -MIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDV----VTWTSMING 287
            MIHE    G        +   V+   + G  + A  ++D M ++ V    V ++++++ 
Sbjct: 603 QMIHEYNIKGTP----EVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDV 658

Query: 288 YALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECE 347
               GD+  A  + Q  + +G++  +++  SL+ ACS+    K+   L+       L   
Sbjct: 659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPT 718

Query: 348 VIVETALIDMYAKCNLVKLSFQVFARTS----KKKTVPWNAILAGCVHNGLARKAVELFR 403
           V    ALI    + N +  + +V +          T+ ++ +L        A   ++L  
Sbjct: 719 VSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADVGLDLLS 778

Query: 404 QMLVEVVEPN 413
           Q   + ++PN
Sbjct: 779 QAKEDGIKPN 788

Length = 1060

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

 Score = 42.8 bits (102), Expect = 9e-06
 Identities = 16/44 (36%), Positives = 25/44 (56%), Gaps = 1/44 (2%)

Query: 78  YNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKAC 121
           YNT++  Y + G   ++LK+F  M + G   P+ YTY I+I   
Sbjct: 6   YNTLIDGYCKKGKVEEALKLFNEMKKRG-IKPNVYTYSILIDGL 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 = 42.1 bits (100), Expect = 1e-05
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 279 VTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNS 313
           VT+ ++I+G    G V  AL LF+ M+  G+ P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 46.8 bits (111), Expect = 3e-05
 Identities = 51/219 (23%), Positives = 91/219 (41%), Gaps = 16/219 (7%)

Query: 395 ARKAV-ELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVST 453
            ++AV E FR   + +  P  +T N L+   A   D+  A+ +   +   G  +  ++ T
Sbjct: 418 KQRAVKEAFRFAKL-IRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYT 476

Query: 454 GLIDIYSKCGSLESAHKIFSEIPIK--DKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQS 511
            LI   +K G +++  ++F E+     + ++  +  +I G    G    A   +  M   
Sbjct: 477 TLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSK 536

Query: 512 GVQPNEVTFTSALHACSHGGLLDEGLDLFNFM-LENHQTCSRADHYT-------CIVDLL 563
            V+P+ V F + + AC   G +D   D+   M  E H      DH T       C     
Sbjct: 537 NVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPI--DPDHITVGALMKACANA-- 592

Query: 564 GRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVE 602
           G+  R  E Y +I    +K T  V+   + +C   G+ +
Sbjct: 593 GQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWD 631

Length = 1060

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

 Score = 40.1 bits (95), Expect = 6e-05
 Identities = 13/35 (37%), Positives = 21/35 (60%)

Query: 483 VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE 517
           V ++ +I G    G  E A+ LFKEM + G++P+ 
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 35

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

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

 Score = 39.7 bits (94), Expect = 8e-05
 Identities = 14/31 (45%), Positives = 20/31 (64%)

Query: 483 VVWSVIIAGYGMHGHGETAVSLFKEMVQSGV 513
           V ++ +I+GY   G  E A+ LFKEM + GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

>gnl|CDD|205109 pfam12854, PPR_1, PPR repeat

 Score = 39.6 bits (94), Expect = 8e-05
 Identities = 11/34 (32%), Positives = 19/34 (55%)

Query: 272 RMSERDVVTWTSMINGYALNGDVRNALGLFQLMQ 305
           +  + DVVT+ ++I+G    G V  A+ L   M+
Sbjct: 1   KGLKPDVVTYNTLIDGLCRAGRVDEAVELLDEME 34

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

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

 Score = 38.5 bits (91), Expect = 3e-04
 Identities = 15/44 (34%), Positives = 24/44 (54%), Gaps = 4/44 (9%)

Query: 150 NCLIAMYMNFGEVKAARKVFDAM----WEHSVVSWNTLISGYFK 189
           N LI  Y   G+V+ A K+F+ M     + +V +++ LI 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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 37.8 bits (89), Expect = 4e-04
 Identities = 16/35 (45%), Positives = 22/35 (62%)

Query: 178 VSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDC 212
           V++NTLI G  K    +EAL +F  M + G+EPD 
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|213555 TIGR00756, PPR, pentatricopeptide repeat domain (PPR motif)

 Score = 35.9 bits (84), Expect = 0.002
 Identities = 10/33 (30%), Positives = 19/33 (57%)

Query: 382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPND 414
           +N ++ G    G   +A+ELF++M    +EP+ 
Sbjct: 3   YNTLIDGLCKAGRVEEALELFKEMKERGIEPDV 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|205109 pfam12854, PPR_1, PPR repeat

 Score = 35.4 bits (83), Expect = 0.002
 Identities = 11/27 (40%), Positives = 16/27 (59%)

Query: 177 VVSWNTLISGYFKNAYAKEALVVFDWM 203
           VV++NTLI G  +     EA+ + D M
Sbjct: 7   VVTYNTLIDGLCRAGRVDEAVELLDEM 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 = 35.5 bits (83), Expect = 0.003
 Identities = 15/31 (48%), Positives = 21/31 (67%)

Query: 178 VSWNTLISGYFKNAYAKEALVVFDWMLKSGV 208
           V++N+LISGY K    +EAL +F  M + GV
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

>gnl|CDD|205985 pfam13812, PPR_3, Pentatricopeptide repeat domain

 Score = 35.2 bits (82), Expect = 0.003
 Identities = 10/34 (29%), Positives = 17/34 (50%)

Query: 177 VVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEP 210
           + ++N L+    K      AL V + M  SG++P
Sbjct: 1   LETYNALLLALAKAGDPDLALAVLEEMKASGLKP 34

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

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

 Score = 34.7 bits (81), Expect = 0.004
 Identities = 11/30 (36%), Positives = 17/30 (56%)

Query: 249 AWNALVDMYVKCGSVNEARLVFDRMSERDV 278
            +N+L+  Y K G + EA  +F  M E+ V
Sbjct: 2   TYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 35.1 bits (82), Expect = 0.004
 Identities = 12/31 (38%), Positives = 16/31 (51%)

Query: 249 AWNALVDMYVKCGSVNEARLVFDRMSERDVV 279
            +N L+D   K G V EA  +F  M ER + 
Sbjct: 2   TYNTLIDGLCKAGRVEEALELFKEMKERGIE 32

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	667
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	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
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	100.0
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.97
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.91
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.91
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.9
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.88
KOG2076	895	consensus RNA polymerase III transcription factor	99.87
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.87
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.86
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.86
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.85
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK14574	822	hmsH outer membrane protein; Provisional	99.84
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.82
PRK14574	822	hmsH outer membrane protein; Provisional	99.81
KOG2003	840	consensus TPR repeat-containing protein [General f	99.81
KOG2076	895	consensus RNA polymerase III transcription factor	99.81
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.8
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG2003	840	consensus TPR repeat-containing protein [General f	99.71
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.7
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.69
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.64
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.63
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.62
KOG1126	638	consensus DNA-binding cell division cycle control	99.61
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.61
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.61
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.61
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.6
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.59
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.59
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.57
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.56
KOG1126	638	consensus DNA-binding cell division cycle control	99.54
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.53
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.51
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.5
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.5
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.49
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.48
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.47
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.46
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.45
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.44
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.44
KOG1129	478	consensus TPR repeat-containing protein [General f	99.42
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.42
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.41
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.38
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.36
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.36
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.35
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.31
KOG1129	478	consensus TPR repeat-containing protein [General f	99.3
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.29
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.29
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.29
PRK12370	553	invasion protein regulator; Provisional	99.29
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.28
PRK12370	553	invasion protein regulator; Provisional	99.27
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.27
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.27
PF13041	50	PPR_2: PPR repeat family	99.26
PRK11189	296	lipoprotein NlpI; Provisional	99.26
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.25
PF13041	50	PPR_2: PPR repeat family	99.24
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.23
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	99.23
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.2
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.17
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.17
PRK11189	296	lipoprotein NlpI; Provisional	99.17
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.15
KOG1125	579	consensus TPR repeat-containing protein [General f	99.14
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.13
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.1
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.08
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.08
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.08
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.0
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.99
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.98
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.96
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.96
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	98.9
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.9
PRK04841	903	transcriptional regulator MalT; Provisional	98.9
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	98.89
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.85
PRK15359	144	type III secretion system chaperone protein SscB;	98.84
PRK15359	144	type III secretion system chaperone protein SscB;	98.82
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.8
PLN02789	320	farnesyltranstransferase	98.79
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.78
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.74
PLN02789	320	farnesyltranstransferase	98.74
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.71
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.69
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.68
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.68
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.64
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.64
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.62
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.61
KOG1125	579	consensus TPR repeat-containing protein [General f	98.6
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.6
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.59
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.56
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.56
PF12854	34	PPR_1: PPR repeat	98.54
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.53
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.52
PF12854	34	PPR_1: PPR repeat	98.52
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.49
PRK04841	903	transcriptional regulator MalT; Provisional	98.49
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.46
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.45
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.43
KOG0553	304	consensus TPR repeat-containing protein [General f	98.43
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.43
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.37
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.36
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.35
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.27
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.25
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.25
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	98.21
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.2
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.19
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.19
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.19
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.18
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.14
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.13
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.1
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	98.07
COG4700	251	Uncharacterized protein conserved in bacteria cont	98.07
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.06
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.05
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.04
COG3898	531	Uncharacterized membrane-bound protein [Function u	98.02
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.01
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.01
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.99
KOG0553	304	consensus TPR repeat-containing protein [General f	97.99
PF13812	34	PPR_3: Pentatricopeptide repeat domain	97.97
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.95
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.94
PF13371	73	TPR_9: Tetratricopeptide repeat	97.92
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.85
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.84
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.84
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.84
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.84
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.82
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.82
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.81
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.79
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.79
PRK15331	165	chaperone protein SicA; Provisional	97.79
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	97.77
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.67
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.67
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.67
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.65
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.65
PF13431	34	TPR_17: Tetratricopeptide repeat	97.65
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.62
PRK10803	263	tol-pal system protein YbgF; Provisional	97.62
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.6
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.51
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.51
PF13428	44	TPR_14: Tetratricopeptide repeat	97.49
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.48
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.44
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.44
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.43
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.4
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.4
PF13371	73	TPR_9: Tetratricopeptide repeat	97.39
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.39
PF12688	120	TPR_5: Tetratrico peptide repeat	97.35
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.34
PF12688	120	TPR_5: Tetratrico peptide repeat	97.29
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.29
PRK10803	263	tol-pal system protein YbgF; Provisional	97.27
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.24
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.21
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.2
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.17
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.13
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.12
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.11
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	97.09
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.08
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.07
PF13512	142	TPR_18: Tetratricopeptide repeat	97.05
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	96.99
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.99
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.98
PRK11906	458	transcriptional regulator; Provisional	96.93
KOG4555	175	consensus TPR repeat-containing protein [Function	96.93
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.93
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.87
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	96.83
COG4105	254	ComL DNA uptake lipoprotein [General function pred	96.81
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.76
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.75
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.69
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	96.67
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.64
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.54
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.48
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.4
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.35
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.29
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.28
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.21
KOG4234	271	consensus TPR repeat-containing protein [General f	96.08
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.05
KOG1258	577	consensus mRNA processing protein [RNA processing	96.02
PRK11906	458	transcriptional regulator; Provisional	95.97
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.94
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	95.93
PRK15331	165	chaperone protein SicA; Provisional	95.93
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	95.92
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.92
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.92
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.92
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.86
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	95.86
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.84
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.79
PF03704	146	BTAD: Bacterial transcriptional activator domain;	95.78
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.77
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	95.76
COG3118	304	Thioredoxin domain-containing protein [Posttransla	95.75
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.7
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.69
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	95.67
COG3947	361	Response regulator containing CheY-like receiver a	95.66
KOG1258	577	consensus mRNA processing protein [RNA processing	95.66
KOG1585	308	consensus Protein required for fusion of vesicles	95.53
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	95.51
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.48
KOG4555	175	consensus TPR repeat-containing protein [Function	95.46
PF13512	142	TPR_18: Tetratricopeptide repeat	95.28
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	95.23
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	95.18
COG1747	711	Uncharacterized N-terminal domain of the transcrip	95.1
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	94.9
KOG4648	536	consensus Uncharacterized conserved protein, conta	94.89
KOG1550	552	consensus Extracellular protein SEL-1 and related	94.86
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.79
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.75
KOG3941	406	consensus Intermediate in Toll signal transduction	94.74
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	94.7
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	94.57
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.46
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	94.36
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	94.28
PF13428	44	TPR_14: Tetratricopeptide repeat	94.06
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	94.05
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.02
KOG4234	271	consensus TPR repeat-containing protein [General f	93.93
KOG3941	406	consensus Intermediate in Toll signal transduction	93.84
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	93.83
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.78
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.75
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.7
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.64
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.54
KOG1586	288	consensus Protein required for fusion of vesicles	93.31
PRK11619	644	lytic murein transglycosylase; Provisional	93.3
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.18
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.08
KOG1585	308	consensus Protein required for fusion of vesicles	92.79
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.68
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.68
COG3629	280	DnrI DNA-binding transcriptional activator of the	92.64
KOG1586	288	consensus Protein required for fusion of vesicles	92.6
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	92.49
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.41
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.88
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	91.87
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.8
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.79
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	91.69
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.59
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.47
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.12
PRK10941	269	hypothetical protein; Provisional	91.08
KOG4648	536	consensus Uncharacterized conserved protein, conta	90.98
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.81
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	90.74
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	90.73
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	90.38
PF14853	53	Fis1_TPR_C: Fis1 C-terminal tetratricopeptide repe	90.35
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	90.19
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.13
KOG1550	552	consensus Extracellular protein SEL-1 and related	90.02
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	89.98
COG3629	280	DnrI DNA-binding transcriptional activator of the	89.91
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	89.79
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	89.61
PF13431	34	TPR_17: Tetratricopeptide repeat	89.49
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	89.39
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	89.36
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	89.17
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	89.06
KOG4642	284	consensus Chaperone-dependent E3 ubiquitin protein	89.01
PRK09687	280	putative lyase; Provisional	88.93
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	88.5
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	88.45
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	88.23
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.14
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	87.5
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.97
PRK12798	421	chemotaxis protein; Reviewed	86.9
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	86.86
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.75
PRK09687	280	putative lyase; Provisional	86.44
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.41
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	85.84
KOG4570	418	consensus Uncharacterized conserved protein [Funct	85.52
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.35
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	85.32
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	85.09
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	84.94
COG5159	421	RPN6 26S proteasome regulatory complex component [	84.93
COG1747	711	Uncharacterized N-terminal domain of the transcrip	84.79
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.65
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	84.23
KOG0376	476	consensus Serine-threonine phosphatase 2A, catalyt	84.04
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	83.72
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	83.56
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	83.36
KOG3364	149	consensus Membrane protein involved in organellar	82.53
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	82.45
KOG0551	390	consensus Hsp90 co-chaperone CNS1 (contains TPR re	82.25
PF09477	116	Type_III_YscG: Bacterial type II secretion system	81.84
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	81.6
KOG4570	418	consensus Uncharacterized conserved protein [Funct	81.38
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	81.24
KOG1498	439	consensus 26S proteasome regulatory complex, subun	81.21
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	81.17
PF13762	145	MNE1: Mitochondrial splicing apparatus component	80.63
PRK10941	269	hypothetical protein; Provisional	80.55

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.6e-98  Score=820.24  Aligned_cols=654  Identities=38%  Similarity=0.669  Sum_probs=639.8

Q ss_pred             CCCCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh---hHhhhcCChhhHHHhhcccCCCCcchHHHHHH
Q 005966            8 TLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS---SLVRAYGHVSNVRILFDEMSERSSFLYNTVMK   83 (667)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~---~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~   83 (667)
                      +++++..++..+++.|...+.+..|.+++..+++.++.. ..+.+   ..|.++|+++.|.++|++|++||.++||.+|.
T Consensus        81 g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~  160 (857)
T PLN03077         81 RVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVG  160 (857)
T ss_pred             CCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHH
Confidence            467788889999999999999999999999999998876 66666   88999999999999999999999999999999


Q ss_pred             HHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 005966           84 MYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVK  163 (667)
Q Consensus        84 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  163 (667)
                      +|++.|++++|+++|++|.+. |+.||..||+.++++|+..+++..+.+++..+.+.|+.||..++|.||.+|++.|+++
T Consensus       161 ~~~~~g~~~~A~~~f~~M~~~-g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~  239 (857)
T PLN03077        161 GYAKAGYFDEALCLYHRMLWA-GVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVV  239 (857)
T ss_pred             HHHhCCCHHHHHHHHHHHHHc-CCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHH
Confidence            999999999999999999998 8999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCC
Q 005966          164 AARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRL  243 (667)
Q Consensus       164 ~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  243 (667)
                      +|.++|++|+++|.++||++|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|+.+.+.+++..+.+.|+
T Consensus       240 ~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~  319 (857)
T PLN03077        240 SARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGF  319 (857)
T ss_pred             HHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHh
Q 005966          244 GKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSAC  323 (667)
Q Consensus       244 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~  323 (667)
                      .||..+|+.|+.+|+++|++++|.++|++|.+||..+||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|
T Consensus       320 ~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~  399 (857)
T PLN03077        320 AVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSAC  399 (857)
T ss_pred             ccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHH
Q 005966          324 SSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFR  403 (667)
Q Consensus       324 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  403 (667)
                      ++.|+++.+.++++.+.+.|+.++..++++|+++|+++|++++|.++|++|.++|.++|+.+|.+|++.|+.++|+++|+
T Consensus       400 ~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~  479 (857)
T PLN03077        400 ACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFR  479 (857)
T ss_pred             hccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcc
Q 005966          404 QMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIV  483 (667)
Q Consensus       404 ~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  483 (667)
                      +|.. +++||..||+.++.+|++.|+++.+.+++..+.+.|+.++..++++|+++|+++|++++|.++|+.+ .  ||..
T Consensus       480 ~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~--~d~~  555 (857)
T PLN03077        480 QMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-E--KDVV  555 (857)
T ss_pred             HHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHHHHHHHhc-C--CChh
Confidence            9986 6999999999999999999999999999999999999999999999999999999999999999999 4  9999


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL  563 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  563 (667)
                      +||++|.+|++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|.+..++.|+..+|++++++|
T Consensus       556 s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l  635 (857)
T PLN03077        556 SWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLL  635 (857)
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999997689999999999999999


Q ss_pred             hhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHH
Q 005966          564 GRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       564 ~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  643 (667)
                      ++.|++++|.+++++|+.+||..+|.+|+.+|..+|+.+.|+...+++++++|+++..|..|+++|...|+|++|.++++
T Consensus       636 ~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~e~~a~~l~~l~p~~~~~y~ll~n~ya~~g~~~~a~~vr~  715 (857)
T PLN03077        636 GRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHIFELDPNSVGYYILLCNLYADAGKWDEVARVRK  715 (857)
T ss_pred             HhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhhCCCCcchHHHHHHHHHHCCChHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhCCCccCCCeeEEEeCCEec
Q 005966          644 VMDEKGLRKAPAHSLIEVRNILT  666 (667)
Q Consensus       644 ~~~~~~~~~~~~~~~~~~~~~~~  666 (667)
                      .|+++|++|+||+|||+|+++++
T Consensus       716 ~M~~~g~~k~~g~s~ie~~~~~~  738 (857)
T PLN03077        716 TMRENGLTVDPGCSWVEVKGKVH  738 (857)
T ss_pred             HHHHcCCCCCCCccEEEECCEEE
Confidence            99999999999999999999875

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=5.5e-79  Score=669.51  Aligned_cols=574  Identities=31%  Similarity=0.515  Sum_probs=524.0

Q ss_pred             CCCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHH
Q 005966           71 SERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGN  150 (667)
Q Consensus        71 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  150 (667)
                      ..++..++|.++.++.+.|++++|+.+|+.|.+. |++|+..+|..++.+|.+.+....|.+++..+.+.+..++...+|
T Consensus        47 ~~~~~~~~n~~i~~l~~~g~~~~A~~l~~~m~~~-g~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~n  125 (857)
T PLN03077         47 SSSSTHDSNSQLRALCSHGQLEQALKLLESMQEL-RVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGN  125 (857)
T ss_pred             cccchhhHHHHHHHHHhCCCHHHHHHHHHHHHhc-CCCCChhHHHHHHHHHhhCCCHHHHHHHHHHHHHcCCCCCchHHH
Confidence            3567788999999999999999999999999998 799999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHH
Q 005966          151 CLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEM  230 (667)
Q Consensus       151 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~  230 (667)
                      .++.+|++.|+++.|.++|++|+++|+.+||.+|.+|++.|++++|+++|++|...|+.||..||+.++++|+..+++..
T Consensus       126 ~li~~~~~~g~~~~A~~~f~~m~~~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~  205 (857)
T PLN03077        126 AMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLAR  205 (857)
T ss_pred             HHHHHHHhCCChHHHHHHHhcCCCCCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCC
Q 005966          231 GRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVR  310 (667)
Q Consensus       231 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  310 (667)
                      +.+++..+.+.|+.||..+++.|+.+|+++|++++|.++|++|.++|..+||++|.+|++.|++++|+++|.+|.+.|+.
T Consensus       206 ~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~  285 (857)
T PLN03077        206 GREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVD  285 (857)
T ss_pred             HHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHH
Q 005966          311 PNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCV  390 (667)
Q Consensus       311 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~  390 (667)
                      ||..||+.++.+|++.|+.+.+.+++..+.+.|+.||..+|++++.+|+++|++++|.++|++|..+|..+|+.+|.+|+
T Consensus       286 Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n~li~~~~  365 (857)
T PLN03077        286 PDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYE  365 (857)
T ss_pred             CChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHH
Q 005966          391 HNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHK  470 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  470 (667)
                      +.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+.|+.|+..+++.|+++|+++|++++|.+
T Consensus       366 ~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~  445 (857)
T PLN03077        366 KNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALE  445 (857)
T ss_pred             hCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC
Q 005966          471 IFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTC  550 (667)
Q Consensus       471 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~  550 (667)
                      +|++|.+  +|..+|+.+|.+|++.|+.++|+.+|++|.. ++.||..||..++.+|++.|+.+.+.+++..+.+ .|+.
T Consensus       446 vf~~m~~--~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~-~g~~  521 (857)
T PLN03077        446 VFHNIPE--KDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR-TGIG  521 (857)
T ss_pred             HHHhCCC--CCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHH-hCCC
Confidence            9999988  8999999999999999999999999999986 5899999999999999999988888888888877 6776


Q ss_pred             CchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhcc--CCCCCchHHHHHHH
Q 005966          551 SRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFEL--EPENPGNYVLLSKL  628 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~  628 (667)
                      ++..++++|+++|+++|++++|.++|+++  .||..+|+.++.+|.+.|+.++|.++|+++.+.  .|+ ...|..+..+
T Consensus       522 ~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd-~~T~~~ll~a  598 (857)
T PLN03077        522 FDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPD-EVTFISLLCA  598 (857)
T ss_pred             ccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCC-cccHHHHHHH
Confidence            66666666666666666666666666665  556666666666666666666666666665543  233 4555555566


Q ss_pred             HhhcCCchHHHHHHHHhh-hCCCcc
Q 005966          629 YSAVRRWKDAENVRDVMD-EKGLRK  652 (667)
Q Consensus       629 ~~~~g~~~~A~~~~~~~~-~~~~~~  652 (667)
                      |.+.|++++|.++|++|. +.|+.+
T Consensus       599 ~~~~g~v~ea~~~f~~M~~~~gi~P  623 (857)
T PLN03077        599 CSRSGMVTQGLEYFHSMEEKYSITP  623 (857)
T ss_pred             HhhcChHHHHHHHHHHHHHHhCCCC
Confidence            666666666666666665 445443

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

Probab=100.00  E-value=1.6e-74  Score=618.92  Aligned_cols=491  Identities=36%  Similarity=0.600  Sum_probs=481.9

Q ss_pred             CCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCC-CCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHH
Q 005966          174 EHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSG-VEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNA  252 (667)
Q Consensus       174 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  252 (667)
                      ..+..+|+.+|.++.+.|++++|+++|+.|...+ +.||..||+.++.+|++.++.+.+.+++..|.+.|+.||..+|+.
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            3467799999999999999999999999998764 789999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHH
Q 005966          253 LVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRG  332 (667)
Q Consensus       253 l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a  332 (667)
                      ++.+|++.|++++|.++|++|.+||..+||++|.+|++.|++++|+++|++|.+.|+.|+..||..++.+|+..|..+.+
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             HHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC
Q 005966          333 RSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEP  412 (667)
Q Consensus       333 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  412 (667)
                      .+++..+.+.|+.++..++++|+++|+++|++++|.++|+.|.++|+++||.+|.+|++.|+.++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHH
Q 005966          413 NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGY  492 (667)
Q Consensus       413 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~  492 (667)
                      |..||++++.+|++.|+++.|.+++..|.+.|++|+..+++.|+++|+++|++++|.++|++|.+  ||..+||+||.+|
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~--~d~~t~n~lI~~y  401 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR--KNLISWNALIAGY  401 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC--CCeeeHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999988  9999999999999


Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHH
Q 005966          493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEA  572 (667)
Q Consensus       493 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  572 (667)
                      ++.|+.++|+++|++|.+.|+.||..||+.++.+|.+.|++++|.++|+.|.+..+..|+..+|++++++|++.|++++|
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            99999999999999999999999999999999999999999999999999998789999999999999999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCcc
Q 005966          573 YDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRK  652 (667)
Q Consensus       573 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  652 (667)
                      .+++++|+..|+..+|+.++.+|...|+++.|..++++++++.|+++..|..|+++|.+.|+|++|.++++.|.++|+++
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             CCCeeEEEeCCEec
Q 005966          653 APAHSLIEVRNILT  666 (667)
Q Consensus       653 ~~~~~~~~~~~~~~  666 (667)
                      .||+|||+++++++
T Consensus       562 ~~g~s~i~~~~~~~  575 (697)
T PLN03081        562 HPACTWIEVKKQDH  575 (697)
T ss_pred             CCCeeEEEECCeEE
Confidence            99999999998875

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

Probab=100.00  E-value=9.3e-69  Score=574.55  Aligned_cols=475  Identities=25%  Similarity=0.404  Sum_probs=460.1

Q ss_pred             CCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHH
Q 005966           72 ERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNC  151 (667)
Q Consensus        72 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  151 (667)
                      .++..+|+.+|.++.+.|++++|+++|+.|...++..||..+|+.++.+|++.++.+.+.+++..|.+.|+.||..+||.
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            34677999999999999999999999999998756889999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHH
Q 005966          152 LIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMG  231 (667)
Q Consensus       152 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  231 (667)
                      ++.+|++.|++++|.++|++|++||.++||.+|.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|..+.+
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             HHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCC
Q 005966          232 RMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRP  311 (667)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  311 (667)
                      .+++..+.+.|+.+|..+++.|+++|+++|++++|.++|++|.++|+++||++|.+|++.|++++|+++|++|.+.|+.|
T Consensus       244 ~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~p  323 (697)
T PLN03081        244 QQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSI  323 (697)
T ss_pred             HHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHh
Q 005966          312 NSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVH  391 (667)
Q Consensus       312 ~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~  391 (667)
                      |..||+.++.+|++.|.++.|.+++..+.+.|+.++..++++|+++|+++|++++|.++|++|.++|..+||.||.+|++
T Consensus       324 d~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~  403 (697)
T PLN03081        324 DQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGN  403 (697)
T ss_pred             CHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHH-hCCCCCchHHHHHHHHHHhcCCHHHHHH
Q 005966          392 NGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIR-YGFLSVVEVSTGLIDIYSKCGSLESAHK  470 (667)
Q Consensus       392 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~A~~  470 (667)
                      .|+.++|+++|++|.+.|+.||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|++++++|++.|++++|.+
T Consensus       404 ~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~  483 (697)
T PLN03081        404 HGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             cCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            999999999999999999999999999999999999999999999999975 6999999999999999999999999999


Q ss_pred             HHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCC
Q 005966          471 IFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQT  549 (667)
Q Consensus       471 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~  549 (667)
                      +++++... |+..+|++++.+|...|+++.|..+++++.+.  .| +..+|..+++.|++.|++++|.++++.|.+ .|+
T Consensus       484 ~~~~~~~~-p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~--~p~~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~-~g~  559 (697)
T PLN03081        484 MIRRAPFK-PTVNMWAALLTACRIHKNLELGRLAAEKLYGM--GPEKLNNYVVLLNLYNSSGRQAEAAKVVETLKR-KGL  559 (697)
T ss_pred             HHHHCCCC-CCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCC--CCCCCcchHHHHHHHHhCCCHHHHHHHHHHHHH-cCC
Confidence            99998754 99999999999999999999999999999764  45 467999999999999999999999999998 555


Q ss_pred             C
Q 005966          550 C  550 (667)
Q Consensus       550 ~  550 (667)
                      .
T Consensus       560 ~  560 (697)
T PLN03081        560 S  560 (697)
T ss_pred             c
Confidence            4

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.2e-67  Score=566.51  Aligned_cols=517  Identities=17%  Similarity=0.218  Sum_probs=469.5

Q ss_pred             hHhhhcCChhhHHHhhcccCCCCc-----chHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccc
Q 005966           52 SLVRAYGHVSNVRILFDEMSERSS-----FLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAW  126 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~  126 (667)
                      ..+.+.|++++|.++|++|+.++.     ..++.++.+|.+.|..++|+.+|+.|.     .||..+|+.++.+|++.|+
T Consensus       378 ~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~-----~pd~~Tyn~LL~a~~k~g~  452 (1060)
T PLN03218        378 NRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIR-----NPTLSTFNMLMSVCASSQD  452 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcC-----CCCHHHHHHHHHHHHhCcC
Confidence            556677999999999999987654     456677888999999999999999985     3999999999999999999


Q ss_pred             hHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccC----CCChhhHHHHHHHHHHcCChhHHHHHHHH
Q 005966          127 RKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMW----EHSVVSWNTLISGYFKNAYAKEALVVFDW  202 (667)
Q Consensus       127 ~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~  202 (667)
                      ++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.    .||..+|+.||.+|++.|++++|+++|++
T Consensus       453 ~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~  532 (1060)
T PLN03218        453 IDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGI  532 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999996    57999999999999999999999999999


Q ss_pred             HHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHh--cCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----C
Q 005966          203 MLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAG--GRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE----R  276 (667)
Q Consensus       203 m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~  276 (667)
                      |.+.|+.||..||+.+|.+|++.|++++|.++|+.|.+  .|+.||..+|++++.+|++.|++++|.++|+.|.+    |
T Consensus       533 M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p  612 (1060)
T PLN03218        533 MRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEYNIKG  612 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCC
Confidence            99999999999999999999999999999999999986  67899999999999999999999999999999986    6


Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHH
Q 005966          277 DVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALID  356 (667)
Q Consensus       277 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  356 (667)
                      +..+|+.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.+++..|.+.|+.|+..+|+.++.
T Consensus       613 ~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~  692 (1060)
T PLN03218        613 TPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMG  692 (1060)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHH
Confidence            78999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhcCCHHHHHHHHhccC----CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHH
Q 005966          357 MYAKCNLVKLSFQVFARTS----KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQ  432 (667)
Q Consensus       357 ~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~  432 (667)
                      +|+++|++++|.++|++|.    .++..+|+.||.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.
T Consensus       693 ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~k~G~le~  772 (1060)
T PLN03218        693 ACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASERKDDADV  772 (1060)
T ss_pred             HHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            9999999999999999985    688888999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 005966          433 AMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSG  512 (667)
Q Consensus       433 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  512 (667)
                      |.++++.|.+.|+.|+..+|++++.++.+  ++++|.++.+.+..-.+        .......+..+.|+.+|++|.+.|
T Consensus       773 A~~l~~~M~k~Gi~pd~~tynsLIglc~~--~y~ka~~l~~~v~~f~~--------g~~~~~n~w~~~Al~lf~eM~~~G  842 (1060)
T PLN03218        773 GLDLLSQAKEDGIKPNLVMCRCITGLCLR--RFEKACALGEPVVSFDS--------GRPQIENKWTSWALMVYRETISAG  842 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHH--HHHHHhhhhhhhhhhhc--------cccccccchHHHHHHHHHHHHHCC
Confidence            99999999999999999999999976542  45665555443332110        001111223466999999999999


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC---CCCCCHH
Q 005966          513 VQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM---PLKPTHA  586 (667)
Q Consensus       513 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~  586 (667)
                      +.||..||+.++.++++.+..+.+..+++.|.. .+..|+..+|+++++++++.  .++|+.++++|   ++.|+..
T Consensus       843 i~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~-~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi~p~~~  916 (1060)
T PLN03218        843 TLPTMEVLSQVLGCLQLPHDATLRNRLIENLGI-SADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGVVPSVS  916 (1060)
T ss_pred             CCCCHHHHHHHHHHhcccccHHHHHHHHHHhcc-CCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCCCCCcc
Confidence            999999999999888899999999999988876 57779999999999998432  47899999999   4666653

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=4.5e-66  Score=554.31  Aligned_cols=533  Identities=16%  Similarity=0.213  Sum_probs=417.5

Q ss_pred             CCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCC-CCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHH
Q 005966          107 YNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGF-DMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLIS  185 (667)
Q Consensus       107 ~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~  185 (667)
                      ..++...|..++..+++.|++++|.++|++|.+.|+ +++..+++.++.+|.+.|..++|..+|+.|..||..+|+.+|.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456777899999999999999999999999999985 5788888899999999999999999999999999999999999


Q ss_pred             HHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHH
Q 005966          186 GYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNE  265 (667)
Q Consensus       186 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  265 (667)
                      +|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|+++.|.++|+.|.+.|+.||..+|+.+|.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhcCC----CChhHHHHHHHHHHhCCChHHHHHHHHHHHh--cCCCCChhhHHHHHHHhhcccchHHHHHHHHHH
Q 005966          266 ARLVFDRMSE----RDVVTWTSMINGYALNGDVRNALGLFQLMQF--EGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWT  339 (667)
Q Consensus       266 A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~  339 (667)
                      |.++|++|.+    ||..+|+.+|.+|++.|++++|.++|++|..  .|+.||..||+.+|.+|++.|+++.|.++++.|
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            9999999864    8899999999999999999999999999976  578899999999999999999999999999999


Q ss_pred             HHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccC----CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH
Q 005966          340 IKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTS----KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDA  415 (667)
Q Consensus       340 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~  415 (667)
                      .+.++.|+..+|+.++.+|++.|++++|.++|++|.    .+|..+|+.++.+|++.|+.++|.+++++|.+.|+.||..
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~  685 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV  685 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            999988888888888877777777777777776665    3455556666666666666666777776666666666666


Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC--CCcchHHHHHHHHH
Q 005966          416 TLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD--KDIVVWSVIIAGYG  493 (667)
Q Consensus       416 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~  493 (667)
                      +|++++.+|++.|++++|.++|+.|.+.|+.|+..+|+.|+.+|++.|++++|.++|++|...+  ||..+|+.++.+|+
T Consensus       686 tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~~  765 (1060)
T PLN03218        686 SYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVASE  765 (1060)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            6777777666666666666666666666666666666666666666666666666666665554  66666666666666


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHH
Q 005966          494 MHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAY  573 (667)
Q Consensus       494 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  573 (667)
                      +.|++++|.+++++|.+.|+.||..+|+.++..|.  +++++|..+.+.+.. ..  +        .......+..++|+
T Consensus       766 k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~--~~y~ka~~l~~~v~~-f~--~--------g~~~~~n~w~~~Al  832 (1060)
T PLN03218        766 RKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCL--RRFEKACALGEPVVS-FD--S--------GRPQIENKWTSWAL  832 (1060)
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH--HHHHHHhhhhhhhhh-hh--c--------cccccccchHHHHH
Confidence            66666666666666666666666666666665443  234444444333322 00  0        00111123346788


Q ss_pred             HHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhh-ccCCCCCchHHHHHHHHhhcCCc-hHHHHHHHHhhhC
Q 005966          574 DLIRTM---PLKPTHAVWGALLGACVIHGNVELGEVAAKWLF-ELEPENPGNYVLLSKLYSAVRRW-KDAENVRDVMDEK  648 (667)
Q Consensus       574 ~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~p~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~  648 (667)
                      .+|++|   ++.||..+|+.++.+++..+..+.+..+++.+. .-.+.+...|..|++.+   |++ ++|..++++|.+.
T Consensus       833 ~lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~---~~~~~~A~~l~~em~~~  909 (1060)
T PLN03218        833 MVYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGF---GEYDPRAFSLLEEAASL  909 (1060)
T ss_pred             HHHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhh---ccChHHHHHHHHHHHHc
Confidence            888888   588999999999877777888888887777653 23344567788888876   333 6899999999999


Q ss_pred             CCccCCC
Q 005966          649 GLRKAPA  655 (667)
Q Consensus       649 ~~~~~~~  655 (667)
                      |+.++-.
T Consensus       910 Gi~p~~~  916 (1060)
T PLN03218        910 GVVPSVS  916 (1060)
T ss_pred             CCCCCcc
Confidence            9876643

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

Probab=100.00  E-value=2.2e-39  Score=366.36  Aligned_cols=625  Identities=11%  Similarity=0.020  Sum_probs=330.5

Q ss_pred             CCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc---hhhhhhHhhhcCChhhHHHhhcccCCCC---cchHHHHHH
Q 005966           10 PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF---THLRSSLVRAYGHVSNVRILFDEMSERS---SFLYNTVMK   83 (667)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~   83 (667)
                      |.++.++..++..+...|++++|...++.+++..|.+   .+....++...|++++|...|+.+.+.+   ...+..+..
T Consensus       224 p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~~~~  303 (899)
T TIGR02917       224 PNNPAVLLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKALVDFQKKNYEDARETLQDALKSAPEYLPALLLAGA  303 (899)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCchhHHHHHHH
Confidence            4556666677777777777777777777777666655   1111144555566666666665543221   222333444


Q ss_pred             HHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 005966           84 MYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVK  163 (667)
Q Consensus        84 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  163 (667)
                      .+...|++++|...|+++.+.  .+.+...+..+...+...|++++|...++.+.+.. +.+...+..+...+.+.|+++
T Consensus       304 ~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~  380 (899)
T TIGR02917       304 SEYQLGNLEQAYQYLNQILKY--APNSHQARRLLASIQLRLGRVDEAIATLSPALGLD-PDDPAALSLLGEAYLALGDFE  380 (899)
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCCCHH
Confidence            455555556666655555544  23333444445555555555555555555555443 334445555555555555555


Q ss_pred             HHHHHhcccCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHCC---------------------------------
Q 005966          164 AARKVFDAMWE---HSVVSWNTLISGYFKNAYAKEALVVFDWMLKSG---------------------------------  207 (667)
Q Consensus       164 ~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g---------------------------------  207 (667)
                      +|.+.|+++.+   .+...|..+...+...|++++|++.|+.+.+..                                 
T Consensus       381 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  460 (899)
T TIGR02917       381 KAAEYLAKATELDPENAAARTQLGISKLSQGDPSEAIADLETAAQLDPELGRADLLLILSYLRSGQFDKALAAAKKLEKK  460 (899)
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHhCCChHHHHHHHHHHHhhCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            55555554422   133344444444555555555555555444322                                 


Q ss_pred             CCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHH
Q 005966          208 VEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSM  284 (667)
Q Consensus       208 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l  284 (667)
                      ..++..++..+...+...|++++|...++.+.+.. +.+...+..+...+...|++++|.+.|+++.+   .+..++..+
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  539 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILAL  539 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHH
Confidence            22233444444555555555555555555554432 22333444455555555555555555555432   233444555


Q ss_pred             HHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCH
Q 005966          285 INGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLV  364 (667)
Q Consensus       285 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  364 (667)
                      ...+.+.|+.++|...++++...+ +.+...+..+...+...|+++.+...++.+.+.. +.+..++..+...|.+.|++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCH
Confidence            555555555555555555554432 1233344445555555555555555555554432 33444555555555555555


Q ss_pred             HHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 005966          365 KLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLI  441 (667)
Q Consensus       365 ~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  441 (667)
                      ++|...|+.+.   +.++..+..+...+.+.|++++|...|+++.+.. +.+..++..+...+...|++++|..+++.+.
T Consensus       618 ~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  696 (899)
T TIGR02917       618 NKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQ  696 (899)
T ss_pred             HHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            55555555443   2223335555555555555555555555555431 2234455555555555555666655555555


Q ss_pred             HhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHH
Q 005966          442 RYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFT  521 (667)
Q Consensus       442 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  521 (667)
                      +.. +.+...+..+...+.+.|++++|.+.|+.+....|+..++..++.++.+.|++++|.+.++++.+.. +.+...+.
T Consensus       697 ~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~  774 (899)
T TIGR02917       697 KQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRT  774 (899)
T ss_pred             hhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHH
Confidence            444 3444555555555566666666666666555544555555555555666666666666666655543 23444555


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005966          522 SALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHG  599 (667)
Q Consensus       522 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  599 (667)
                      .+...|...|++++|...|+++.+  ..+++...+..++..+...|+ ++|++.++++ ...| ++.++..+...+...|
T Consensus       775 ~la~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g  851 (899)
T TIGR02917       775 ALAELYLAQKDYDKAIKHYRTVVK--KAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKG  851 (899)
T ss_pred             HHHHHHHHCcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcC
Confidence            555555566666666666666655  233445555555666666665 5566655554 2222 3444555555556666


Q ss_pred             CHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          600 NVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      ++++|...++++++.+|.++.++..++.+|.+.|++++|.+++++|+
T Consensus       852 ~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       852 EADRALPLLRKAVNIAPEAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             CHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            66666666666666666666666666666666666666666666554

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=1.9e-38  Score=358.78  Aligned_cols=627  Identities=14%  Similarity=0.057  Sum_probs=445.5

Q ss_pred             CCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh--hHhhhcCChhhHHHhhcccCCC---CcchHHHHHH
Q 005966           10 PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS--SLVRAYGHVSNVRILFDEMSER---SSFLYNTVMK   83 (667)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~   83 (667)
                      |.+..++..+...+...|+++.|...+.+++..+|.. .....  .++...|++++|...|+.+.+.   +...+.....
T Consensus       190 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~  269 (899)
T TIGR02917       190 PGNVDALLLKGDLLLSLGNIELALAAYRKAIALRPNNPAVLLALATILIEAGEFEEAEKHADALLKKAPNSPLAHYLKAL  269 (899)
T ss_pred             CCChHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHH
Confidence            5667888888999999999999999999999999987 22222  8888999999999999987432   3445555566


Q ss_pred             HHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHH
Q 005966           84 MYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVK  163 (667)
Q Consensus        84 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  163 (667)
                      .+...|++++|+..|+++.+.  .+.+...+..+..++...|++++|...++.+.+.. +.+...+..+...+.+.|+++
T Consensus       270 ~~~~~~~~~~A~~~~~~~l~~--~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~g~~~  346 (899)
T TIGR02917       270 VDFQKKNYEDARETLQDALKS--APEYLPALLLAGASEYQLGNLEQAYQYLNQILKYA-PNSHQARRLLASIQLRLGRVD  346 (899)
T ss_pred             HHHHhcCHHHHHHHHHHHHHh--CCCchhHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHH
Confidence            677899999999999999976  23234455566677889999999999999999886 556778888999999999999


Q ss_pred             HHHHHhcccCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-ChHHHHHHHHHcccCcchHHHHHHHHHHH
Q 005966          164 AARKVFDAMWE---HSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEP-DCASVVSVLPACGYLKEIEMGRMIHELVA  239 (667)
Q Consensus       164 ~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  239 (667)
                      +|...++.+..   .+...+..+...+.+.|++++|.++|+++.+.  .| +...+..+...+...|+++.|...++.+.
T Consensus       347 ~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~  424 (899)
T TIGR02917       347 EAIATLSPALGLDPDDPAALSLLGEAYLALGDFEKAAEYLAKATEL--DPENAAARTQLGISKLSQGDPSEAIADLETAA  424 (899)
T ss_pred             HHHHHHHHHHhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            99999988744   35678999999999999999999999999874  34 34456666666777778887777777776


Q ss_pred             hcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHH-------------
Q 005966          240 GGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQL-------------  303 (667)
Q Consensus       240 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~-------------  303 (667)
                      +.... +......++..+.+.|++++|..+++.+..   .+..+|..+...+...|++++|.+.|++             
T Consensus       425 ~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  503 (899)
T TIGR02917       425 QLDPE-LGRADLLLILSYLRSGQFDKALAAAKKLEKKQPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAA  503 (899)
T ss_pred             hhCCc-chhhHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHH
Confidence            65422 222333444445555555555555554432   2333444444444445555555555444             


Q ss_pred             ---------------------HHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcC
Q 005966          304 ---------------------MQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCN  362 (667)
Q Consensus       304 ---------------------m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  362 (667)
                                           +.+.+ +.+..++..+...+...|+.+++...+..+.+.+ +.+...+..++..|.+.|
T Consensus       504 ~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  581 (899)
T TIGR02917       504 NLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALAGLYLRTGNEEEAVAWLEKAAELN-PQEIEPALALAQYYLGKG  581 (899)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchhHHHHHHHHHHHCC
Confidence                                 44332 1233344444444445555555555555544433 233344455555566666


Q ss_pred             CHHHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHH
Q 005966          363 LVKLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCY  439 (667)
Q Consensus       363 ~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  439 (667)
                      ++++|..+++.+.   +.+...|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|++++|..+++.
T Consensus       582 ~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  660 (899)
T TIGR02917       582 QLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKR  660 (899)
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666666665554   2233346666666666666666666666665432 22344555666666666666666666666


Q ss_pred             HHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH
Q 005966          440 LIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV  518 (667)
Q Consensus       440 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  518 (667)
                      +.+.. +.+...+..++..+...|++++|.++++.+....| +...+..+...+...|++++|...|+++.+.+  |+..
T Consensus       661 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~--~~~~  737 (899)
T TIGR02917       661 ALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKRA--PSSQ  737 (899)
T ss_pred             HHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--CCch
Confidence            66543 34456666666777777777777777776665553 45566777777888888888888888887753  4556


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACV  596 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~  596 (667)
                      ++..+..++.+.|++++|.+.++.+.+  ..+.+...+..++..|...|++++|.+.|+++ . .++++.++..++..+.
T Consensus       738 ~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  815 (899)
T TIGR02917       738 NAIKLHRALLASGNTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYL  815 (899)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            677778888888888888888888877  34566778888899999999999999999987 3 3446778899999999


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      ..|+ .+|+..++++++..|+++..+..++.+|...|++++|.++++++.+.+..
T Consensus       816 ~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~  869 (899)
T TIGR02917       816 ELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEADRALPLLRKAVNIAPE  869 (899)
T ss_pred             hcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            9999 88999999999999999999999999999999999999999999987643

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=1e-28  Score=278.32  Aligned_cols=617  Identities=13%  Similarity=0.044  Sum_probs=466.2

Q ss_pred             ChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh--hHhhhcCChhhHHHhhcccCC--CC-cchH-------
Q 005966           12 TTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS--SLVRAYGHVSNVRILFDEMSE--RS-SFLY-------   78 (667)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--~~~~~~g~~~~A~~~~~~~~~--~~-~~~~-------   78 (667)
                      ....+..-++.+...++.+.|.+.+.+++...|.+ ..+..  .++...|+.++|.+.+++..+  |+ ...+       
T Consensus        27 ~~~~Ll~q~~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~~P~~~~~~~~~~~~~  106 (1157)
T PRK11447         27 AQQQLLEQVRLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQLAPDSNAYRSSRTTML  106 (1157)
T ss_pred             HHHHHHHHHHHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCChHHHHHHHHHH
Confidence            45568888888999999999999999999999988 33333  888899999999999998753  32 2222       


Q ss_pred             ---------HHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCccc-HHHHHHHhccccchHHHHHHHHHHHHhCCCCchHH
Q 005966           79 ---------NTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYT-YPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFV  148 (667)
Q Consensus        79 ---------~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  148 (667)
                               ..+...+.+.|++++|+..|+.+.+.  .+|+... ...........|+.++|...++++.+.. +.+...
T Consensus       107 ~~~~~~~~~l~~A~ll~~~g~~~eA~~~~~~~l~~--~p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~-P~~~~~  183 (1157)
T PRK11447        107 LSTPEGRQALQQARLLATTGRTEEALASYDKLFNG--APPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADY-PGNTGL  183 (1157)
T ss_pred             hcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHccC--CCCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhC-CCCHHH
Confidence                     23345688999999999999999975  4444322 1112222335689999999999999986 557788


Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcccCCCCh------hhH-----------------HHHHHHHHHcCChhHHHHHHHHHHH
Q 005966          149 GNCLIAMYMNFGEVKAARKVFDAMWEHSV------VSW-----------------NTLISGYFKNAYAKEALVVFDWMLK  205 (667)
Q Consensus       149 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~------~~~-----------------~~li~~~~~~~~~~~A~~~~~~m~~  205 (667)
                      +..+...+...|+.++|+..|+++.....      ..|                 ...+..+-.......|...+..+..
T Consensus       184 ~~~LA~ll~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~  263 (1157)
T PRK11447        184 RNTLALLLFSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQK  263 (1157)
T ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHH
Confidence            88999999999999999999998743211      111                 1111111112223455555555544


Q ss_pred             CCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCh---hH
Q 005966          206 SGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--RDV---VT  280 (667)
Q Consensus       206 ~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~  280 (667)
                      ....|+... ......+...|++++|...++.+++.. +.+..++..+...+.+.|++++|+..|++..+  |+.   ..
T Consensus       264 ~~~dp~~~~-~~~G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~  341 (1157)
T PRK11447        264 QLADPAFRA-RAQGLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDK  341 (1157)
T ss_pred             hccCcchHH-HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhH
Confidence            333333222 122345667899999999999999875 34678899999999999999999999998875  322   11


Q ss_pred             HH------------HHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCc
Q 005966          281 WT------------SMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEV  348 (667)
Q Consensus       281 ~~------------~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  348 (667)
                      |.            .....+.+.|++++|...|++..+.. +.+...+..+...+...|++++|...++.+.+.. +.+.
T Consensus       342 ~~~ll~~~~~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~  419 (1157)
T PRK11447        342 WESLLKVNRYWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNT  419 (1157)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCH
Confidence            21            12346778999999999999998853 2344566677788999999999999999998865 3445


Q ss_pred             hHHhHHHHHHHhcCCHHHHHHHHhccCCCC------------cccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHH
Q 005966          349 IVETALIDMYAKCNLVKLSFQVFARTSKKK------------TVPWNAILAGCVHNGLARKAVELFRQMLVEVVEP-NDA  415 (667)
Q Consensus       349 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------------~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~  415 (667)
                      ..+..+...|. .++.++|..+++.+....            ...+..+...+...|++++|++.|++..+.  .| +..
T Consensus       420 ~a~~~L~~l~~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~--~P~~~~  496 (1157)
T PRK11447        420 NAVRGLANLYR-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLAL--DPGSVW  496 (1157)
T ss_pred             HHHHHHHHHHH-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHH
Confidence            56667777774 467899999988765322            112555677888999999999999999875  44 445


Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC--c---------ch
Q 005966          416 TLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD--I---------VV  484 (667)
Q Consensus       416 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~---------~~  484 (667)
                      .+..+...+...|++++|...++.+.+.. +.++..+..+...+...++.++|...++.+.....+  .         ..
T Consensus       497 ~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~  575 (1157)
T PRK11447        497 LTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQ  575 (1157)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhH
Confidence            67778889999999999999999998754 445556666666778899999999999988654311  1         11


Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHh
Q 005966          485 WSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLG  564 (667)
Q Consensus       485 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  564 (667)
                      +..+...+...|+.++|+.+++.     .+++...+..+...+.+.|++++|+..|+++.+  ..|.+...+..++.+|.
T Consensus       576 ~l~~a~~l~~~G~~~eA~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~--~~P~~~~a~~~la~~~~  648 (1157)
T PRK11447        576 VLETANRLRDSGKEAEAEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT--REPGNADARLGLIEVDI  648 (1157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHH
Confidence            23456678899999999999872     244556778888899999999999999999998  34556778999999999


Q ss_pred             hcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc------hHHHHHHHHhhcCCch
Q 005966          565 RAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG------NYVLLSKLYSAVRRWK  636 (667)
Q Consensus       565 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~  636 (667)
                      ..|++++|++.++.. ...| +...+..+..++...|++++|...+++++...|+++.      ++..++.++...|+++
T Consensus       649 ~~g~~~eA~~~l~~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~  728 (1157)
T PRK11447        649 AQGDLAAARAQLAKLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQ  728 (1157)
T ss_pred             HCCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHH
Confidence            999999999999987 3455 4566777888899999999999999999998876553      5667799999999999


Q ss_pred             HHHHHHHHhh
Q 005966          637 DAENVRDVMD  646 (667)
Q Consensus       637 ~A~~~~~~~~  646 (667)
                      +|++.+++..
T Consensus       729 ~A~~~y~~Al  738 (1157)
T PRK11447        729 QALETYKDAM  738 (1157)
T ss_pred             HHHHHHHHHH
Confidence            9999999975

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=100.00  E-value=4.7e-28  Score=273.01  Aligned_cols=585  Identities=11%  Similarity=0.038  Sum_probs=440.8

Q ss_pred             hHhhhcCChhhHHHhhcccC--C-CCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccH--------------
Q 005966           52 SLVRAYGHVSNVRILFDEMS--E-RSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTY--------------  114 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~--~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~--------------  114 (667)
                      +++...++.+.|.+.++++.  . .|+.++..++..+.+.|+.++|.+.++++.+.   .|+...+              
T Consensus        36 ~~~~~~~~~d~a~~~l~kl~~~~p~~p~~~~~~~~~~l~~g~~~~A~~~l~~l~~~---~P~~~~~~~~~~~~~~~~~~~  112 (1157)
T PRK11447         36 RLGEATHREDLVRQSLYRLELIDPNNPDVIAARFRLLLRQGDSDGAQKLLDRLSQL---APDSNAYRSSRTTMLLSTPEG  112 (1157)
T ss_pred             HHHHhhCChHHHHHHHHHHHccCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhh---CCCChHHHHHHHHHHhcCCch
Confidence            78889999999999999863  3 37788999999999999999999999999986   3444332              


Q ss_pred             ---HHHHHHhccccchHHHHHHHHHHHHhCCCCchHH-HHHHHHHHHhcCCHHHHHHHhcccCCC---ChhhHHHHHHHH
Q 005966          115 ---PIVIKACTDLAWRKLGIALHGRVLITGFDMDTFV-GNCLIAMYMNFGEVKAARKVFDAMWEH---SVVSWNTLISGY  187 (667)
Q Consensus       115 ---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~  187 (667)
                         ..+.+.+...|++++|.+.|+.+.+.. +|+... ...........|+.++|++.|+.+.+.   +...+..+...+
T Consensus       113 ~~~l~~A~ll~~~g~~~eA~~~~~~~l~~~-p~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll  191 (1157)
T PRK11447        113 RQALQQARLLATTGRTEEALASYDKLFNGA-PPELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLL  191 (1157)
T ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHHHccCC-CCChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence               233456788999999999999998775 444321 111222233459999999999998543   566788899999


Q ss_pred             HHcCChhHHHHHHHHHHHCCCC----------------CC---hHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchh
Q 005966          188 FKNAYAKEALVVFDWMLKSGVE----------------PD---CASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIA  248 (667)
Q Consensus       188 ~~~~~~~~A~~~~~~m~~~g~~----------------p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  248 (667)
                      ...|++++|+..++++......                ++   ...+...+..+-.......+...+.........|...
T Consensus       192 ~~~g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~  271 (1157)
T PRK11447        192 FSSGRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFR  271 (1157)
T ss_pred             HccCCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchH
Confidence            9999999999999998653210                00   0112222333333334455556665554443333322


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCCh-hhH--------
Q 005966          249 AWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNS-LTI--------  316 (667)
Q Consensus       249 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~t~--------  316 (667)
                       .......+...|++++|+..|++..+   .+...+..+...+.+.|++++|+..|++..+....... ..+        
T Consensus       272 -~~~~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~  350 (1157)
T PRK11447        272 -ARAQGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNR  350 (1157)
T ss_pred             -HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhh
Confidence             22345677889999999999999875   36778899999999999999999999999875322111 111        


Q ss_pred             ----HHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCC---cccHHHHHHHH
Q 005966          317 ----GSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKK---TVPWNAILAGC  389 (667)
Q Consensus       317 ----~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~li~~~  389 (667)
                          ...-..+.+.|++++|...++.+.+.. +.+...+..+...+...|++++|++.|++....+   ...+..+...+
T Consensus       351 ~~~~~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~  429 (1157)
T PRK11447        351 YWLLIQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLY  429 (1157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence                112334678899999999999999875 4456677889999999999999999999887433   33466666666


Q ss_pred             HhCCChHHHHHHHHHHHHCCCC--------CCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          390 VHNGLARKAVELFRQMLVEVVE--------PNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       390 ~~~~~~~~A~~~~~~m~~~g~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      . .++.++|+.+++.+......        .....+..+...+...|++++|.+.++...+.. +.++..+..+...|.+
T Consensus       430 ~-~~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~  507 (1157)
T PRK11447        430 R-QQSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQ  507 (1157)
T ss_pred             H-hcCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            4 46789999988775432110        011234556677888999999999999998876 4567788889999999


Q ss_pred             cCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH---------HHHHHHHHHhccC
Q 005966          462 CGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV---------TFTSALHACSHGG  531 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---------~~~~ll~~~~~~g  531 (667)
                      .|++++|...++++....| +...+..+...+...++.++|+..++++......++..         .+..+...+...|
T Consensus       508 ~G~~~~A~~~l~~al~~~P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G  587 (1157)
T PRK11447        508 AGQRSQADALMRRLAQQKPNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSG  587 (1157)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCC
Confidence            9999999999999877655 44555556666778999999999998875433222221         1234566788999


Q ss_pred             CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005966          532 LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAK  609 (667)
Q Consensus       532 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~  609 (667)
                      ++++|..+++.      .+++...+..+...+.+.|++++|++.|++. ...| +...+..++..+...|++++|+..++
T Consensus       588 ~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~P~~~~a~~~la~~~~~~g~~~eA~~~l~  661 (1157)
T PRK11447        588 KEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTREPGNADARLGLIEVDIAQGDLAAARAQLA  661 (1157)
T ss_pred             CHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            99999999872      2345566788999999999999999999998 4555 67789999999999999999999999


Q ss_pred             HhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          610 WLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       610 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ++.+..|+++..+..++.++...|++++|.++++++.+...
T Consensus       662 ~ll~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~  702 (1157)
T PRK11447        662 KLPATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAK  702 (1157)
T ss_pred             HHhccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCc
Confidence            99999999999999999999999999999999999987653

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=5.1e-25  Score=236.55  Aligned_cols=602  Identities=10%  Similarity=0.006  Sum_probs=324.1

Q ss_pred             hccCChhhHhHHHHHHHHhCCCchhhhh---hHhhhcCChhhHHHhhcccCCCCc--chHHHHHHHHHhCCCchHHHHHH
Q 005966           24 AATKSIAGTKQLHAFIITSGPLFTHLRS---SLVRAYGHVSNVRILFDEMSERSS--FLYNTVMKMYAQNGASHDSLKMF   98 (667)
Q Consensus        24 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~~~~g~~~~A~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~   98 (667)
                      ...|++++|...+.++++.+|.+..+..   .+|...|++++|+..+++..+.++  ..|..++..+   +++++|..+|
T Consensus        55 ~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~ldP~n~~~~~~La~i---~~~~kA~~~y  131 (987)
T PRK09782         55 QKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKRHPGDARLERSLAAI---PVEVKSVTTV  131 (987)
T ss_pred             HhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHh---ccChhHHHHH
Confidence            3447888888888888888888722222   778888888888888877654322  2233323222   7777888888


Q ss_pred             HHhHHcCCCCCCcccHHHHHHHh-----ccccchHHHHHHHHHHHHhCCCCchHHHHHH-HHHHHhcCCHHHHHHHhccc
Q 005966           99 LGMLRLGEYNPDNYTYPIVIKAC-----TDLAWRKLGIALHGRVLITGFDMDTFVGNCL-IAMYMNFGEVKAARKVFDAM  172 (667)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~ll~~~-----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~A~~~~~~~  172 (667)
                      +++...  .|-+..++..+....     ..-.+.++|...++ .....+.|+..+.... ..+|.+.|++++|++.+..+
T Consensus       132 e~l~~~--~P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~lL~~L  208 (987)
T PRK09782        132 EELLAQ--QKACDAVPTLRCRSEVGQNALRLAQLPVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADTLYNEA  208 (987)
T ss_pred             HHHHHh--CCCChhHHHHHHHHhhccchhhhhhHHHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHHHHHHH
Confidence            888775  333344444444430     11223344555554 3333333344444444 67777777777777777776


Q ss_pred             CCC---ChhhHHHHHHHHHH-cCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCC-cch
Q 005966          173 WEH---SVVSWNTLISGYFK-NAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLG-KNI  247 (667)
Q Consensus       173 ~~~---~~~~~~~li~~~~~-~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~  247 (667)
                      .+.   +......|...|.. .++ +++..+++.    .++-+......+...+.+.|+.+.|..++..+...... |..
T Consensus       209 ~k~~pl~~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~~~~~~~  283 (987)
T PRK09782        209 RQQNTLSAAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLFTTDAQE  283 (987)
T ss_pred             HhcCCCCHHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccccCCCcc
Confidence            443   33335555556665 255 666666442    23346666777777777777777777777665543211 221


Q ss_pred             hH------------------------------HHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHH
Q 005966          248 AA------------------------------WNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNA  297 (667)
Q Consensus       248 ~~------------------------------~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a  297 (667)
                      .+                              .-.++..+.+.++++.+.++.. . .|.....-.-..+....+...++
T Consensus       284 ~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~-~~~~~~~~~r~~~~~~~~~~~~~  361 (987)
T PRK09782        284 KSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLA-T-LPANEMLEERYAVSVATRNKAEA  361 (987)
T ss_pred             HHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhc-C-CCcchHHHHHHhhccccCchhHH
Confidence            11                              1222455555666665555422 2 12211111111112223555555


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHh-c-CCCCchHHhHHHHHHHhcCC---HHHHHHH--
Q 005966          298 LGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQ-N-LECEVIVETALIDMYAKCNL---VKLSFQV--  370 (667)
Q Consensus       298 ~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~-~-~~~~~~~~~~l~~~~~~~g~---~~~a~~~--  370 (667)
                      ...+..|-+.. +-+....-.+--...+.|+.++|.+++...... + -..+......++..|.+.+.   ..++..+  
T Consensus       362 ~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~~~~l~~  440 (987)
T PRK09782        362 LRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPYLATPAKVAILSK  440 (987)
T ss_pred             HHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCcccchHHHHHhcc
Confidence            55555554431 112222222222344556677777776666552 1 12233344456666666554   2222222  


Q ss_pred             -----------------------HhccCCC-----CcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHH
Q 005966          371 -----------------------FARTSKK-----KTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLP  422 (667)
Q Consensus       371 -----------------------~~~~~~~-----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  422 (667)
                                             +......     +...|..+..++.. ++.++|+..+.+....  .|+......+..
T Consensus       441 ~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~--~Pd~~~~L~lA~  517 (987)
T PRK09782        441 PLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQR--QPDAWQHRAVAY  517 (987)
T ss_pred             ccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHh--CCchHHHHHHHH
Confidence                                   1111111     22234555555544 5666666655555543  344443333333


Q ss_pred             HHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc-chHHHHHHHHHHcCChHHH
Q 005966          423 AYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI-VVWSVIIAGYGMHGHGETA  501 (667)
Q Consensus       423 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a  501 (667)
                      .+...|++++|...++.+...  +|....+..+..++.+.|++++|...++......|+. ..+..+.....+.|++++|
T Consensus       518 al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~P~~~~l~~~La~~l~~~Gr~~eA  595 (987)
T PRK09782        518 QAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRGLGDNALYWWLHAQRYIPGQPELA  595 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHhCCCHHHH
Confidence            445666666666666665433  2333334455556666666666666666665544332 1222222233344666666


Q ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C
Q 005966          502 VSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P  580 (667)
Q Consensus       502 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  580 (667)
                      +..+++..+.  .|+...+..+..++.+.|++++|+..+++..+  ..|.+...+..+...+...|++++|+..+++. .
T Consensus       596 l~~~~~AL~l--~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~--l~Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~  671 (987)
T PRK09782        596 LNDLTRSLNI--APSANAYVARATIYRQRHNVPAAVSDLRAALE--LEPNNSNYQAALGYALWDSGDIAQSREMLERAHK  671 (987)
T ss_pred             HHHHHHHHHh--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            6666666654  34555566666666666666666666666665  23334555666666666666666666666665 3


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          581 LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       581 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ..| ++..+..+..++...|++++|+..+++++++.|++..+....+++..+..+++.|.+.+++....
T Consensus       672 l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~~  740 (987)
T PRK09782        672 GLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQALITPLTPEQNQQRFNFRRLHEEVGRRWTF  740 (987)
T ss_pred             hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCchhhhhhhHHHHHHHHHHHHHHHHHHHhhc
Confidence            444 44556666666666666666666666666666666666666666666666666666666655443

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.97  E-value=3.3e-24  Score=230.41  Aligned_cols=568  Identities=9%  Similarity=-0.008  Sum_probs=411.3

Q ss_pred             hHhhhcCChhhHHHhhcccCC--C-CcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchH
Q 005966           52 SLVRAYGHVSNVRILFDEMSE--R-SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRK  128 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  128 (667)
                      ..+...|++++|...|+...+  | +..++..|.+.|.+.|++++|+..+++..+.   .|+...|..++..+   +++.
T Consensus        52 ~~~~~~Gd~~~A~~~l~~Al~~dP~n~~~~~~LA~~yl~~g~~~~A~~~~~kAv~l---dP~n~~~~~~La~i---~~~~  125 (987)
T PRK09782         52 LKAQKNNDEATAIREFEYIHQQVPDNIPLTLYLAEAYRHFGHDDRARLLLEDQLKR---HPGDARLERSLAAI---PVEV  125 (987)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---CcccHHHHHHHHHh---ccCh
Confidence            556666999999999998753  3 5678999999999999999999999999976   56555555555333   8899


Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHH--------HHhcCCHHHHHHHhcccCC-CChhhHH-HHHHHHHHcCChhHHHH
Q 005966          129 LGIALHGRVLITGFDMDTFVGNCLIAM--------YMNFGEVKAARKVFDAMWE-HSVVSWN-TLISGYFKNAYAKEALV  198 (667)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~~~li~~--------~~~~g~~~~A~~~~~~~~~-~~~~~~~-~li~~~~~~~~~~~A~~  198 (667)
                      +|..+++++.+.. +-+..++..+...        |.+.+...++++ .+.... ++..... .+...|.+.|++++|++
T Consensus       126 kA~~~ye~l~~~~-P~n~~~~~~la~~~~~~~~l~y~q~eqAl~AL~-lr~~~~~~~~~vL~L~~~rlY~~l~dw~~Ai~  203 (987)
T PRK09782        126 KSVTTVEELLAQQ-KACDAVPTLRCRSEVGQNALRLAQLPVARAQLN-DATFAASPEGKTLRTDLLQRAIYLKQWSQADT  203 (987)
T ss_pred             hHHHHHHHHHHhC-CCChhHHHHHHHHhhccchhhhhhHHHHHHHHH-HhhhCCCCCcHHHHHHHHHHHHHHhCHHHHHH
Confidence            9999999999997 5556666666665        888777777777 333322 2344344 44899999999999999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHccc-CcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--
Q 005966          199 VFDWMLKSGVEPDCASVVSVLPACGY-LKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--  275 (667)
Q Consensus       199 ~~~~m~~~g~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  275 (667)
                      .+.++.+.+... ..-...+-.++.. .++ +.+..++..    .+..+...+..+++.|.+.|+.++|.++++++..  
T Consensus       204 lL~~L~k~~pl~-~~~~~~L~~ay~q~l~~-~~a~al~~~----~lk~d~~l~~ala~~yi~~G~~~~A~~~L~~~~~~~  277 (987)
T PRK09782        204 LYNEARQQNTLS-AAERRQWFDVLLAGQLD-DRLLALQSQ----GIFTDPQSRITYATALAYRGEKARLQHYLIENKPLF  277 (987)
T ss_pred             HHHHHHhcCCCC-HHHHHHHHHHHHHhhCH-HHHHHHhch----hcccCHHHHHHHHHHHHHCCCHHHHHHHHHhCcccc
Confidence            999999975433 3334455556666 355 777777543    3346888999999999999999999999999874  


Q ss_pred             ---CChhHHH------------------------------HHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 005966          276 ---RDVVTWT------------------------------SMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSA  322 (667)
Q Consensus       276 ---~~~~~~~------------------------------~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~  322 (667)
                         |...+|-                              .++..+.+.++++.+.++.      .+.|.....  .+..
T Consensus       278 ~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------~~~~~~~~~--~~r~  349 (987)
T PRK09782        278 TTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLL------ATLPANEML--EERY  349 (987)
T ss_pred             cCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHh------cCCCcchHH--HHHH
Confidence               2222211                              1244455556665444331      134444432  2322


Q ss_pred             --hhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCC--Cc---c-cHHHHHHHHHhCCC
Q 005966          323 --CSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKK--KT---V-PWNAILAGCVHNGL  394 (667)
Q Consensus       323 --~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--~~---~-~~~~li~~~~~~~~  394 (667)
                        ....+...++...+..+.+.. +-+......+.-.....|+.++|..+|......  +.   . .-+-++..|.+.+.
T Consensus       350 ~~~~~~~~~~~~~~~~~~~y~~~-~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~  428 (987)
T PRK09782        350 AVSVATRNKAEALRLARLLYQQE-PANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMARLASLLESHPY  428 (987)
T ss_pred             hhccccCchhHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHHHHHHHHhCCc
Confidence              223355556666666655543 334555555666677899999999999887642  11   1 13466777777665


Q ss_pred             ---hHHHHHH----------------------HHHHHHC-CCCC---CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Q 005966          395 ---ARKAVEL----------------------FRQMLVE-VVEP---NDATLNSLLPAYAILADLQQAMNIHCYLIRYGF  445 (667)
Q Consensus       395 ---~~~A~~~----------------------~~~m~~~-g~~p---~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  445 (667)
                         ..++..+                      +...... +..|   +...+..+..++.. ++.++|...+....... 
T Consensus       429 ~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~-  506 (987)
T PRK09782        429 LATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ-  506 (987)
T ss_pred             ccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC-
Confidence               3444333                      1111111 2223   45566666666655 88888999888776654 


Q ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005966          446 LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALH  525 (667)
Q Consensus       446 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  525 (667)
                       |+......+...+...|++++|...|+++....|+...+..+...+.+.|+.++|...+++.++.. +++...+..+..
T Consensus       507 -Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~~~~l~~~La~  584 (987)
T PRK09782        507 -PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LGDNALYWWLHA  584 (987)
T ss_pred             -CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CccHHHHHHHHH
Confidence             444444445566678999999999999887765666667778888999999999999999999864 223333444445


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHH
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  603 (667)
                      .....|++++|...+++..+.   .|+...+..+..++.+.|++++|+..+++. ...| +...+..+..++...|++++
T Consensus       585 ~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~aL~~~G~~ee  661 (987)
T PRK09782        585 QRYIPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGYALWDSGDIAQ  661 (987)
T ss_pred             HHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHH
Confidence            566779999999999999872   356788999999999999999999999997 5666 56678888889999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      |+..++++++..|+++.++..++.+|...|++++|+..+++..+..
T Consensus       662 Ai~~l~~AL~l~P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~  707 (987)
T PRK09782        662 SREMLERAHKGLPDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI  707 (987)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            9999999999999999999999999999999999999999998765

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

Probab=99.92  E-value=6.9e-20  Score=184.11  Aligned_cols=589  Identities=13%  Similarity=0.069  Sum_probs=421.9

Q ss_pred             hHhhhcCC--hhhHHHhhcccCCC---CcchHHHHHHHHHhCCCchHHHHHHHHhHHc-CCCCCCcccHHHHHHHhcccc
Q 005966           52 SLVRAYGH--VSNVRILFDEMSER---SSFLYNTVMKMYAQNGASHDSLKMFLGMLRL-GEYNPDNYTYPIVIKACTDLA  125 (667)
Q Consensus        52 ~~~~~~g~--~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~ll~~~~~~~  125 (667)
                      ..+...|.  ++.|...|..+.+.   |+-..-.-.......|++..|+.+|...+.. +..+||.  ...+..++.+.+
T Consensus       136 ~~~l~~~~~~~~~A~a~F~~Vl~~sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~aD~--rIgig~Cf~kl~  213 (1018)
T KOG2002|consen  136 GFLLLEGDKSMDDADAQFHFVLKQSPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACKADV--RIGIGHCFWKLG  213 (1018)
T ss_pred             hhhhhcCCccHHHHHHHHHHHHhhCCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccCCCc--cchhhhHHHhcc
Confidence            44555554  48899999887533   3333322233344578999999999997764 1233343  333446677899


Q ss_pred             chHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC---CHHHHHHHhccc---CCCChhhHHHHHHHHHHcCChhHHHHH
Q 005966          126 WRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFG---EVKAARKVFDAM---WEHSVVSWNTLISGYFKNAYAKEALVV  199 (667)
Q Consensus       126 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~A~~~~~~~---~~~~~~~~~~li~~~~~~~~~~~A~~~  199 (667)
                      +.+.|+..|.+..+..+ .++.++-.|.-.-....   .+..+...+...   ...|++..+.|...|.-.|+++.++.+
T Consensus       214 ~~~~a~~a~~ralqLdp-~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~l  292 (1018)
T KOG2002|consen  214 MSEKALLAFERALQLDP-TCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHL  292 (1018)
T ss_pred             chhhHHHHHHHHHhcCh-hhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHH
Confidence            99999999999988762 33444433333222333   344555555544   334889999999999999999999999


Q ss_pred             HHHHHHCCCC--CChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--
Q 005966          200 FDWMLKSGVE--PDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--  275 (667)
Q Consensus       200 ~~~m~~~g~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  275 (667)
                      ...+......  .-...|-.+.+++-..|+++.|..+|-...+..-...+..+--+..+|.+.|+++.+...|+.+.+  
T Consensus       293 a~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~  372 (1018)
T KOG2002|consen  293 AEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQL  372 (1018)
T ss_pred             HHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhC
Confidence            9888764311  123457888889999999999999999888775443355567788999999999999999999876  


Q ss_pred             C-ChhHHHHHHHHHHhCC----ChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHH----HHHHHhcCCC
Q 005966          276 R-DVVTWTSMINGYALNG----DVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLH----AWTIKQNLEC  346 (667)
Q Consensus       276 ~-~~~~~~~li~~~~~~~----~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~----~~~~~~~~~~  346 (667)
                      | +..+..++...|...+    ..+.|..++.+..+.- +.|...|..+-..+....-+.. ...+    +.+...+..+
T Consensus       373 p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s-L~~~~~A~d~L~~~~~~i  450 (1018)
T KOG2002|consen  373 PNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS-LDAYGNALDILESKGKQI  450 (1018)
T ss_pred             cchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH-HHHHHHHHHHHHHcCCCC
Confidence            3 3445556666666554    4566666666665532 3455566665555554433333 4443    3445566678


Q ss_pred             CchHHhHHHHHHHhcCCHHHHHHHHhccCCC-------Cc-----c-cHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC
Q 005966          347 EVIVETALIDMYAKCNLVKLSFQVFARTSKK-------KT-----V-PWNAILAGCVHNGLARKAVELFRQMLVEVVEPN  413 (667)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~-----~-~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  413 (667)
                      .+.+.|.+...+...|+++.|...|......       +.     + .-..+...+-..++.+.|.+.|+.+...  .|.
T Consensus       451 p~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~  528 (1018)
T KOG2002|consen  451 PPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPG  528 (1018)
T ss_pred             CHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--Cch
Confidence            8999999999999999999999999865421       21     1 1223455556678999999999999875  454


Q ss_pred             HH-HHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CCcchHHHHH
Q 005966          414 DA-TLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KDIVVWSVII  489 (667)
Q Consensus       414 ~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~l~  489 (667)
                      -+ .|..+.......+...+|...+....... ..++...+.+.+.+.+...+..|.+-|..+....   +|..+.-+|.
T Consensus       529 YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLG  607 (1018)
T KOG2002|consen  529 YIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALG  607 (1018)
T ss_pred             hHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhh
Confidence            43 34444433344578888998888887655 5566777777888988888888888555544432   5555555565


Q ss_pred             HHHH------------HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHH
Q 005966          490 AGYG------------MHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYT  557 (667)
Q Consensus       490 ~~~~------------~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  557 (667)
                      ..|.            ..+..++|+++|.+.++.. +-|...-+.+.-.++..|++.+|..+|.++.+...  ....+|-
T Consensus       608 N~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~d-pkN~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~--~~~dv~l  684 (1018)
T KOG2002|consen  608 NVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRND-PKNMYAANGIGIVLAEKGRFSEARDIFSQVREATS--DFEDVWL  684 (1018)
T ss_pred             HHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcC-cchhhhccchhhhhhhccCchHHHHHHHHHHHHHh--hCCceee
Confidence            5443            2345788999999999875 33667778888889999999999999999998433  3345588


Q ss_pred             HHHHHHhhcCChHHHHHHHHhC----CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc-
Q 005966          558 CIVDLLGRAGRLDEAYDLIRTM----PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV-  632 (667)
Q Consensus       558 ~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-  632 (667)
                      .+..+|..+|+|..|+++|+..    -.+.++.++..|.+++.+.|.+.+|.+.+..++...|.|+.+.+.++-+..+. 
T Consensus       685 Nlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p~~~~v~FN~a~v~kkla  764 (1018)
T KOG2002|consen  685 NLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAPSNTSVKFNLALVLKKLA  764 (1018)
T ss_pred             eHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCCccchHHhHHHHHHHHHH
Confidence            9999999999999999999986    24558889999999999999999999999999999999999888877765543 


Q ss_pred             ------------------CCchHHHHHHHHhhhCCCc
Q 005966          633 ------------------RRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       633 ------------------g~~~~A~~~~~~~~~~~~~  651 (667)
                                        +..++|.++|+.|.+.+.+
T Consensus       765 ~s~lr~~k~t~eev~~a~~~le~a~r~F~~ls~~~d~  801 (1018)
T KOG2002|consen  765 ESILRLEKRTLEEVLEAVKELEEARRLFTELSKNGDK  801 (1018)
T ss_pred             HHHHhcccccHHHHHHHHHHHHHHHHHHHHHHhcCCC
Confidence                              3567888888888877654

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

Probab=99.91  E-value=6.3e-21  Score=181.72  Aligned_cols=444  Identities=15%  Similarity=0.149  Sum_probs=338.1

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCh-HHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHH
Q 005966          180 WNTLISGYFKNAYAKEALVVFDWMLKSGVEPDC-ASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYV  258 (667)
Q Consensus       180 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  258 (667)
                      ...|..-..+.|++++|.+.-...-+.+  |+. .+...+-..+.+..+.+...+--....+.. +.-..+|..+.+.+-
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~~k  127 (966)
T KOG4626|consen   51 RLELAHRLYQGGDYKQAEKHCNMVGQED--PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKN-PQGAEAYSNLANILK  127 (966)
T ss_pred             HHHHHHHHHhccCHHHHHHHHhHhhccC--CCcccceeeehhhhhcccchhhhhhhhhhhhhcc-chHHHHHHHHHHHHH
Confidence            3344555566777777777655443321  221 122222222344444444433333333322 224567888888888


Q ss_pred             hcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHH-hhcccchHHHHH
Q 005966          259 KCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSA-CSSLYYLKRGRS  334 (667)
Q Consensus       259 ~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~-~~~~~~~~~a~~  334 (667)
                      ..|++++|+..++.+.+   ..+..|..+..++...|+.+.|.+.|.+..+  +.|+.....+-+.. ....|.++++..
T Consensus       128 erg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alq--lnP~l~ca~s~lgnLlka~Grl~ea~~  205 (966)
T KOG4626|consen  128 ERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQ--LNPDLYCARSDLGNLLKAEGRLEEAKA  205 (966)
T ss_pred             HhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHh--cCcchhhhhcchhHHHHhhcccchhHH
Confidence            88999999999888876   3566788888888999999999998888876  45665544433333 334677788887


Q ss_pred             HHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCccc---HHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 005966          335 LHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVP---WNAILAGCVHNGLARKAVELFRQMLVEVVE  411 (667)
Q Consensus       335 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  411 (667)
                      -+...++.. +--..+|+.|...+-..|+...|+..|++..+-|+..   |-.|...|...+.+++|+..|.+...  .+
T Consensus       206 cYlkAi~~q-p~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~--lr  282 (966)
T KOG4626|consen  206 CYLKAIETQ-PCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALN--LR  282 (966)
T ss_pred             HHHHHHhhC-CceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHh--cC
Confidence            777766654 2335677888888889999999999999887555433   88888899999999999999988775  46


Q ss_pred             CCH-HHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHH
Q 005966          412 PND-ATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVII  489 (667)
Q Consensus       412 p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~  489 (667)
                      |+. ..+..+...|..+|.++-|+..+++.++.. +.-+..|+.|..++-..|++.+|++.|.+.....|+ ..+.+.|.
T Consensus       283 pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p~hadam~NLg  361 (966)
T KOG4626|consen  283 PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCPNHADAMNNLG  361 (966)
T ss_pred             CcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCCccHHHHHHHH
Confidence            654 567777778889999999999999988765 445778999999999999999999999988876654 57888999


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhcC
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNE-VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRAG  567 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g  567 (667)
                      ..+...|.+++|..+|....+  +.|.. ..++.|...|-.+|++++|+..++++++   +.|+ ...|+.+...|-..|
T Consensus       362 ni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~NmGnt~ke~g  436 (966)
T KOG4626|consen  362 NIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALSNMGNTYKEMG  436 (966)
T ss_pred             HHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHHhcchHHHHhh
Confidence            999999999999999999988  45664 4688899999999999999999999987   4455 578999999999999


Q ss_pred             ChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchH
Q 005966          568 RLDEAYDLIRTM-PLKPTH-AVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKD  637 (667)
Q Consensus       568 ~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  637 (667)
                      +.+.|++.+.+. .+.|.. ...+.|...|...|+..+|+..|+.+++++||-|.++..++.++.--.+|.+
T Consensus       437 ~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~cNllh~lq~vcdw~D  508 (966)
T KOG4626|consen  437 DVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAYCNLLHCLQIVCDWTD  508 (966)
T ss_pred             hHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhhhHHHHHHHHHhcccc
Confidence            999999999887 677754 4788999999999999999999999999999999999988887665555544

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

Probab=99.91  E-value=1.3e-21  Score=186.38  Aligned_cols=421  Identities=12%  Similarity=0.096  Sum_probs=341.2

Q ss_pred             HHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCCh
Q 005966          218 VLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDV  294 (667)
Q Consensus       218 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~  294 (667)
                      +..-..+.|++++|++.-..+-..+ +.+....-.+-..+.+..+.+....--....+   .-..+|..+...+-..|++
T Consensus        54 lah~~yq~gd~~~a~~h~nmv~~~d-~t~~~~llll~ai~~q~~r~d~s~a~~~~a~r~~~q~ae~ysn~aN~~kerg~~  132 (966)
T KOG4626|consen   54 LAHRLYQGGDYKQAEKHCNMVGQED-PTNTERLLLLSAIFFQGSRLDKSSAGSLLAIRKNPQGAEAYSNLANILKERGQL  132 (966)
T ss_pred             HHHHHHhccCHHHHHHHHhHhhccC-CCcccceeeehhhhhcccchhhhhhhhhhhhhccchHHHHHHHHHHHHHHhchH
Confidence            3344556788888887766655543 22333333444556666666665544333332   3456899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCC-ChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhc
Q 005966          295 RNALGLFQLMQFEGVRP-NSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFAR  373 (667)
Q Consensus       295 ~~a~~~~~~m~~~~~~p-~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  373 (667)
                      ++|+.+++.+.+.  +| ....|..+..++...|+.+.+.+.+....+.+ +....+.+.+...+...|++.+|...+.+
T Consensus       133 ~~al~~y~~aiel--~p~fida~inla~al~~~~~~~~a~~~~~~alqln-P~l~ca~s~lgnLlka~Grl~ea~~cYlk  209 (966)
T KOG4626|consen  133 QDALALYRAAIEL--KPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN-PDLYCARSDLGNLLKAEGRLEEAKACYLK  209 (966)
T ss_pred             HHHHHHHHHHHhc--CchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC-cchhhhhcchhHHHHhhcccchhHHHHHH
Confidence            9999999999884  45 45678888999999999999999998887654 22223344556666778999999998877


Q ss_pred             cCCCC---cccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCc
Q 005966          374 TSKKK---TVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPND-ATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVV  449 (667)
Q Consensus       374 ~~~~~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  449 (667)
                      ....+   .+.|+.|...+-.+|+...|++.|++...  +.|+- ..|-.|-..|...+.++.|...+.+..... +...
T Consensus       210 Ai~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvk--ldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A  286 (966)
T KOG4626|consen  210 AIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVK--LDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHA  286 (966)
T ss_pred             HHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhc--CCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-Ccch
Confidence            65333   34499999999999999999999999885  45654 577788888888999999999888877654 4456


Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHH
Q 005966          450 EVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE-VTFTSALHAC  527 (667)
Q Consensus       450 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~  527 (667)
                      ..+..+...|-..|.++-|++.|++..+..|+ +..|+.|..++...|++.+|...|.+.+..  .|+. .+.+.|...+
T Consensus       287 ~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~  364 (966)
T KOG4626|consen  287 VAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIY  364 (966)
T ss_pred             hhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHH
Confidence            77778888899999999999999999988876 579999999999999999999999999985  4554 5788899999


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTH-AVWGALLGACVIHGNVELGE  605 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~A~  605 (667)
                      ...|.+++|..+|....+  ..+--...++.|...|-.+|++++|+..+++. .++|+. ..++.+...|-..|+...|+
T Consensus       365 ~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~NmGnt~ke~g~v~~A~  442 (966)
T KOG4626|consen  365 REQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNMGNTYKEMGDVSAAI  442 (966)
T ss_pred             HHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhcchHHHHhhhHHHHH
Confidence            999999999999999987  33333567889999999999999999999987 788865 58999999999999999999


Q ss_pred             HHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          606 VAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       606 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +.+.+++..+|.-..++..|+.+|...|+..+|+.-+++..+..
T Consensus       443 q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklk  486 (966)
T KOG4626|consen  443 QCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLK  486 (966)
T ss_pred             HHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccC
Confidence            99999999999999999999999999999999999999987654

>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=99.91  E-value=4.2e-20  Score=196.03  Aligned_cols=423  Identities=12%  Similarity=0.004  Sum_probs=276.5

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHH
Q 005966          179 SWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYV  258 (667)
Q Consensus       179 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  258 (667)
                      .+......+.+.|++++|+..|++...  +.|+...|..+..++...|+++.|...++.+++.. +.+..++..+..+|.
T Consensus       129 ~~k~~G~~~~~~~~~~~Ai~~y~~al~--~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~  205 (615)
T TIGR00990       129 KLKEKGNKAYRNKDFNKAIKLYSKAIE--CKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYD  205 (615)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHH
Confidence            455667778888999999999988876  46666666666666666666666666666666553 224455666666666


Q ss_pred             hcCCHHHHHHHHhhcCCC---ChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHH
Q 005966          259 KCGSVNEARLVFDRMSER---DVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSL  335 (667)
Q Consensus       259 ~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  335 (667)
                      ..|++++|...|..+...   +......++.....    ..+........+.  .|                        
T Consensus       206 ~lg~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~----~~a~~~~~~~l~~--~~------------------------  255 (615)
T TIGR00990       206 GLGKYADALLDLTASCIIDGFRNEQSAQAVERLLK----KFAESKAKEILET--KP------------------------  255 (615)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHH----HHHHHHHHHHHhc--CC------------------------
Confidence            666666666655443221   11111111111111    1111111111111  01                        


Q ss_pred             HHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCc---ccHHHHHHH---HHhCCChHHHHHHHHHHHHCC
Q 005966          336 HAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKT---VPWNAILAG---CVHNGLARKAVELFRQMLVEV  409 (667)
Q Consensus       336 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~---~~~~~~~~~A~~~~~~m~~~g  409 (667)
                                .+...+..+.. |...........-+......+.   ..+..+...   ....+++++|++.|++..+.+
T Consensus       256 ----------~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~  324 (615)
T TIGR00990       256 ----------ENLPSVTFVGN-YLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLG  324 (615)
T ss_pred             ----------CCCCCHHHHHH-HHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcC
Confidence                      11111111111 1111011111111111111111   111111111   123467889999999988765


Q ss_pred             -CCCC-HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHH
Q 005966          410 -VEPN-DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWS  486 (667)
Q Consensus       410 -~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~  486 (667)
                       ..|+ ...+..+...+...|++++|...++...+.. +.....+..+..++...|++++|...|+++....| +...|.
T Consensus       325 ~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~  403 (615)
T TIGR00990       325 KLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYY  403 (615)
T ss_pred             CCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHH
Confidence             2343 3566777777788999999999999888764 34466788888899999999999999998877665 467888


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA  566 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  566 (667)
                      .+...+...|++++|+..|++.++.. +.+...+..+..++.+.|++++|+..++...+  ..+.+...++.++.++...
T Consensus       404 ~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~  480 (615)
T TIGR00990       404 HRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQ  480 (615)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHc
Confidence            89999999999999999999999864 23456677788889999999999999999987  3445577788899999999


Q ss_pred             CChHHHHHHHHhC-CCCCCH-HH-------HHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchH
Q 005966          567 GRLDEAYDLIRTM-PLKPTH-AV-------WGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKD  637 (667)
Q Consensus       567 g~~~~A~~~~~~~-~~~p~~-~~-------~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  637 (667)
                      |++++|++.|++. ...|+. ..       ++.....+...|++++|+..++++++++|++..++..++.+|...|++++
T Consensus       481 g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~e  560 (615)
T TIGR00990       481 NKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDE  560 (615)
T ss_pred             cCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHH
Confidence            9999999999986 444431 11       11122223446999999999999999999988899999999999999999


Q ss_pred             HHHHHHHhhhCC
Q 005966          638 AENVRDVMDEKG  649 (667)
Q Consensus       638 A~~~~~~~~~~~  649 (667)
                      |++.|++..+..
T Consensus       561 Ai~~~e~A~~l~  572 (615)
T TIGR00990       561 ALKLFERAAELA  572 (615)
T ss_pred             HHHHHHHHHHHh
Confidence            999999987653

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

Probab=99.90  E-value=4.7e-19  Score=178.20  Aligned_cols=627  Identities=12%  Similarity=0.074  Sum_probs=431.6

Q ss_pred             hhHHHHHHHHhhccCChhhHhHHHHHHHHhC------CCchhhhh----hHhh-hcC-----------ChhhHHHhhccc
Q 005966           13 THLVIKLVQQYAATKSIAGTKQLHAFIITSG------PLFTHLRS----SLVR-AYG-----------HVSNVRILFDEM   70 (667)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~----~~~~-~~g-----------~~~~A~~~~~~~   70 (667)
                      .+++..++..|...|..++...+.+......      +.....+.    ..|. ..+           -...|..+|+..
T Consensus        41 le~wi~~AleYy~~gk~eefi~iLE~g~~~~~~~y~d~~~~~~~a~~~laay~s~~a~kek~~~~k~e~~~~at~~~~~A  120 (1018)
T KOG2002|consen   41 LEAWIEIALEYYKQGKTEEFIKILESGLIDANEEYADVKSDQMKALDILAAYYSQLAMKEKKKDEKDELFDKATLLFDLA  120 (1018)
T ss_pred             hhHHHHHHHHHHhcccHHHHHHHHHhhhhcccchhcchHHHHHHHHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHhhHH
Confidence            3566777888888888888888887766221      11111111    2222 111           123344455443


Q ss_pred             CCCCcchHHHH---HHHHHhCCC--chHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCC--C
Q 005966           71 SERSSFLYNTV---MKMYAQNGA--SHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGF--D  143 (667)
Q Consensus        71 ~~~~~~~~~~l---~~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~  143 (667)
                      ..-+...+..+   -..|...|.  .+.|...|....+.  .+++.-.+..-.......+++..|..+|..++...+  +
T Consensus       121 ~ki~m~~~~~l~~~~~~~l~~~~~~~~~A~a~F~~Vl~~--sp~Nil~LlGkA~i~ynkkdY~~al~yyk~al~inp~~~  198 (1018)
T KOG2002|consen  121 DKIDMYEDSHLLVQRGFLLLEGDKSMDDADAQFHFVLKQ--SPDNILALLGKARIAYNKKDYRGALKYYKKALRINPACK  198 (1018)
T ss_pred             HHhhccCcchhhhhhhhhhhcCCccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHhccccHHHHHHHHHHHHhcCcccC
Confidence            22222211111   122333444  58999999999987  566655555555555678899999999999877653  4


Q ss_pred             CchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHH---HHc---CChhHHHHHHHHHHHCCCCCChHHHHH
Q 005966          144 MDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGY---FKN---AYAKEALVVFDWMLKSGVEPDCASVVS  217 (667)
Q Consensus       144 ~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~---~~~---~~~~~A~~~~~~m~~~g~~p~~~~~~~  217 (667)
                      ||+.+  .+..++.++|+.+.|+..|.+..+-|+..-++++...   ...   ..+..++.++...-... .-++...+.
T Consensus       199 aD~rI--gig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~~~~~ll~~ay~~n-~~nP~~l~~  275 (1018)
T KOG2002|consen  199 ADVRI--GIGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYKKGVQLLQRAYKEN-NENPVALNH  275 (1018)
T ss_pred             CCccc--hhhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHHHHHHHHHHHHhhc-CCCcHHHHH
Confidence            55543  3345678999999999999998776665555444322   222   33556666666654421 235567788


Q ss_pred             HHHHcccCcchHHHHHHHHHHHhcCCCc--chhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CCh--hHHHHHHHHHHhC
Q 005966          218 VLPACGYLKEIEMGRMIHELVAGGRLGK--NIAAWNALVDMYVKCGSVNEARLVFDRMSE--RDV--VTWTSMINGYALN  291 (667)
Q Consensus       218 ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~--~~~~~li~~~~~~  291 (667)
                      |-+-+.-.|+++.+..+.+.+.......  -...|-.+..+|-..|++++|...|.+..+  +|.  ..+--+...+++.
T Consensus       276 LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~GlgQm~i~~  355 (1018)
T KOG2002|consen  276 LANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLVGLGQMYIKR  355 (1018)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCccccccchhHHHHHh
Confidence            8888999999999999999888764221  233577889999999999999999988776  333  3445678899999


Q ss_pred             CChHHHHHHHHHHHhcCCCCC-hhhHHHHHHHhhccc----chHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCC---
Q 005966          292 GDVRNALGLFQLMQFEGVRPN-SLTIGSLLSACSSLY----YLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNL---  363 (667)
Q Consensus       292 ~~~~~a~~~~~~m~~~~~~p~-~~t~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---  363 (667)
                      |+++.+...|+.....  .|| ..|...+-..|+..+    ..+.|..+.....+.- +.|...|-.+..+|....-   
T Consensus       356 ~dle~s~~~fEkv~k~--~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~d~~a~l~laql~e~~d~~~s  432 (1018)
T KOG2002|consen  356 GDLEESKFCFEKVLKQ--LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PVDSEAWLELAQLLEQTDPWAS  432 (1018)
T ss_pred             chHHHHHHHHHHHHHh--CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cccHHHHHHHHHHHHhcChHHH
Confidence            9999999999999874  354 455555555565553    3455555555554443 5566677777776655433   


Q ss_pred             ---HHHHHHHHhccC-CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHC---CCCCCH------HHHHHHHHHHhCcCCH
Q 005966          364 ---VKLSFQVFARTS-KKKTVPWNAILAGCVHNGLARKAVELFRQMLVE---VVEPND------ATLNSLLPAYAILADL  430 (667)
Q Consensus       364 ---~~~a~~~~~~~~-~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~---g~~p~~------~~~~~ll~~~~~~~~~  430 (667)
                         +..|..++.... ...+...|.+.......|++.+|...|.+....   -..+|.      .+--.+....-..++.
T Consensus       433 L~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~  512 (1018)
T KOG2002|consen  433 LDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDT  512 (1018)
T ss_pred             HHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhh
Confidence               334444443333 333344899999999999999999999987754   122333      2233344455667899


Q ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 005966          431 QQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMV  509 (667)
Q Consensus       431 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  509 (667)
                      +.|.+.|..+.+.. +.-+..|-.++-+....+...+|...++...... .++..|..+...+.....+..|.+-|....
T Consensus       513 ~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~k~f~~i~  591 (1018)
T KOG2002|consen  513 EVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAKKKFETIL  591 (1018)
T ss_pred             hHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccccHHHHHH
Confidence            99999999998765 2223333333323333467889999999877655 567788888888999999999999887776


Q ss_pred             HcC-CCCCHHHHHHHHHHHhcc------------CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHH
Q 005966          510 QSG-VQPNEVTFTSALHACSHG------------GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLI  576 (667)
Q Consensus       510 ~~~-~~p~~~~~~~ll~~~~~~------------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  576 (667)
                      +.- ..+|..+...|.+.|...            +..++|+++|.++++  ..|.|...-+.++-+++..|++.+|..+|
T Consensus       592 ~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~~~A~dIF  669 (1018)
T KOG2002|consen  592 KKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGRFSEARDIF  669 (1018)
T ss_pred             hhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccCchHHHHHH
Confidence            532 236776666676655422            467889999999988  55677777888999999999999999999


Q ss_pred             HhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC--CCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          577 RTMP--LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELE--PENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       577 ~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .+..  ......+|..+..+|..+|++..|+++|+..++..  .+++.+...|+.++.+.|++.+|.+.+.......+
T Consensus       670 sqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~~~p  747 (1018)
T KOG2002|consen  670 SQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARHLAP  747 (1018)
T ss_pred             HHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            9984  33356689999999999999999999999998744  34678999999999999999999999988776543

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.88  E-value=4.3e-20  Score=186.45  Aligned_cols=298  Identities=13%  Similarity=0.072  Sum_probs=232.2

Q ss_pred             HHHhcCCHHHHHHHHhccCCCCc---ccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhCcCCH
Q 005966          357 MYAKCNLVKLSFQVFARTSKKKT---VPWNAILAGCVHNGLARKAVELFRQMLVEVVEPN---DATLNSLLPAYAILADL  430 (667)
Q Consensus       357 ~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~  430 (667)
                      .+...|++++|...|.++...++   ..+..+...+...|++++|..+++.+...+..++   ...+..+...+...|++
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            45566778888888877764333   3477778888888888888888888876543222   24567778888888999


Q ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc------chHHHHHHHHHHcCChHHHHHH
Q 005966          431 QQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI------VVWSVIIAGYGMHGHGETAVSL  504 (667)
Q Consensus       431 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~  504 (667)
                      +.|..+++.+.+.. +.+...+..++.++.+.|++++|.+.++.+....|+.      ..+..+...+.+.|++++|...
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            99999998887653 4567788888999999999999999998887655432      2355677788899999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC
Q 005966          505 FKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP  583 (667)
Q Consensus       505 ~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  583 (667)
                      |+++.+.. +.+...+..+...+.+.|++++|.++++++.+. ........+..++.+|.+.|++++|...++++ ...|
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p  280 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYP  280 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            99998864 224557778888999999999999999999873 11122456788999999999999999999987 4677


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh--cCCchHHHHHHHHhhhCCCccCCCee
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA--VRRWKDAENVRDVMDEKGLRKAPAHS  657 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~~~~~~~~~~~~~  657 (667)
                      +...+..++..+.+.|++++|...++++++..|+++.....+...+..  .|+.++|...+++|.+++++++|.+.
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~~~  356 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPRYR  356 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCCEE
Confidence            777778888999999999999999999999999976544334333322  56999999999999999999888753

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

Probab=99.87  E-value=2.1e-16  Score=158.35  Aligned_cols=633  Identities=11%  Similarity=0.090  Sum_probs=419.7

Q ss_pred             CCCCCCCCCC-hhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc--hhhhh-hHhhhcCChhhHHHhhccc---CCCCc
Q 005966            3 GPSHHTLPKT-THLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF--THLRS-SLVRAYGHVSNVRILFDEM---SERSS   75 (667)
Q Consensus         3 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~-~~~~~~g~~~~A~~~~~~~---~~~~~   75 (667)
                      +|...+.++. ...+...+......|+++.|..++..+++.+|.+  +|-.. .+|-..|+.+++...+--+   .+.|.
T Consensus       128 ~~r~~~~l~~~l~~ll~eAN~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~  207 (895)
T KOG2076|consen  128 RSRGKSKLAPELRQLLGEANNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDY  207 (895)
T ss_pred             CCCcccccCHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCh
Confidence            4555554433 4556666666667799999999999999999988  55444 9999999999998866543   34477


Q ss_pred             chHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHH---
Q 005966           76 FLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCL---  152 (667)
Q Consensus        76 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l---  152 (667)
                      .-|..+.....+.|++++|.-.|.+.++.  .|++...+-.-...|-+.|+...|...|.++.....+.|..-...+   
T Consensus       208 e~W~~ladls~~~~~i~qA~~cy~rAI~~--~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~  285 (895)
T KOG2076|consen  208 ELWKRLADLSEQLGNINQARYCYSRAIQA--NPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRR  285 (895)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHH
Confidence            88999999999999999999999999987  5666666667778888999999999999999998754444433333   


Q ss_pred             -HHHHHhcCCHHHHHHHhcccCC--C---ChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHH-----------
Q 005966          153 -IAMYMNFGEVKAARKVFDAMWE--H---SVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASV-----------  215 (667)
Q Consensus       153 -i~~~~~~g~~~~A~~~~~~~~~--~---~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-----------  215 (667)
                       +..+...++-+.|.+.++....  .   +...++.++..+.+...++.|......+.....++|..-+           
T Consensus       286 ~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~  365 (895)
T KOG2076|consen  286 VAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPN  365 (895)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhcccccc
Confidence             4556667777999988887644  2   4567999999999999999999998888763333332222           


Q ss_pred             ---------------HHHHHHcccCcchHHHHHHHHHHHhcCC--CcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---
Q 005966          216 ---------------VSVLPACGYLKEIEMGRMIHELVAGGRL--GKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---  275 (667)
Q Consensus       216 ---------------~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---  275 (667)
                                     .-+.-++.+.+..+....+.......+.  .-++..|..+.++|...|++.+|+.+|..+..   
T Consensus       366 ~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~  445 (895)
T KOG2076|consen  366 ALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREG  445 (895)
T ss_pred             ccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCcc
Confidence                           1233345566667777777777777763  34567889999999999999999999999876   


Q ss_pred             -CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChh-hHHHHHHHhhcccchHHHHHHHHHHH--------HhcCC
Q 005966          276 -RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL-TIGSLLSACSSLYYLKRGRSLHAWTI--------KQNLE  345 (667)
Q Consensus       276 -~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~--------~~~~~  345 (667)
                       .+...|--+..+|...|.+++|.+.|+.....  .|+.. .-.+|-..+.+.|+.++|.+.+..+.        ..+..
T Consensus       446 ~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~  523 (895)
T KOG2076|consen  446 YQNAFVWYKLARCYMELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWE  523 (895)
T ss_pred             ccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhcccc
Confidence             46678889999999999999999999998874  45433 33444455777888998888887743        22345


Q ss_pred             CCchHHhHHHHHHHhcCCHHHHHHHHhccCCC--------------------------CcccHHHHHHHHHhCCChHHHH
Q 005966          346 CEVIVETALIDMYAKCNLVKLSFQVFARTSKK--------------------------KTVPWNAILAGCVHNGLARKAV  399 (667)
Q Consensus       346 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~--------------------------~~~~~~~li~~~~~~~~~~~A~  399 (667)
                      |+........+.+...|+.++-...-..+..+                          +.......+.+-.+.++.....
T Consensus       524 ~e~ri~~~r~d~l~~~gk~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~  603 (895)
T KOG2076|consen  524 PERRILAHRCDILFQVGKREEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVME  603 (895)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhh
Confidence            55566666677778888776644433222100                          0001112222222222211111


Q ss_pred             H------HHHHHHHCCCCCCHH--HHHHHHHHHhCcCCHHHHHHHHHHHHHhCC--CCCc---hHHHHHHHHHHhcCCHH
Q 005966          400 E------LFRQMLVEVVEPNDA--TLNSLLPAYAILADLQQAMNIHCYLIRYGF--LSVV---EVSTGLIDIYSKCGSLE  466 (667)
Q Consensus       400 ~------~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~---~~~~~l~~~~~~~g~~~  466 (667)
                      +      .+.--...|+..+..  -+.-++.++++.+.+++|..+...+.....  .++.   ..-...+.+....+++.
T Consensus       604 ~~l~d~~~~~~~e~~~Lsiddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~  683 (895)
T KOG2076|consen  604 KALSDGTEFRAVELRGLSIDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPG  683 (895)
T ss_pred             hcccchhhhhhhhhccCcHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHH
Confidence            1      111111123333332  345566677888888888888877765432  2222   23345556667788888


Q ss_pred             HHHHHHhhCCCC-----CC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHH
Q 005966          467 SAHKIFSEIPIK-----DK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE--VTFTSALHACSHGGLLDEGLD  538 (667)
Q Consensus       467 ~A~~~~~~~~~~-----~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~g~~~~A~~  538 (667)
                      .|.+.++.+...     .| -...||..++.+.+.++-.--.+.+......  .|+.  ........-....+.+..|+.
T Consensus       684 ~a~~~lR~~i~~~~~~~~~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~~--~~~~~~~l~~i~gh~~~~~~s~~~Al~  761 (895)
T KOG2076|consen  684 DAFSYLRSVITQFQFYLDVYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLVK--NKDDTPPLALIYGHNLFVNASFKHALQ  761 (895)
T ss_pred             HHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc--CccCCcceeeeechhHhhccchHHHHH
Confidence            888888877665     22 2346666666666655544444444443332  2222  222222233456678888888


Q ss_pred             HHHHhHHhcCCCCchhHHHH-HHHHHh----------hcCChHHHHHHHHhCC--CCC--CHHHHHHHHHHHHhcCCHHH
Q 005966          539 LFNFMLENHQTCSRADHYTC-IVDLLG----------RAGRLDEAYDLIRTMP--LKP--THAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       539 ~~~~~~~~~~~~~~~~~~~~-l~~~~~----------~~g~~~~A~~~~~~~~--~~p--~~~~~~~l~~~~~~~g~~~~  603 (667)
                      .+-.+....   |+....+. ++-++.          |.-..-+++.++.+..  ..+  ...++..++++|..-|-...
T Consensus       762 ~y~ra~~~~---pd~Pl~nl~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~L  838 (895)
T KOG2076|consen  762 EYMRAFRQN---PDSPLINLCLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHL  838 (895)
T ss_pred             HHHHHHHhC---CCCcHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHH
Confidence            877776633   44333332 222221          1112344555554441  222  45678889999999999999


Q ss_pred             HHHHHHHhhccCCCCC------------chHHHHHHHHhhcCCchHHHHHHHH
Q 005966          604 GEVAAKWLFELEPENP------------GNYVLLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~------------~~~~~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      |...|+++++..|.+.            .+-+.|.-+|..+|+...|.+++++
T Consensus       839 A~~YYekvL~~~p~~~~~~~~d~~dLrkeAA~NL~LIY~~SGn~~lArqil~k  891 (895)
T KOG2076|consen  839 AVSYYEKVLEVSPKDVTDPKEDNYDLRKEAAYNLHLIYKKSGNMQLARQILEK  891 (895)
T ss_pred             HHHHHHHHhCCCccccccccCCcccHHHHHHhhhhhhhccCCcHHHHHHHHHh
Confidence            9999999999876532            1455677789999999999998865

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

Probab=99.87  E-value=9.3e-16  Score=147.82  Aligned_cols=626  Identities=12%  Similarity=0.027  Sum_probs=473.1

Q ss_pred             ChhHHHHHHHHhh-----ccCChhhHhHHHHHHHHhCCCc--hhhhh-hHhhhcCChhhHHHhhcccC---CCCcchHHH
Q 005966           12 TTHLVIKLVQQYA-----ATKSIAGTKQLHAFIITSGPLF--THLRS-SLVRAYGHVSNVRILFDEMS---ERSSFLYNT   80 (667)
Q Consensus        12 ~~~~~~~~~~~~~-----~~~~~~~a~~~~~~~~~~~~~~--~~~~~-~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~   80 (667)
                      |+..|..=+++-.     .++++..|+-++..+.+.+|.+  ..+.+ .+--..|++..|+.+..+-+   .++...|--
T Consensus       245 DpkgYLtdL~sm~p~~~~dl~DikKaR~llKSvretnP~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~cprSeDvWLe  324 (913)
T KOG0495|consen  245 DPKGYLTDLNSMIPTSGGDLEDIKKARLLLKSVRETNPKHPPGWIASARLEEVAGKLSVARNLIMKGCEECPRSEDVWLE  324 (913)
T ss_pred             CchHHHhHHHhcCCCccCcHHHHHHHHHHHHHHHhcCCCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhCCchHHHHHH
Confidence            3455555555543     2456778888888899999987  44444 77777799999998887644   345555543


Q ss_pred             HHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC
Q 005966           81 VMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFG  160 (667)
Q Consensus        81 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  160 (667)
                      -+    +....+.|-.+.....+.  +|.++..|.-...   -..+...=..++...++.- +.++..|-.    -....
T Consensus       325 ai----RLhp~d~aK~vvA~Avr~--~P~Sv~lW~kA~d---LE~~~~~K~RVlRKALe~i-P~sv~LWKa----AVelE  390 (913)
T KOG0495|consen  325 AI----RLHPPDVAKTVVANAVRF--LPTSVRLWLKAAD---LESDTKNKKRVLRKALEHI-PRSVRLWKA----AVELE  390 (913)
T ss_pred             HH----hcCChHHHHHHHHHHHHh--CCCChhhhhhHHh---hhhHHHHHHHHHHHHHHhC-CchHHHHHH----HHhcc
Confidence            33    233556677777777765  4444444433332   2233444456777777663 555555543    34556


Q ss_pred             CHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHH-
Q 005966          161 EVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVA-  239 (667)
Q Consensus       161 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-  239 (667)
                      ..++|.-++.+..+--.. -.-|.-+|.+..-++.|..+++..++. ++.+...|.+....=-..|..+...++.+..+ 
T Consensus       391 ~~~darilL~rAveccp~-s~dLwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~  468 (913)
T KOG0495|consen  391 EPEDARILLERAVECCPQ-SMDLWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLS  468 (913)
T ss_pred             ChHHHHHHHHHHHHhccc-hHHHHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            667787777766442111 122344566677788999999998875 67778888887777778888888888876543 


Q ss_pred             ---hcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC------CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCC
Q 005966          240 ---GGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE------RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVR  310 (667)
Q Consensus       240 ---~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  310 (667)
                         ..|+..+...|-.=...|-+.|.+-.+..+...+..      .--.+|+.-...|.+.+.++-|..+|....+. .+
T Consensus       469 ~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqv-fp  547 (913)
T KOG0495|consen  469 ELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQV-FP  547 (913)
T ss_pred             HHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhh-cc
Confidence               467778888888888888888888888888877653      23467888889999999999999999888774 23


Q ss_pred             CChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCc---ccHHHHHH
Q 005966          311 PNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKT---VPWNAILA  387 (667)
Q Consensus       311 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~  387 (667)
                      -+...+......--..|..+....++..+...- +-....+-.....+-..|++..|+.++....+.++   ..|-.-+.
T Consensus       548 ~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavK  626 (913)
T KOG0495|consen  548 CKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVK  626 (913)
T ss_pred             chhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHH
Confidence            344555555555566788888888888887764 34455666667777888999999999988764443   34888888


Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHH
Q 005966          388 GCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLES  467 (667)
Q Consensus       388 ~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  467 (667)
                      ....+..++.|..+|.+...  ..|+...|..-+..--..+..++|.+++++.++.- +.-...|-.+.+.+.+.++++.
T Consensus       627 le~en~e~eraR~llakar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~  703 (913)
T KOG0495|consen  627 LEFENDELERARDLLAKARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEM  703 (913)
T ss_pred             HhhccccHHHHHHHHHHHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHH
Confidence            88999999999999998875  56777777766666677899999999998887753 5567788899999999999999


Q ss_pred             HHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 005966          468 AHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLEN  546 (667)
Q Consensus       468 A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  546 (667)
                      |.+.|..-...-|+ +..|-.+...-.+.|+.-+|..++++.+-.++ -|...|...+..-.+.|..+.|..+..++++ 
T Consensus       704 aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNP-k~~~lwle~Ir~ElR~gn~~~a~~lmakALQ-  781 (913)
T KOG0495|consen  704 AREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNP-KNALLWLESIRMELRAGNKEQAELLMAKALQ-  781 (913)
T ss_pred             HHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCC-CcchhHHHHHHHHHHcCCHHHHHHHHHHHHH-
Confidence            99999987777675 46788888888889999999999999998763 3677899999999999999999999999988 


Q ss_pred             cCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          547 HQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       547 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                       ..+.+...|.--|.+..+.++-..+.+.+++..  -|+..+..+...+....+++.|...|++++..+|++.++|..+-
T Consensus       782 -ecp~sg~LWaEaI~le~~~~rkTks~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d~GD~wa~fy  858 (913)
T KOG0495|consen  782 -ECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPDNGDAWAWFY  858 (913)
T ss_pred             -hCCccchhHHHHHHhccCcccchHHHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCccchHHHHHH
Confidence             676777889989999999999888888888875  35667777888889999999999999999999999999999999


Q ss_pred             HHHhhcCCchHHHHHHHHhhhCCCccCCCeeEEEeCCEe
Q 005966          627 KLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNIL  665 (667)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  665 (667)
                      ..+...|.-++-.+++.++....  +.-|..|..|...|
T Consensus       859 kfel~hG~eed~kev~~~c~~~E--P~hG~~W~avSK~i  895 (913)
T KOG0495|consen  859 KFELRHGTEEDQKEVLKKCETAE--PTHGELWQAVSKDI  895 (913)
T ss_pred             HHHHHhCCHHHHHHHHHHHhccC--CCCCcHHHHHhhhH
Confidence            99999999999999999998875  44577777766554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.86  E-value=5.9e-18  Score=178.81  Aligned_cols=333  Identities=12%  Similarity=0.025  Sum_probs=244.3

Q ss_pred             HHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHH
Q 005966          280 TWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYA  359 (667)
Q Consensus       280 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  359 (667)
                      ....++..+.+.|++++|..+++........+. ..+..+..+....|+.+.|...++.+.... +.+...+..+...+.
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~-~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~  121 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNGR-DLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLL  121 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCch-hHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHH
Confidence            344556667777777777777777766533332 233333344555777777777777776654 444566777788888


Q ss_pred             hcCCHHHHHHHHhccCC---CCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHH
Q 005966          360 KCNLVKLSFQVFARTSK---KKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNI  436 (667)
Q Consensus       360 ~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  436 (667)
                      ..|++++|...+++...   .+...+..+...+...|++++|...++++......+.. .+.. +..+...|++++|...
T Consensus       122 ~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~~~-a~~~-~~~l~~~g~~~eA~~~  199 (656)
T PRK15174        122 KSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPRGD-MIAT-CLSFLNKSRLPEDHDL  199 (656)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCCHH-HHHH-HHHHHHcCCHHHHHHH
Confidence            88888888888887753   33445788888899999999999999888765333222 2222 3347788999999999


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHH----HHHHHHHHHHc
Q 005966          437 HCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGET----AVSLFKEMVQS  511 (667)
Q Consensus       437 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~----a~~~~~~m~~~  511 (667)
                      ++.+.+....++......+...+.+.|++++|...++++....|+ ...+..+...+...|++++    |...|++..+.
T Consensus       200 ~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l  279 (656)
T PRK15174        200 ARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQF  279 (656)
T ss_pred             HHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhh
Confidence            888877653344455555677888899999999999988876654 5677788888999999885    78999998886


Q ss_pred             CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHH-HH
Q 005966          512 GVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAV-WG  589 (667)
Q Consensus       512 ~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~-~~  589 (667)
                      . +.+...+..+...+...|++++|...++++.+.  .+.+...+..+..++.+.|++++|+..++++ ...|+... +.
T Consensus       280 ~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~~  356 (656)
T PRK15174        280 N-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWNR  356 (656)
T ss_pred             C-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHHH
Confidence            3 224567888888899999999999999998873  3344566777888999999999999999887 45665543 34


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCCC
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      .+..++...|+.++|+..++++++..|++.
T Consensus       357 ~~a~al~~~G~~deA~~~l~~al~~~P~~~  386 (656)
T PRK15174        357 YAAAALLQAGKTSEAESVFEHYIQARASHL  386 (656)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhChhhc
Confidence            456678889999999999999999999864

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.86  E-value=3.3e-19  Score=179.98  Aligned_cols=293  Identities=11%  Similarity=-0.007  Sum_probs=172.7

Q ss_pred             hHhhhcCChhhHHHhhcccCCC---CcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCC---cccHHHHHHHhcccc
Q 005966           52 SLVRAYGHVSNVRILFDEMSER---SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPD---NYTYPIVIKACTDLA  125 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~ll~~~~~~~  125 (667)
                      ..+...|++++|...|.++...   +..+|..+...+...|++++|+..++.+... +..++   ...+..+...+...|
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~-~~~~~~~~~~~~~~La~~~~~~g  121 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSR-PDLTREQRLLALQELGQDYLKAG  121 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcC-CCCCHHHHHHHHHHHHHHHHHCC
Confidence            4445556666666666665422   3345666666666666666666666666654 11111   134555566666666


Q ss_pred             chHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCC--------hhhHHHHHHHHHHcCChhHHH
Q 005966          126 WRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHS--------VVSWNTLISGYFKNAYAKEAL  197 (667)
Q Consensus       126 ~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~--------~~~~~~li~~~~~~~~~~~A~  197 (667)
                      +++.|..+|+.+.+.. +.+..+++.++..+.+.|++++|.+.++.+.+.+        ...|..+...+.+.|++++|.
T Consensus       122 ~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  200 (389)
T PRK11788        122 LLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAAR  200 (389)
T ss_pred             CHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHH
Confidence            6666666666666543 3455566666666666666666666666653321        112344555566666666666


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--
Q 005966          198 VVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--  275 (667)
Q Consensus       198 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  275 (667)
                      ..|+++.+.. ..+...+..+...+.+.|++++|..+++.+.+.+......+++.++.+|...|++++|...++++.+  
T Consensus       201 ~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        201 ALLKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             HHHHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            6666665532 1123345555566666666666666666666543332344566666667777777777777666554  


Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhc---ccchHHHHHHHHHHHHhcCCCCch
Q 005966          276 RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSS---LYYLKRGRSLHAWTIKQNLECEVI  349 (667)
Q Consensus       276 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~  349 (667)
                      |+...+..++..+.+.|++++|..+++++.+.  .|+..++..++..+..   .|+.+++..+++.+.+.++.+++.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            55555566666666777777777777666553  4666666666655443   346666666666666666555544

>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=176.55  Aligned_cols=232  Identities=12%  Similarity=0.038  Sum_probs=153.9

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          383 NAILAGCVHNGLARKAVELFRQMLVEVVEPN-DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       383 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      +.+...+...|++++|+..|++..+.  .|+ ...|..+...+...|++++|...++...+.. +.+...+..+...+..
T Consensus       335 ~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-p~~~~~~~~lg~~~~~  411 (615)
T TIGR00990       335 NLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFDKALKLN-SEDPDIYYHRAQLHFI  411 (615)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHH
Confidence            33444455556666666666665543  333 3355555566666666777776666665553 3456667777777778


Q ss_pred             cCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLF  540 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~  540 (667)
                      .|++++|...|++.....|+ ...+..+...+.+.|++++|+..|++.++.. +.+...+..+...+...|++++|+..|
T Consensus       412 ~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~  490 (615)
T TIGR00990       412 KGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-PEAPDVYNYYGELLLDQNKFDEAIEKF  490 (615)
T ss_pred             cCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHH
Confidence            88888888888877766654 4566677777888888888888888887752 224567777778888888888888888


Q ss_pred             HHhHHhcCCC-C---ch-hHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          541 NFMLENHQTC-S---RA-DHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       541 ~~~~~~~~~~-~---~~-~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      ++..+...-. +   +. ..++.....+...|++++|.+++++. ...|+ ...+..++..+...|++++|+..++++.+
T Consensus       491 ~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~  570 (615)
T TIGR00990       491 DTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVATMAQLLLQQGDVDEALKLFERAAE  570 (615)
T ss_pred             HHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            8877622110 0   10 01112222334468888888888875 45554 44677788888888888888888888888


Q ss_pred             cCCCC
Q 005966          614 LEPEN  618 (667)
Q Consensus       614 ~~p~~  618 (667)
                      +.+..
T Consensus       571 l~~~~  575 (615)
T TIGR00990       571 LARTE  575 (615)
T ss_pred             HhccH
Confidence            87753

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.85  E-value=4.6e-17  Score=175.97  Aligned_cols=123  Identities=11%  Similarity=0.034  Sum_probs=63.1

Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhc
Q 005966          181 NTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKC  260 (667)
Q Consensus       181 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  260 (667)
                      .-.+......|+.++|++++.+..... ..+...+..+..++...|++++|..+++..++.. +.+...+..++.++...
T Consensus        19 ~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~   96 (765)
T PRK10049         19 ADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADA   96 (765)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHC
Confidence            334445556677777777776665411 2222334555555555555555555555555442 22334444555555555


Q ss_pred             CCHHHHHHHHhhcCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHh
Q 005966          261 GSVNEARLVFDRMSE--R-DVVTWTSMINGYALNGDVRNALGLFQLMQF  306 (667)
Q Consensus       261 g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  306 (667)
                      |++++|...++++.+  | +.. +..+...+...|+.++|+..++++.+
T Consensus        97 g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~  144 (765)
T PRK10049         97 GQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALP  144 (765)
T ss_pred             CCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555555555443  2 222 44444555555555555555555544

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.85  E-value=3.1e-17  Score=177.34  Aligned_cols=398  Identities=9%  Similarity=-0.000  Sum_probs=225.8

Q ss_pred             HHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHh
Q 005966          214 SVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYAL  290 (667)
Q Consensus       214 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~  290 (667)
                      -..-.+......|+.++|.+++....... +.+...+..+...+.+.|++++|..+|++..+   .+...+..+...+..
T Consensus        17 ~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~l~~   95 (765)
T PRK10049         17 QIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILTLAD   95 (765)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            33444445556666666666666665422 33344566666666666677766666666433   234455556666666


Q ss_pred             CCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHH
Q 005966          291 NGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQV  370 (667)
Q Consensus       291 ~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  370 (667)
                      .|++++|+..+++..+.  .|+...+..+..++...|+.+.|...++.+.+.. +.+..++..+...+...+..+.|+..
T Consensus        96 ~g~~~eA~~~l~~~l~~--~P~~~~~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l~~~~~~e~Al~~  172 (765)
T PRK10049         96 AGQYDEALVKAKQLVSG--APDKANLLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQALRNNRLSAPALGA  172 (765)
T ss_pred             CCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCChHHHHHH
Confidence            66666666666666554  2322224444444555555555555555555443 22233333344444444444444444


Q ss_pred             HhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH------HHHHHHHHHH-----hCcCCH---HHHHHH
Q 005966          371 FARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPND------ATLNSLLPAY-----AILADL---QQAMNI  436 (667)
Q Consensus       371 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~------~~~~~ll~~~-----~~~~~~---~~a~~~  436 (667)
                      ++....                                  .|+.      .....++...     ...+++   ++|++.
T Consensus       173 l~~~~~----------------------------------~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~  218 (765)
T PRK10049        173 IDDANL----------------------------------TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQ  218 (765)
T ss_pred             HHhCCC----------------------------------CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHH
Confidence            444332                                  1111      0011111111     111222   556666


Q ss_pred             HHHHHHh-CCCCCch-HHH-H---HHHHHHhcCCHHHHHHHHhhCCCCCCC-cc-hHHHHHHHHHHcCChHHHHHHHHHH
Q 005966          437 HCYLIRY-GFLSVVE-VST-G---LIDIYSKCGSLESAHKIFSEIPIKDKD-IV-VWSVIIAGYGMHGHGETAVSLFKEM  508 (667)
Q Consensus       437 ~~~~~~~-~~~~~~~-~~~-~---l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~m  508 (667)
                      ++.+.+. ...|+.. .+. .   .+..+...|++++|+..|+.+...+++ +. .-..+...+...|++++|+..|+++
T Consensus       219 ~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~  298 (765)
T PRK10049        219 YDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTEL  298 (765)
T ss_pred             HHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHH
Confidence            6666543 1122211 111 1   122344567777777777777765422 11 1122455677777888888887777


Q ss_pred             HHcCCCC---CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC----------CCCc---hhHHHHHHHHHhhcCChHHH
Q 005966          509 VQSGVQP---NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQ----------TCSR---ADHYTCIVDLLGRAGRLDEA  572 (667)
Q Consensus       509 ~~~~~~p---~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A  572 (667)
                      .+.....   .......+..++...|++++|.++++.+.+...          ..|+   ...+..++..+...|++++|
T Consensus       299 l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA  378 (765)
T PRK10049        299 FYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQA  378 (765)
T ss_pred             hhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHH
Confidence            6543111   123345555567777888888888777766211          0122   12345566777788888888


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          573 YDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       573 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +++++++ ...| +...+..++..+...|+.++|+..+++++++.|+++..+..++.++...|++++|.+.++++.+..
T Consensus       379 ~~~l~~al~~~P~n~~l~~~lA~l~~~~g~~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~  457 (765)
T PRK10049        379 EMRARELAYNAPGNQGLRIDYASVLQARGWPRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVARE  457 (765)
T ss_pred             HHHHHHHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC
Confidence            8888876 3344 566777777778888888888888888888888888888888888888888888888888877653

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=9.2e-18  Score=177.35  Aligned_cols=329  Identities=11%  Similarity=-0.019  Sum_probs=269.0

Q ss_pred             hHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCC---CCcccHHHHHHHHHh
Q 005966          315 TIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSK---KKTVPWNAILAGCVH  391 (667)
Q Consensus       315 t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~  391 (667)
                      -...++..+.+.|+.+.|..++.........+. .....++......|+++.|...|+++..   .+...|..+...+..
T Consensus        44 ~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~-~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~  122 (656)
T PRK15174         44 NIILFAIACLRKDETDVGLTLLSDRVLTAKNGR-DLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLK  122 (656)
T ss_pred             CHHHHHHHHHhcCCcchhHHHhHHHHHhCCCch-hHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            355667778889999999999999988775544 4444555666779999999999998863   344558888999999


Q ss_pred             CCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHH
Q 005966          392 NGLARKAVELFRQMLVEVVEPN-DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHK  470 (667)
Q Consensus       392 ~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  470 (667)
                      .|++++|+..+++....  .|+ ...+..+...+...|++++|...++.+......+ ...+..+ ..+.+.|++++|..
T Consensus       123 ~g~~~~Ai~~l~~Al~l--~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~~-~~a~~~~-~~l~~~g~~~eA~~  198 (656)
T PRK15174        123 SKQYATVADLAEQAWLA--FSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPPR-GDMIATC-LSFLNKSRLPEDHD  198 (656)
T ss_pred             cCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCCC-HHHHHHH-HHHHHcCCHHHHHH
Confidence            99999999999999874  444 5677788889999999999999999887765333 3333333 34788999999999


Q ss_pred             HHhhCCCCCC--CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH----HHHHHHHhH
Q 005966          471 IFSEIPIKDK--DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE----GLDLFNFML  544 (667)
Q Consensus       471 ~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~----A~~~~~~~~  544 (667)
                      .++.+....|  +...+..+..++...|++++|+..++++.+.. +.+...+..+...+...|++++    |...++++.
T Consensus       199 ~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al  277 (656)
T PRK15174        199 LARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHAL  277 (656)
T ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHH
Confidence            9999876542  33444556778899999999999999999864 3356678888899999999986    899999998


Q ss_pred             HhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          545 ENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       545 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                      +  ..|.+...+..++..+.+.|++++|+..+++. ...| +...+..+..++...|++++|+..++++++..|+++..+
T Consensus       278 ~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~~P~~~~~~  355 (656)
T PRK15174        278 Q--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARALRQVGQYTAASDEFVQLAREKGVTSKWN  355 (656)
T ss_pred             h--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccchHHH
Confidence            8  34456778999999999999999999999987 4556 456778888899999999999999999999999988777


Q ss_pred             HHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          623 VLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      ..++.++...|++++|.+.+++..+...+
T Consensus       356 ~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        356 RYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            77899999999999999999998876544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.84  E-value=3.5e-16  Score=165.40  Aligned_cols=441  Identities=10%  Similarity=0.005  Sum_probs=291.1

Q ss_pred             hccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChh-hHHHH--HHHHHHcCChhHHH
Q 005966          121 CTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVV-SWNTL--ISGYFKNAYAKEAL  197 (667)
Q Consensus       121 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~l--i~~~~~~~~~~~A~  197 (667)
                      ..+.|++..|...|++..+..+.-...++ .++..+...|+.++|+..+++...++.. .+..+  ...+...|++++|+
T Consensus        44 ~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Ai  122 (822)
T PRK14574         44 RARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQAL  122 (822)
T ss_pred             HHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHH
Confidence            34677777888888777776522212334 6777777778888888888877665333 33333  44666778888888


Q ss_pred             HHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--
Q 005966          198 VVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--  275 (667)
Q Consensus       198 ~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--  275 (667)
                      ++|+++.+.  .|+                                  +...+..++..+...++.++|++.++++.+  
T Consensus       123 ely~kaL~~--dP~----------------------------------n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d  166 (822)
T PRK14574        123 ALWQSSLKK--DPT----------------------------------NPDLISGMIMTQADAGRGGVVLKQATELAERD  166 (822)
T ss_pred             HHHHHHHhh--CCC----------------------------------CHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC
Confidence            888888773  443                                  455556677788888888888888888876  


Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHH
Q 005966          276 RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALI  355 (667)
Q Consensus       276 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  355 (667)
                      |+...+..++..+...++..+|++.++++.+.. +-+...+..+..++.+.|-...|.++...      .|+..+-....
T Consensus       167 p~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-P~n~e~~~~~~~~l~~~~~~~~a~~l~~~------~p~~f~~~~~~  239 (822)
T PRK14574        167 PTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-PTSEEVLKNHLEILQRNRIVEPALRLAKE------NPNLVSAEHYR  239 (822)
T ss_pred             cchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCcHHHHHHHHh------CccccCHHHHH
Confidence            444444333333334556656888999888753 22344556666666666666666655443      12111111110


Q ss_pred             HHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCC---hHHHHHHHHHHHHC-CCCCCHH-----HHHHHHHHHhC
Q 005966          356 DMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGL---ARKAVELFRQMLVE-VVEPNDA-----TLNSLLPAYAI  426 (667)
Q Consensus       356 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~---~~~A~~~~~~m~~~-g~~p~~~-----~~~~ll~~~~~  426 (667)
                      .     =+.+.+.+.......+..          ....+   .+.|+.-++.+... +..|...     ...=.+-++..
T Consensus       240 ~-----l~~~~~a~~vr~a~~~~~----------~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~  304 (822)
T PRK14574        240 Q-----LERDAAAEQVRMAVLPTR----------SETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLV  304 (822)
T ss_pred             H-----HHHHHHHHHHhhcccccc----------cchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHH
Confidence            0     001111111111100000          00111   24455555555432 2223221     11223456677


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-------CCcchHHHHHHHHHHcCChH
Q 005966          427 LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-------KDIVVWSVIIAGYGMHGHGE  499 (667)
Q Consensus       427 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------~~~~~~~~l~~~~~~~~~~~  499 (667)
                      .++..++++.++.+...+.+....+-..+.++|...+++++|..+|..+....       ++......|.-++...++++
T Consensus       305 r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~  384 (822)
T PRK14574        305 RHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLD  384 (822)
T ss_pred             hhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHH
Confidence            88888888888888888877677788888899999999999999998875532       12233467888899999999


Q ss_pred             HHHHHHHHHHHcCC-----------CCCH--H-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh
Q 005966          500 TAVSLFKEMVQSGV-----------QPNE--V-TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR  565 (667)
Q Consensus       500 ~a~~~~~~m~~~~~-----------~p~~--~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  565 (667)
                      +|..+++++.+.-+           .||.  . .+..++..+...|++.+|++.++.+..  ..|-|......+.+.+..
T Consensus       385 ~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le~l~~--~aP~n~~l~~~~A~v~~~  462 (822)
T PRK14574        385 KAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLEDLSS--TAPANQNLRIALASIYLA  462 (822)
T ss_pred             HHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHh
Confidence            99999999887321           1232  2 344556678889999999999999977  566678889999999999


Q ss_pred             cCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          566 AGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       566 ~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                      .|.+.+|.+.++.. ...|+ ..+....+.++...|++++|....+++++..|+++.+-
T Consensus       463 Rg~p~~A~~~~k~a~~l~P~~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~~~~  521 (822)
T PRK14574        463 RDLPRKAEQELKAVESLAPRSLILERAQAETAMALQEWHQMELLTDDVISRSPEDIPSQ  521 (822)
T ss_pred             cCCHHHHHHHHHHHhhhCCccHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCchhHH
Confidence            99999999999776 46664 55677788888899999999999999999999988554

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.82  E-value=2e-15  Score=138.42  Aligned_cols=443  Identities=12%  Similarity=0.093  Sum_probs=285.1

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhc--cccchH-HHHHHHHHHHHhCCCCchHHHHH
Q 005966           75 SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACT--DLAWRK-LGIALHGRVLITGFDMDTFVGNC  151 (667)
Q Consensus        75 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~--~~~~~~-~a~~~~~~~~~~~~~~~~~~~~~  151 (667)
                      +.+-|.|++. ..+|...++.-+|+.|.+. |++.+...-..+++..+  ...+.- .-++.|-.|...| ..+..+|  
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-ISSREVKDSCILYERMRSE-NVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFG-EDSTSSW--  190 (625)
T ss_pred             hcchhHHHHH-HhhcccchhHHHHHHHHhc-CCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhccccc-ccccccc--
Confidence            4466666654 4578899999999999998 77777766555554433  222222 2233344444444 2222232  


Q ss_pred             HHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHH
Q 005966          152 LIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMG  231 (667)
Q Consensus       152 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  231 (667)
                            +.|+..+   ++-+...++..+|..||.++++--..+.|.+++++......+.+..+||.+|.+-+-..+    
T Consensus       191 ------K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----  257 (625)
T KOG4422|consen  191 ------KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----  257 (625)
T ss_pred             ------ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----
Confidence                  3454444   444555567789999999999999999999999999998899999999999988544333    


Q ss_pred             HHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCC
Q 005966          232 RMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRP  311 (667)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  311 (667)
                      +++..+|....+.||..|+|+++.+..+.|+++.|.+                           .|++++.+|++.|+.|
T Consensus       258 K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~---------------------------aalqil~EmKeiGVeP  310 (625)
T KOG4422|consen  258 KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDARK---------------------------AALQILGEMKEIGVEP  310 (625)
T ss_pred             HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHHHH---------------------------HHHHHHHHHHHhCCCc
Confidence            7888999999999999999999999999998887754                           3455666666666666


Q ss_pred             ChhhHHHHHHHhhcccchHHH-HHHHHHHHH----hcC----CCCchHHhHHHHHHHhcCCHHHHHHHHhccCC------
Q 005966          312 NSLTIGSLLSACSSLYYLKRG-RSLHAWTIK----QNL----ECEVIVETALIDMYAKCNLVKLSFQVFARTSK------  376 (667)
Q Consensus       312 ~~~t~~~ll~~~~~~~~~~~a-~~~~~~~~~----~~~----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~------  376 (667)
                      ...+|..+|..+++.++..+. ..+...+..    ..+    +.+...|..-+..|.+..+.+.|..+-.-...      
T Consensus       311 sLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~  390 (625)
T KOG4422|consen  311 SLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKF  390 (625)
T ss_pred             chhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhh
Confidence            666666666666665555432 222222221    111    22334455555566666666666655443321      


Q ss_pred             --CC---cccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchH
Q 005966          377 --KK---TVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEV  451 (667)
Q Consensus       377 --~~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  451 (667)
                        ++   ..-|..+....++....+.-+.+|+.|.-.-.-|+..+...++++....+.++-..++|.++...|.......
T Consensus       391 ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l  470 (625)
T KOG4422|consen  391 IGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDL  470 (625)
T ss_pred             cChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHH
Confidence              11   1116667777888888999999999999888889999999999999999999999999999998885444433


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcc---hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 005966          452 STGLIDIYSKCGSLESAHKIFSEIPIKDKDIV---VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACS  528 (667)
Q Consensus       452 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  528 (667)
                      ..-+...+++..             -. |+..   -+.....-|+ ..-.+.....-.+|.+....|  ...+.++-.+.
T Consensus       471 ~eeil~~L~~~k-------------~h-p~tp~r~Ql~~~~ak~a-ad~~e~~e~~~~R~r~~~~~~--t~l~~ia~Ll~  533 (625)
T KOG4422|consen  471 REEILMLLARDK-------------LH-PLTPEREQLQVAFAKCA-ADIKEAYESQPIRQRAQDWPA--TSLNCIAILLL  533 (625)
T ss_pred             HHHHHHHHhcCC-------------CC-CCChHHHHHHHHHHHHH-HHHHHHHHhhHHHHHhccCCh--hHHHHHHHHHH
Confidence            333333333222             10 2222   1111111111 111122222334555554443  34555555577


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCchhHHHH---HHHHHhhcCChHHHHHHHHhC
Q 005966          529 HGGLLDEGLDLFNFMLENHQTCSRADHYTC---IVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~---l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      +.|..++|.+++..+.+.+.--|-....++   +++.-.+..+...|..+++-|
T Consensus       534 R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a  587 (625)
T KOG4422|consen  534 RAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLA  587 (625)
T ss_pred             HcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            888888888888888664444454444554   445556677888888888777

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.81  E-value=5.9e-15  Score=156.23  Aligned_cols=438  Identities=11%  Similarity=0.003  Sum_probs=271.7

Q ss_pred             hHhhhcCChhhHHHhhcccCCCCcc---hHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchH
Q 005966           52 SLVRAYGHVSNVRILFDEMSERSSF---LYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRK  128 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  128 (667)
                      .+..+.|+++.|+..|.+..+.++.   ....++..+...|+.++|+..+++....  .+........+...+...|+++
T Consensus        42 ii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p--~n~~~~~llalA~ly~~~gdyd  119 (822)
T PRK14574         42 IIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSS--MNISSRGLASAARAYRNEKRWD  119 (822)
T ss_pred             HHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccC--CCCCHHHHHHHHHHHHHcCCHH
Confidence            5677889999999999887644332   1237888888889999999999988621  2222333333356777889999


Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChh--hHHHHHHHHHHcCChhHHHHHHHHHHHC
Q 005966          129 LGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVV--SWNTLISGYFKNAYAKEALVVFDWMLKS  206 (667)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~li~~~~~~~~~~~A~~~~~~m~~~  206 (667)
                      .|.++|+++.+.. +.++..+..++..|...++.++|++.++.+.+.+..  .+..++..+...++..+|++.++++.+.
T Consensus       120 ~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~  198 (822)
T PRK14574        120 QALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRL  198 (822)
T ss_pred             HHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh
Confidence            9999999998887 445677778888888899999999999888665443  3333333333355665688888888874


Q ss_pred             CCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-CChhHHHHH-
Q 005966          207 GVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE-RDVVTWTSM-  284 (667)
Q Consensus       207 g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~l-  284 (667)
                        .|+                                  +...+..++..+.+.|-...|.++..+-+. -+...+.-+ 
T Consensus       199 --~P~----------------------------------n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~  242 (822)
T PRK14574        199 --APT----------------------------------SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLE  242 (822)
T ss_pred             --CCC----------------------------------CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHH
Confidence              454                                  333444444444555555555544444332 000000000 


Q ss_pred             ---HHHHH---------hCCCh---HHHHHHHHHHHhc-CCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCc
Q 005966          285 ---INGYA---------LNGDV---RNALGLFQLMQFE-GVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEV  348 (667)
Q Consensus       285 ---i~~~~---------~~~~~---~~a~~~~~~m~~~-~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  348 (667)
                         +.-.+         ...++   +.|+.-++.+... +-.|.....                                
T Consensus       243 ~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~--------------------------------  290 (822)
T PRK14574        243 RDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQAD--------------------------------  290 (822)
T ss_pred             HHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchH--------------------------------
Confidence               00000         01111   2222222332221 111110000                                


Q ss_pred             hHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcC
Q 005966          349 IVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILA  428 (667)
Q Consensus       349 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~  428 (667)
                       ...+.                            --.+.++...++..++++.|+.|...|.+....+-..+..+|...+
T Consensus       291 -~~~~~----------------------------~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~  341 (822)
T PRK14574        291 -YQRAR----------------------------IDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRR  341 (822)
T ss_pred             -HHHHH----------------------------HHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcC
Confidence             00000                            1123445556666777777777766665544456666667777777


Q ss_pred             CHHHHHHHHHHHHHhC-----CCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-------------Cc---chHHH
Q 005966          429 DLQQAMNIHCYLIRYG-----FLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-------------DI---VVWSV  487 (667)
Q Consensus       429 ~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-------------~~---~~~~~  487 (667)
                      .+++|..++..+....     .+++......|..+|...+++++|..+++.+....|             +.   ..+..
T Consensus       342 ~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l  421 (822)
T PRK14574        342 LPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTL  421 (822)
T ss_pred             CcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHH
Confidence            7777777777665432     122333345667777777777777777776665322             11   23455


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcC
Q 005966          488 IIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG  567 (667)
Q Consensus       488 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  567 (667)
                      ++..+...|+..+|.+.++++.... +-|......+.+.+...|.+.+|++.++.+..  ..+-+..+....+..+...|
T Consensus       422 ~a~~~~~~gdl~~Ae~~le~l~~~a-P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~--l~P~~~~~~~~~~~~al~l~  498 (822)
T PRK14574        422 LVQSLVALNDLPTAQKKLEDLSSTA-PANQNLRIALASIYLARDLPRKAEQELKAVES--LAPRSLILERAQAETAMALQ  498 (822)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hCCccHHHHHHHHHHHHhhh
Confidence            6777889999999999999998864 44777888899999999999999999977765  34445667778888899999


Q ss_pred             ChHHHHHHHHhC-CCCCCHHHHHHHH
Q 005966          568 RLDEAYDLIRTM-PLKPTHAVWGALL  592 (667)
Q Consensus       568 ~~~~A~~~~~~~-~~~p~~~~~~~l~  592 (667)
                      ++++|..+.+++ ...|+......+-
T Consensus       499 e~~~A~~~~~~l~~~~Pe~~~~~~l~  524 (822)
T PRK14574        499 EWHQMELLTDDVISRSPEDIPSQELD  524 (822)
T ss_pred             hHHHHHHHHHHHHhhCCCchhHHHHH
Confidence            999999988777 4555544444433

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

Probab=99.81  E-value=1.1e-17  Score=154.07  Aligned_cols=494  Identities=13%  Similarity=0.098  Sum_probs=295.5

Q ss_pred             CCCCCCCCCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc--hhhh-h--hHhhhcCChhhHHHhhcc----cCCC
Q 005966            3 GPSHHTLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF--THLR-S--SLVRAYGHVSNVRILFDE----MSER   73 (667)
Q Consensus         3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~-~--~~~~~~g~~~~A~~~~~~----~~~~   73 (667)
                      .|...-+..+.++++++++.|.......+|...|+.+++..-.+  ..+. |  ++|.+...+.+|++.+.-    +|.-
T Consensus       191 ~~e~inldltfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsi  270 (840)
T KOG2003|consen  191 LPEMINLDLTFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSI  270 (840)
T ss_pred             chhhccccchHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhcccc
Confidence            34555567788999999999999999999999999999876433  2222 2  899999999999997753    3332


Q ss_pred             C----cchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHH
Q 005966           74 S----SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVG  149 (667)
Q Consensus        74 ~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  149 (667)
                      +    +...+.+...+.+.|++++|+..|+...+.   .|+..+-..++-++...|+.+..++.|..|+.....||..-|
T Consensus       271 nk~~rikil~nigvtfiq~gqy~dainsfdh~m~~---~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddky  347 (840)
T KOG2003|consen  271 NKDMRIKILNNIGVTFIQAGQYDDAINSFDHCMEE---APNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKY  347 (840)
T ss_pred             chhhHHHHHhhcCeeEEecccchhhHhhHHHHHHh---CccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccc
Confidence            2    235666666788999999999999999976   678777666666667788999999999999877655554322


Q ss_pred             HHHHHHHHhcCCHHHHHHHhcccCCCChhhHHH-----HHHHHHHcCC--hhHHHHHHHHHHHCCCCCChHHHHHHHHHc
Q 005966          150 NCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNT-----LISGYFKNAY--AKEALVVFDWMLKSGVEPDCASVVSVLPAC  222 (667)
Q Consensus       150 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-----li~~~~~~~~--~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  222 (667)
                      -.      ...+             |+....|.     .+.-+-+.++  .++++-.--++..--+.||-..        
T Consensus       348 i~------~~dd-------------p~~~ll~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~--------  400 (840)
T KOG2003|consen  348 IK------EKDD-------------PDDNLLNEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAA--------  400 (840)
T ss_pred             cC------CcCC-------------cchHHHHHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhc--------
Confidence            10      0111             11111111     1111111111  1222222222222222332100        


Q ss_pred             ccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHH
Q 005966          223 GYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQ  302 (667)
Q Consensus       223 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~  302 (667)
                        .-     ...++.++.+                   ...+-|.++         .  -.-...+.++|+++.|+++++
T Consensus       401 --g~-----dwcle~lk~s-------------------~~~~la~dl---------e--i~ka~~~lk~~d~~~aieilk  443 (840)
T KOG2003|consen  401 --GC-----DWCLESLKAS-------------------QHAELAIDL---------E--INKAGELLKNGDIEGAIEILK  443 (840)
T ss_pred             --cc-----HHHHHHHHHh-------------------hhhhhhhhh---------h--hhHHHHHHhccCHHHHHHHHH
Confidence              00     0001111110                   000101000         0  001123445555555555555


Q ss_pred             HHHhcCCCCChhhHHHH--HHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcc
Q 005966          303 LMQFEGVRPNSLTIGSL--LSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTV  380 (667)
Q Consensus       303 ~m~~~~~~p~~~t~~~l--l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  380 (667)
                      -+....-+.-+..-+.|  +.-+.-..++..|.+.-+..+...      -|+.-  +....|                  
T Consensus       444 v~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d------ryn~~--a~~nkg------------------  497 (840)
T KOG2003|consen  444 VFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID------RYNAA--ALTNKG------------------  497 (840)
T ss_pred             HHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc------ccCHH--HhhcCC------------------
Confidence            55432211111000000  000000111111111111111000      00000  000000                  


Q ss_pred             cHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 005966          381 PWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYS  460 (667)
Q Consensus       381 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  460 (667)
                            ......|++++|.+.|++.....    ..+..                               ..|+ +.-.+.
T Consensus       498 ------n~~f~ngd~dka~~~ykeal~nd----asc~e-------------------------------alfn-iglt~e  535 (840)
T KOG2003|consen  498 ------NIAFANGDLDKAAEFYKEALNND----ASCTE-------------------------------ALFN-IGLTAE  535 (840)
T ss_pred             ------ceeeecCcHHHHHHHHHHHHcCc----hHHHH-------------------------------HHHH-hcccHH
Confidence                  01123567777777777665432    11111                               1111 122344


Q ss_pred             hcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 005966          461 KCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDL  539 (667)
Q Consensus       461 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~  539 (667)
                      ..|++++|++.|-++...- .+..+.-.+...|....+..+|++++.+.... ++.|+..+..|...|-+.|+-..|.+.
T Consensus       536 ~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlydqegdksqafq~  614 (840)
T KOG2003|consen  536 ALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYDQEGDKSQAFQC  614 (840)
T ss_pred             HhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhhcccchhhhhhh
Confidence            5666677776665543322 45566667778888888999999999888775 455677889999999999999999998


Q ss_pred             HHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHH-hcCCHHHHHHHHHHhhccCCC
Q 005966          540 FNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACV-IHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       540 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      +..--+  -++.+.++...|..-|....-+++|+.+|++. -+.|+..-|..++..|. +.|++.+|...++...+..|+
T Consensus       615 ~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkfpe  692 (840)
T KOG2003|consen  615 HYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKFPE  692 (840)
T ss_pred             hhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCcc
Confidence            877655  67778999999999999999999999999998 48999999998887765 579999999999999999999


Q ss_pred             CCchHHHHHHHHhhcCC
Q 005966          618 NPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       618 ~~~~~~~l~~~~~~~g~  634 (667)
                      |..++..|+.++...|-
T Consensus       693 dldclkflvri~~dlgl  709 (840)
T KOG2003|consen  693 DLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             chHHHHHHHHHhccccc
Confidence            99999999999888774

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

Probab=99.81  E-value=9.6e-15  Score=146.66  Aligned_cols=590  Identities=12%  Similarity=0.037  Sum_probs=390.8

Q ss_pred             hHhhhcCChhhHHHhhcccCCC---CcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchH
Q 005966           52 SLVRAYGHVSNVRILFDEMSER---SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRK  128 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  128 (667)
                      +.....|+.++|.+++.++...   +..+|.+|...|-..|+.++++..+-.+-..  .+.|...|..+.....+.|++.
T Consensus       147 N~lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL--~p~d~e~W~~ladls~~~~~i~  224 (895)
T KOG2076|consen  147 NNLFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHL--NPKDYELWKRLADLSEQLGNIN  224 (895)
T ss_pred             HHHHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhc--CCCChHHHHHHHHHHHhcccHH
Confidence            3344449999999999998543   6679999999999999999999988887765  5567788999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCCh----hhH----HHHHHHHHHcCChhHHHHHH
Q 005966          129 LGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSV----VSW----NTLISGYFKNAYAKEALVVF  200 (667)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~----~~~----~~li~~~~~~~~~~~A~~~~  200 (667)
                      .|.-+|.++++.. +++...+-.-...|-+.|+...|...|.++.+.++    .-.    -..+..+...++.+.|++.+
T Consensus       225 qA~~cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~l  303 (895)
T KOG2076|consen  225 QARYCYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKAL  303 (895)
T ss_pred             HHHHHHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            9999999999998 66666666678899999999999998888754322    212    23455667778889999998


Q ss_pred             HHHHHC-CCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhc---------------------------CCCcchhHHHH
Q 005966          201 DWMLKS-GVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGG---------------------------RLGKNIAAWNA  252 (667)
Q Consensus       201 ~~m~~~-g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---------------------------~~~~~~~~~~~  252 (667)
                      +..... +-.-+...++.+...+.+...++.+......+...                           ++.++..+ -.
T Consensus       304 e~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~r  382 (895)
T KOG2076|consen  304 EGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IR  382 (895)
T ss_pred             HHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-Hh
Confidence            888662 22234445666666677777777777666655551                           12223333 12


Q ss_pred             HHHHHHh--cCCHHHHHHHHhhcCC----CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcc
Q 005966          253 LVDMYVK--CGSVNEARLVFDRMSE----RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSL  326 (667)
Q Consensus       253 l~~~~~~--~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~  326 (667)
                      ++-++.+  .+...+++.-|.....    .++..|--+..++...|++.+|+++|..+......-+...|..+..++-..
T Consensus       383 l~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l  462 (895)
T KOG2076|consen  383 LMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMEL  462 (895)
T ss_pred             HhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHH
Confidence            2223333  3444444444333222    345678888899999999999999999998765555667788888889999


Q ss_pred             cchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCccc------------HHHHHHHHHhCCC
Q 005966          327 YYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVP------------WNAILAGCVHNGL  394 (667)
Q Consensus       327 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------------~~~li~~~~~~~~  394 (667)
                      |..+.|...+..++... +.+..+-..|...+-+.|+.++|.+.+..+..+|...            --.....+.+.|+
T Consensus       463 ~e~e~A~e~y~kvl~~~-p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~~~gk  541 (895)
T KOG2076|consen  463 GEYEEAIEFYEKVLILA-PDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILFQVGK  541 (895)
T ss_pred             hhHHHHHHHHHHHHhcC-CCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHHHhhh
Confidence            99999999999888765 4556667788888999999999999999988666332            1223455667788


Q ss_pred             hHHHHHHHHHHHHCC----------------------CCCCHHHHHHHHHHHhCcCCHHHHHHHHHH------HHHhCCC
Q 005966          395 ARKAVELFRQMLVEV----------------------VEPNDATLNSLLPAYAILADLQQAMNIHCY------LIRYGFL  446 (667)
Q Consensus       395 ~~~A~~~~~~m~~~g----------------------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~------~~~~~~~  446 (667)
                      .++=+.+...|....                      .+....+...++.+-.+.++......-...      ....++.
T Consensus       542 ~E~fi~t~~~Lv~~~~~~~~~f~~~~k~r~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~l~d~~~~~~~e~~~Ls  621 (895)
T KOG2076|consen  542 REEFINTASTLVDDFLKKRYIFPRNKKKRRRAIAGTTSKRYSELLKQIIRAREKATDDNVMEKALSDGTEFRAVELRGLS  621 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhcchHHHHHHHhhccccccccchhHHHHHHHHhccCchHHhhhcccchhhhhhhhhccCc
Confidence            777555555444321                      111222233333343343332222221111      1112222


Q ss_pred             CCc--hHHHHHHHHHHhcCCHHHHHHHHhhCCCCC----CCc---chHHHHHHHHHHcCChHHHHHHHHHHHHc-CC--C
Q 005966          447 SVV--EVSTGLIDIYSKCGSLESAHKIFSEIPIKD----KDI---VVWSVIIAGYGMHGHGETAVSLFKEMVQS-GV--Q  514 (667)
Q Consensus       447 ~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~----~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~--~  514 (667)
                      .+.  ..+.-++..+++.+++++|..+...+....    ++.   ..-...+.+.+..+++..|...++.|... +.  .
T Consensus       622 iddwfel~~e~i~~L~k~~r~qeAl~vv~~a~~~~~f~~~~~~~k~l~~~~l~~s~~~~d~~~a~~~lR~~i~~~~~~~~  701 (895)
T KOG2076|consen  622 IDDWFELFRELILSLAKLQRVQEALSVVFTALEAYIFFQDSEIRKELQFLGLKASLYARDPGDAFSYLRSVITQFQFYLD  701 (895)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhhhhhhccHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhhhh
Confidence            221  355667888899999999999988776643    111   23345667778889999999999998864 11  2


Q ss_pred             CCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc--hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHH
Q 005966          515 PNE-VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR--ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGA  590 (667)
Q Consensus       515 p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~  590 (667)
                      |.. ..|+...+...+.++-.--.+++..+..   .+|+  .......+..+..++.+..|+..+-+. ...||....+.
T Consensus       702 ~~q~~l~n~~~s~~~~~~q~v~~~R~~~~~~~---~~~~~~~~l~~i~gh~~~~~~s~~~Al~~y~ra~~~~pd~Pl~nl  778 (895)
T KOG2076|consen  702 VYQLNLWNLDFSYFSKYGQRVCYLRLIMRLLV---KNKDDTPPLALIYGHNLFVNASFKHALQEYMRAFRQNPDSPLINL  778 (895)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc---cCccCCcceeeeechhHhhccchHHHHHHHHHHHHhCCCCcHHHH
Confidence            222 3455455555555554444444444332   1122  222222334456788899998876665 45566444333


Q ss_pred             HHHH-HH----------hcCCHHHHHHHHHHhhccCCC--CCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          591 LLGA-CV----------IHGNVELGEVAAKWLFELEPE--NPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       591 l~~~-~~----------~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ++.. +.          ++-..-.+..++++..++...  --.+.+.+|.+|-..|-..-|..++++..+-.
T Consensus       779 ~lglafih~a~qr~v~~Rh~~i~qG~afL~RY~~lR~~~~~QEa~YNigRayh~~gl~~LA~~YYekvL~~~  850 (895)
T KOG2076|consen  779 CLGLAFIHLALQRRVSNRHAQIAQGFAFLKRYKELRRCEEKQEAFYNIGRAYHQIGLVHLAVSYYEKVLEVS  850 (895)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhCCC
Confidence            3322 21          122345667777777665533  46789999999999999999999999988764

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

Probab=99.80  E-value=6.4e-14  Score=135.41  Aligned_cols=540  Identities=13%  Similarity=0.049  Sum_probs=398.0

Q ss_pred             CCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHH
Q 005966           89 GASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKV  168 (667)
Q Consensus        89 g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~  168 (667)
                      ++..+|..++....+.  .|.+...|.+-.+.=-..|.+..|..+...--+.- +.+..+|---    ++....+.|..+
T Consensus       265 ~DikKaR~llKSvret--nP~hp~gWIAsArLEEvagKl~~Ar~~I~~GCe~c-prSeDvWLea----iRLhp~d~aK~v  337 (913)
T KOG0495|consen  265 EDIKKARLLLKSVRET--NPKHPPGWIASARLEEVAGKLSVARNLIMKGCEEC-PRSEDVWLEA----IRLHPPDVAKTV  337 (913)
T ss_pred             HHHHHHHHHHHHHHhc--CCCCCchHHHHHHHHHHhhHHHHHHHHHHHHHhhC-CchHHHHHHH----HhcCChHHHHHH
Confidence            3567788888888876  45555666666655556677777766654444332 3333333322    234445555555


Q ss_pred             hcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchh
Q 005966          169 FDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIA  248 (667)
Q Consensus       169 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  248 (667)
                      .....+..+.+-..-+.+---..+...=.+++++.++. ++-++..|..    .....+.+.|+.++..+.+. ++.+..
T Consensus       338 vA~Avr~~P~Sv~lW~kA~dLE~~~~~K~RVlRKALe~-iP~sv~LWKa----AVelE~~~darilL~rAvec-cp~s~d  411 (913)
T KOG0495|consen  338 VANAVRFLPTSVRLWLKAADLESDTKNKKRVLRKALEH-IPRSVRLWKA----AVELEEPEDARILLERAVEC-CPQSMD  411 (913)
T ss_pred             HHHHHHhCCCChhhhhhHHhhhhHHHHHHHHHHHHHHh-CCchHHHHHH----HHhccChHHHHHHHHHHHHh-ccchHH
Confidence            54443322222222222222223334445566666663 3333334433    34456666688888888875 233444


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHH----HHhcCCCCChhhHHHHHH
Q 005966          249 AWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQL----MQFEGVRPNSLTIGSLLS  321 (667)
Q Consensus       249 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~----m~~~~~~p~~~t~~~ll~  321 (667)
                      .|.    +|.+..-++.|.+++....+   .+...|-+-...--.+|+.+...+++++    +...|+..+...+..=..
T Consensus       412 Lwl----AlarLetYenAkkvLNkaRe~iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe  487 (913)
T KOG0495|consen  412 LWL----ALARLETYENAKKVLNKAREIIPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAE  487 (913)
T ss_pred             HHH----HHHHHHHHHHHHHHHHHHHhhCCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHH
Confidence            444    45566778888888887765   5667776666666678888888887765    445788889888888888


Q ss_pred             HhhcccchHHHHHHHHHHHHhcCCCC--chHHhHHHHHHHhcCCHHHHHHHHhccCC---CCcccHHHHHHHHHhCCChH
Q 005966          322 ACSSLYYLKRGRSLHAWTIKQNLECE--VIVETALIDMYAKCNLVKLSFQVFARTSK---KKTVPWNAILAGCVHNGLAR  396 (667)
Q Consensus       322 ~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~  396 (667)
                      +|-..|..-.+..+....+..|+...  ..++..-.+.|.+.+.++-|+.+|....+   .+...|......--..|..+
T Consensus       488 ~~e~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~E  567 (913)
T KOG0495|consen  488 ACEDAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRE  567 (913)
T ss_pred             HHhhcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHH
Confidence            89889999999999998888887543  46788888899999999999999987663   33444777777777789999


Q ss_pred             HHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005966          397 KAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIP  476 (667)
Q Consensus       397 ~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  476 (667)
                      +-..+|++.... ++-...-+......+-..|+...|+.++....+.. +.+..++-.-+........+++|..+|.+..
T Consensus       568 sl~Allqkav~~-~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~llakar  645 (913)
T KOG0495|consen  568 SLEALLQKAVEQ-CPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLAKAR  645 (913)
T ss_pred             HHHHHHHHHHHh-CCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHHHHh
Confidence            999999999875 34445556666677778899999999999998877 5588889999999999999999999999998


Q ss_pred             CCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhH
Q 005966          477 IKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV-TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADH  555 (667)
Q Consensus       477 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  555 (667)
                      ...|....|.--+....-.++.++|++++++.++.  -|+.. .|..+...+.+.++.+.|...|..-.+  ..|-.+..
T Consensus       646 ~~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipL  721 (913)
T KOG0495|consen  646 SISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPL  721 (913)
T ss_pred             ccCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchH
Confidence            88899999998888888899999999999999885  56765 577777888999999999999887766  55555678


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC----------------
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTMP--LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE----------------  617 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----------------  617 (667)
                      |-.|.+.-.+.|.+-+|..++++..  .+-+...|...++.-.+.|+.+.|...+-++++.-|.                
T Consensus       722 WllLakleEk~~~~~rAR~ildrarlkNPk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~  801 (913)
T KOG0495|consen  722 WLLLAKLEEKDGQLVRARSILDRARLKNPKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQ  801 (913)
T ss_pred             HHHHHHHHHHhcchhhHHHHHHHHHhcCCCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcc
Confidence            8889999999999999999999984  3347788999999999999999999998888765554                


Q ss_pred             --------------CCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          618 --------------NPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       618 --------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                                    ||.++...+.++....++++|++.|++..+.+..
T Consensus       802 rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d  849 (913)
T KOG0495|consen  802 RKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPD  849 (913)
T ss_pred             cchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCc
Confidence                          4557778888999999999999999998887644

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=4.5e-15  Score=136.08  Aligned_cols=361  Identities=12%  Similarity=0.088  Sum_probs=223.2

Q ss_pred             ccCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHH
Q 005966           69 EMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFV  148 (667)
Q Consensus        69 ~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  148 (667)
                      +...+...+|.+||.++++-...++|.++|++.... ..+.+..+||.+|.+-.    +...+++..+|......||..|
T Consensus       201 E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~-k~kv~~~aFN~lI~~~S----~~~~K~Lv~EMisqkm~Pnl~T  275 (625)
T KOG4422|consen  201 ETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAA-KGKVYREAFNGLIGASS----YSVGKKLVAEMISQKMTPNLFT  275 (625)
T ss_pred             hhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHh-hheeeHHhhhhhhhHHH----hhccHHHHHHHHHhhcCCchHh
Confidence            333445566777777777776777777777776665 45666667777665543    2223566667777666777777


Q ss_pred             HHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcch
Q 005966          149 GNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEI  228 (667)
Q Consensus       149 ~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  228 (667)
                      +|+++++.++.|+++.|.                           ..|++++.+|++.|+.|...+|..+|..+++.++.
T Consensus       276 fNalL~c~akfg~F~~ar---------------------------~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp  328 (625)
T KOG4422|consen  276 FNALLSCAAKFGKFEDAR---------------------------KAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDP  328 (625)
T ss_pred             HHHHHHHHHHhcchHHHH---------------------------HHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCc
Confidence            777777777777666665                           33567778888888888888888888887777766


Q ss_pred             HH-HHHHHHHHHhc----CCC----cchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--------CC---hhHHHHHHHHH
Q 005966          229 EM-GRMIHELVAGG----RLG----KNIAAWNALVDMYVKCGSVNEARLVFDRMSE--------RD---VVTWTSMINGY  288 (667)
Q Consensus       229 ~~-a~~~~~~~~~~----~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------~~---~~~~~~li~~~  288 (667)
                      .+ +..+...+...    .+.    .|...+..-+..|.+..+.+-|.++-.-+..        ++   ..-|..+....
T Consensus       329 ~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~li  408 (625)
T KOG4422|consen  329 QKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLI  408 (625)
T ss_pred             hhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHH
Confidence            44 33344443331    122    2444566667777777777777776655443        11   22355666677


Q ss_pred             HhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHH
Q 005966          289 ALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSF  368 (667)
Q Consensus       289 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  368 (667)
                      +.....+.-...|+.|.-.-.-|+..+...++++....+.++-.-++|..++..|...+...                  
T Consensus       409 cq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l------------------  470 (625)
T KOG4422|consen  409 CQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYGHTFRSDL------------------  470 (625)
T ss_pred             HHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhhhhhhHHH------------------
Confidence            77788888889999998777788889999999998888888888888888877664322221                  


Q ss_pred             HHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH---HHHHHHHHHhCcCCHHHH-HHHHHHHHHhC
Q 005966          369 QVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDA---TLNSLLPAYAILADLQQA-MNIHCYLIRYG  444 (667)
Q Consensus       369 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~---~~~~ll~~~~~~~~~~~a-~~~~~~~~~~~  444 (667)
                                                   -.+++..|.+....|+..   -+.....-|.  -++.++ ...-.++.+. 
T Consensus       471 -----------------------------~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~a--ad~~e~~e~~~~R~r~~-  518 (625)
T KOG4422|consen  471 -----------------------------REEILMLLARDKLHPLTPEREQLQVAFAKCA--ADIKEAYESQPIRQRAQ-  518 (625)
T ss_pred             -----------------------------HHHHHHHHhcCCCCCCChHHHHHHHHHHHHH--HHHHHHHHhhHHHHHhc-
Confidence                                         223333343333333322   1211111110  011111 1111223323 


Q ss_pred             CCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CCcchHHH---HHHHHHHcCChHHHHHHHHHHHHcC
Q 005966          445 FLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KDIVVWSV---IIAGYGMHGHGETAVSLFKEMVQSG  512 (667)
Q Consensus       445 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~---l~~~~~~~~~~~~a~~~~~~m~~~~  512 (667)
                       ..+....+..+-.+.+.|+.++|.++|.-+...+   |.....|+   ++..-.+.+...+|+..++-|...+
T Consensus       519 -~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  519 -DWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             -cCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence             3444566777777888888888888887774443   44444553   4445566677777887777776654

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

Probab=99.71  E-value=3.5e-14  Score=131.19  Aligned_cols=437  Identities=13%  Similarity=0.075  Sum_probs=296.0

Q ss_pred             HHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHH-HHHHcccCcchHHHHHHHHHHHhcCCCcch----hHHHHHHHH
Q 005966          182 TLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVS-VLPACGYLKEIEMGRMIHELVAGGRLGKNI----AAWNALVDM  256 (667)
Q Consensus       182 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~  256 (667)
                      .|..-|..+....+|+..++-+.+....|+...... +-+.+.+.+++.+|.+.+...+..-...+.    ...+.+.-.
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvt  285 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVT  285 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCee
Confidence            345566667778889999988888888887665432 334467788888999998888765333332    344455556


Q ss_pred             HHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHH--------HHHHHhhcc
Q 005966          257 YVKCGSVNEARLVFDRMSE--RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIG--------SLLSACSSL  326 (667)
Q Consensus       257 ~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~--------~ll~~~~~~  326 (667)
                      +.+.|+++.|+..|+...+  |+..+--.|+-++..-|+.++..+.|.+|..-...||..-|.        .|+.-..+.
T Consensus       286 fiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~n  365 (840)
T KOG2003|consen  286 FIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKN  365 (840)
T ss_pred             EEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhh
Confidence            7889999999999998776  776664455556667889999999999998765445544331        111111111


Q ss_pred             cchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHH----HHHhccCCCCccc---HH----------------
Q 005966          327 YYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSF----QVFARTSKKKTVP---WN----------------  383 (667)
Q Consensus       327 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~----~~~~~~~~~~~~~---~~----------------  383 (667)
                      ..+       +.|.+.+ +                .+.++++    +++.-...++...   |.                
T Consensus       366 d~l-------k~~ek~~-k----------------a~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dl  421 (840)
T KOG2003|consen  366 DHL-------KNMEKEN-K----------------ADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDL  421 (840)
T ss_pred             HHH-------HHHHHhh-h----------------hhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhh
Confidence            111       1111110 0                0111111    1111111221111   11                


Q ss_pred             --HHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 005966          384 --AILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAY--AILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIY  459 (667)
Q Consensus       384 --~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  459 (667)
                        .-...+.++|+++.|+++++-+....-+.-+..-+.|...+  ....++..|.++-+...... ..+....+.-.+.-
T Consensus       422 ei~ka~~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~  500 (840)
T KOG2003|consen  422 EINKAGELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIA  500 (840)
T ss_pred             hhhHHHHHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCcee
Confidence              12345788999999999999887664443333333332222  22446777777766655432 22333333333444


Q ss_pred             HhcCCHHHHHHHHhhCCCCCCCcchHHHHH---HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHH
Q 005966          460 SKCGSLESAHKIFSEIPIKDKDIVVWSVII---AGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEG  536 (667)
Q Consensus       460 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~---~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A  536 (667)
                      ...|++++|.+.|++...  .|...-.+|.   -.+...|+.++|+..|-++... +..+...+..+.+.|....+...|
T Consensus       501 f~ngd~dka~~~ykeal~--ndasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqa  577 (840)
T KOG2003|consen  501 FANGDLDKAAEFYKEALN--NDASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQA  577 (840)
T ss_pred             eecCcHHHHHHHHHHHHc--CchHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHH
Confidence            567999999999999887  4444333333   3467889999999999887664 244667788888899999999999


Q ss_pred             HHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHh-CC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhcc
Q 005966          537 LDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRT-MP-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFEL  614 (667)
Q Consensus       537 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  614 (667)
                      ++++.+...  .++.|+.+..-|.+.|-+.|+-.+|++..-. .. .+.+..+...|...|....-.++|+..|+++--+
T Consensus       578 ie~~~q~~s--lip~dp~ilskl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaali  655 (840)
T KOG2003|consen  578 IELLMQANS--LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALI  655 (840)
T ss_pred             HHHHHHhcc--cCCCCHHHHHHHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhc
Confidence            999988876  7777888999999999999999999998554 45 4447888888888899999999999999999999


Q ss_pred             CCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          615 EPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       615 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      .|........++.++.+.|+|++|..+++...++
T Consensus       656 qp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrk  689 (840)
T KOG2003|consen  656 QPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRK  689 (840)
T ss_pred             CccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            9997777777888899999999999999987654

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

Probab=99.70  E-value=4.1e-17  Score=155.53  Aligned_cols=258  Identities=18%  Similarity=0.155  Sum_probs=114.6

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHH-HHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCC
Q 005966          386 LAGCVHNGLARKAVELFRQMLVEVVEPNDATLNS-LLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGS  464 (667)
Q Consensus       386 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~-ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  464 (667)
                      ...+.+.|++++|++++++......+|+...|.. +...+...++++.|...++.+...+ +-++..+..++.. ...++
T Consensus        15 A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~~~   92 (280)
T PF13429_consen   15 ARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQDGD   92 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccccc
Confidence            4455566777777777755443332344444433 3334455677777777777777655 2355566677776 68899


Q ss_pred             HHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHh
Q 005966          465 LESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSG-VQPNEVTFTSALHACSHGGLLDEGLDLFNFM  543 (667)
Q Consensus       465 ~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~  543 (667)
                      +++|.+++....+..++...+..++..+.+.++++++..+++++.... ..++...|..+...+.+.|+.++|.+.++++
T Consensus        93 ~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~a  172 (280)
T PF13429_consen   93 PEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKA  172 (280)
T ss_dssp             -------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            999999988876666778888889999999999999999999987643 2456677888888899999999999999999


Q ss_pred             HHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCch
Q 005966          544 LENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP--LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGN  621 (667)
Q Consensus       544 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  621 (667)
                      .+  ..|.|......++..+...|+.+++.++++...  .+.|+..+..+..++...|+.++|...++++.+..|+|+..
T Consensus       173 l~--~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~d~~~  250 (280)
T PF13429_consen  173 LE--LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPDDPLW  250 (280)
T ss_dssp             HH--H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT-HHH
T ss_pred             HH--cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccccccc
Confidence            98  343457778899999999999999888887762  34566788999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          622 YVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       622 ~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ...++.++...|+.++|.++++++.+
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            99999999999999999999988654

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

Probab=99.69  E-value=3.6e-13  Score=126.02  Aligned_cols=216  Identities=15%  Similarity=0.105  Sum_probs=176.4

Q ss_pred             hCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHH
Q 005966          425 AILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVS  503 (667)
Q Consensus       425 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~  503 (667)
                      .-.|+.-.+..-|+..++.... +...|--+..+|....+.++-...|+.....+| ++.+|..-.....-.+++++|..
T Consensus       337 fL~g~~~~a~~d~~~~I~l~~~-~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLDPA-FNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcCcc-cchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHH
Confidence            3467888888888888876633 333377777889999999999999999888774 67788888888888899999999


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC
Q 005966          504 LFKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL  581 (667)
Q Consensus       504 ~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  581 (667)
                      =|++.++.  .|+ ...|..+.-+..+.+++++++..|++.++  .+|.-++.|+....++..++++++|.+.|+.. .+
T Consensus       416 DF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  416 DFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99999985  444 45677777777789999999999999998  56566778999999999999999999999987 45


Q ss_pred             CCC---------HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          582 KPT---------HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       582 ~p~---------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      .|+         +.+...++..- -.+|+..|+.++.++.+++|.-..++..|+.+-...|+.++|+++|++..
T Consensus       492 E~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             ccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            554         22233333333 34999999999999999999999999999999999999999999999754

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.64  E-value=4e-11  Score=112.08  Aligned_cols=466  Identities=11%  Similarity=0.057  Sum_probs=285.1

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHH
Q 005966           75 SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIA  154 (667)
Q Consensus        75 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  154 (667)
                      ...|---.+-=...+++..|.++|++.+..  ..-+...|..-+..=.+...+..|..++++.+..-+..|..-| ..+-
T Consensus        73 ~~~WikYaqwEesq~e~~RARSv~ERALdv--d~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWy-KY~y  149 (677)
T KOG1915|consen   73 MQVWIKYAQWEESQKEIQRARSVFERALDV--DYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWY-KYIY  149 (677)
T ss_pred             HHHHHHHHHHHHhHHHHHHHHHHHHHHHhc--ccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHH-HHHH
Confidence            334444444444456667777777777754  3445555666666666777777777777777766433333332 2333


Q ss_pred             HHHhcCCHHHHHHHhccc--CCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHH
Q 005966          155 MYMNFGEVKAARKVFDAM--WEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGR  232 (667)
Q Consensus       155 ~~~~~g~~~~A~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  232 (667)
                      +=-..|++..|.++|+..  .+|+..+|++.|..=.+-+.++.|..++++..-  +.|+..+|.--.+.=.+.|....++
T Consensus       150 mEE~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~--~HP~v~~wikyarFE~k~g~~~~aR  227 (677)
T KOG1915|consen  150 MEEMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVL--VHPKVSNWIKYARFEEKHGNVALAR  227 (677)
T ss_pred             HHHHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe--ecccHHHHHHHHHHHHhcCcHHHHH
Confidence            334457777777777655  456777777777777777777777777777665  4566666666666555666666666


Q ss_pred             HHHHHHHhcCCC--cchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCC
Q 005966          233 MIHELVAGGRLG--KNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVR  310 (667)
Q Consensus       233 ~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  310 (667)
                      .+++.+++.--.  .+...+.+....=.+                               +..++.|.-+|+-..+. + 
T Consensus       228 ~VyerAie~~~~d~~~e~lfvaFA~fEe~-------------------------------qkE~ERar~iykyAld~-~-  274 (677)
T KOG1915|consen  228 SVYERAIEFLGDDEEAEILFVAFAEFEER-------------------------------QKEYERARFIYKYALDH-I-  274 (677)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHHHHHH-------------------------------HHHHHHHHHHHHHHHHh-c-
Confidence            666555442100  011112222222222                               22333333333333322 1 


Q ss_pred             CChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHH--------HHhccCCC---Cc
Q 005966          311 PNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQ--------VFARTSKK---KT  379 (667)
Q Consensus       311 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~--------~~~~~~~~---~~  379 (667)
                      |...+                                ...|..+...--+.|+.....+        -++.+...   |-
T Consensus       275 pk~ra--------------------------------eeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nY  322 (677)
T KOG1915|consen  275 PKGRA--------------------------------EELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNY  322 (677)
T ss_pred             CcccH--------------------------------HHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCc
Confidence            11100                                0111111111111121111111        11222222   33


Q ss_pred             ccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-------HHHHHHHHH---hCcCCHHHHHHHHHHHHHhCCCCCc
Q 005966          380 VPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDA-------TLNSLLPAY---AILADLQQAMNIHCYLIRYGFLSVV  449 (667)
Q Consensus       380 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-------~~~~ll~~~---~~~~~~~~a~~~~~~~~~~~~~~~~  449 (667)
                      .+|--.+..-...|+.+...++|++.... ++|-..       .|.-+=-+|   ....+++.+.++++..++ -+|...
T Consensus       323 DsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lIPHkk  400 (677)
T KOG1915|consen  323 DSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD-LIPHKK  400 (677)
T ss_pred             hHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hcCccc
Confidence            34666666666778888888888888764 555321       121111111   346788899999988887 345666


Q ss_pred             hHHHHHHHHH----HhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005966          450 EVSTGLIDIY----SKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALH  525 (667)
Q Consensus       450 ~~~~~l~~~~----~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  525 (667)
                      .+|.-+--+|    .++.++..|.+++.......|...+|...|..-.+.++++.+..+|++.++-+ +-|..+|.....
T Consensus       401 FtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaE  479 (677)
T KOG1915|consen  401 FTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS-PENCYAWSKYAE  479 (677)
T ss_pred             chHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHH
Confidence            6666654444    46788999999999888877888999999999999999999999999999975 336678888777


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHH-----hcC
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACV-----IHG  599 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~-----~~g  599 (667)
                      .-...|+.+.|..+|+-++...........|.+.|+.-...|.+++|..+++++ ...+...+|-++...-.     ..+
T Consensus       480 lE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h~kvWisFA~fe~s~~~~~~~  559 (677)
T KOG1915|consen  480 LETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQHVKVWISFAKFEASASEGQED  559 (677)
T ss_pred             HHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhcccchHHHhHHHHhccccccccc
Confidence            777889999999999998875444444557888888888999999999999987 33444446666655433     334


Q ss_pred             -----------CHHHHHHHHHHhhc
Q 005966          600 -----------NVELGEVAAKWLFE  613 (667)
Q Consensus       600 -----------~~~~A~~~~~~~~~  613 (667)
                                 +...|..+|+++..
T Consensus       560 ~~~~~~e~~~~~~~~AR~iferAn~  584 (677)
T KOG1915|consen  560 EDLAELEITDENIKRARKIFERANT  584 (677)
T ss_pred             cchhhhhcchhHHHHHHHHHHHHHH
Confidence                       56788888888764

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

Probab=99.63  E-value=8e-12  Score=116.44  Aligned_cols=254  Identities=14%  Similarity=0.079  Sum_probs=199.2

Q ss_pred             HHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC--CCCchHHHHHHHHHHhcCC
Q 005966          387 AGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGF--LSVVEVSTGLIDIYSKCGS  464 (667)
Q Consensus       387 ~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~  464 (667)
                      .++......+++.+-.......|+.-+...-+....+.....|+++|+.+|+++.++..  -.|..+|+.++..-..+.+
T Consensus       235 ~a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk  314 (559)
T KOG1155|consen  235 KAYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK  314 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH
Confidence            44444456777777777777777766666655566666778889999999998887742  1245666665543332222


Q ss_pred             HH-HHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHHH
Q 005966          465 LE-SAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE-VTFTSALHACSHGGLLDEGLDLFNF  542 (667)
Q Consensus       465 ~~-~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~  542 (667)
                      +. -|..+++- -+  -.+.|.-++.+-|.-.++.++|..+|++.++.+  |.. ..|..+..-|....+...|.+-++.
T Consensus       315 Ls~LA~~v~~i-dK--yR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN--p~~~~aWTLmGHEyvEmKNt~AAi~sYRr  389 (559)
T KOG1155|consen  315 LSYLAQNVSNI-DK--YRPETCCIIANYYSLRSEHEKAVMYFKRALKLN--PKYLSAWTLMGHEYVEMKNTHAAIESYRR  389 (559)
T ss_pred             HHHHHHHHHHh-cc--CCccceeeehhHHHHHHhHHHHHHHHHHHHhcC--cchhHHHHHhhHHHHHhcccHHHHHHHHH
Confidence            22 12222221 11  345566677788888899999999999999964  444 5677777889999999999999999


Q ss_pred             hHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          543 MLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       543 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      +++  -.|.|-..|-.|+.+|.-.+...=|+-.|++. ..+| |+..|.+|+.+|.+.++.++|+..|++++..+..+..
T Consensus       390 Avd--i~p~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~  467 (559)
T KOG1155|consen  390 AVD--INPRDYRAWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGS  467 (559)
T ss_pred             HHh--cCchhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchH
Confidence            998  56678889999999999999999999999998 5777 8889999999999999999999999999999888889


Q ss_pred             hHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          621 NYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ++..|+++|.+.++.++|...+++..+
T Consensus       468 ~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  468 ALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            999999999999999999999998765

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.62  E-value=4e-11  Score=120.51  Aligned_cols=628  Identities=11%  Similarity=0.017  Sum_probs=328.2

Q ss_pred             CCCCChhHHHHHHHHhhccCChhhHhHHHHHHHH-hCCCchhhhh---hHhhhcCChhhHHHhhcccCCCCcchHHHHHH
Q 005966            8 TLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIIT-SGPLFTHLRS---SLVRAYGHVSNVRILFDEMSERSSFLYNTVMK   83 (667)
Q Consensus         8 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~---~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~   83 (667)
                      ++-|+...|.+++..|+..|+++.|- ++..+-. +-|...-+.+   ......|+.+.+.       .|.+.+|..|..
T Consensus        20 gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDtyt~Ll~   91 (1088)
T KOG4318|consen   20 GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLADTYTNLLK   91 (1088)
T ss_pred             cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCchhHHHHHHH
Confidence            45677889999999999999999988 7776543 3333311122   2223334444433       677889999999


Q ss_pred             HHHhCCCchHHHHHHHH----hHHc---CCCCCCcccHHHHHHHhcccc-c------hHHHHHHHHHHHHhCC-CCchHH
Q 005966           84 MYAQNGASHDSLKMFLG----MLRL---GEYNPDNYTYPIVIKACTDLA-W------RKLGIALHGRVLITGF-DMDTFV  148 (667)
Q Consensus        84 ~~~~~g~~~~a~~~~~~----~~~~---~~~~~~~~~~~~ll~~~~~~~-~------~~~a~~~~~~~~~~~~-~~~~~~  148 (667)
                      +|.++||... ++..++    +..+   -|+.....-+-..+++|-..- +      ..--+.++..+++.+. .|....
T Consensus        92 ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pvsa~  170 (1088)
T KOG4318|consen   92 AYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPVSAW  170 (1088)
T ss_pred             HHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCcccc
Confidence            9999999654 333333    2221   011111112222222221110 0      1111123333333331 121111


Q ss_pred             HHHH---HHHHHh-cCCHHHHHHHhcccCC-CChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcc
Q 005966          149 GNCL---IAMYMN-FGEVKAARKVFDAMWE-HSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACG  223 (667)
Q Consensus       149 ~~~l---i~~~~~-~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  223 (667)
                      ++..   ++-... ...+++-........+ ++..+|..++..-.-+|+.+.|..++.+|++.|+..+..-|-.++-+  
T Consensus       171 ~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~g--  248 (1088)
T KOG4318|consen  171 NAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLLG--  248 (1088)
T ss_pred             cchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhhc--
Confidence            1111   111111 1234444444444444 78889999999999999999999999999999998888877777766  


Q ss_pred             cCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCCh-----HHHH
Q 005966          224 YLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDV-----RNAL  298 (667)
Q Consensus       224 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~-----~~a~  298 (667)
                       .++...+..++..|...|+.|+..|+...+-.+...|....+....+.-.--....+..+..+...+.+.     .-..
T Consensus       249 -~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~~v~  327 (1088)
T KOG4318|consen  249 -INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLRKSVI  327 (1088)
T ss_pred             -CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHHHHHH
Confidence             7888888889999999999999999888777777655433222111100000111122222111111111     0111


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcC---CCCchHHhHHHHHHHhc--------------
Q 005966          299 GLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNL---ECEVIVETALIDMYAKC--------------  361 (667)
Q Consensus       299 ~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~--------------  361 (667)
                      ..+.+..-.|+......|...... ...|.-+...++-..+..-..   ..++..+..++.-|.+.              
T Consensus       328 ~s~k~~fLlg~d~~~aiws~c~~l-~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~~~~i~~~~q  406 (1088)
T KOG4318|consen  328 GSTKKLFLLGTDILEAIWSMCEKL-RHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHICSRIYYAGQ  406 (1088)
T ss_pred             HHhhHHHHhccccchHHHHHHHHH-HHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhHHHHHHHHHH
Confidence            111111111222111111111111 112222222222222211100   00111111111111111              


Q ss_pred             --------CCHHHHHHHHhccC----------------CCCccc-----------HHHHHHHHHhCCChHHHHHHHHHHH
Q 005966          362 --------NLVKLSFQVFARTS----------------KKKTVP-----------WNAILAGCVHNGLARKAVELFRQML  406 (667)
Q Consensus       362 --------g~~~~a~~~~~~~~----------------~~~~~~-----------~~~li~~~~~~~~~~~A~~~~~~m~  406 (667)
                              ....+..++.....                .+...+           -+.++..|++.-+..+++..-+...
T Consensus       407 gls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~ekye  486 (1088)
T KOG4318|consen  407 GLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEEKYE  486 (1088)
T ss_pred             HHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                    11111111111111                111111           2344445555555555554333333


Q ss_pred             HCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHH--hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CC
Q 005966          407 VEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIR--YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KD  481 (667)
Q Consensus       407 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~  481 (667)
                      ..-+.   ..|..++.-++.....+.|..+.+++..  ..+..+...+..+.+.+.+.+...++..++.++.+.-   |.
T Consensus       487 ~~lf~---g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~n~~~  563 (1088)
T KOG4318|consen  487 DLLFA---GLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAENEPL  563 (1088)
T ss_pred             HHHhh---hHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhhCCch
Confidence            22111   5678888889999999999998888753  3345677788889999999999999999998887642   21


Q ss_pred             -cchHHHHHHHHHHcCChHHHHHHHHHHHHcCC------------------------------CCCHHHHHHHHHHHh--
Q 005966          482 -IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV------------------------------QPNEVTFTSALHACS--  528 (667)
Q Consensus       482 -~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~------------------------------~p~~~~~~~ll~~~~--  528 (667)
                       ..++--++...+..|+.+...++++-+...|+                              +|.+.....+.+.+.  
T Consensus       564 ~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~etgPl~~vhLrkdd~s~a~ea~e~~~qkyk~~P~~~e~lcrlv~ke  643 (1088)
T KOG4318|consen  564 VAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSETGPLWMVHLRKDDQSAAQEAPEPEEQKYKPYPKDLEGLCRLVYKE  643 (1088)
T ss_pred             HHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhhcccceEEEeeccchhhhhhcchHHHHHhcCChHHHHHHHHHHHhh
Confidence             22334455555666666666665555544332                              233322222222222  


Q ss_pred             ccCCHHHHHHHHHHhH---H------------hcCCC---------------C---------chhHHHHHHHHHhhcCCh
Q 005966          529 HGGLLDEGLDLFNFML---E------------NHQTC---------------S---------RADHYTCIVDLLGRAGRL  569 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~---~------------~~~~~---------------~---------~~~~~~~l~~~~~~~g~~  569 (667)
                      ...+++.+..+-..+.   +            ..|..               |         +.....-|+..|.+.|++
T Consensus       644 ~td~~qk~mDls~~iq~f~k~g~~~~a~di~etpG~r~r~~RDr~~de~e~~~lEll~elt~~lg~~dRLL~sy~~~g~~  723 (1088)
T KOG4318|consen  644 TTDSPQKTMDLSIPIQKFEKLGSCVDAGDITETPGVRCRNGRDRDTDEGEIVPLELLLELTHELGKNDRLLQSYLEEGRI  723 (1088)
T ss_pred             ccccHHHHHhhcchhHHHHhcccccchhhccccCcccccCCCccccccCccccHHHHHHHHhHhHHHHHHHHHHHhhhHH
Confidence            1122222222211111   0            00100               0         000122366788899999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhc---CCHHHHHHHHHHhhccCCCCCc---hHHHHHHHHhhcCCchHHHHHHH
Q 005966          570 DEAYDLIRTMPLKPTHAVWGALLGACVIH---GNVELGEVAAKWLFELEPENPG---NYVLLSKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       570 ~~A~~~~~~~~~~p~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~  643 (667)
                      +.|..++.+++..|++.+...++..+.+.   -|+-++....+++.++.|..+.   .+...+.+..+..+.+.|.+.|+
T Consensus       724 erA~glwnK~QV~k~~~~l~~LAsIlr~~n~evdvPe~q~e~ekas~~~~~f~ttt~~~~~~a~~a~q~~qkkaAkk~f~  803 (1088)
T KOG4318|consen  724 ERASGLWNKDQVSKSPMKLFHLASILRRMNEEVDVPEIQAETEKASELRTLFPTTTCYYEGYAFFATQTEQKKAAKKCFE  803 (1088)
T ss_pred             HHHHhHHhhCcCCcchHHHHHHHHHHHhhchhccchhHHHHHHHHHhcccccccchHhhhhhHHHHhhHHHHHHHHHHHH
Confidence            99999999999888888888787777654   3677777888888777765443   34444445555555668888999


Q ss_pred             HhhhCCCc
Q 005966          644 VMDEKGLR  651 (667)
Q Consensus       644 ~~~~~~~~  651 (667)
                      +..++...
T Consensus       804 r~eeq~~v  811 (1088)
T KOG4318|consen  804 RLEEQLTV  811 (1088)
T ss_pred             HHHHccCC
Confidence            98887543

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

Probab=99.61  E-value=7.7e-14  Score=135.98  Aligned_cols=282  Identities=13%  Similarity=0.002  Sum_probs=224.4

Q ss_pred             CHHHHHHHHhccCCC--Cc-ccHHHHHHHHHhCCChHHHHHHHHHHHHCC--CCCCHHHHHHHHHHHhCcCCHHHHHHHH
Q 005966          363 LVKLSFQVFARTSKK--KT-VPWNAILAGCVHNGLARKAVELFRQMLVEV--VEPNDATLNSLLPAYAILADLQQAMNIH  437 (667)
Q Consensus       363 ~~~~a~~~~~~~~~~--~~-~~~~~li~~~~~~~~~~~A~~~~~~m~~~g--~~p~~~~~~~ll~~~~~~~~~~~a~~~~  437 (667)
                      +.++|...|..+...  |. .....+..+|...+++++|..+|+.+.+..  ..-+..+|.+.+.-+-+.-   +--.+-
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v---~Ls~La  410 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEV---ALSYLA  410 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhH---HHHHHH
Confidence            456777777775422  22 224557788888899999999999887642  1124457777776543221   111222


Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC
Q 005966          438 CYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPN  516 (667)
Q Consensus       438 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  516 (667)
                      +.+.+.. +.++.+|.++.++|.-+++.+.|++.|++....+| ...+|+.+..-+.....+|.|...|+..+..  .|.
T Consensus       411 q~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~~r  487 (638)
T KOG1126|consen  411 QDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--DPR  487 (638)
T ss_pred             HHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--Cch
Confidence            2333333 67899999999999999999999999999999877 5789999999999999999999999998764  333


Q ss_pred             -HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 005966          517 -EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLG  593 (667)
Q Consensus       517 -~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  593 (667)
                       ...|..+.-.|.+.++++.|+-.|+++.+  -.|.+......++..+-+.|+.|+|+++++++ ...| |+.....-+.
T Consensus       488 hYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~~  565 (638)
T KOG1126|consen  488 HYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRAS  565 (638)
T ss_pred             hhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHHH
Confidence             35677788889999999999999999987  44456777888889999999999999999998 4555 6666677777


Q ss_pred             HHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCcc
Q 005966          594 ACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRK  652 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  652 (667)
                      .+...+++++|...++++.++-|++..++..++.+|.+.|+.+.|+..|--+.+...+.
T Consensus       566 il~~~~~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg  624 (638)
T KOG1126|consen  566 ILFSLGRYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKG  624 (638)
T ss_pred             HHHhhcchHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCcc
Confidence            88889999999999999999999999999999999999999999999999988876543

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.61  E-value=2.7e-09  Score=103.92  Aligned_cols=562  Identities=10%  Similarity=0.095  Sum_probs=315.0

Q ss_pred             hhhHhHHHHHHHHhCCCc-----hhhhh---hHhhhc---CChhhHHHhhcccC---CCCcchHHHHHHHHHhCCCchHH
Q 005966           29 IAGTKQLHAFIITSGPLF-----THLRS---SLVRAY---GHVSNVRILFDEMS---ERSSFLYNTVMKMYAQNGASHDS   94 (667)
Q Consensus        29 ~~~a~~~~~~~~~~~~~~-----~~~~~---~~~~~~---g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a   94 (667)
                      ..+-..+|+++++.-|.+     .|+..   +.-..+   .-++.....|++..   .+=+..|-.-++.+.++|+...-
T Consensus        42 ~k~~~~lYERal~~lp~sykiW~~YL~~R~~~vk~~~~T~~~~~~vn~c~er~lv~mHkmpRIwl~Ylq~l~~Q~~iT~t  121 (835)
T KOG2047|consen   42 DKQRNLLYERALKELPGSYKIWYDYLKARRAQVKHLCPTDPAYESVNNCFERCLVFMHKMPRIWLDYLQFLIKQGLITRT  121 (835)
T ss_pred             hHHHHHHHHHHHHHCCCchHHHHHHHHHHHHHhhccCCCChHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHhcchHHHH
Confidence            345567888888888877     22211   111111   11122222333221   13446788888889999999999


Q ss_pred             HHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCC
Q 005966           95 LKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE  174 (667)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  174 (667)
                      ...|+..++.-.+.-....|...+......+-++-+..+|++-++..    +..-+-.|..++..+++++|-+.+..+..
T Consensus       122 R~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~L~~~d~~~eaa~~la~vln  197 (835)
T KOG2047|consen  122 RRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYIEYLAKSDRLDEAAQRLATVLN  197 (835)
T ss_pred             HHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHHHHhccchHHHHHHHHHhcC
Confidence            99999888762233345678888888888888888999998887654    34466778888899999999888887744


Q ss_pred             C----------ChhhHHHHHHHHHHcCChhHH---HHHHHHHHHCCCCCChH--HHHHHHHHcccCcchHHHHHHHHHHH
Q 005966          175 H----------SVVSWNTLISGYFKNAYAKEA---LVVFDWMLKSGVEPDCA--SVVSVLPACGYLKEIEMGRMIHELVA  239 (667)
Q Consensus       175 ~----------~~~~~~~li~~~~~~~~~~~A---~~~~~~m~~~g~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~  239 (667)
                      .          +-..|+.+-+..+++-+.-.-   -.+++.+..  .-||..  .|.++..-|.+.|+++.|..+++..+
T Consensus       198 ~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~--rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai  275 (835)
T KOG2047|consen  198 QDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIR--RFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAI  275 (835)
T ss_pred             chhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcc--cCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHH
Confidence            3          233566666666555443322   233333332  345543  56777788888888888888888777


Q ss_pred             hcCCCcchhHHHHHHHHHHhcCC----------------------HHHHHHHHhhcCCC---------------ChhHHH
Q 005966          240 GGRLGKNIAAWNALVDMYVKCGS----------------------VNEARLVFDRMSER---------------DVVTWT  282 (667)
Q Consensus       240 ~~~~~~~~~~~~~l~~~~~~~g~----------------------~~~A~~~~~~~~~~---------------~~~~~~  282 (667)
                      +.-.  .+.-++.+-+.|+.-..                      ++-.+.-|+.+...               ++..|.
T Consensus       276 ~~v~--tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~  353 (835)
T KOG2047|consen  276 QTVM--TVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWH  353 (835)
T ss_pred             Hhhe--ehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHH
Confidence            6432  23334444444443221                      11122222222211               111111


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcC
Q 005966          283 SMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCN  362 (667)
Q Consensus       283 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  362 (667)
                      .-+.  +..|+..+-...|.+..+. +.|...                             .-.-...|..+...|-..|
T Consensus       354 kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka-----------------------------~Gs~~~Lw~~faklYe~~~  401 (835)
T KOG2047|consen  354 KRVK--LYEGNAAEQINTYTEAVKT-VDPKKA-----------------------------VGSPGTLWVEFAKLYENNG  401 (835)
T ss_pred             hhhh--hhcCChHHHHHHHHHHHHc-cCcccC-----------------------------CCChhhHHHHHHHHHHhcC
Confidence            1111  1123333333333333322 111100                             0111235566677777777


Q ss_pred             CHHHHHHHHhccCCCCccc-------HHHHHHHHHhCCChHHHHHHHHHHHHCCC-----------CC------CHHHHH
Q 005966          363 LVKLSFQVFARTSKKKTVP-------WNAILAGCVHNGLARKAVELFRQMLVEVV-----------EP------NDATLN  418 (667)
Q Consensus       363 ~~~~a~~~~~~~~~~~~~~-------~~~li~~~~~~~~~~~A~~~~~~m~~~g~-----------~p------~~~~~~  418 (667)
                      +++.|+.+|++..+-+-.+       |......-.++.+++.|+++.++.....-           ++      +...|.
T Consensus       402 ~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs  481 (835)
T KOG2047|consen  402 DLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWS  481 (835)
T ss_pred             cHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHH
Confidence            7777777777766443333       44444444556667777776666542211           11      112333


Q ss_pred             HHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC--CCc-chHHHHHHHHHHc
Q 005966          419 SLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD--KDI-VVWSVIIAGYGMH  495 (667)
Q Consensus       419 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~-~~~~~l~~~~~~~  495 (667)
                      ..+..--..|-++....+++.+++..+ .++.+.-.....+....-++++.++|++-....  |++ ..|+..+.-+.+.
T Consensus       482 ~y~DleEs~gtfestk~vYdriidLri-aTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~r  560 (835)
T KOG2047|consen  482 MYADLEESLGTFESTKAVYDRIIDLRI-ATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKR  560 (835)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHH
Confidence            444444456778888888888887774 334444444455666777888999998877766  443 4677766665442


Q ss_pred             ---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHH--HhccCCHHHHHHHHHHhHHhcCCCCc--hhHHHHHHHHHhhcCC
Q 005966          496 ---GHGETAVSLFKEMVQSGVQPNEVTFTSALHA--CSHGGLLDEGLDLFNFMLENHQTCSR--ADHYTCIVDLLGRAGR  568 (667)
Q Consensus       496 ---~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~--~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~  568 (667)
                         ...+.|..+|++.++ |++|...-+..|+-+  =.+.|....|+.+++++..  ++++.  ...|+..|.--...=-
T Consensus       561 ygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~--~v~~a~~l~myni~I~kaae~yG  637 (835)
T KOG2047|consen  561 YGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATS--AVKEAQRLDMYNIYIKKAAEIYG  637 (835)
T ss_pred             hcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHHhC
Confidence               368889999999988 677765433333322  2345888888888888765  44333  3356555543222211


Q ss_pred             hHHHHHHHHhC-CCCCCHHHHH---HHHHHHHhcCCHHHHHHHHHHhhccCCC--CCchHHHHHHHHhhcCC
Q 005966          569 LDEAYDLIRTM-PLKPTHAVWG---ALLGACVIHGNVELGEVAAKWLFELEPE--NPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       569 ~~~A~~~~~~~-~~~p~~~~~~---~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~~~g~  634 (667)
                      ...-.++|+++ ..-|+...-.   .....-.+.|..+.|..++...-++-|.  ++..|...-..=.+.|+
T Consensus       638 v~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dPr~~~~fW~twk~FEvrHGn  709 (835)
T KOG2047|consen  638 VPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDPRVTTEFWDTWKEFEVRHGN  709 (835)
T ss_pred             CcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCCcCChHHHHHHHHHHHhcCC
Confidence            22223333333 2234433222   2222344567777777777766554432  44556666655666666

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.61  E-value=4.2e-10  Score=105.42  Aligned_cols=418  Identities=12%  Similarity=0.101  Sum_probs=276.7

Q ss_pred             hcCChhhHHHhhcccCC---CCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHH
Q 005966           56 AYGHVSNVRILFDEMSE---RSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIA  132 (667)
Q Consensus        56 ~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~  132 (667)
                      .++++..|+.+|++...   +++-.|---+..=.++.....|..++++....  .|--...|..-+..=-..|++..|.+
T Consensus        85 sq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~--lPRVdqlWyKY~ymEE~LgNi~gaRq  162 (677)
T KOG1915|consen   85 SQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI--LPRVDQLWYKYIYMEEMLGNIAGARQ  162 (677)
T ss_pred             hHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh--cchHHHHHHHHHHHHHHhcccHHHHH
Confidence            34566778888888754   46678888889999999999999999999976  33223345555555567899999999


Q ss_pred             HHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhccc--CCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 005966          133 LHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAM--WEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEP  210 (667)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  210 (667)
                      +|++-.+-  .|+...+++.|..=.+-..++.|..+++..  ..|++.+|---...=-++|+...|..+|+...+.  ..
T Consensus       163 iferW~~w--~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~--~~  238 (677)
T KOG1915|consen  163 IFERWMEW--EPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEF--LG  238 (677)
T ss_pred             HHHHHHcC--CCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--hh
Confidence            99998765  799999999999999999999999999986  5689999988888888999999999999988763  22


Q ss_pred             ChHH----HHHHHHHcccCcchHHHHHHHHHHHhcCCCc-chhHHHHHHHHHHhcCCHHHHHHHH--------hhcCCC-
Q 005966          211 DCAS----VVSVLPACGYLKEIEMGRMIHELVAGGRLGK-NIAAWNALVDMYVKCGSVNEARLVF--------DRMSER-  276 (667)
Q Consensus       211 ~~~~----~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~--------~~~~~~-  276 (667)
                      |...    |++....=.+...++.|.-++..++++-... ....|..+...=-+.|+.....+..        +.+... 
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n  318 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN  318 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC
Confidence            3333    3333333446678888999999888763221 1344555554444456554444332        222222 


Q ss_pred             --ChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChh--hHHHHHH-----Hh---hcccchHHHHHHHHHHHHhcC
Q 005966          277 --DVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSL--TIGSLLS-----AC---SSLYYLKRGRSLHAWTIKQNL  344 (667)
Q Consensus       277 --~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--t~~~ll~-----~~---~~~~~~~~a~~~~~~~~~~~~  344 (667)
                        |-.+|-..+..--..|+.+...++|++.... ++|-..  .+...|-     +|   ....+++...+++...++ -+
T Consensus       319 p~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~-lI  396 (677)
T KOG1915|consen  319 PYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLD-LI  396 (677)
T ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh-hc
Confidence              3445555566556678888888888887754 444211  1111111     11   112233333333333333 11


Q ss_pred             CCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005966          345 ECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAY  424 (667)
Q Consensus       345 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  424 (667)
                      +....++.-+                           |-.....-.++.+...|.+++-...  |.-|...+|...|..-
T Consensus       397 PHkkFtFaKi---------------------------WlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelE  447 (677)
T KOG1915|consen  397 PHKKFTFAKI---------------------------WLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELE  447 (677)
T ss_pred             CcccchHHHH---------------------------HHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHH
Confidence            2222222221                           3333344455667777777776655  6677777777777777


Q ss_pred             hCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CCcchHHHHHHHHHHcCChHHH
Q 005966          425 AILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KDIVVWSVIIAGYGMHGHGETA  501 (667)
Q Consensus       425 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  501 (667)
                      .+.+.++.+..+++..++.+ |-+-.++......-...|+.+.|..+|.-..+..   .....|.+.|.--...|.++.|
T Consensus       448 lqL~efDRcRkLYEkfle~~-Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~eka  526 (677)
T KOG1915|consen  448 LQLREFDRCRKLYEKFLEFS-PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKA  526 (677)
T ss_pred             HHHhhHHHHHHHHHHHHhcC-hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHH
Confidence            77788888888888777766 4556667666777777788888888887766652   1234566666666777888888


Q ss_pred             HHHHHHHHHc
Q 005966          502 VSLFKEMVQS  511 (667)
Q Consensus       502 ~~~~~~m~~~  511 (667)
                      ..+|+++++.
T Consensus       527 R~LYerlL~r  536 (677)
T KOG1915|consen  527 RALYERLLDR  536 (677)
T ss_pred             HHHHHHHHHh
Confidence            8888888774

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.61  E-value=5.2e-12  Score=126.74  Aligned_cols=251  Identities=12%  Similarity=0.006  Sum_probs=160.5

Q ss_pred             HHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCC
Q 005966           97 MFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHS  176 (667)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~  176 (667)
                      ++-.+... |+.|+..||..+|..||..|+.+.|- +|.-|.-...+.+...++.++......++.+.+.       +|.
T Consensus        12 fla~~e~~-gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   12 FLALHEIS-GILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             HHHHHHHh-cCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            44455555 78888888888888888888887777 7777777777777778888887777777776664       667


Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHH-HH-------HCCCCCChHHHHHHHHHcc--------------cCcchHHHHHH
Q 005966          177 VVSWNTLISGYFKNAYAKEALVVFDW-ML-------KSGVEPDCASVVSVLPACG--------------YLKEIEMGRMI  234 (667)
Q Consensus       177 ~~~~~~li~~~~~~~~~~~A~~~~~~-m~-------~~g~~p~~~~~~~ll~~~~--------------~~~~~~~a~~~  234 (667)
                      ..+|..|..+|.+.|+... ++..++ |.       ..|+-.-..-|-..+++|.              ..|-++.+.++
T Consensus        83 aDtyt~Ll~ayr~hGDli~-fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkl  161 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLIL-FEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKL  161 (1088)
T ss_pred             hhHHHHHHHHHHhccchHH-HHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHH
Confidence            7788888888888887654 222222 21       1232222222222222221              12222222322


Q ss_pred             HHHHHhcCCCcchhHHHHHHHHHHh-cCCHHHHHHHHhhcCC-CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCC
Q 005966          235 HELVAGGRLGKNIAAWNALVDMYVK-CGSVNEARLVFDRMSE-RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPN  312 (667)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  312 (667)
                      +..+-..... .+...  +++-+.. ...+++-..+.....+ +++.+|.+++..-..+|+.+.|..++.+|.+.|++.+
T Consensus       162 l~~~Pvsa~~-~p~~v--fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  162 LAKVPVSAWN-APFQV--FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             HhhCCccccc-chHHH--HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            2221111000 00011  1222221 2234444444444444 8889999999999999999999999999999999888


Q ss_pred             hhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCC
Q 005966          313 SLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNL  363 (667)
Q Consensus       313 ~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (667)
                      ..-|..++-+   .++...+..+...|...|+.|+..++...+-.+...|.
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~  286 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQ  286 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchh
Confidence            8888888766   77888888889999999999999988877766666554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.60  E-value=1.3e-12  Score=130.25  Aligned_cols=277  Identities=12%  Similarity=0.050  Sum_probs=206.9

Q ss_pred             cCCHHHHHHHHhccCCCC--ccc-HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHH--HHHHHHhCcCCHHHHHH
Q 005966          361 CNLVKLSFQVFARTSKKK--TVP-WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLN--SLLPAYAILADLQQAMN  435 (667)
Q Consensus       361 ~g~~~~a~~~~~~~~~~~--~~~-~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~--~ll~~~~~~~~~~~a~~  435 (667)
                      .|+++.|++.+....+..  +.. |-.......+.|+++.|.+.+.++.+.  .|+.....  .....+...|+++.|..
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            588888888877655432  222 333344457889999999999998763  55543332  33567788899999999


Q ss_pred             HHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-Ccc--------hHHHHHHHHHHcCChHHHHHHHH
Q 005966          436 IHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIV--------VWSVIIAGYGMHGHGETAVSLFK  506 (667)
Q Consensus       436 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~--------~~~~l~~~~~~~~~~~~a~~~~~  506 (667)
                      .++.+.+.. +.++.....+...|.+.|++++|.+++..+.+..+ +..        +|..++.......+.+...++++
T Consensus       175 ~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        175 GVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            999998876 66778888899999999999999999988877652 111        33333444444555666667777


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-C
Q 005966          507 EMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-T  584 (667)
Q Consensus       507 ~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~  584 (667)
                      .+.+. .+.++.....+..++...|+.++|...+++..+   .+|+....  ++......++.+++++.+++. +..| |
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            76543 245677888889999999999999999998877   23454322  333444669999999999887 4556 5


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          585 HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       585 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      +..+..+...|.+.|++++|.+.|+++++..|+ ...+..++.++.+.|+.++|.+++++-..
T Consensus       328 ~~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~-~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        328 PLLWSTLGQLLMKHGEWQEASLAFRAALKQRPD-AYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            667888999999999999999999999999999 45567899999999999999999988654

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

Probab=99.59  E-value=7.5e-12  Score=119.71  Aligned_cols=480  Identities=10%  Similarity=-0.031  Sum_probs=264.4

Q ss_pred             HHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcc--cCCCChhhHHHHHHHHHHcC
Q 005966          114 YPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDA--MWEHSVVSWNTLISGYFKNA  191 (667)
Q Consensus       114 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~li~~~~~~~  191 (667)
                      +..+.+-+..+.++.-|.-+-+++...+..|  ...--+..++.-.|+++.|..+...  +.+.|..+.......+.+..
T Consensus        19 ~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp--~d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~lk   96 (611)
T KOG1173|consen   19 YRRLVRDALMQHRYKTALFWADKVAGLTNDP--ADIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKLK   96 (611)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHhccCCh--HHHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHH
Confidence            4444444455566777777777666555344  3333466777777888888776654  45567888888888888888


Q ss_pred             ChhHHHHHHHHHHH--CCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHH
Q 005966          192 YAKEALVVFDWMLK--SGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLV  269 (667)
Q Consensus       192 ~~~~A~~~~~~m~~--~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  269 (667)
                      ++++|+.++..-..  ..+.-+..+-   ....    +.+.+.....      .......+-.-...|....+.++|...
T Consensus        97 ~~~~al~vl~~~~~~~~~f~yy~~~~---~~~l----~~n~~~~~~~------~~~essic~lRgk~y~al~n~~~ar~~  163 (611)
T KOG1173|consen   97 EWDQALLVLGRGHVETNPFSYYEKDA---ANTL----ELNSAGEDLM------INLESSICYLRGKVYVALDNREEARDK  163 (611)
T ss_pred             HHHHHHHHhcccchhhcchhhcchhh---hcee----ccCccccccc------ccchhceeeeeeehhhhhccHHHHHHH
Confidence            88888888773210  0011010000   0000    0000000000      000011111112234445566777777


Q ss_pred             HhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcC----CCCChhhHHHHHHHhh-cccchHHHHHHHHHHHHhcC
Q 005966          270 FDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEG----VRPNSLTIGSLLSACS-SLYYLKRGRSLHAWTIKQNL  344 (667)
Q Consensus       270 ~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p~~~t~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~  344 (667)
                      |.+....|+..|..+...-..  ..-.+.+.++.+....    .+.+......+..... +..+.+ ....-....-.+.
T Consensus       164 Y~~Al~~D~~c~Ea~~~lvs~--~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~-~~~r~~~~sl~~l  240 (611)
T KOG1173|consen  164 YKEALLADAKCFEAFEKLVSA--HMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEE-SLTRNEDESLIGL  240 (611)
T ss_pred             HHHHHhcchhhHHHHHHHHHH--HhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhcccc-ccccCchhhhhhh
Confidence            766655555544443221110  0111111222221110    0111111111111100 000000 0000000000011


Q ss_pred             CCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005966          345 ECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAY  424 (667)
Q Consensus       345 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  424 (667)
                      ..+..+                               ......-+...+++.+..++.+...+. .++....+..-|.++
T Consensus       241 ~~~~dl-------------------------------l~~~ad~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l  288 (611)
T KOG1173|consen  241 AENLDL-------------------------------LAEKADRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACL  288 (611)
T ss_pred             hhcHHH-------------------------------HHHHHHHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHH
Confidence            122222                               223334444556666666666665543 233333444444455


Q ss_pred             hCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHH
Q 005966          425 AILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVS  503 (667)
Q Consensus       425 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~  503 (667)
                      ...|+..+-..+-..+++.- |..+.+|-++.-.|...|+..+|.+.|.+....+|. ...|-.+...|.-.|..++|+.
T Consensus       289 ~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAma  367 (611)
T KOG1173|consen  289 YELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMA  367 (611)
T ss_pred             HHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHH
Confidence            56666555555555555443 556677777777777778888888888877665443 4578888888888888888888


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC---
Q 005966          504 LFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP---  580 (667)
Q Consensus       504 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---  580 (667)
                      .|...-+.- +-....+..+.--|.+.++.+.|.++|..+..  -.|.|+...+-++-..-..+.+.+|...|+...   
T Consensus       368 aY~tAarl~-~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~i  444 (611)
T KOG1173|consen  368 AYFTAARLM-PGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVI  444 (611)
T ss_pred             HHHHHHHhc-cCCcchHHHHHHHHHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHh
Confidence            887776631 11222233344457778888888888888876  444556666667666677788888888877651   


Q ss_pred             -----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          581 -----LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       581 -----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                           .++ -..+++.|+-+|++.+.+++|+..+++++.+.|.++.++..+|-+|...|+++.|++.|.+..-
T Consensus       445 k~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~  517 (611)
T KOG1173|consen  445 KSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALA  517 (611)
T ss_pred             hhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHh
Confidence                 111 2345777888888888888888888888888888888888888888888888888888887554

>TIGR00540 hemY_coli hemY protein

Probab=99.59  E-value=1.3e-12  Score=131.06  Aligned_cols=287  Identities=10%  Similarity=-0.020  Sum_probs=194.4

Q ss_pred             HhcCCHHHHHHHHhccCCCCccc---HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHH
Q 005966          359 AKCNLVKLSFQVFARTSKKKTVP---WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMN  435 (667)
Q Consensus       359 ~~~g~~~~a~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~  435 (667)
                      ...|+++.|.+.+.+..+..+.+   +-.......+.|+++.|.+.+.+..+....+....-......+...|+++.|..
T Consensus        95 ~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            34678888888777665433322   334456667778888888888887654322222233334667778888999998


Q ss_pred             HHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-CCcchHH----HHHHHHHHcCChHHHHHHHHHHHH
Q 005966          436 IHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-KDIVVWS----VIIAGYGMHGHGETAVSLFKEMVQ  510 (667)
Q Consensus       436 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~----~l~~~~~~~~~~~~a~~~~~~m~~  510 (667)
                      .++.+.+.. |.++.....+...+.+.|++++|.+++..+.+.+ ++...+.    .........+..+++.+.+..+.+
T Consensus       175 ~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~  253 (409)
T TIGR00540       175 GVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWK  253 (409)
T ss_pred             HHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            888888876 5566778888888999999998888888887654 2332221    111112233333334445555555


Q ss_pred             cCC---CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CH
Q 005966          511 SGV---QPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-TH  585 (667)
Q Consensus       511 ~~~---~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~  585 (667)
                      ...   +.+...+..+...+...|+.++|.+++++..+.....++..............++.+.+.+.+++. +..| |+
T Consensus       254 ~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~  333 (409)
T TIGR00540       254 NQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKP  333 (409)
T ss_pred             HCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCCh
Confidence            422   136677888888899999999999999999883322111110122222234457788888888776 4555 44


Q ss_pred             --HHHHHHHHHHHhcCCHHHHHHHHH--HhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          586 --AVWGALLGACVIHGNVELGEVAAK--WLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       586 --~~~~~l~~~~~~~g~~~~A~~~~~--~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                        ....++.+.|.+.|++++|.+.++  .+++..|++ ..+..++.++.+.|+.++|.+++++...
T Consensus       334 ~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~-~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       334 KCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDA-NDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCH-HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence              567788999999999999999999  577788884 4466999999999999999999988543

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.

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

Probab=99.57  E-value=8.6e-12  Score=116.27  Aligned_cols=194  Identities=12%  Similarity=0.115  Sum_probs=111.8

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC  527 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  527 (667)
                      +.|..++.+-|.-.++.++|...|++..+.+|. ...|+.+..-|...++...|++-|++.++-. +-|...|-.|.++|
T Consensus       330 ~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~DyRAWYGLGQaY  408 (559)
T KOG1155|consen  330 PETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PRDYRAWYGLGQAY  408 (559)
T ss_pred             ccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-chhHHHHhhhhHHH
Confidence            344555555566666666666666666555443 3455666666666666666666666666643 33555666666666


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP--LKPTHAVWGALLGACVIHGNVELGE  605 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~  605 (667)
                      .-.+...=|+-+|+++.+  -.|-|...|.+|+++|.+.++.++|++.|++.-  -..+...+..|+..+-+.++.++|.
T Consensus       409 eim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~LakLye~l~d~~eAa  486 (559)
T KOG1155|consen  409 EIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAKLYEELKDLNEAA  486 (559)
T ss_pred             HHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHhHHHHH
Confidence            666666666666666655  333455566666666666666666666666652  2223355666666666666666666


Q ss_pred             HHHHHhhc-------cCCCCCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          606 VAAKWLFE-------LEPENPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       606 ~~~~~~~~-------~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      ..+++-++       ..|.-..+...|+.-+.+.+++++|-.+..+.
T Consensus       487 ~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~  533 (559)
T KOG1155|consen  487 QYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATLV  533 (559)
T ss_pred             HHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHHH
Confidence            66666554       22322334444555566666666665554443

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.56  E-value=2.4e-12  Score=128.39  Aligned_cols=252  Identities=12%  Similarity=0.021  Sum_probs=196.2

Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHH--HHHHHHHHhcCCHHHHH
Q 005966          392 NGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVS--TGLIDIYSKCGSLESAH  469 (667)
Q Consensus       392 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~A~  469 (667)
                      .|++++|.+.+....+..-.| ...|.....+....|+++.|.+.+..+.+..  |+....  ......+...|+++.|.
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-VVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAAR  173 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccch-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHHH
Confidence            699999998888765542222 2334444455588999999999999997653  444332  24477899999999999


Q ss_pred             HHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHhccCCHHHHHHHHH
Q 005966          470 KIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE-------VTFTSALHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       470 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~g~~~~A~~~~~  541 (667)
                      ..++++.+..| ++.....+...|.+.|++++|.+++.++.+.+..++.       .+|..++.......+.+...++++
T Consensus       174 ~~l~~~~~~~P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~  253 (398)
T PRK10747        174 HGVDKLLEVAPRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWK  253 (398)
T ss_pred             HHHHHHHhcCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            99999988876 4678888999999999999999999999997655332       133334444444556677777777


Q ss_pred             HhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          542 FMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       542 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      ..-+  ..+.++.....++..+...|+.++|.+.+++. +..||+...  ++.+....++.+++....++.++..|+|+.
T Consensus       254 ~lp~--~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~~  329 (398)
T PRK10747        254 NQSR--KTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKRQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTPL  329 (398)
T ss_pred             hCCH--HHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCHH
Confidence            7755  33457778889999999999999999999887 555666433  334445669999999999999999999999


Q ss_pred             hHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          621 NYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .+..++.++.+.|+|++|.+.|+++.+..+
T Consensus       330 l~l~lgrl~~~~~~~~~A~~~le~al~~~P  359 (398)
T PRK10747        330 LWSTLGQLLMKHGEWQEASLAFRAALKQRP  359 (398)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999988754

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

Probab=99.54  E-value=4.8e-13  Score=130.55  Aligned_cols=246  Identities=17%  Similarity=0.160  Sum_probs=196.1

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC--CCCchHHHHHHHHHHhcCCHH-HHH
Q 005966          393 GLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGF--LSVVEVSTGLIDIYSKCGSLE-SAH  469 (667)
Q Consensus       393 ~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~-~A~  469 (667)
                      -+..+|+..|..... .+.-+......+..+|...+++++|.++|+.+.+...  -.+..+|.+.+--+-+.=.+. -|.
T Consensus       333 y~~~~A~~~~~klp~-h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq  411 (638)
T KOG1126|consen  333 YNCREALNLFEKLPS-HHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQ  411 (638)
T ss_pred             HHHHHHHHHHHhhHH-hcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHH
Confidence            356899999999544 3444557777889999999999999999999987541  224566666553332211111 122


Q ss_pred             HHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC
Q 005966          470 KIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQ  548 (667)
Q Consensus       470 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  548 (667)
                      ++.+..+   ..+.+|-++..+|.-+++.+.|++.|++.++.  .| ...+|..+..-+.....+|.|...|+.++.   
T Consensus       412 ~Li~~~~---~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~---  483 (638)
T KOG1126|consen  412 DLIDTDP---NSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALG---  483 (638)
T ss_pred             HHHhhCC---CCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhc---
Confidence            3333322   35789999999999999999999999999985  55 567888888888889999999999999887   


Q ss_pred             CCCchhHHH---HHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          549 TCSRADHYT---CIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       549 ~~~~~~~~~---~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                        .|...|+   .++-.|.++++++.|.-.|+++ .+.| +.+....++..+.+.|+.++|+++++++..++|.|+-.-+
T Consensus       484 --~~~rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~  561 (638)
T KOG1126|consen  484 --VDPRHYNAWYGLGTVYLKQEKLEFAEFHFQKAVEINPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKY  561 (638)
T ss_pred             --CCchhhHHHHhhhhheeccchhhHHHHHHHhhhcCCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHH
Confidence              4444455   5777899999999999999998 6777 5667778888899999999999999999999999999999


Q ss_pred             HHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          624 LLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ..+.++...+++++|+..++++++.-
T Consensus       562 ~~~~il~~~~~~~eal~~LEeLk~~v  587 (638)
T KOG1126|consen  562 HRASILFSLGRYVEALQELEELKELV  587 (638)
T ss_pred             HHHHHHHhhcchHHHHHHHHHHHHhC
Confidence            99999999999999999999998753

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

Probab=99.53  E-value=2.9e-14  Score=135.93  Aligned_cols=228  Identities=18%  Similarity=0.167  Sum_probs=105.7

Q ss_pred             HHHHHHhCcCCHHHHHHHHHHHHHhC-CCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcC
Q 005966          419 SLLPAYAILADLQQAMNIHCYLIRYG-FLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHG  496 (667)
Q Consensus       419 ~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~  496 (667)
                      .+...+.+.|++++|.+++....... .+.++..+..+.......++++.|.+.++++...++ ++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            45677889999999999997655444 355667777788888889999999999999988764 35566677776 7999


Q ss_pred             ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHH
Q 005966          497 HGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLI  576 (667)
Q Consensus       497 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  576 (667)
                      ++++|.+++++..+.  .+++..+..++..+...++++++..+++.+......+++...|..++..+.+.|+.++|++.+
T Consensus        92 ~~~~A~~~~~~~~~~--~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~  169 (280)
T PF13429_consen   92 DPEEALKLAEKAYER--DGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDY  169 (280)
T ss_dssp             ----------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHH
T ss_pred             ccccccccccccccc--ccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            999999999887765  356667788888899999999999999998875555678888999999999999999999999


Q ss_pred             HhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          577 RTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       577 ~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ++. ...| |......+++.+...|+.+++.++++...+..|+|+..+..++.+|...|+.++|+.++++..+..
T Consensus       170 ~~al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~  244 (280)
T PF13429_consen  170 RKALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN  244 (280)
T ss_dssp             HHHHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccc
Confidence            998 5667 577889999999999999999999999999889999999999999999999999999999988754

>TIGR00540 hemY_coli hemY protein

Probab=99.51  E-value=2.1e-11  Score=122.42  Aligned_cols=289  Identities=11%  Similarity=-0.029  Sum_probs=178.5

Q ss_pred             HhCCChHHHHHHHHHHHhcCCCCChhhH-HHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHH
Q 005966          289 ALNGDVRNALGLFQLMQFEGVRPNSLTI-GSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLS  367 (667)
Q Consensus       289 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~-~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  367 (667)
                      ...|+++.|.+.+.+..+.  .|+...+ .....+....|+.+.+...+....+....+...+...              
T Consensus        95 ~~~g~~~~A~~~l~~~~~~--~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~--------------  158 (409)
T TIGR00540        95 LAEGDYAKAEKLIAKNADH--AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIA--------------  158 (409)
T ss_pred             HhCCCHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHH--------------
Confidence            4578888888888776553  3443322 2223334444555555555555443321111112122              


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCC
Q 005966          368 FQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLS  447 (667)
Q Consensus       368 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  447 (667)
                                       ....+...|++++|...++.+.+.. +-+...+..+...+...|+++.|.+.+..+.+.+..+
T Consensus       159 -----------------~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~  220 (409)
T TIGR00540       159 -----------------RTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFD  220 (409)
T ss_pred             -----------------HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCC
Confidence                             2444555666666666666666543 2233455566666666666666666666666665332


Q ss_pred             CchHHHHHHHHH---Hh----cCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 005966          448 VVEVSTGLIDIY---SK----CGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVT  519 (667)
Q Consensus       448 ~~~~~~~l~~~~---~~----~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  519 (667)
                      +......-..++   ..    ....+...+.++..+... .++..+..+...+...|+.++|.+++++..+..  ||...
T Consensus       221 ~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~~--pd~~~  298 (409)
T TIGR00540       221 DEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKKL--GDDRA  298 (409)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhhC--CCccc
Confidence            222211111111   11    222334444444443321 267788888899999999999999999999863  44432


Q ss_pred             --H-HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHh--C-CCCCCHHHHHHHHH
Q 005966          520 --F-TSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRT--M-PLKPTHAVWGALLG  593 (667)
Q Consensus       520 --~-~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~-~~~p~~~~~~~l~~  593 (667)
                        + ..........++.+.+.+.++...+.....|+.....+++..+.+.|++++|.+.|++  . ...|+...+..+..
T Consensus       299 ~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~  378 (409)
T TIGR00540       299 ISLPLCLPIPRLKPEDNEKLEKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAAD  378 (409)
T ss_pred             chhHHHHHhhhcCCCChHHHHHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHH
Confidence              1 1122223445788899999998887444444336677899999999999999999994  3 57899998889999


Q ss_pred             HHHhcCCHHHHHHHHHHhhc
Q 005966          594 ACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~  613 (667)
                      .+.+.|+.++|.+++++.+.
T Consensus       379 ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       379 AFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            99999999999999998765

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

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

Probab=99.50  E-value=1.1e-10  Score=109.69  Aligned_cols=406  Identities=14%  Similarity=0.014  Sum_probs=211.0

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCC-cccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q 005966           77 LYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPD-NYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAM  155 (667)
Q Consensus        77 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  155 (667)
                      .+.....-|.++|.+++|++.|.+.++.   .|| +.-|.....+|...|+++...+---..++.. +.-+-.+....++
T Consensus       117 ~lK~~GN~~f~~kkY~eAIkyY~~AI~l---~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~-P~Y~KAl~RRA~A  192 (606)
T KOG0547|consen  117 ALKTKGNKFFRNKKYDEAIKYYTQAIEL---CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELN-PDYVKALLRRASA  192 (606)
T ss_pred             HHHhhhhhhhhcccHHHHHHHHHHHHhc---CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcC-cHHHHHHHHHHHH
Confidence            4556677889999999999999999976   677 7778888899999999999999888888775 3335567777788


Q ss_pred             HHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHH--------HHHHH-C--CCCCChHHHHHHHHHccc
Q 005966          156 YMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVF--------DWMLK-S--GVEPDCASVVSVLPACGY  224 (667)
Q Consensus       156 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~--------~~m~~-~--g~~p~~~~~~~ll~~~~~  224 (667)
                      +-..|++++|+.-         +|-.++..++....-..-+.+++        ++-.. +  -+-|+.....+.+..+-.
T Consensus       193 ~E~lg~~~eal~D---------~tv~ci~~~F~n~s~~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~  263 (606)
T KOG0547|consen  193 HEQLGKFDEALFD---------VTVLCILEGFQNASIEPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHA  263 (606)
T ss_pred             HHhhccHHHHHHh---------hhHHHHhhhcccchhHHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccc
Confidence            8888999888632         12223333322222222222222        22211 1  234555544444444321


Q ss_pred             CcchHHHHHHHHHHHhcCCCcchhHHHHHHHHH----Hh-cCCHHHHHHHHhhcCC-------C---C------hhHHHH
Q 005966          225 LKEIEMGRMIHELVAGGRLGKNIAAWNALVDMY----VK-CGSVNEARLVFDRMSE-------R---D------VVTWTS  283 (667)
Q Consensus       225 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~-~g~~~~A~~~~~~~~~-------~---~------~~~~~~  283 (667)
                      .-.            .....+.......+..++    .. ...+..|...+.+-..       .   |      ..+...
T Consensus       264 ~~~------------~~~~~~~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~  331 (606)
T KOG0547|consen  264 DPK------------PLFDNKSDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLL  331 (606)
T ss_pred             ccc------------ccccCCCccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHH
Confidence            100            000000001111111111    10 0123333333322111       1   1      112222


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCC
Q 005966          284 MINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNL  363 (667)
Q Consensus       284 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  363 (667)
                      ...-+.-.|+.-.|.+-|+..+.....++.. |..+-..|....+.++....|....+.+ +.++.+|-.-..++.-.++
T Consensus       332 ~gtF~fL~g~~~~a~~d~~~~I~l~~~~~~l-yI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q  409 (606)
T KOG0547|consen  332 RGTFHFLKGDSLGAQEDFDAAIKLDPAFNSL-YIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQ  409 (606)
T ss_pred             hhhhhhhcCCchhhhhhHHHHHhcCcccchH-HHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHH
Confidence            2223344677777777777777653333221 5555555666666666666665555544 3334444444444444444


Q ss_pred             HHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCC-CHHHHHHHHHHHhCcCCHHHHHHHHHHHHH
Q 005966          364 VKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEP-NDATLNSLLPAYAILADLQQAMNIHCYLIR  442 (667)
Q Consensus       364 ~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  442 (667)
                      ++.|..-|                               ++.+..  .| +...|..+.-+..+.+.+++++..|++..+
T Consensus       410 ~e~A~aDF-------------------------------~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk  456 (606)
T KOG0547|consen  410 YEEAIADF-------------------------------QKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK  456 (606)
T ss_pred             HHHHHHHH-------------------------------HHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44444444                               444321  22 222333333333444455555555554443


Q ss_pred             hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC---------cchHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 005966          443 YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD---------IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV  513 (667)
Q Consensus       443 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  513 (667)
                      . +|..+..|+.....+...++++.|.+.|+......|.         +.+-.+++..- -.+++..|.+++.+..+.+.
T Consensus       457 k-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dp  534 (606)
T KOG0547|consen  457 K-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDP  534 (606)
T ss_pred             h-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCc
Confidence            2 3445555666666666666666666666554443322         11111222221 23677777777777776532


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          514 QPNEVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       514 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      + ....|.+|...-.+.|+.++|+++|++...
T Consensus       535 k-ce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  535 K-CEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             h-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            2 234677777777777777777777776654

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.50  E-value=1.3e-09  Score=98.31  Aligned_cols=150  Identities=12%  Similarity=0.051  Sum_probs=91.0

Q ss_pred             HHHHHHHHhhCCCCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 005966          465 LESAHKIFSEIPIKD---KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       465 ~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~  541 (667)
                      +.-|...|+-+-+..   ..+..-.++..++.-..++++.+.++..+..--.. |..-...+..+++..|.+.+|+++|-
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~sYF~N-dD~Fn~N~AQAk~atgny~eaEelf~  417 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIESYFTN-DDDFNLNLAQAKLATGNYVEAEELFI  417 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-cchhhhHHHHHHHHhcChHHHHHHHh
Confidence            334555554443332   12233455666666666777777777777664322 33333346677777788888888877


Q ss_pred             HhHHhcCCCCchhHHH-HHHHHHhhcCChHHHHHHHHhCCCCCCHHHHH-HHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          542 FMLENHQTCSRADHYT-CIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWG-ALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       542 ~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+.. ..+ .|..+|. .|..+|.+.+.++-|++++-++....+..++. .+.+-|.+.+.+=-|-+.|..+-.++|.
T Consensus       418 ~is~-~~i-kn~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~  493 (557)
T KOG3785|consen  418 RISG-PEI-KNKILYKSMLARCYIRNKKPQLAWDMMLKTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT  493 (557)
T ss_pred             hhcC-hhh-hhhHHHHHHHHHHHHhcCCchHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC
Confidence            7654 222 3333444 35677788888888888877775444444443 3344577778777777777777777766

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.49  E-value=4.4e-09  Score=102.52  Aligned_cols=518  Identities=11%  Similarity=0.059  Sum_probs=319.0

Q ss_pred             ccHHHHHHHhccccchHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHc
Q 005966          112 YTYPIVIKACTDLAWRKLGIALHGRVLITG-FDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKN  190 (667)
Q Consensus       112 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  190 (667)
                      ..|..-+..+.+++++..-+..|+..+..- +.-...+|...+......|-++.+..++++..+-++..-+..|..+++.
T Consensus       103 RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~  182 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKS  182 (835)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            457777777889999999999999887663 3344567888888888899999999999999888888888899999999


Q ss_pred             CChhHHHHHHHHHHHC------CCCCChHHHHHHHHHcccCcchHHH---HHHHHHHHhcCCCcchhHHHHHHHHHHhcC
Q 005966          191 AYAKEALVVFDWMLKS------GVEPDCASVVSVLPACGYLKEIEMG---RMIHELVAGGRLGKNIAAWNALVDMYVKCG  261 (667)
Q Consensus       191 ~~~~~A~~~~~~m~~~------g~~p~~~~~~~ll~~~~~~~~~~~a---~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  261 (667)
                      +++++|.+.+......      ..+.+...|..+....++..+.-..   ..++..+...=.+.=...|++|.+-|.+.|
T Consensus       183 d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g  262 (835)
T KOG2047|consen  183 DRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSG  262 (835)
T ss_pred             cchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhh
Confidence            9999999998877542      1234445566555555544443332   233333332211122457899999999999


Q ss_pred             CHHHHHHHHhhcCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHH--hcCCCCChhhHHHHHHHhhcccchHHHHHHHH
Q 005966          262 SVNEARLVFDRMSE--RDVVTWTSMINGYALNGDVRNALGLFQLMQ--FEGVRPNSLTIGSLLSACSSLYYLKRGRSLHA  337 (667)
Q Consensus       262 ~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~--~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~  337 (667)
                      ++++|..+|++...  -.+.-|..+..+|+.-....-+..+  ++.  +.+-.-+.....             -...-++
T Consensus       263 ~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~FEE~~~~~~m--e~a~~~~~n~ed~~dl~-------------~~~a~~e  327 (835)
T KOG2047|consen  263 LFEKARDVYEEAIQTVMTVRDFTQIFDAYAQFEESCVAAKM--ELADEESGNEEDDVDLE-------------LHMARFE  327 (835)
T ss_pred             hhHHHHHHHHHHHHhheehhhHHHHHHHHHHHHHHHHHHHH--hhhhhcccChhhhhhHH-------------HHHHHHH
Confidence            99999999988654  2333344444444321111000000  000  001111111111             1111111


Q ss_pred             HHHHhc-----------CCCCchHHhHHHHHHHhcCCHHHHHHHHhcc-------CCCCccc--HHHHHHHHHhCCChHH
Q 005966          338 WTIKQN-----------LECEVIVETALIDMYAKCNLVKLSFQVFART-------SKKKTVP--WNAILAGCVHNGLARK  397 (667)
Q Consensus       338 ~~~~~~-----------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~-------~~~~~~~--~~~li~~~~~~~~~~~  397 (667)
                      .+....           -+.++..|..-+..+  .|+..+-...+.+.       ...+...  |..+...|-..|+.+.
T Consensus       328 ~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~--e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~  405 (835)
T KOG2047|consen  328 SLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLY--EGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDD  405 (835)
T ss_pred             HHHhccchHHHHHHHhcCCccHHHHHhhhhhh--cCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHH
Confidence            111110           022222222222222  34444444444332       2222222  9999999999999999


Q ss_pred             HHHHHHHHHHCCCCCC---HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC-----------CC------CCchHHHHHHH
Q 005966          398 AVELFRQMLVEVVEPN---DATLNSLLPAYAILADLQQAMNIHCYLIRYG-----------FL------SVVEVSTGLID  457 (667)
Q Consensus       398 A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----------~~------~~~~~~~~l~~  457 (667)
                      |..+|++......+--   ..+|......-.+..+++.|..+.+......           .+      .+..++...++
T Consensus       406 aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~D  485 (835)
T KOG2047|consen  406 ARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYAD  485 (835)
T ss_pred             HHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHH
Confidence            9999999876543322   2344444445556778888888877654211           11      13445666777


Q ss_pred             HHHhcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhc---cCC
Q 005966          458 IYSKCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV-TFTSALHACSH---GGL  532 (667)
Q Consensus       458 ~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~---~g~  532 (667)
                      .....|-++....+|+++.+.. ..+...-.....+-.+.-++++.++|++-+..-..|+.. .|+..+.-+.+   .-.
T Consensus       486 leEs~gtfestk~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~k  565 (835)
T KOG2047|consen  486 LEESLGTFESTKAVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTK  565 (835)
T ss_pred             HHHHhccHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCC
Confidence            7788899999999999988754 222222222233445666899999999887764456653 56666655443   247


Q ss_pred             HHHHHHHHHHhHHhcCCCCchh--HHHHHHHHHhhcCChHHHHHHHHhCC--CCCCH--HHHHHHHHHHHhcCCHHHHHH
Q 005966          533 LDEGLDLFNFMLENHQTCSRAD--HYTCIVDLLGRAGRLDEAYDLIRTMP--LKPTH--AVWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       533 ~~~A~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~--~~~~~l~~~~~~~g~~~~A~~  606 (667)
                      .+.|..+|+++++  +.+|...  .|......-.+-|-...|+++++++.  .++..  ..|+..+.-....=-...-..
T Consensus       566 lEraRdLFEqaL~--~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v~~a~~l~myni~I~kaae~yGv~~TR~  643 (835)
T KOG2047|consen  566 LERARDLFEQALD--GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAVKEAQRLDMYNIYIKKAAEIYGVPRTRE  643 (835)
T ss_pred             HHHHHHHHHHHHh--cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHhCCcccHH
Confidence            8999999999998  7766532  33333344446789999999999984  33322  245555544333223445578


Q ss_pred             HHHHhhccCCCCCch--HHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          607 AAKWLFELEPENPGN--YVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       607 ~~~~~~~~~p~~~~~--~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      +|+++++.-|++-..  ....+++=.+.|..+.|+.++....+-
T Consensus       644 iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~  687 (835)
T KOG2047|consen  644 IYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQI  687 (835)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhc
Confidence            999999998885443  334577788899999999998876543

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

Probab=99.48  E-value=2.8e-10  Score=109.22  Aligned_cols=271  Identities=15%  Similarity=0.087  Sum_probs=159.9

Q ss_pred             HHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHH
Q 005966          286 NGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVK  365 (667)
Q Consensus       286 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  365 (667)
                      .-+...+++.++.++.+...+. .++....+..-|.++...|+...-.-+-..+++.- +..+.+|-++.-.|...|+..
T Consensus       252 d~~y~~c~f~~c~kit~~lle~-dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~s  329 (611)
T KOG1173|consen  252 DRLYYGCRFKECLKITEELLEK-DPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYS  329 (611)
T ss_pred             HHHHHcChHHHHHHHhHHHHhh-CCCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcH
Confidence            3344445555555555555443 12333333333333333443333333322222221 334455566666666667777


Q ss_pred             HHHHHHhccCCCCcc---cHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHH
Q 005966          366 LSFQVFARTSKKKTV---PWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIR  442 (667)
Q Consensus       366 ~a~~~~~~~~~~~~~---~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  442 (667)
                      +|++.|.+...-|..   .|-.+..+|+-.|..++|+..|...-+.= +-.                             
T Consensus       330 eARry~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl~-~G~-----------------------------  379 (611)
T KOG1173|consen  330 EARRYFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARLM-PGC-----------------------------  379 (611)
T ss_pred             HHHHHHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHhc-cCC-----------------------------
Confidence            777777665533332   27777777777777777777666544320 000                             


Q ss_pred             hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHc--CC---CC-
Q 005966          443 YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQS--GV---QP-  515 (667)
Q Consensus       443 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~---~p-  515 (667)
                        ..|  ..|  +.--|.+.++++-|.+.|.......| |+...+-+.......+.+.+|..+|+..+..  .+   .+ 
T Consensus       380 --hlP--~LY--lgmey~~t~n~kLAe~Ff~~A~ai~P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~  453 (611)
T KOG1173|consen  380 --HLP--SLY--LGMEYMRTNNLKLAEKFFKQALAIAPSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIF  453 (611)
T ss_pred             --cch--HHH--HHHHHHHhccHHHHHHHHHHHHhcCCCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccc
Confidence              011  111  22235566677777777776666554 5566666666666677778888877776631  01   11 


Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHH
Q 005966          516 NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGA  594 (667)
Q Consensus       516 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~  594 (667)
                      -..+++.|..+|.+.+++++|+..+++.+.  ..+.+..++.+++-.|...|+++.|.+.|.+. .++|+..+...++..
T Consensus       454 w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~--l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~p~n~~~~~lL~~  531 (611)
T KOG1173|consen  454 WEPTLNNLGHAYRKLNKYEEAIDYYQKALL--LSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALKPDNIFISELLKL  531 (611)
T ss_pred             hhHHHHhHHHHHHHHhhHHHHHHHHHHHHH--cCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcCCccHHHHHHHHH
Confidence            234677788888888888888888888877  55567778888888888888888888888776 577777666666554


Q ss_pred             HH
Q 005966          595 CV  596 (667)
Q Consensus       595 ~~  596 (667)
                      +.
T Consensus       532 ai  533 (611)
T KOG1173|consen  532 AI  533 (611)
T ss_pred             HH
Confidence            43

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=7.7e-12  Score=116.65  Aligned_cols=201  Identities=14%  Similarity=0.106  Sum_probs=168.9

Q ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005966          447 SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALH  525 (667)
Q Consensus       447 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  525 (667)
                      .....+..+...+...|++++|.+.+++.....|+ ...+..+...+...|++++|.+.+++..+.. +.+...+..+..
T Consensus        29 ~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~  107 (234)
T TIGR02521        29 KAAKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGT  107 (234)
T ss_pred             cHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHH
Confidence            34566777888999999999999999987765554 5677888889999999999999999998864 335567778888


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHH
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  603 (667)
                      .+...|++++|.+.++++.+....+.....+..+...+...|++++|...+++. ...| +...+..+...+...|++++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~  187 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKD  187 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHH
Confidence            899999999999999999873333334556777889999999999999999987 3444 56678888899999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      |...++++++..|.++..+..++.++...|+.++|..+.+.+.+.
T Consensus       188 A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       188 ARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            999999999998888889999999999999999999998887654

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.47  E-value=4.8e-09  Score=104.66  Aligned_cols=411  Identities=17%  Similarity=0.131  Sum_probs=268.5

Q ss_pred             cCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHH
Q 005966          241 GRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIG  317 (667)
Q Consensus       241 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  317 (667)
                      ..+..|..+|..|.-+...+|+++.+.+.|++...   .....|+.+...+...|.-..|..++++-....-.|+..+--
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            34556788899999999999999999999999876   456678999999999999999999998876543335444433


Q ss_pred             HHHHH-h-hcccchHHHHHHHHHHHHh--cC--CCCchHHhHHHHHHHhcC-----------CHHHHHHHHhccC---CC
Q 005966          318 SLLSA-C-SSLYYLKRGRSLHAWTIKQ--NL--ECEVIVETALIDMYAKCN-----------LVKLSFQVFARTS---KK  377 (667)
Q Consensus       318 ~ll~~-~-~~~~~~~~a~~~~~~~~~~--~~--~~~~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~---~~  377 (667)
                      .+... | .+.+.++++..+-..++..  +.  ...+..+..+.-+|...-           ...++...+++..   ..
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            33332 3 3456777777666666552  21  122333444444443221           1345566666664   33


Q ss_pred             CcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHH-hCCCCCchHHHHHH
Q 005966          378 KTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIR-YGFLSVVEVSTGLI  456 (667)
Q Consensus       378 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~l~  456 (667)
                      |+.....+.--|+-.++.+.|++..++..+.+-.-+...|..+.-.+...+++..|+.+.+.... .|......  ..-+
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 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLM--DGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhc--hhhh
Confidence            44443444556777889999999999999887778888888888888999999999999887653 32211100  0011


Q ss_pred             HHHHhcCCHHHHHHHHhhCCC--------------------------CC--C-C-cchHHHHHHHHHHcCChHHHHHHHH
Q 005966          457 DIYSKCGSLESAHKIFSEIPI--------------------------KD--K-D-IVVWSVIIAGYGMHGHGETAVSLFK  506 (667)
Q Consensus       457 ~~~~~~g~~~~A~~~~~~~~~--------------------------~~--~-~-~~~~~~l~~~~~~~~~~~~a~~~~~  506 (667)
                      ..-..-++.+++......+..                          ..  | + +.++..+..-....+  ..+..-..
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~--~~~~se~~  632 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQL--KSAGSELK  632 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhh--hhcccccc
Confidence            111123344433332221110                          00  0 1 112221111111100  00000000


Q ss_pred             HHHHcCCC--CCH------HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHh
Q 005966          507 EMVQSGVQ--PNE------VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRT  578 (667)
Q Consensus       507 ~m~~~~~~--p~~------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  578 (667)
                       +...-..  |+.      ..|......+.+.+..++|...+.++.+  ..+-....|...+..+...|.+++|.+.|..
T Consensus       633 -Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af~~  709 (799)
T KOG4162|consen  633 -LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAFLV  709 (799)
T ss_pred             -cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHHHH
Confidence             1111122  221      2344556678888999999988888876  3445566788888889999999999999887


Q ss_pred             C-CCCCC-HHHHHHHHHHHHhcCCHHHHHH--HHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCccCC
Q 005966          579 M-PLKPT-HAVWGALLGACVIHGNVELGEV--AAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAP  654 (667)
Q Consensus       579 ~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~--~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  654 (667)
                      . ...|+ +....++...+.+.|+...|..  ++..+++.+|.++.+|+.||.++.+.|+.++|.+.|+...+.. ...|
T Consensus       710 Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe-~S~P  788 (799)
T KOG4162|consen  710 ALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLE-ESNP  788 (799)
T ss_pred             HHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhc-cCCC
Confidence            6 57774 5588899999999999888888  9999999999999999999999999999999999999987765 3456


Q ss_pred             CeeEE
Q 005966          655 AHSLI  659 (667)
Q Consensus       655 ~~~~~  659 (667)
                      -.+|.
T Consensus       789 V~pFs  793 (799)
T KOG4162|consen  789 VLPFS  793 (799)
T ss_pred             ccccc
Confidence            55554

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.46  E-value=1.3e-10  Score=106.86  Aligned_cols=278  Identities=13%  Similarity=0.056  Sum_probs=211.8

Q ss_pred             cCCHHHHHHHHhccCCCCccc---HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHH
Q 005966          361 CNLVKLSFQVFARTSKKKTVP---WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIH  437 (667)
Q Consensus       361 ~g~~~~a~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  437 (667)
                      .|++.+|+++..+-.+....+   |-.-+.+-.+.|+.+.+-.++.+..+.--.++.....+........|+++.|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            578888888887765444333   44555666678899999999988887544555566667777788889999999988


Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC--CC-------cchHHHHHHHHHHcCChHHHHHHHHHH
Q 005966          438 CYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD--KD-------IVVWSVIIAGYGMHGHGETAVSLFKEM  508 (667)
Q Consensus       438 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~m  508 (667)
                      ..+.+.+ +..+.......++|.+.|++.....++..+.+.+  .+       ..+|+.++.-....+..+.-...++..
T Consensus       177 ~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            8888877 5667788888999999999999999998888766  12       246777777766666666666677766


Q ss_pred             HHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHH
Q 005966          509 VQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHA  586 (667)
Q Consensus       509 ~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~  586 (667)
                      ... .+-++..-..++.-+.+.|+.++|.++.++..+ ....|..   ..+ -...+.++.+.-++..++. . .+.++.
T Consensus       256 pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk-~~~D~~L---~~~-~~~l~~~d~~~l~k~~e~~l~~h~~~p~  329 (400)
T COG3071         256 PRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALK-RQWDPRL---CRL-IPRLRPGDPEPLIKAAEKWLKQHPEDPL  329 (400)
T ss_pred             cHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHH-hccChhH---HHH-HhhcCCCCchHHHHHHHHHHHhCCCChh
Confidence            554 455666777778888899999999999999888 4554552   222 2345677777766666665 2 233557


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      .+.+|+..|.+++.+.+|...++.+++..|+ ...+..++.++.+.|+.++|.+.+++..
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s-~~~~~~la~~~~~~g~~~~A~~~r~e~L  388 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKLRPS-ASDYAELADALDQLGEPEEAEQVRREAL  388 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC-hhhHHHHHHHHHHcCChHHHHHHHHHHH
Confidence            8889999999999999999999999999998 7889999999999999999999988865

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.45  E-value=2.6e-08  Score=97.56  Aligned_cols=608  Identities=11%  Similarity=0.028  Sum_probs=307.8

Q ss_pred             CCCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh--hHhhhcCChhhHHHhhcccCCC---CcchHHHHH
Q 005966            9 LPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS--SLVRAYGHVSNVRILFDEMSER---SSFLYNTVM   82 (667)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~   82 (667)
                      +||-.-+++.-+.-|...+.+..+..+.+.+++-.|++ ..+..  -.+...|+-++|..........   +.+.|..+.
T Consensus         3 l~~KE~~lF~~~lk~yE~kQYkkgLK~~~~iL~k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~g   82 (700)
T KOG1156|consen    3 LSPKENALFRRALKCYETKQYKKGLKLIKQILKKFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLG   82 (700)
T ss_pred             CChHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHhCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHH
Confidence            45556666666666778888999999999999988877 33333  4455679999999888776543   567899888


Q ss_pred             HHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 005966           83 KMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEV  162 (667)
Q Consensus        83 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  162 (667)
                      -.+....++++|++.|......  -+.|...+.-+.-.=++.++++........+.+.. +.....|..+..++.-.|+.
T Consensus        83 l~~R~dK~Y~eaiKcy~nAl~~--~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~-~~~ra~w~~~Avs~~L~g~y  159 (700)
T KOG1156|consen   83 LLQRSDKKYDEAIKCYRNALKI--EKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLR-PSQRASWIGFAVAQHLLGEY  159 (700)
T ss_pred             HHHhhhhhHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhh-hhhHHHHHHHHHHHHHHHHH
Confidence            8888889999999999999976  34445555555444456677777777777776664 44455677777777777888


Q ss_pred             HHHHHHhcccCC-----CChhhHHHH------HHHHHHcCChhHHHHHHHHHHHCCCCCChHHH-HHHHHHcccCcchHH
Q 005966          163 KAARKVFDAMWE-----HSVVSWNTL------ISGYFKNAYAKEALVVFDWMLKSGVEPDCASV-VSVLPACGYLKEIEM  230 (667)
Q Consensus       163 ~~A~~~~~~~~~-----~~~~~~~~l------i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~-~~ll~~~~~~~~~~~  230 (667)
                      ..|..++++..+     ++...|.-.      .....+.|..+.|++.+..-... + -|...+ .+-...+.+.+++++
T Consensus       160 ~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~-i-~Dkla~~e~ka~l~~kl~~lEe  237 (700)
T KOG1156|consen  160 KMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ-I-VDKLAFEETKADLLMKLGQLEE  237 (700)
T ss_pred             HHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH-H-HHHHHHhhhHHHHHHHHhhHHh
Confidence            888877766522     233333222      23445566667776666544321 1 111111 222223445566666


Q ss_pred             HHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHH-HHHhhcCC--CCh-hHHHHHHHHHHhCCChHHHHHHHHHHHh
Q 005966          231 GRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEAR-LVFDRMSE--RDV-VTWTSMINGYALNGDVRNALGLFQLMQF  306 (667)
Q Consensus       231 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~-~~~~~~~~--~~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~  306 (667)
                      |..++..++..+ +.+...|..+..++.+-.+.-++. .+|....+  |.. ..-..=+.......-.+..-.++..+.+
T Consensus       238 A~~~y~~Ll~rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~  316 (700)
T KOG1156|consen  238 AVKVYRRLLERN-PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLS  316 (700)
T ss_pred             HHHHHHHHHhhC-chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhh
Confidence            666666665553 112333333333333222222222 44443332  000 0000000111111112223334444455


Q ss_pred             cCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhc--cCCCCcccH--
Q 005966          307 EGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFAR--TSKKKTVPW--  382 (667)
Q Consensus       307 ~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~--~~~~~~~~~--  382 (667)
                      .|+++-...+.++-.   .....+    +.+.+               +..|...-.-.......+.  ...|....|  
T Consensus       317 Kg~p~vf~dl~SLyk---~p~k~~----~le~L---------------vt~y~~~L~~~~~f~~~D~~~~E~PttllWt~  374 (700)
T KOG1156|consen  317 KGVPSVFKDLRSLYK---DPEKVA----FLEKL---------------VTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTL  374 (700)
T ss_pred             cCCCchhhhhHHHHh---chhHhH----HHHHH---------------HHHHHhhcccccCCCcccccccCCchHHHHHH
Confidence            555432222222111   111000    11111               1111000000000000000  001111112  


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          383 NAILAGCVHNGLARKAVELFRQMLVEVVEPNDA-TLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       383 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      ..++..+-+.|+++.|...++....  -.|+.+ -|..-.+.+...|+++.|..++++..+.. .+|..+-.--+.-..+
T Consensus       375 y~laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD-~aDR~INsKcAKYmLr  451 (700)
T KOG1156|consen  375 YFLAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD-TADRAINSKCAKYMLR  451 (700)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc-chhHHHHHHHHHHHHH
Confidence            2344555566666666666666553  244433 23333455666666666666666665554 3444444445555566


Q ss_pred             cCCHHHHHHHHhhCCCCCCCcc--------hHHHH--HHHHHHcCChHHHHHHHHHHHHc-----CCCCCHHHH------
Q 005966          462 CGSLESAHKIFSEIPIKDKDIV--------VWSVI--IAGYGMHGHGETAVSLFKEMVQS-----GVQPNEVTF------  520 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~~~--------~~~~l--~~~~~~~~~~~~a~~~~~~m~~~-----~~~p~~~~~------  520 (667)
                      +++.++|.++.......+-+..        .|-.+  ..+|.+.|++..|++-|..+.+.     .-+-|-.||      
T Consensus       452 An~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i~k~~~~~~~dqfDfhtyc~rk~t  531 (700)
T KOG1156|consen  452 ANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEIEKHYKTWSEDQFDFHTYCMRKGT  531 (700)
T ss_pred             ccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhHHHHHHHHhhhhhhHHHHHHhcCc
Confidence            6666666666665555432111        22222  34566677776666555444331     012233333      


Q ss_pred             ----HHHHHHHhcc---CC----HHHHHHHHHHhHHhc-CCCCchhHHHHHH----HHHhhc-CChHHHHHHHHhC----
Q 005966          521 ----TSALHACSHG---GL----LDEGLDLFNFMLENH-QTCSRADHYTCIV----DLLGRA-GRLDEAYDLIRTM----  579 (667)
Q Consensus       521 ----~~ll~~~~~~---g~----~~~A~~~~~~~~~~~-~~~~~~~~~~~l~----~~~~~~-g~~~~A~~~~~~~----  579 (667)
                          .-|+...-..   -.    ...|++++-.|.+.. ...+.......+.    ....++ .+-.+|...-+.+    
T Consensus       532 lrsYv~ll~~~d~L~~~p~y~~Aa~~Ai~iYl~l~d~p~~~~~~~~~~~~ms~e~kk~~~k~rk~~kk~~~e~~~~~~~~  611 (700)
T KOG1156|consen  532 LRSYVELLEWEDNLRSSPYYLRAAKGAIEIYLRLHDSPNMYTNKADEIEKMSDEEKKIKKKQRKAKKKAKKEAKKKKDKK  611 (700)
T ss_pred             HHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCcccccccchhhhhccHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                2233222111   11    123455555554421 0001111111111    111111 1111121111111    


Q ss_pred             ----------CCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          580 ----------PLKPTHAVWGALLGACVIHG-NVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       580 ----------~~~p~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                                +..||..   -+.....+.. -.++|..++.......++++..|..-..+|.+.|++.-|.+.+++....
T Consensus       612 ~~~~~s~~~~~~~~d~~---~~gekL~~t~~Pl~ea~kf~~~l~~~~~~~~~~~iL~~ely~rk~k~~l~~~~~~~~~~~  688 (700)
T KOG1156|consen  612 KKEAKSQSGKPVDIDED---PFGEKLLKTEDPLEEARKFLPNLQHKGKEKGETYILSFELYYRKGKFLLALACLNNAEGI  688 (700)
T ss_pred             HhhhccccCCCCCCCCc---chhhhHhhcCChHHHHHHHHHHHHHhcccchhhhhhhHHHHHHHHHHHHHHHHHHhhhhh
Confidence                      1234444   2333344443 4788999999999999999999999999999999999999999887665


Q ss_pred             CC
Q 005966          649 GL  650 (667)
Q Consensus       649 ~~  650 (667)
                      ..
T Consensus       689 ~~  690 (700)
T KOG1156|consen  689 HG  690 (700)
T ss_pred             cC
Confidence            43

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.44  E-value=6.3e-09  Score=100.62  Aligned_cols=446  Identities=11%  Similarity=0.061  Sum_probs=247.5

Q ss_pred             HHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHH
Q 005966          187 YFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEA  266 (667)
Q Consensus       187 ~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  266 (667)
                      +...|++++|.....++...+ +-|...+..-+-++.+.+.++.|..+.+.-...  ..+..-+---+-+..+.++.|+|
T Consensus        22 ~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dea   98 (652)
T KOG2376|consen   22 HGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEA   98 (652)
T ss_pred             hccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHH
Confidence            344555555555555555432 222333444444455555555555333221100  00011111112344567888888


Q ss_pred             HHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhh-HHHHHHHhhcccchHHHHHHHHHHHHhcCC
Q 005966          267 RLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLT-IGSLLSACSSLYYLKRGRSLHAWTIKQNLE  345 (667)
Q Consensus       267 ~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  345 (667)
                      +..++...+.+..+...-...+.+.|++++|+.+|+.+.+++..--..- -..++.+-..       ... ..+......
T Consensus        99 lk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~-------l~~-~~~q~v~~v  170 (652)
T KOG2376|consen   99 LKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA-------LQV-QLLQSVPEV  170 (652)
T ss_pred             HHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh-------hhH-HHHHhccCC
Confidence            8888865555555666667778888888888888888876654221111 1111111110       000 012222222


Q ss_pred             CCchHHhHH---HHHHHhcCCHHHHHHHHhcc--------CCCCcc-----c-----HHHHHHHHHhCCChHHHHHHHHH
Q 005966          346 CEVIVETAL---IDMYAKCNLVKLSFQVFART--------SKKKTV-----P-----WNAILAGCVHNGLARKAVELFRQ  404 (667)
Q Consensus       346 ~~~~~~~~l---~~~~~~~g~~~~a~~~~~~~--------~~~~~~-----~-----~~~li~~~~~~~~~~~A~~~~~~  404 (667)
                      | ..+|..+   .-.+...|++.+|+++++..        ...|.-     .     -..+.-.+...|+..+|..+|..
T Consensus       171 ~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~  249 (652)
T KOG2376|consen  171 P-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVD  249 (652)
T ss_pred             C-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            2 2233332   33456778899988888766        222111     1     23455667788999999999999


Q ss_pred             HHHCCCCCCHHH----HHHHHHHHhCcCCHHH--HHHHHHHH-----------HHhCCCCCchHHHHHHHHHHhcCCHHH
Q 005966          405 MLVEVVEPNDAT----LNSLLPAYAILADLQQ--AMNIHCYL-----------IRYGFLSVVEVSTGLIDIYSKCGSLES  467 (667)
Q Consensus       405 m~~~g~~p~~~~----~~~ll~~~~~~~~~~~--a~~~~~~~-----------~~~~~~~~~~~~~~l~~~~~~~g~~~~  467 (667)
                      ..... .+|...    .|.++. ...-.++..  +...++..           ......-....-+.++.+|  .+..+.
T Consensus       250 ~i~~~-~~D~~~~Av~~NNLva-~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~--tnk~~q  325 (652)
T KOG2376|consen  250 IIKRN-PADEPSLAVAVNNLVA-LSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALF--TNKMDQ  325 (652)
T ss_pred             HHHhc-CCCchHHHHHhcchhh-hccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHH--hhhHHH
Confidence            98764 344422    222222 222111111  11111111           1110001111112233333  466777


Q ss_pred             HHHHHhhCCCCCCCcchHHHHHHHHHH-cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH-----
Q 005966          468 AHKIFSEIPIKDKDIVVWSVIIAGYGM-HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFN-----  541 (667)
Q Consensus       468 A~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~-----  541 (667)
                      +.++........|....=..+..+... ...+..+.+++...-+....-.......++......|+++.|.+++.     
T Consensus       326 ~r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~  405 (652)
T KOG2376|consen  326 VRELSASLPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLES  405 (652)
T ss_pred             HHHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence            888887777765554444444444332 33577888888887775322223445556666788999999999999     


Q ss_pred             ---HhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-----CCCCCHH----HHHHHHHHHHhcCCHHHHHHHHH
Q 005966          542 ---FMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-----PLKPTHA----VWGALLGACVIHGNVELGEVAAK  609 (667)
Q Consensus       542 ---~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~  609 (667)
                         .+.+ .+..|-  +...++..+.+.++.+.|..++.+.     ...+...    ++..++..-.+.|+.++|...++
T Consensus       406 ~~ss~~~-~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~le  482 (652)
T KOG2376|consen  406 WKSSILE-AKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLE  482 (652)
T ss_pred             hhhhhhh-hccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHH
Confidence               4444 343344  4566778888888877777776655     1222222    33444444557799999999999


Q ss_pred             HhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCccCCCee
Q 005966          610 WLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHS  657 (667)
Q Consensus       610 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~  657 (667)
                      ++++.+|.|..+...++.+|... +.+.|..+=..     +.+.+++.
T Consensus       483 el~k~n~~d~~~l~~lV~a~~~~-d~eka~~l~k~-----L~p~~~l~  524 (652)
T KOG2376|consen  483 ELVKFNPNDTDLLVQLVTAYARL-DPEKAESLSKK-----LPPLKGLK  524 (652)
T ss_pred             HHHHhCCchHHHHHHHHHHHHhc-CHHHHHHHhhc-----CCCcccch
Confidence            99999999999999999999875 46777766443     44444444

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.44  E-value=3.5e-10  Score=104.18  Aligned_cols=287  Identities=12%  Similarity=0.019  Sum_probs=177.1

Q ss_pred             cCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHH
Q 005966          190 NAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLV  269 (667)
Q Consensus       190 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  269 (667)
                      .|+|.+|.+...+-.+.+-.| ...|.....+.-..|+.+.+..++..+.+.--.++..+.-+........|+++.|..-
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            577777777777766554443 2345555566667777777777777777664456677777778888888888888887


Q ss_pred             HhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCC
Q 005966          270 FDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLEC  346 (667)
Q Consensus       270 ~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  346 (667)
                      ++++.+   .+.........+|.+.|++.....++..|.+.|+--|+..-                 .+           
T Consensus       176 v~~ll~~~pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~-----------------~l-----------  227 (400)
T COG3071         176 VDQLLEMTPRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAA-----------------RL-----------  227 (400)
T ss_pred             HHHHHHhCcCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHH-----------------HH-----------
Confidence            777654   56777888888999999999999999999888765443321                 00           


Q ss_pred             CchHHhHHHHHHHhcCCHHHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005966          347 EVIVETALIDMYAKCNLVKLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPA  423 (667)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  423 (667)
                      ...++..+++-....+..+.-...++..+   +.++..-.+++.-+.+.|+.++|.++.++-.+.+..|+..    .+-.
T Consensus       228 e~~a~~glL~q~~~~~~~~gL~~~W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~L~----~~~~  303 (400)
T COG3071         228 EQQAWEGLLQQARDDNGSEGLKTWWKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPRLC----RLIP  303 (400)
T ss_pred             HHHHHHHHHHHHhccccchHHHHHHHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChhHH----HHHh
Confidence            01122333333333333333333444443   3334445556666667777777777777777666655522    2223


Q ss_pred             HhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHH
Q 005966          424 YAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVS  503 (667)
Q Consensus       424 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  503 (667)
                      +.+.++...-.+..+...+.. +.++..+..|...|.+.+.+.+|.+.|+...+..|+..+|+.+..++.+.|+..+|.+
T Consensus       304 ~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~  382 (400)
T COG3071         304 RLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQ  382 (400)
T ss_pred             hcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHH
Confidence            455566665555555544433 3344566666666666666666666666655555666666666666666666666666


Q ss_pred             HHHHHHH
Q 005966          504 LFKEMVQ  510 (667)
Q Consensus       504 ~~~~m~~  510 (667)
                      .+++...
T Consensus       383 ~r~e~L~  389 (400)
T COG3071         383 VRREALL  389 (400)
T ss_pred             HHHHHHH
Confidence            6665543

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.42  E-value=9.9e-12  Score=110.48  Aligned_cols=230  Identities=13%  Similarity=0.016  Sum_probs=183.0

Q ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchH-HHHHHHHH
Q 005966          415 ATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVW-SVIIAGYG  493 (667)
Q Consensus       415 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~l~~~~~  493 (667)
                      ..-..+..+|.+.|.+.+|...++.-.+.  .|-+.+|..|...|.+..++..|..+|.+..+..|..++| ..+...+.
T Consensus       224 wWk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  224 WWKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHH
Confidence            33445667777777777777777766554  3556677778888888888888888888888777755554 44666777


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHH
Q 005966          494 MHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAY  573 (667)
Q Consensus       494 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  573 (667)
                      ..++.++|.++|+...+.. ..+......+...|.-.++.+-|+.++++++. .|. .+.+.|+.+.-+|.-.+++|-++
T Consensus       302 am~~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLq-mG~-~speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQ-MGA-QSPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHH-hcC-CChHHHhhHHHHHHhhcchhhhH
Confidence            7888899999999888864 33555666677778888899999999999888 555 56677888888888899999988


Q ss_pred             HHHHhCC---CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          574 DLIRTMP---LKP--THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       574 ~~~~~~~---~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ..|++..   ..|  -..+|..+.......||+..|.+.|+-++..+|++..+++.|+.+-.+.|++++|..++....+.
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~  458 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSV  458 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhh
Confidence            8888762   223  34579999888899999999999999999999999999999999999999999999999988765


Q ss_pred             C
Q 005966          649 G  649 (667)
Q Consensus       649 ~  649 (667)
                      .
T Consensus       459 ~  459 (478)
T KOG1129|consen  459 M  459 (478)
T ss_pred             C
Confidence            4

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.42  E-value=1.4e-10  Score=103.30  Aligned_cols=292  Identities=13%  Similarity=0.106  Sum_probs=140.8

Q ss_pred             CCHHHHHHHHhccCCCCcccH---HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH---HHHHHHHHHHhCcCCHHHHHH
Q 005966          362 NLVKLSFQVFARTSKKKTVPW---NAILAGCVHNGLARKAVELFRQMLVEVVEPND---ATLNSLLPAYAILADLQQAMN  435 (667)
Q Consensus       362 g~~~~a~~~~~~~~~~~~~~~---~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~---~~~~~ll~~~~~~~~~~~a~~  435 (667)
                      .+.++|.++|-+|.+.++.++   -+|.+.|.+.|..+.|+.+-..+.++.--+..   ...-.|..-|...|-++.|..
T Consensus        49 ~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~  128 (389)
T COG2956          49 NQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAED  128 (389)
T ss_pred             cCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHH
Confidence            344555555555544444442   23444455555555555555544432111111   122233344445555555555


Q ss_pred             HHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc------chHHHHHHHHHHcCChHHHHHHHHHHH
Q 005966          436 IHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI------VVWSVIIAGYGMHGHGETAVSLFKEMV  509 (667)
Q Consensus       436 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~~m~  509 (667)
                      +|..+.+.+ ..-......|+..|....+|++|+++-.++.+.++..      ..|--+...+....+.+.|..++.+..
T Consensus       129 ~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAl  207 (389)
T COG2956         129 IFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKAL  207 (389)
T ss_pred             HHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHH
Confidence            555554433 2223344445555555555555555555444433211      122333344444556666666666666


Q ss_pred             HcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHH
Q 005966          510 QSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVW  588 (667)
Q Consensus       510 ~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~  588 (667)
                      +.+.+ ....-..+.+.....|+++.|.+.++.+.+ ....--..+...|..+|...|+.++....+.++ ...+.....
T Consensus       208 qa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~e-Qn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~~~  285 (389)
T COG2956         208 QADKK-CVRASIILGRVELAKGDYQKAVEALERVLE-QNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGADAE  285 (389)
T ss_pred             hhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHH-hChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCccHH
Confidence            54311 222233344455566666666666666655 222122334555566666666666666666554 334444444


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh--hcCCchHHHHHHHHhhhCCCccCCCe
Q 005966          589 GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS--AVRRWKDAENVRDVMDEKGLRKAPAH  656 (667)
Q Consensus       589 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~~~~~~~~  656 (667)
                      ..+...-....-.+.|...+.+-+...|+--..+..+.--..  ..|.+.+....++.|....++..|.+
T Consensus       286 l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~~~Y  355 (389)
T COG2956         286 LMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRKPRY  355 (389)
T ss_pred             HHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhcCCc
Confidence            444444444444555555555666666663222222222222  23456666677777776666655544

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.41  E-value=4.7e-09  Score=96.82  Aligned_cols=375  Identities=10%  Similarity=-0.000  Sum_probs=243.6

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCCC-ChhHHHHHHHHHHhCC-C-hHHH-------------HHHHHHHHh---
Q 005966          246 NIAAWNALVDMYVKCGSVNEARLVFDRMSER-DVVTWTSMINGYALNG-D-VRNA-------------LGLFQLMQF---  306 (667)
Q Consensus       246 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~~~~~~-~-~~~a-------------~~~~~~m~~---  306 (667)
                      +.......+.+|-..++-+.|..++.+.+.. ....-|.|+.-+.+.| + .+.+             +..+.-..+   
T Consensus        96 ~~e~~r~~aecy~~~~n~~~Ai~~l~~~p~t~r~p~inlMla~l~~~g~r~~~~vl~ykevvrecp~aL~~i~~ll~l~v  175 (564)
T KOG1174|consen   96 DAEQRRRAAECYRQIGNTDMAIETLLQVPPTLRSPRINLMLARLQHHGSRHKEAVLAYKEVIRECPMALQVIEALLELGV  175 (564)
T ss_pred             cHHHHHHHHHHHHHHccchHHHHHHhcCCccccchhHHHHHHHHHhccccccHHHHhhhHHHHhcchHHHHHHHHHHHhh
Confidence            3444455666777777778888777777652 2222333333332222 1 1111             111111111   


Q ss_pred             ------------cCCCCChhhHHHHHHHhhc--ccchHHHHHHHHHHH-HhcCCCCchHHhHHHHHHHhcCCHHHHHHHH
Q 005966          307 ------------EGVRPNSLTIGSLLSACSS--LYYLKRGRSLHAWTI-KQNLECEVIVETALIDMYAKCNLVKLSFQVF  371 (667)
Q Consensus       307 ------------~~~~p~~~t~~~ll~~~~~--~~~~~~a~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  371 (667)
                                  ..+.|...+....+.+++.  .++-..+.+.+-.+. ..-++.|......+...+...|+.++|...|
T Consensus       176 ~g~e~~S~~m~~~~~~~~~dwls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~F  255 (564)
T KOG1174|consen  176 NGNEINSLVMHAATVPDHFDWLSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIF  255 (564)
T ss_pred             cchhhhhhhhhheecCCCccHHHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHH
Confidence                        1233444444444554333  333333333333333 3456778888899999999999999999999


Q ss_pred             hccCCCCccc---HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCC
Q 005966          372 ARTSKKKTVP---WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSV  448 (667)
Q Consensus       372 ~~~~~~~~~~---~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  448 (667)
                      ++....|+.+   .......+.+.|+.++...+...+.... .-....|..-........+++.|..+-++.++.+ +.+
T Consensus       256 e~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~~-~r~  333 (564)
T KOG1174|consen  256 SSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDSE-PRN  333 (564)
T ss_pred             HHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhccC-ccc
Confidence            9887665555   2333445567888888888777776432 1122222222333445678888888888777655 445


Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH-HH
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSAL-HA  526 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll-~~  526 (667)
                      ...+-.-..++...|+.++|.-.|+......| +..+|..|+.+|...|++.+|.-+-....+. +..+..++..+. ..
T Consensus       334 ~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V  412 (564)
T KOG1174|consen  334 HEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLV  412 (564)
T ss_pred             chHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhccee
Confidence            55666666788888999999999988776654 6789999999999999999988877776554 233445555442 33


Q ss_pred             Hh-ccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHH
Q 005966          527 CS-HGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       527 ~~-~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~  603 (667)
                      |. ....-++|.+++++.++   ..|+ ....+.+...+...|..++++.++++. ...||....+.|...+...+.+.+
T Consensus       413 ~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~  489 (564)
T KOG1174|consen  413 LFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLLEKHLIIFPDVNLHNHLGDIMRAQNEPQK  489 (564)
T ss_pred             eccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHHHHHHhhccccHHHHHHHHHHHHhhhHHH
Confidence            33 23345678888888766   3344 445667778888999999999999886 677888888999999999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHH
Q 005966          604 GEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      |...|..+++++|.+......|-
T Consensus       490 am~~y~~ALr~dP~~~~sl~Gl~  512 (564)
T KOG1174|consen  490 AMEYYYKALRQDPKSKRTLRGLR  512 (564)
T ss_pred             HHHHHHHHHhcCccchHHHHHHH
Confidence            99999999999998755555443

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.38  E-value=2.1e-07  Score=95.59  Aligned_cols=530  Identities=13%  Similarity=0.121  Sum_probs=306.5

Q ss_pred             HHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhC----------------
Q 005966           78 YNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITG----------------  141 (667)
Q Consensus        78 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----------------  141 (667)
                      |-.+++...+ -+++++.++...+.+.   .|...-++.+...+...+..+.+..++-.+++..                
T Consensus       513 ymflLq~l~r-~sPD~~~qFa~~l~Q~---~~~~~die~I~DlFme~N~iQq~TSFLLdaLK~~~Pd~g~LQTrLLE~NL  588 (1666)
T KOG0985|consen  513 YMFLLQQLKR-SSPDQALQFAMMLVQD---EEPLADIEQIVDLFMELNLIQQCTSFLLDALKLNSPDEGHLQTRLLEMNL  588 (1666)
T ss_pred             HHHHHHHHHc-cChhHHHHHHHHhhcc---CCCcccHHHHHHHHHHHHhhhhhHHHHHHHhcCCChhhhhHHHHHHHHHh
Confidence            5567777766 5788888888888764   2334445555555555444444444443333321                


Q ss_pred             ---C----------CCchHHHHHHHHHHHhcCCHHHHHHHhcccCC--CChhhHHH----HHHHHHHcCChhHHHHHHHH
Q 005966          142 ---F----------DMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE--HSVVSWNT----LISGYFKNAYAKEALVVFDW  202 (667)
Q Consensus       142 ---~----------~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~----li~~~~~~~~~~~A~~~~~~  202 (667)
                         +          ..+..-+..+...|.+.|-...|++.+..+..  +.++.-+.    -+-.|.-.-.++.++++++.
T Consensus       589 ~~aPqVADAILgN~mFtHyDra~IAqLCEKAGL~qraLehytDl~DIKR~vVhth~L~pEwLv~yFg~lsve~s~eclka  668 (1666)
T KOG0985|consen  589 VHAPQVADAILGNDMFTHYDRAEIAQLCEKAGLLQRALEHYTDLYDIKRVVVHTHLLNPEWLVNYFGSLSVEDSLECLKA  668 (1666)
T ss_pred             ccchHHHHHHHhccccccccHHHHHHHHHhcchHHHHHHhcccHHHHHHHHHHhccCCHHHHHHHHHhcCHHHHHHHHHH
Confidence               0          01112244556677788888888877776632  11111111    12234445567888889999


Q ss_pred             HHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhc-----------CCCcchhHHHHHHHHHHhcCCHHHHHHHHh
Q 005966          203 MLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGG-----------RLGKNIAAWNALVDMYVKCGSVNEARLVFD  271 (667)
Q Consensus       203 m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  271 (667)
                      |...++.-+..+...+..-|...=..+.-.++|+..+..           ++..|+.+.-..|.+.++.|++.+..++.+
T Consensus       669 ml~~NirqNlQi~VQvatky~eqlg~~~li~lFE~fks~eGL~yfLgSivn~seDpevh~KYIqAA~kt~QikEvERicr  748 (1666)
T KOG0985|consen  669 MLSANIRQNLQIVVQVATKYHEQLGAQALIELFESFKSYEGLYYFLGSIVNFSEDPEVHFKYIQAACKTGQIKEVERICR  748 (1666)
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhCHHHHHHHHHhhccchhHHHHHHHHhccccCchHHHHHHHHHHhhccHHHHHHHHh
Confidence            988888877776666665555544445555666655432           344566677788899999999999888776


Q ss_pred             hcCC-------------------------------CChhHH--H----HHHHHHH-------------------------
Q 005966          272 RMSE-------------------------------RDVVTW--T----SMINGYA-------------------------  289 (667)
Q Consensus       272 ~~~~-------------------------------~~~~~~--~----~li~~~~-------------------------  289 (667)
                      +-.-                               +|.+.|  .    ..|..|.                         
T Consensus       749 esn~YdpErvKNfLkeAkL~DqlPLiiVCDRf~fVhdlvlYLyrnn~~kyIE~yVQkvNps~~p~VvG~LLD~dC~E~~i  828 (1666)
T KOG0985|consen  749 ESNCYDPERVKNFLKEAKLTDQLPLIIVCDRFDFVHDLVLYLYRNNLQKYIEIYVQKVNPSRTPQVVGALLDVDCSEDFI  828 (1666)
T ss_pred             ccccCCHHHHHHHHHhccccccCceEEEecccccHHHHHHHHHHhhHHHHHHHHHhhcCCcccchhhhhhhcCCCcHHHH
Confidence            4320                               111111  0    1122222                         


Q ss_pred             ---------------------hCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccch-HHHH---------HHHHH
Q 005966          290 ---------------------LNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYL-KRGR---------SLHAW  338 (667)
Q Consensus       290 ---------------------~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~-~~a~---------~~~~~  338 (667)
                                           +.++..--+..++...+.|. -|..|++++...|..+++- +...         .+=+.
T Consensus       829 k~Li~~v~gq~~~deLv~EvEkRNRLklLlp~LE~~i~eG~-~d~a~hnAlaKIyIDSNNnPE~fLkeN~yYDs~vVGkY  907 (1666)
T KOG0985|consen  829 KNLILSVRGQFPVDELVEEVEKRNRLKLLLPWLESLIQEGS-QDPATHNALAKIYIDSNNNPERFLKENPYYDSKVVGKY  907 (1666)
T ss_pred             HHHHHHHhccCChHHHHHHHHhhhhHHHHHHHHHHHHhccC-cchHHHhhhhheeecCCCChHHhcccCCcchhhHHhhh
Confidence                                 22222233333444444454 4566666666555443321 1110         00000


Q ss_pred             HHHh-----------c--------CCCCchHHhHHHHHHHhcCCH---HH--------HHHHHhccC------CCCcccH
Q 005966          339 TIKQ-----------N--------LECEVIVETALIDMYAKCNLV---KL--------SFQVFARTS------KKKTVPW  382 (667)
Q Consensus       339 ~~~~-----------~--------~~~~~~~~~~l~~~~~~~g~~---~~--------a~~~~~~~~------~~~~~~~  382 (667)
                      ..+.           |        +......|....+.+.+..+.   .+        -+.++++..      ..|+...
T Consensus       908 CEKRDP~lA~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~v  987 (1666)
T KOG0985|consen  908 CEKRDPHLACVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEV  987 (1666)
T ss_pred             hcccCCceEEEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHH
Confidence            0000           0        001112222222222222221   11        112333221      3455557


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCC--CHHHHHHHHHHH---------------------------hCcCCHHHH
Q 005966          383 NAILAGCVHNGLARKAVELFRQMLVEVVEP--NDATLNSLLPAY---------------------------AILADLQQA  433 (667)
Q Consensus       383 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p--~~~~~~~ll~~~---------------------------~~~~~~~~a  433 (667)
                      +..+.++...+-+.+-+++++++.-.+-.-  +...-+.++-..                           ...+-+++|
T Consensus       988 S~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~trVm~YI~rLdnyDa~~ia~iai~~~LyEEA 1067 (1666)
T KOG0985|consen  988 SVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADRTRVMEYINRLDNYDAPDIAEIAIENQLYEEA 1067 (1666)
T ss_pred             HHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcChHHHHHHHHHhccCCchhHHHHHhhhhHHHHH
Confidence            777888888888888888888876432111  111111222111                           122223444


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 005966          434 MNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV  513 (667)
Q Consensus       434 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  513 (667)
                      ..+|+..     ..+......|+   -..+.+++|.+.-++..    .+..|+.+..+-.+.|...+|++-|-+.     
T Consensus      1068 F~ifkkf-----~~n~~A~~VLi---e~i~~ldRA~efAe~~n----~p~vWsqlakAQL~~~~v~dAieSyika----- 1130 (1666)
T KOG0985|consen 1068 FAIFKKF-----DMNVSAIQVLI---ENIGSLDRAYEFAERCN----EPAVWSQLAKAQLQGGLVKDAIESYIKA----- 1130 (1666)
T ss_pred             HHHHHHh-----cccHHHHHHHH---HHhhhHHHHHHHHHhhC----ChHHHHHHHHHHHhcCchHHHHHHHHhc-----
Confidence            4444332     11122222222   12345555555555543    4568999999999999999998776542     


Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 005966          514 QPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLG  593 (667)
Q Consensus       514 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~  593 (667)
                       -|+..|.-+++.+.+.|.|++-.+++..+.+ ....|.++  ..|+-+|++.+++.+-.+++.    -|+..-...++.
T Consensus      1131 -dDps~y~eVi~~a~~~~~~edLv~yL~MaRk-k~~E~~id--~eLi~AyAkt~rl~elE~fi~----gpN~A~i~~vGd 1202 (1666)
T KOG0985|consen 1131 -DDPSNYLEVIDVASRTGKYEDLVKYLLMARK-KVREPYID--SELIFAYAKTNRLTELEEFIA----GPNVANIQQVGD 1202 (1666)
T ss_pred             -CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hhcCccch--HHHHHHHHHhchHHHHHHHhc----CCCchhHHHHhH
Confidence             3677899999999999999999999998877 45557664  568899999999888777654    478888889999


Q ss_pred             HHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          594 ACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      -|...|.++.|.-+|..        .+-|..|+..+...|+++.|...-++.
T Consensus      1203 rcf~~~~y~aAkl~y~~--------vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1203 RCFEEKMYEAAKLLYSN--------VSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             HHhhhhhhHHHHHHHHH--------hhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            99999999999887764        456777888888888888887765543

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.36  E-value=1.2e-09  Score=97.55  Aligned_cols=288  Identities=17%  Similarity=0.182  Sum_probs=174.1

Q ss_pred             HhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcC-CCC--chHHhHHHHHHHhcCCHH
Q 005966          289 ALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNL-ECE--VIVETALIDMYAKCNLVK  365 (667)
Q Consensus       289 ~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~--~~~~~~l~~~~~~~g~~~  365 (667)
                      .-+++.++|.++|-+|.+.. +.+..+-.++-+.|.+.|..+.|.+++..+.++.- +.+  ...               
T Consensus        46 LLs~Q~dKAvdlF~e~l~~d-~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lA---------------  109 (389)
T COG2956          46 LLSNQPDKAVDLFLEMLQED-PETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLA---------------  109 (389)
T ss_pred             HhhcCcchHHHHHHHHHhcC-chhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHH---------------
Confidence            34678899999999997731 11222223444455566666666666655554321 111  111               


Q ss_pred             HHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Q 005966          366 LSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGF  445 (667)
Q Consensus       366 ~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  445 (667)
                                      ...|..-|...|-+|.|.++|..+.+.| .--......|+..|-...+|++|+++-+++.+.+-
T Consensus       110 ----------------l~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~  172 (389)
T COG2956         110 ----------------LQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGG  172 (389)
T ss_pred             ----------------HHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCC
Confidence                            2233444555555666666666555432 12223445555566666666666666665555443


Q ss_pred             CCC----chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 005966          446 LSV----VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTF  520 (667)
Q Consensus       446 ~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  520 (667)
                      .+.    ...|.-|...+....+.+.|..++.+..+..|. +..--.+.......|+++.|.+.++...+.+..--+.+.
T Consensus       173 q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl  252 (389)
T COG2956         173 QTYRVEIAQFYCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVL  252 (389)
T ss_pred             ccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHH
Confidence            222    123445566666677788888888877776554 344445566778889999999999998887644445677


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHH-HhCCCCCCHHHHHHHHHHHHhc-
Q 005966          521 TSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLI-RTMPLKPTHAVWGALLGACVIH-  598 (667)
Q Consensus       521 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~~~~~-  598 (667)
                      ..|..+|...|+.++....+..+.+ ..  +....-..+.+.-....-.+.|...+ +.+..+|+...+..++...... 
T Consensus       253 ~~L~~~Y~~lg~~~~~~~fL~~~~~-~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~da  329 (389)
T COG2956         253 EMLYECYAQLGKPAEGLNFLRRAME-TN--TGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADA  329 (389)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHH-cc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccc
Confidence            8888889999999999988888877 22  33333444555545555556666554 4557889988888888875543 


Q ss_pred             --CCHHHHHHHHHHhh
Q 005966          599 --GNVELGEVAAKWLF  612 (667)
Q Consensus       599 --g~~~~A~~~~~~~~  612 (667)
                        |...+....++.++
T Consensus       330 eeg~~k~sL~~lr~mv  345 (389)
T COG2956         330 EEGRAKESLDLLRDMV  345 (389)
T ss_pred             cccchhhhHHHHHHHH
Confidence              33444444555544

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=99.36  E-value=5.7e-08  Score=95.24  Aligned_cols=451  Identities=14%  Similarity=0.097  Sum_probs=239.3

Q ss_pred             cccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCC---ChhhHHHHHHHHHHcCChhHHHHH
Q 005966          123 DLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEH---SVVSWNTLISGYFKNAYAKEALVV  199 (667)
Q Consensus       123 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~  199 (667)
                      ..+++.......+.+++ +.+....+.....-.+...|+.++|......-...   +.++|+.+.-.+....++++|++.
T Consensus        19 E~kQYkkgLK~~~~iL~-k~~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKc   97 (700)
T KOG1156|consen   19 ETKQYKKGLKLIKQILK-KFPEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKC   97 (700)
T ss_pred             HHHHHHhHHHHHHHHHH-hCCccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHH
Confidence            45667777777777766 33444455554444566678888888777765443   567899888888888999999999


Q ss_pred             HHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---C
Q 005966          200 FDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---R  276 (667)
Q Consensus       200 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~  276 (667)
                      |.....  +.||                                  |...+..+.-.-++.|+++.....-....+   .
T Consensus        98 y~nAl~--~~~d----------------------------------N~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~  141 (700)
T KOG1156|consen   98 YRNALK--IEKD----------------------------------NLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPS  141 (700)
T ss_pred             HHHHHh--cCCC----------------------------------cHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhh
Confidence            998877  4555                                  333333333333344444444444443333   3


Q ss_pred             ChhHHHHHHHHHHhCCChHHHHHHHHHHHhcC-CCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHH
Q 005966          277 DVVTWTSMINGYALNGDVRNALGLFQLMQFEG-VRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALI  355 (667)
Q Consensus       277 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  355 (667)
                      ....|..+..++.-.|++..|..++++..+.. -.|+...|......+-+                             .
T Consensus       142 ~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~-----------------------------n  192 (700)
T KOG1156|consen  142 QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQ-----------------------------N  192 (700)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHH-----------------------------H
Confidence            44567778888888899999999998887654 34666665443322111                             1


Q ss_pred             HHHHhcCCHHHHHHHHhccCCC--Cccc-HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-CcCCHH
Q 005966          356 DMYAKCNLVKLSFQVFARTSKK--KTVP-WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYA-ILADLQ  431 (667)
Q Consensus       356 ~~~~~~g~~~~a~~~~~~~~~~--~~~~-~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~-~~~~~~  431 (667)
                      ....+.|.++.|.+.+....+.  |-.. -......+.+.++.++|..++..+...  .||..-|...+..+. +-.+..
T Consensus       193 ~i~~E~g~~q~ale~L~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~  270 (700)
T KOG1156|consen  193 QILIEAGSLQKALEHLLDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDML  270 (700)
T ss_pred             HHHHHcccHHHHHHHHHhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhH
Confidence            1122333344444433332211  0000 122234445556666666666666543  455554444333332 222222


Q ss_pred             HHH-HHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHH----HHHHHH
Q 005966          432 QAM-NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGET----AVSLFK  506 (667)
Q Consensus       432 ~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~  506 (667)
                      ++. .+|....+.- +.....-..=+....-..-.+..-.++....+.| -+.++..+...|-.-...+-    +..+..
T Consensus       271 ~~lk~ly~~ls~~y-~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg-~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~  348 (700)
T KOG1156|consen  271 EALKALYAILSEKY-PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKG-VPSVFKDLRSLYKDPEKVAFLEKLVTSYQH  348 (700)
T ss_pred             HHHHHHHHHHhhcC-cccccchhccHHHhCcchhHHHHHHHHHHHhhcC-CCchhhhhHHHHhchhHhHHHHHHHHHHHh
Confidence            222 3333332211 0000000000000111111122222333333322 01112222222211111110    111111


Q ss_pred             HHHHcC----------CCCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHH
Q 005966          507 EMVQSG----------VQPNEV--TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYD  574 (667)
Q Consensus       507 ~m~~~~----------~~p~~~--~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  574 (667)
                      .+...|          -+|...  ++..++..+-+.|+++.|..+++.++.  ..|.-++.|..=..++...|.+++|..
T Consensus       349 ~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId--HTPTliEly~~KaRI~kH~G~l~eAa~  426 (700)
T KOG1156|consen  349 SLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID--HTPTLIELYLVKARIFKHAGLLDEAAA  426 (700)
T ss_pred             hcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc--cCchHHHHHHHHHHHHHhcCChHHHHH
Confidence            111111          134443  455567778888999999999998876  333335566666788889999999999


Q ss_pred             HHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC-------CchHHHH--HHHHhhcCCchHHHHHHH
Q 005966          575 LIRTMP--LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPEN-------PGNYVLL--SKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       575 ~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l--~~~~~~~g~~~~A~~~~~  643 (667)
                      .+++..  ..||..+-..-+....+.++.++|.++..+.-+.+.+-       .-.|+.+  |.+|.++|++.+|++-|.
T Consensus       427 ~l~ea~elD~aDR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh  506 (700)
T KOG1156|consen  427 WLDEAQELDTADRAINSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFH  506 (700)
T ss_pred             HHHHHHhccchhHHHHHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHh
Confidence            998884  34455444466666778888999988888766544321       1123333  667888888888887665


Q ss_pred             Hh
Q 005966          644 VM  645 (667)
Q Consensus       644 ~~  645 (667)
                      .+
T Consensus       507 ~i  508 (700)
T KOG1156|consen  507 EI  508 (700)
T ss_pred             hH
Confidence            54

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.35  E-value=9.6e-11  Score=99.60  Aligned_cols=164  Identities=16%  Similarity=0.146  Sum_probs=139.3

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL  563 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  563 (667)
                      +...|.-+|.+.|+...|..-+++.++.. +.+..++..+...|.+.|..+.|.+-|+++.+  ..+.+..+.|..+..+
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAls--l~p~~GdVLNNYG~FL  113 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALS--LAPNNGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHh--cCCCccchhhhhhHHH
Confidence            45567778899999999999999999874 22456888888889999999999999999987  4455677899999999


Q ss_pred             hhcCChHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHH
Q 005966          564 GRAGRLDEAYDLIRTMPLKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAE  639 (667)
Q Consensus       564 ~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  639 (667)
                      |..|++++|...|++.-..|+    ..+|..++.+..+.|+.+.|+..++++++.+|+.+.....++....+.|++..|.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar  193 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999998843433    4578888888899999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhhCCC
Q 005966          640 NVRDVMDEKGL  650 (667)
Q Consensus       640 ~~~~~~~~~~~  650 (667)
                      .++++....+.
T Consensus       194 ~~~~~~~~~~~  204 (250)
T COG3063         194 LYLERYQQRGG  204 (250)
T ss_pred             HHHHHHHhccc
Confidence            99998877664

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.31  E-value=4.2e-07  Score=93.41  Aligned_cols=233  Identities=12%  Similarity=0.070  Sum_probs=168.8

Q ss_pred             ccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 005966          380 VPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIY  459 (667)
Q Consensus       380 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  459 (667)
                      ..|..+..+-.+.|...+|++-|-+.      -|...|..++..+.+.|.+++-...+....+..-+|.+.  +.|+-+|
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~Ay 1176 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIFAY 1176 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHHHH
Confidence            34888888888888888888877442      356778888888888999988888888777766555543  5678888


Q ss_pred             HhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 005966          460 SKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDL  539 (667)
Q Consensus       460 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~  539 (667)
                      ++.+++.+.++++..     |+......+..-|...|.++.|.-+|...         .-|..|...+...|.++.|...
T Consensus      1177 Akt~rl~elE~fi~g-----pN~A~i~~vGdrcf~~~~y~aAkl~y~~v---------SN~a~La~TLV~LgeyQ~AVD~ 1242 (1666)
T KOG0985|consen 1177 AKTNRLTELEEFIAG-----PNVANIQQVGDRCFEEKMYEAAKLLYSNV---------SNFAKLASTLVYLGEYQGAVDA 1242 (1666)
T ss_pred             HHhchHHHHHHHhcC-----CCchhHHHHhHHHhhhhhhHHHHHHHHHh---------hhHHHHHHHHHHHHHHHHHHHH
Confidence            888888888777643     77777788888888888888877666543         3466677777778888887766


Q ss_pred             HHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC
Q 005966          540 FNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       540 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      -+++       .+..+|..+-.+|...+.+.-|.-.  -+.+--...-+..++..|...|-+++-+.+++..+.+...+.
T Consensus      1243 aRKA-------ns~ktWK~VcfaCvd~~EFrlAQiC--GL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHM 1313 (1666)
T KOG0985|consen 1243 ARKA-------NSTKTWKEVCFACVDKEEFRLAQIC--GLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHM 1313 (1666)
T ss_pred             hhhc-------cchhHHHHHHHHHhchhhhhHHHhc--CceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHH
Confidence            5544       3456787777777776665443211  111222344567788889999999999999999999988888


Q ss_pred             chHHHHHHHHhhcCCchHHHHHHHH
Q 005966          620 GNYVLLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      +.+-.|+-+|.+- +.++-.+.++-
T Consensus      1314 gmfTELaiLYsky-kp~km~EHl~L 1337 (1666)
T KOG0985|consen 1314 GMFTELAILYSKY-KPEKMMEHLKL 1337 (1666)
T ss_pred             HHHHHHHHHHHhc-CHHHHHHHHHH
Confidence            8888888777764 45555555554

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.30  E-value=1.3e-10  Score=103.56  Aligned_cols=238  Identities=16%  Similarity=0.116  Sum_probs=196.3

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhc
Q 005966          383 NAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKC  462 (667)
Q Consensus       383 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  462 (667)
                      +.+..+|.+.|-+.+|.+.|+.-.+.  .|-..||..|-..|.+..+...|..++..-.+.- +-++....-..+.+...
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~eam  303 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHEAM  303 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHHHH
Confidence            56778888888888888888877764  5566678888888888888999988888776543 55566666678888889


Q ss_pred             CCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 005966          463 GSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       463 g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~  541 (667)
                      ++.++|.++|+...+.. .++....++...|.-.++++-|+.+|+++++.|+. ++..|+.+.-+|...+++|-++.-|.
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            99999999999988776 46777788888999999999999999999999965 88899999999999999999999999


Q ss_pred             HhHHhcCCCCc--hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          542 FMLENHQTCSR--ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       542 ~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ++... -..|+  .++|-.+.......|++.-|.+.|+-. ...| ....++.|.-.-.+.|+.++|...++.+....|+
T Consensus       383 RAlst-at~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P~  461 (478)
T KOG1129|consen  383 RALST-ATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVMPD  461 (478)
T ss_pred             HHHhh-ccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCcc
Confidence            98873 33243  467888999999999999999999987 3444 5568999988899999999999999999999998


Q ss_pred             CCchHHHH
Q 005966          618 NPGNYVLL  625 (667)
Q Consensus       618 ~~~~~~~l  625 (667)
                      -......+
T Consensus       462 m~E~~~Nl  469 (478)
T KOG1129|consen  462 MAEVTTNL  469 (478)
T ss_pred             ccccccce
Confidence            54444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.29  E-value=5.9e-08  Score=96.09  Aligned_cols=129  Identities=18%  Similarity=0.070  Sum_probs=62.2

Q ss_pred             cCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCCh-HHHHHHHHHcccCcchHHHHHHHHH
Q 005966          159 FGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDC-ASVVSVLPACGYLKEIEMGRMIHEL  237 (667)
Q Consensus       159 ~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~  237 (667)
                      ..++.+|+.+|-+-.     .-...|..|....+|++|+.+-+.   .| .|.. ..-.+.++++...|.-+.|-++-+ 
T Consensus       544 ~kkfk~ae~ifleqn-----~te~aigmy~~lhkwde~i~lae~---~~-~p~~eklk~sy~q~l~dt~qd~ka~elk~-  613 (1636)
T KOG3616|consen  544 EKKFKEAEMIFLEQN-----ATEEAIGMYQELHKWDEAIALAEA---KG-HPALEKLKRSYLQALMDTGQDEKAAELKE-  613 (1636)
T ss_pred             HhhhhHHHHHHHhcc-----cHHHHHHHHHHHHhHHHHHHHHHh---cC-ChHHHHHHHHHHHHHHhcCchhhhhhhcc-
Confidence            345677776664321     112334455555666666665432   12 2221 122333444444444443332211 


Q ss_pred             HHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC--CCChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 005966          238 VAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMS--ERDVVTWTSMINGYALNGDVRNALGLFQLMQ  305 (667)
Q Consensus       238 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  305 (667)
                              +..--.+-|..|.+.|.+..|.+....-.  ..|......+..++.+..-+++|-.+|+++.
T Consensus       614 --------sdgd~laaiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~  675 (1636)
T KOG3616|consen  614 --------SDGDGLAAIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIH  675 (1636)
T ss_pred             --------ccCccHHHHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhh
Confidence                    11111234566777777766665442211  1455555555566666666666666666654

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.29  E-value=2e-07  Score=92.43  Aligned_cols=262  Identities=15%  Similarity=0.154  Sum_probs=168.0

Q ss_pred             HHHHHhcCCHHHHHHHHhccCCCCccc--HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHH
Q 005966          355 IDMYAKCNLVKLSFQVFARTSKKKTVP--WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQ  432 (667)
Q Consensus       355 ~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~  432 (667)
                      +.+-.....+.+|+.+++.+..++..+  |..+...|+..|+++.|.++|.+.-         .++-.|..|.+.|+++.
T Consensus       739 ieaai~akew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHH
Confidence            344455677788888888777766666  7777778888888888888876532         24456677888888888


Q ss_pred             HHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 005966          433 AMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSG  512 (667)
Q Consensus       433 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  512 (667)
                      |.++-.+.  .|.......|-.-..-+-+.|++.+|+++|-.+..  |+     ..|..|-+.|..+..+++.++-.-. 
T Consensus       810 a~kla~e~--~~~e~t~~~yiakaedldehgkf~eaeqlyiti~~--p~-----~aiqmydk~~~~ddmirlv~k~h~d-  879 (1636)
T KOG3616|consen  810 AFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIGE--PD-----KAIQMYDKHGLDDDMIRLVEKHHGD-  879 (1636)
T ss_pred             HHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhhheeEEccC--ch-----HHHHHHHhhCcchHHHHHHHHhChh-
Confidence            87765543  23344566666666777788888888888877766  65     3567788888888888777664221 


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCC--CH--HHH
Q 005966          513 VQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKP--TH--AVW  588 (667)
Q Consensus       513 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p--~~--~~~  588 (667)
                        .-..|...+..-+...|+...|..-|-+..+          |.+-+++|-..+.|++|.++-+.-+-..  ..  ..|
T Consensus       880 --~l~dt~~~f~~e~e~~g~lkaae~~flea~d----------~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flw  947 (1636)
T KOG3616|consen  880 --HLHDTHKHFAKELEAEGDLKAAEEHFLEAGD----------FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLW  947 (1636)
T ss_pred             --hhhHHHHHHHHHHHhccChhHHHHHHHhhhh----------HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHH
Confidence              1123556666777788888888887766644          6667777888888888877766542110  00  011


Q ss_pred             H------HHHHHHHhcCCHHHH-------------HHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          589 G------ALLGACVIHGNVELG-------------EVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       589 ~------~l~~~~~~~g~~~~A-------------~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .      ..+..+-+.|-.+.|             ..+.+-+.  ...-+.++..++-.+...|++++|-+.+-+..+.+
T Consensus       948 aksiggdaavkllnk~gll~~~id~a~d~~afd~afdlari~~--k~k~~~vhlk~a~~ledegk~edaskhyveaikln 1025 (1636)
T KOG3616|consen  948 AKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLARIAA--KDKMGEVHLKLAMFLEDEGKFEDASKHYVEAIKLN 1025 (1636)
T ss_pred             HHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHHHHhh--hccCccchhHHhhhhhhccchhhhhHhhHHHhhcc
Confidence            1      111112233333333             33322222  22235577788888888899999877766655443

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.29  E-value=1.2e-07  Score=92.08  Aligned_cols=211  Identities=13%  Similarity=0.132  Sum_probs=128.4

Q ss_pred             HHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHH--HHHHHH-
Q 005966           81 VMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNC--LIAMYM-  157 (667)
Q Consensus        81 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--li~~~~-  157 (667)
                      =++-+...|++++|+....+++..  .+.+...+..-+-++.+.+.+++|..+.+.   .+.   ..+++.  +=.+|| 
T Consensus        18 ~ln~~~~~~e~e~a~k~~~Kil~~--~pdd~~a~~cKvValIq~~ky~~ALk~ikk---~~~---~~~~~~~~fEKAYc~   89 (652)
T KOG2376|consen   18 DLNRHGKNGEYEEAVKTANKILSI--VPDDEDAIRCKVVALIQLDKYEDALKLIKK---NGA---LLVINSFFFEKAYCE   89 (652)
T ss_pred             HHHHhccchHHHHHHHHHHHHHhc--CCCcHhhHhhhHhhhhhhhHHHHHHHHHHh---cch---hhhcchhhHHHHHHH
Confidence            355677788999999999999976  466677788888888899999999855432   221   111222  234454 


Q ss_pred             -hcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC-hHHHHHHHHHcccCcchHHHHHHH
Q 005966          158 -NFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPD-CASVVSVLPACGYLKEIEMGRMIH  235 (667)
Q Consensus       158 -~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~  235 (667)
                       +.+..++|+..++...+.+..+...-...+.+.|++++|+++|+.+.+++..-- ...-..++.+...       ... 
T Consensus        90 Yrlnk~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~-------l~~-  161 (652)
T KOG2376|consen   90 YRLNKLDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAA-------LQV-  161 (652)
T ss_pred             HHcccHHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHh-------hhH-
Confidence             678999999999966665666777777888899999999999999987654321 1111112211110       000 


Q ss_pred             HHHHhcCCCcchhHHHH---HHHHHHhcCCHHHHHHHHhhcC--------CCCh----------hHHHHHHHHHHhCCCh
Q 005966          236 ELVAGGRLGKNIAAWNA---LVDMYVKCGSVNEARLVFDRMS--------ERDV----------VTWTSMINGYALNGDV  294 (667)
Q Consensus       236 ~~~~~~~~~~~~~~~~~---l~~~~~~~g~~~~A~~~~~~~~--------~~~~----------~~~~~li~~~~~~~~~  294 (667)
                      ..+......| ..+|..   ..-.+...|++.+|+++++...        +.|.          ..---+.-++...|+.
T Consensus       162 ~~~q~v~~v~-e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt  240 (652)
T KOG2376|consen  162 QLLQSVPEVP-EDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQT  240 (652)
T ss_pred             HHHHhccCCC-cchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcch
Confidence            0111111122 223333   2334556788888888877661        1111          0112234455667777


Q ss_pred             HHHHHHHHHHHhcC
Q 005966          295 RNALGLFQLMQFEG  308 (667)
Q Consensus       295 ~~a~~~~~~m~~~~  308 (667)
                      ++|..++...++.+
T Consensus       241 ~ea~~iy~~~i~~~  254 (652)
T KOG2376|consen  241 AEASSIYVDIIKRN  254 (652)
T ss_pred             HHHHHHHHHHHHhc
Confidence            77777777776654

>PRK12370 invasion protein regulator; Provisional

Probab=99.29  E-value=1.1e-09  Score=114.38  Aligned_cols=246  Identities=14%  Similarity=0.040  Sum_probs=179.2

Q ss_pred             ChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHh---------CcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcC
Q 005966          394 LARKAVELFRQMLVEVVEPNDA-TLNSLLPAYA---------ILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCG  463 (667)
Q Consensus       394 ~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~---------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  463 (667)
                      ..++|..+|++..+.  .|+.. .+..+..++.         ..+++++|...+++..+.. +.+...+..+..++...|
T Consensus       276 ~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g  352 (553)
T PRK12370        276 SLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHS  352 (553)
T ss_pred             HHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcc
Confidence            457888888887754  45443 3433333322         3355889999999888876 556778888888999999


Q ss_pred             CHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhccCCHHHHHHHHH
Q 005966          464 SLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE-VTFTSALHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~  541 (667)
                      ++++|...|++.....|+ ...+..+...+...|++++|+..+++..+..  |+. ..+..++..+...|++++|...++
T Consensus       353 ~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        353 EYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            999999999998887775 5678888899999999999999999999864  443 233344445667899999999999


Q ss_pred             HhHHhcCCCC-chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC
Q 005966          542 FMLENHQTCS-RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHA-VWGALLGACVIHGNVELGEVAAKWLFELEPEN  618 (667)
Q Consensus       542 ~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  618 (667)
                      ++.+.  .+| +...+..+..++...|++++|...++++ ...|+.. .++.+...+...|  +.|...++++++..-..
T Consensus       431 ~~l~~--~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~  506 (553)
T PRK12370        431 ELRSQ--HLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRI  506 (553)
T ss_pred             HHHHh--ccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHh
Confidence            98762  234 3445777888999999999999999987 4555544 4455555667777  47778777776644333


Q ss_pred             CchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          619 PGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       619 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +.....+..+|.-.|+.+.+... +++.+.+
T Consensus       507 ~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        507 DNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            33333477778888888877776 8877664

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.28  E-value=4e-08  Score=88.99  Aligned_cols=211  Identities=13%  Similarity=0.092  Sum_probs=135.3

Q ss_pred             HHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcC-------ChHHHH
Q 005966          430 LQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHG-------HGETAV  502 (667)
Q Consensus       430 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~  502 (667)
                      -+.|.+++--+.+.  .|  ..--.|+-.|.+.+++.+|..+.+++....|-......+.  +...|       ...-|.
T Consensus       270 gEgALqVLP~L~~~--IP--EARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv--~aalGQe~gSreHlKiAq  343 (557)
T KOG3785|consen  270 GEGALQVLPSLMKH--IP--EARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVV--FAALGQETGSREHLKIAQ  343 (557)
T ss_pred             CccHHHhchHHHhh--Ch--HhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHH--HHHhhhhcCcHHHHHHHH
Confidence            34555555444332  12  2233466678899999999999998765433322222222  22333       344455


Q ss_pred             HHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC-
Q 005966          503 SLFKEMVQSGVQPNEV-TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP-  580 (667)
Q Consensus       503 ~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-  580 (667)
                      +.|+-.-+.+..-|.. --.++.+++.-..++++.+.+++.+.. .-...|...+ .+..+++..|.+.+|.++|-... 
T Consensus       344 qffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~  421 (557)
T KOG3785|consen  344 QFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES-YFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISG  421 (557)
T ss_pred             HHHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcC
Confidence            5555554454444432 244555666666789999999998887 4444455444 47899999999999999998873 


Q ss_pred             --CCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHhhccCCCC-CchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          581 --LKPTHAVW-GALLGACVIHGNVELGEVAAKWLFELEPEN-PGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       581 --~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                        ++ |..+| ..|.++|.+.+..+.|..++-+.  ..|.+ -..+...++.|++.+++=-|.+.|+.+....+.
T Consensus       422 ~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~--~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~  493 (557)
T KOG3785|consen  422 PEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKT--NTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPT  493 (557)
T ss_pred             hhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhc--CCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCC
Confidence              33 44455 55666788999999998876543  22332 234556788899999988888888887766543

>PRK12370 invasion protein regulator; Provisional

Probab=99.27  E-value=6e-10  Score=116.41  Aligned_cols=215  Identities=16%  Similarity=0.029  Sum_probs=167.7

Q ss_pred             CCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHH---------hcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCC
Q 005966          428 ADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYS---------KCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGH  497 (667)
Q Consensus       428 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~---------~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  497 (667)
                      ++.++|...+++..+.. +.+...+..+..++.         ..+++++|...+++..+..| +...+..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ldP~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELDHNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHccC
Confidence            45678999999888765 334555666665544         23458999999999988776 46778888888999999


Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHH
Q 005966          498 GETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIR  577 (667)
Q Consensus       498 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  577 (667)
                      +++|...|++..+.+ +.+...+..+..++...|++++|...++++.+....  +...+..++..+...|++++|+..++
T Consensus       354 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~--~~~~~~~~~~~~~~~g~~eeA~~~~~  430 (553)
T PRK12370        354 YIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPT--RAAAGITKLWITYYHTGIDDAIRLGD  430 (553)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC--ChhhHHHHHHHHHhccCHHHHHHHHH
Confidence            999999999999974 224567888888999999999999999999883322  22233344555667899999999998


Q ss_pred             hCC--CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          578 TMP--LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       578 ~~~--~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      +..  ..| ++..+..+..++...|+.++|...++++....|++......++..|...|  ++|...++.+.+.
T Consensus       431 ~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~  502 (553)
T PRK12370        431 ELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQNS--ERALPTIREFLES  502 (553)
T ss_pred             HHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHH
Confidence            872  345 44456777788889999999999999999999998888889999999888  4888888887653

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.27  E-value=1.7e-09  Score=100.75  Aligned_cols=195  Identities=16%  Similarity=0.108  Sum_probs=113.2

Q ss_pred             HHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCC
Q 005966          419 SLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGH  497 (667)
Q Consensus       419 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  497 (667)
                      .+...+...|++++|...++...+.. +.+...+..+...+...|++++|.+.+++.....| +...+..+...+...|+
T Consensus        36 ~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~  114 (234)
T TIGR02521        36 QLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPNNGDVLNNYGTFLCQQGK  114 (234)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccc
Confidence            33344444444444444444443332 22334445555556666666666666655554433 33455556666666777


Q ss_pred             hHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHH
Q 005966          498 GETAVSLFKEMVQSGVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLI  576 (667)
Q Consensus       498 ~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  576 (667)
                      +++|.+.+++..+....| ....+..+..++...|++++|...+.+..+.  .+.+...+..+...+...|++++|.+.+
T Consensus       115 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~  192 (234)
T TIGR02521       115 YEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQI--DPQRPESLLELAELYYLRGQYKDARAYL  192 (234)
T ss_pred             HHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCChHHHHHHHHHHHHcCCHHHHHHHH
Confidence            777777777766532222 2334555666677777777777777777662  2234455666777777777777777777


Q ss_pred             HhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCC
Q 005966          577 RTM-PL-KPTHAVWGALLGACVIHGNVELGEVAAKWLFELEP  616 (667)
Q Consensus       577 ~~~-~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  616 (667)
                      ++. .. +++...+..+...+...|+.+.|....+.+.+..|
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~  234 (234)
T TIGR02521       193 ERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQKLFP  234 (234)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhhCc
Confidence            765 22 23445555666667777777777777776655443

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.

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.27  E-value=4.9e-08  Score=100.11  Aligned_cols=568  Identities=11%  Similarity=-0.009  Sum_probs=272.4

Q ss_pred             ChhhHHHhhcccCCCCc---chHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHH
Q 005966           59 HVSNVRILFDEMSERSS---FLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHG  135 (667)
Q Consensus        59 ~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~  135 (667)
                      +...|...|-+....|+   ..|..|...|...-+..+|...|++..+.  ...+..........++...+++.|..+.-
T Consensus       473 ~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeL--Datdaeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFEL--DATDAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             hHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CchhhhhHHHHHHHhhccccHHHHHHHHH
Confidence            35555555555443332   35777777777666777777777777765  34455666667777777777777776632


Q ss_pred             HHHHhCC-CCchHHHHHHHHHHHhcCCHHHHHHHhcccCC---CChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC
Q 005966          136 RVLITGF-DMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE---HSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPD  211 (667)
Q Consensus       136 ~~~~~~~-~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  211 (667)
                      ..-+... ..-...|..+.-.|.+.++...|..-|+...+   .|...|..+..+|.+.|++..|+++|++...  +.|+
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~--LrP~  628 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASL--LRPL  628 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHh--cCcH
Confidence            2221110 01112222344456666777777777766533   2555667777777777777777777777655  4454


Q ss_pred             hHHHHHHHHH--cccCcchHHHHHHHHHHHhcC------CCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--------
Q 005966          212 CASVVSVLPA--CGYLKEIEMGRMIHELVAGGR------LGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--------  275 (667)
Q Consensus       212 ~~~~~~ll~~--~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------  275 (667)
                      . +|.....+  -+..|.+.++...++.+...-      ...-..++-.+...+.-.|-..+|..+|+.-.+        
T Consensus       629 s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h  707 (1238)
T KOG1127|consen  629 S-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIH  707 (1238)
T ss_pred             h-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHH
Confidence            2 23222222  334566666666665554321      001122222222222233333333333333211        


Q ss_pred             ---CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHH----HHHHHHHHhcCCCCc
Q 005966          276 ---RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGR----SLHAWTIKQNLECEV  348 (667)
Q Consensus       276 ---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~----~~~~~~~~~~~~~~~  348 (667)
                         .+...|-.+          ..|..+|.... .+ .|+......+..-.-..+....-.    ..-.......+..+.
T Consensus       708 ~~~~~~~~Wi~a----------sdac~~f~q~e-~~-~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~  775 (1238)
T KOG1127|consen  708 SLQSDRLQWIVA----------SDACYIFSQEE-PS-IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHM  775 (1238)
T ss_pred             hhhhhHHHHHHH----------hHHHHHHHHhc-cc-chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhcc
Confidence               111111111          12222333322 11 222222222222111111110000    000000001111122


Q ss_pred             hHHhHHHHHHHh----cC----CHHHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHH
Q 005966          349 IVETALIDMYAK----CN----LVKLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATL  417 (667)
Q Consensus       349 ~~~~~l~~~~~~----~g----~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~  417 (667)
                      ..|..++..|.+    ++    +...|...+....   ..+...||.|.-. ...|++.-|...|-+-... .+-...+|
T Consensus       776 ~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~s-ep~~~~~W  853 (1238)
T KOG1127|consen  776 YPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAVSLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFS-EPTCHCQW  853 (1238)
T ss_pred             chHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHHHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhc-cccchhhe
Confidence            333333332222    11    1223444444332   3444446665544 4445555555555443332 12334455


Q ss_pred             HHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhh-----CCCCC-CCcchHHHHHHH
Q 005966          418 NSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSE-----IPIKD-KDIVVWSVIIAG  491 (667)
Q Consensus       418 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-----~~~~~-~~~~~~~~l~~~  491 (667)
                      ..+--.+....+++.|...|...+... |.+...+-.........|+.-++..+|..     +.+.+ ++..-|-+...-
T Consensus       854 ~NlgvL~l~n~d~E~A~~af~~~qSLd-P~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~  932 (1238)
T KOG1127|consen  854 LNLGVLVLENQDFEHAEPAFSSVQSLD-PLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEI  932 (1238)
T ss_pred             eccceeEEecccHHHhhHHHHhhhhcC-chhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHH
Confidence            555556667777777777777665543 23333333333344455666666666654     11111 444444444444


Q ss_pred             HHHcCChHHHHHHHHHHHHc---------CCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHH----H
Q 005966          492 YGMHGHGETAVSLFKEMVQS---------GVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYT----C  558 (667)
Q Consensus       492 ~~~~~~~~~a~~~~~~m~~~---------~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~----~  558 (667)
                      ....|+.++-+...+++...         +.+-+...|........+.+.+..|..+..+...-....-+...|+    .
T Consensus       933 h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~ 1012 (1238)
T KOG1127|consen  933 HLQNGNIEESINTARKISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPD 1012 (1238)
T ss_pred             HHhccchHHHHHHhhhhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhh
Confidence            55556555544333332211         2233445677666667777777777776666543222223344444    2


Q ss_pred             HHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCch---HHHHHHHHhhcCCc
Q 005966          559 IVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGN---YVLLSKLYSAVRRW  635 (667)
Q Consensus       559 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~---~~~l~~~~~~~g~~  635 (667)
                      ....++..|.++.|...+......-|..+...-+.. .-.|+++++.+.|++++.+..++...   ...++......+..
T Consensus      1013 ~gRL~lslgefe~A~~a~~~~~~evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k 1091 (1238)
T KOG1127|consen 1013 AGRLELSLGEFESAKKASWKEWMEVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQK 1091 (1238)
T ss_pred             hhhhhhhhcchhhHhhhhcccchhHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccc
Confidence            445566777787777666655433343333322222 44578888888888888766554442   22344445556667


Q ss_pred             hHHHHHHHHhhh
Q 005966          636 KDAENVRDVMDE  647 (667)
Q Consensus       636 ~~A~~~~~~~~~  647 (667)
                      +.|...+-+...
T Consensus      1092 ~~A~~lLfe~~~ 1103 (1238)
T KOG1127|consen 1092 NDAQFLLFEVKS 1103 (1238)
T ss_pred             hHHHHHHHHHHH
Confidence            777766555443

>PF13041 PPR_2: PPR repeat family

Probab=99.26  E-value=1.5e-11  Score=81.33  Aligned_cols=50  Identities=38%  Similarity=0.512  Sum_probs=46.4

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHccc
Q 005966          175 HSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGY  224 (667)
Q Consensus       175 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  224 (667)
                      ||+++||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|++|++
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            68899999999999999999999999999999999999999999998874

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.26  E-value=8.4e-10  Score=105.32  Aligned_cols=214  Identities=13%  Similarity=0.085  Sum_probs=120.7

Q ss_pred             CCHHHHHHHHHHHHHhC-CCC--CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHH
Q 005966          428 ADLQQAMNIHCYLIRYG-FLS--VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVS  503 (667)
Q Consensus       428 ~~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~  503 (667)
                      +..+.++.-+..++... ..|  ....+..+...|.+.|+.++|...|++..+..|+ ...|+.+...+...|++++|..
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            34455555555555322 122  1344666666777777777777777776665543 5667777777777777777777


Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-
Q 005966          504 LFKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-  580 (667)
Q Consensus       504 ~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-  580 (667)
                      .|++..+.  .|+ ..++..+..++...|++++|.+.++...+..   |+..........+...+++++|.+.+++. . 
T Consensus       120 ~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~---P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQDD---PNDPYRALWLYLAESKLDPKQAKENLKQRYEK  194 (296)
T ss_pred             HHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh
Confidence            77777764  343 3456666666777777777777777776622   22211122222334556677777777553 1 


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHH--HHHHHHh----hccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          581 LKPTHAVWGALLGACVIHGNVELG--EVAAKWL----FELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       581 ~~p~~~~~~~l~~~~~~~g~~~~A--~~~~~~~----~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ..|+.  |. ........|+...+  ...+.+.    .++.|..+.+|..+|.+|.+.|++++|+..|++..+.+
T Consensus       195 ~~~~~--~~-~~~~~~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        195 LDKEQ--WG-WNIVEFYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             CCccc--cH-HHHHHHHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            22222  21 11222223433222  2222221    23444555677777777777777777777777776654

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=99.25  E-value=3e-07  Score=92.20  Aligned_cols=134  Identities=19%  Similarity=0.217  Sum_probs=110.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL  563 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  563 (667)
                      .|......+.+.++.++|...+.+..... .-....|......+...|.+++|.+.|.....  -.|.++....++..++
T Consensus       652 lwllaa~~~~~~~~~~~a~~CL~Ea~~~~-~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~l  728 (799)
T KOG4162|consen  652 LWLLAADLFLLSGNDDEARSCLLEASKID-PLSASVYYLRGLLLEVKGQLEEAKEAFLVALA--LDPDHVPSMTALAELL  728 (799)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHHHHHhcc-hhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHH
Confidence            46667778889999999998888887752 33455677777788899999999999999876  3334466788899999


Q ss_pred             hhcCChHHHHH--HHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          564 GRAGRLDEAYD--LIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       564 ~~~g~~~~A~~--~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      .+.|+..-|..  ++..+ +..| ++..|..++..+.+.|+.+.|-+.|.-+.++.+.+|.
T Consensus       729 le~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S~PV  789 (799)
T KOG4162|consen  729 LELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEESNPV  789 (799)
T ss_pred             HHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccCCCc
Confidence            99998777776  77776 6666 7889999999999999999999999999999988775

>PF13041 PPR_2: PPR repeat family

Probab=99.24  E-value=2.2e-11  Score=80.53  Aligned_cols=50  Identities=36%  Similarity=0.650  Sum_probs=47.9

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhc
Q 005966          276 RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSS  325 (667)
Q Consensus       276 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  325 (667)
                      ||+.+||++|.+|++.|++++|+++|++|.+.|+.||..||+.+|++|++
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~k   50 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLCK   50 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHcC
Confidence            78999999999999999999999999999999999999999999999874

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.23  E-value=9.3e-10  Score=109.14  Aligned_cols=231  Identities=19%  Similarity=0.201  Sum_probs=154.1

Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHh-----C-CCCCc-hHHHHHHHHHHhcCCHHHHHHHHhhCCCCC--------C
Q 005966          416 TLNSLLPAYAILADLQQAMNIHCYLIRY-----G-FLSVV-EVSTGLIDIYSKCGSLESAHKIFSEIPIKD--------K  480 (667)
Q Consensus       416 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~-~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--------~  480 (667)
                      ++..+...|...|+++.|...++...+.     | ..|.. .+.+.+...|...+++++|..+|+++....        |
T Consensus       201 ~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~  280 (508)
T KOG1840|consen  201 TLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHP  280 (508)
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCH
Confidence            4444555555555555555555544432     1 01222 222235666777777777777777654431        2


Q ss_pred             C-cchHHHHHHHHHHcCChHHHHHHHHHHHH-----cCC-CCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcC--CC
Q 005966          481 D-IVVWSVIIAGYGMHGHGETAVSLFKEMVQ-----SGV-QPNEV-TFTSALHACSHGGLLDEGLDLFNFMLENHQ--TC  550 (667)
Q Consensus       481 ~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-----~~~-~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~--~~  550 (667)
                      . ..+++.|...|.+.|++++|...+++..+     .|. .|... .++.+...|...+++++|..++....+...  ..
T Consensus       281 ~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g  360 (508)
T KOG1840|consen  281 AVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPG  360 (508)
T ss_pred             HHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhcc
Confidence            1 24566677777888887777776666543     122 22332 356677778889999999999887766432  22


Q ss_pred             Cc----hhHHHHHHHHHhhcCChHHHHHHHHhCC---------CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhc---
Q 005966          551 SR----ADHYTCIVDLLGRAGRLDEAYDLIRTMP---------LKPT-HAVWGALLGACVIHGNVELGEVAAKWLFE---  613 (667)
Q Consensus       551 ~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---  613 (667)
                      ++    ..+++.|...|...|++++|.++++++-         ..+. ...++.+...|.+.+++++|.+.|..+..   
T Consensus       361 ~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~  440 (508)
T KOG1840|consen  361 EDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMK  440 (508)
T ss_pred             ccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHH
Confidence            22    3578889999999999999999998871         2232 34678888889889999989988887654   


Q ss_pred             -cCCCCCc---hHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          614 -LEPENPG---NYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       614 -~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                       .+|++|+   .|..|+.+|.+.|++++|.++.+.+.
T Consensus       441 ~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  441 LCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             4566554   57789999999999999999988876

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=99.23  E-value=3.9e-07  Score=93.75  Aligned_cols=545  Identities=12%  Similarity=-0.035  Sum_probs=273.1

Q ss_pred             CChhhHhHHHHHHHHhCCCc--hhhhh-hHhhhcCChhhHHHhhcccCC---CCcchHHHHHHHHHhCCCchHHHHHHHH
Q 005966           27 KSIAGTKQLHAFIITSGPLF--THLRS-SLVRAYGHVSNVRILFDEMSE---RSSFLYNTVMKMYAQNGASHDSLKMFLG  100 (667)
Q Consensus        27 ~~~~~a~~~~~~~~~~~~~~--~~~~~-~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~a~~~~~~  100 (667)
                      ++...+...+=+.++.++..  .+... ..|...-+.-.|.+.|+..-+   .+..++......|++..+++.|..+.-.
T Consensus       472 K~~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  472 KNSALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             hhHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            34556666666666666665  33333 666655566777777776533   2556777777788888888887777433


Q ss_pred             hHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhH
Q 005966          101 MLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSW  180 (667)
Q Consensus       101 ~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~  180 (667)
                      .-+......-...|..+.-.+...++...+..-|+...+.. |.|...|..+..+|.++|++..|.++|.....-++.++
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~  630 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSK  630 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhH
Confidence            33321111112233444455567777777777777777766 55777777888888888888888888866644333222


Q ss_pred             HH---HHHHHHHcCChhHHHHHHHHHHHC------CCCCChHHHHHHHHHcccCcchHHHH-------HHHHHHHhcCCC
Q 005966          181 NT---LISGYFKNAYAKEALVVFDWMLKS------GVEPDCASVVSVLPACGYLKEIEMGR-------MIHELVAGGRLG  244 (667)
Q Consensus       181 ~~---li~~~~~~~~~~~A~~~~~~m~~~------g~~p~~~~~~~ll~~~~~~~~~~~a~-------~~~~~~~~~~~~  244 (667)
                      -.   ....-+..|.+.+|+..+......      +..--..++..+...+...|-...+.       +.|--...+...
T Consensus       631 y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~  710 (1238)
T KOG1127|consen  631 YGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQ  710 (1238)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhh
Confidence            11   122335567777777776665431      11112223333333333233222222       222222222211


Q ss_pred             cchhHHHHHHHHH-----------------------HhcCCH---H---HHHHHHhhcCC--CChhHHHHHHHHHHh---
Q 005966          245 KNIAAWNALVDMY-----------------------VKCGSV---N---EARLVFDRMSE--RDVVTWTSMINGYAL---  290 (667)
Q Consensus       245 ~~~~~~~~l~~~~-----------------------~~~g~~---~---~A~~~~~~~~~--~~~~~~~~li~~~~~---  290 (667)
                      .+...|-.+-++|                       -+.+..   |   -+.+.+-.-.+  .+..+|..++..|.+   
T Consensus       711 ~~~~~Wi~asdac~~f~q~e~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hlsl~~~~~~WyNLGinylr~f~  790 (1238)
T KOG1127|consen  711 SDRLQWIVASDACYIFSQEEPSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLSLAIHMYPWYNLGINYLRYFL  790 (1238)
T ss_pred             hhHHHHHHHhHHHHHHHHhcccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHHHhhccchHHHHhHHHHHHHH
Confidence            1222222221111                       111111   1   00000000000  123444444444333   


Q ss_pred             -C----CChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHH
Q 005966          291 -N----GDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVK  365 (667)
Q Consensus       291 -~----~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  365 (667)
                       .    .+...|+..+.+..+.  ..+...+-..+...+..|++.-+..-+-...... +.+..+|..+.-.+.+..+++
T Consensus       791 ~l~et~~~~~~Ai~c~KkaV~L--~ann~~~WnaLGVlsg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E  867 (1238)
T KOG1127|consen  791 LLGETMKDACTAIRCCKKAVSL--CANNEGLWNALGVLSGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFE  867 (1238)
T ss_pred             HcCCcchhHHHHHHHHHHHHHH--hhccHHHHHHHHHhhccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHH
Confidence             1    1233566666666542  3444444455555555555555444433322222 445667777777788888999


Q ss_pred             HHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHH--H--CCCCCCHHHHHHHHHHHhCcCCHHHHHHHHH
Q 005966          366 LSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQML--V--EVVEPNDATLNSLLPAYAILADLQQAMNIHC  438 (667)
Q Consensus       366 ~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~--~--~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  438 (667)
                      .|...|.+..   +.+...|-.........|+.-+++.+|..--  .  .|--|+..-+..........|+.+.-+...+
T Consensus       868 ~A~~af~~~qSLdP~nl~~WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~  947 (1238)
T KOG1127|consen  868 HAEPAFSSVQSLDPLNLVQWLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTAR  947 (1238)
T ss_pred             HhhHHHHhhhhcCchhhHHHHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhh
Confidence            9999988776   4455557666666667788888888887621  1  2333443333333333444555444333322


Q ss_pred             HHHH---------hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCC---CCCcchHHHH----HHHHHHcCChHHHH
Q 005966          439 YLIR---------YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIK---DKDIVVWSVI----IAGYGMHGHGETAV  502 (667)
Q Consensus       439 ~~~~---------~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l----~~~~~~~~~~~~a~  502 (667)
                      .+-.         .+.+.+...|.+.....-+.+.++.|.++..+....   .-+...|+.+    .+.++..|.++.|.
T Consensus       948 ki~sAs~al~~yf~~~p~~~fAy~~~gstlEhL~ey~~a~ela~RliglLe~k~d~sqynvak~~~gRL~lslgefe~A~ 1027 (1238)
T KOG1127|consen  948 KISSASLALSYYFLGHPQLCFAYAANGSTLEHLEEYRAALELATRLIGLLELKLDESQYNVAKPDAGRLELSLGEFESAK 1027 (1238)
T ss_pred             hhhhhHHHHHHHHhcCcchhHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhhhhcchhhHh
Confidence            2211         244566777887777777777777777766653221   1244444432    22334445555444


Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCch-hHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          503 SLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRA-DHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       503 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      .-+.....   ..+...-.+-+.. .-.++++++.+.|+++..-.....+. .....+.......+.-+.|...+-+.
T Consensus      1028 ~a~~~~~~---evdEdi~gt~l~l-Ffkndf~~sl~~fe~aLsis~se~d~vvLl~kva~~~g~~~~k~~A~~lLfe~ 1101 (1238)
T KOG1127|consen 1028 KASWKEWM---EVDEDIRGTDLTL-FFKNDFFSSLEFFEQALSISNSESDKVVLLCKVAVCMGLARQKNDAQFLLFEV 1101 (1238)
T ss_pred             hhhcccch---hHHHHHhhhhHHH-HHHhHHHHHHHHHHHHhhhcccccchhhhhHHHHHHHhhcccchHHHHHHHHH
Confidence            33222111   0111111111111 23466677777777666533333332 22333334444555556665554443

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.20  E-value=1.3e-07  Score=95.51  Aligned_cols=46  Identities=22%  Similarity=0.153  Sum_probs=42.1

Q ss_pred             CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHH
Q 005966          599 GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       599 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      .-.++|.++++.+.+..|++..+|..-..+|.+.|++--|++.+.+
T Consensus       471 dPLe~A~kfl~pL~~~a~~~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  471 DPLEEAMKFLKPLLELAPDNIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             cHHHHHHHHHHHHHHhCccchhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            3479999999999999999999999999999999999999988764

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 [], [].

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.17  E-value=3.1e-08  Score=98.54  Aligned_cols=203  Identities=16%  Similarity=0.155  Sum_probs=132.8

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHC---CCCCC----HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHH
Q 005966          383 NAILAGCVHNGLARKAVELFRQMLVE---VVEPN----DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGL  455 (667)
Q Consensus       383 ~~li~~~~~~~~~~~A~~~~~~m~~~---g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  455 (667)
                      +.+...|...+++++|..+|+++...   ..-++    ..+++.|-.+|.+.|++++|...++...+             
T Consensus       245 ~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~-------------  311 (508)
T KOG1840|consen  245 NILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNLAVLYYKQGKFAEAEEYCERALE-------------  311 (508)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhccCChHHHHHHHHHHHH-------------
Confidence            34667788889999999999887642   11111    13444455555666666665555443321             


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCC-CCc-chHHHHHHHHHHcCChHHHHHHHHHHHHc---CCCCCH----HHHHHHHHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKD-KDI-VVWSVIIAGYGMHGHGETAVSLFKEMVQS---GVQPNE----VTFTSALHA  526 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~-~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---~~~p~~----~~~~~ll~~  526 (667)
                                     +++...... |.+ ..++.++..++..+++++|..++++..+.   -+.++.    .+++.|...
T Consensus       312 ---------------I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l  376 (508)
T KOG1840|consen  312 ---------------IYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAEL  376 (508)
T ss_pred             ---------------HHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHH
Confidence                           122111110 222 23455566677777778877777765542   122232    468889999


Q ss_pred             HhccCCHHHHHHHHHHhHHhc----C-CCCc-hhHHHHHHHHHhhcCChHHHHHHHHhC--------CCCCCH-HHHHHH
Q 005966          527 CSHGGLLDEGLDLFNFMLENH----Q-TCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM--------PLKPTH-AVWGAL  591 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~----~-~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~~-~~~~~l  591 (667)
                      |.+.|++++|.+++++++...    + ..+. ...++.|...|.+.+++++|.++|.+.        +..|+. .+|..|
T Consensus       377 ~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL  456 (508)
T KOG1840|consen  377 YLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNL  456 (508)
T ss_pred             HHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHH
Confidence            999999999999999887632    1 1122 345677888899999999888888876        134443 478999


Q ss_pred             HHHHHhcCCHHHHHHHHHHhhc
Q 005966          592 LGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       592 ~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      ...|...|++|.|+++.+++..
T Consensus       457 ~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  457 AALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHcccHHHHHHHHHHHHH
Confidence            9999999999999999998863

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.17  E-value=5.7e-06  Score=83.61  Aligned_cols=231  Identities=12%  Similarity=0.038  Sum_probs=135.5

Q ss_pred             hHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCC--------CCCCcccHHHHHHHhcc
Q 005966           52 SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGE--------YNPDNYTYPIVIKACTD  123 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--------~~~~~~~~~~ll~~~~~  123 (667)
                      .+|..-|+++.|-+...-+.  +...|..|.+.|.+..+.+-|.-.+-.|....|        -.|+ .+=..+.-....
T Consensus       736 SfyvtiG~MD~AfksI~~Ik--S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAie  812 (1416)
T KOG3617|consen  736 SFYVTIGSMDAAFKSIQFIK--SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIE  812 (1416)
T ss_pred             eEEEEeccHHHHHHHHHHHh--hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHH
Confidence            78888899999877665443  446799999999999888877777666643211        1122 222223333357


Q ss_pred             ccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCC-hhhHHHHHHHHHHcCChhHHHHHHHH
Q 005966          124 LAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHS-VVSWNTLISGYFKNAYAKEALVVFDW  202 (667)
Q Consensus       124 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~  202 (667)
                      .|.+++|..+|.+-.+..         .|-..|...|.+++|.++-+.-.+-. -.+|......+-..++.+.|++.|++
T Consensus       813 LgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  813 LGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             HhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHHh
Confidence            799999999999887664         45567888899999999877543322 23666677777778889999888876


Q ss_pred             HHHCC-------------------CCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCH
Q 005966          203 MLKSG-------------------VEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSV  263 (667)
Q Consensus       203 m~~~g-------------------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  263 (667)
                      .....                   -+.|...|.---.-+...|+.+.|..+++.+.+         |-.+++..|-.|+.
T Consensus       884 ~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~C~qGk~  954 (1416)
T KOG3617|consen  884 AGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIKCIQGKT  954 (1416)
T ss_pred             cCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeEeeccCc
Confidence            42110                   011112222222222333444444444433221         23334444444444


Q ss_pred             HHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 005966          264 NEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQ  305 (667)
Q Consensus       264 ~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~  305 (667)
                      ++|-++-++-  .|..+...+.+.|-..|++.+|..+|.+.+
T Consensus       955 ~kAa~iA~es--gd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  955 DKAARIAEES--GDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             hHHHHHHHhc--ccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            4444443332  244444555556666666666666665553

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.17  E-value=1.6e-08  Score=96.55  Aligned_cols=234  Identities=12%  Similarity=-0.006  Sum_probs=162.1

Q ss_pred             CChHHHHHHHHHHHHCC-CCCC--HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHH
Q 005966          393 GLARKAVELFRQMLVEV-VEPN--DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAH  469 (667)
Q Consensus       393 ~~~~~A~~~~~~m~~~g-~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  469 (667)
                      +..+.++.-+.++.... ..|+  ...|......+...|+.+.|...|+...+.. +.+...++.+...+...|++++|.
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            45566777777776532 2222  2346666667788888999988888888765 556788899999999999999999


Q ss_pred             HHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC
Q 005966          470 KIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQ  548 (667)
Q Consensus       470 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  548 (667)
                      ..|++..+..|+ ..+|..+..++...|++++|++.+++..+.  .|+..........+...++.++|...+.+...  .
T Consensus       119 ~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~--~  194 (296)
T PRK11189        119 EAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE--K  194 (296)
T ss_pred             HHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh--h
Confidence            999998887665 567888888899999999999999999986  45443222222334567889999999977654  2


Q ss_pred             CCCchhHHHHHHHHHhhcCChH--HHHHHHHhC-C----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCC-CCC
Q 005966          549 TCSRADHYTCIVDLLGRAGRLD--EAYDLIRTM-P----LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEP-ENP  619 (667)
Q Consensus       549 ~~~~~~~~~~l~~~~~~~g~~~--~A~~~~~~~-~----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p-~~~  619 (667)
                      .+|+...+ .+..  ...|++.  ++++.+.+. .    ..| ....|..++..+...|++++|+..|+++++.+| +.+
T Consensus       195 ~~~~~~~~-~~~~--~~lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~~~~  271 (296)
T PRK11189        195 LDKEQWGW-NIVE--FYLGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVYNFV  271 (296)
T ss_pred             CCccccHH-HHHH--HHccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCchHH
Confidence            23333222 2332  3345443  334333322 2    122 335788999999999999999999999999997 555


Q ss_pred             chHHHHHHHHhhcCC
Q 005966          620 GNYVLLSKLYSAVRR  634 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~  634 (667)
                      .+...++.+....++
T Consensus       272 e~~~~~~e~~~~~~~  286 (296)
T PRK11189        272 EHRYALLELALLGQD  286 (296)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            566666655544333

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.15  E-value=1e-09  Score=102.88  Aligned_cols=194  Identities=14%  Similarity=0.076  Sum_probs=100.0

Q ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-C--CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 005966          446 LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-K--DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTS  522 (667)
Q Consensus       446 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  522 (667)
                      +|.......+...+...++-+.+..-+++..... +  +....-.....+...|++++|++++++.      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            4444444444433333344444554444433322 1  1111122223344456666666665432      23445555


Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCchhH---HHHHHHHHhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHh
Q 005966          523 ALHACSHGGLLDEGLDLFNFMLENHQTCSRADH---YTCIVDLLGRAGRLDEAYDLIRTMP--LKPTHAVWGALLGACVI  597 (667)
Q Consensus       523 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~  597 (667)
                      .+..|.+.++++.|.+.++.|.+   ...|...   ..+++..+.-.+.+.+|..+|+++.  ..+++.+++.++.++..
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~---~~eD~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~  213 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQ---IDEDSILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQ  213 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHC---CSCCHHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh---cCCcHHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHH
Confidence            56666666667767666666654   1122221   1222333333345677777777662  34566666666666677


Q ss_pred             cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCc-hHHHHHHHHhhhC
Q 005966          598 HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRW-KDAENVRDVMDEK  648 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~  648 (667)
                      .|++++|+..++++++.+|.++.++..++.+....|+. +.+.+++.++.+.
T Consensus       214 ~~~~~eAe~~L~~al~~~~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~  265 (290)
T PF04733_consen  214 LGHYEEAEELLEEALEKDPNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQS  265 (290)
T ss_dssp             CT-HHHHHHHHHHHCCC-CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHH
T ss_pred             hCCHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHh
Confidence            77777777777777777777777777777666666666 4455666666553

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.

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.14  E-value=1.7e-09  Score=104.36  Aligned_cols=222  Identities=15%  Similarity=0.065  Sum_probs=172.0

Q ss_pred             hCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHH
Q 005966          425 AILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVS  503 (667)
Q Consensus       425 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~  503 (667)
                      .+.|++.+|.-.|+..++.. |-+...|..|.......++-..|+..+.+..+..| +......|...|...|.-.+|++
T Consensus       296 m~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHHHH
Confidence            45566667776777666655 55667777777777888888888888888887765 46778888889999999999999


Q ss_pred             HHHHHHHcCCCC--------CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHH
Q 005966          504 LFKEMVQSGVQP--------NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDL  575 (667)
Q Consensus       504 ~~~~m~~~~~~p--------~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  575 (667)
                      .++..+...++-        +...-..  ..+.....+.+..++|-.+....+..+|.++...|.-.|--.|.+++|++.
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiDc  452 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVDC  452 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHHH
Confidence            999887643210        0000000  122223344556666766666567668888899999999999999999999


Q ss_pred             HHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          576 IRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       576 ~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      |+.+ ..+| |..+|+.|+..+....+.++|+..|.+++++.|.-..+.+.|+-.|...|.|+||.++|-.++...
T Consensus       453 f~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq  528 (579)
T KOG1125|consen  453 FEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQ  528 (579)
T ss_pred             HHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhh
Confidence            9987 6777 667899998888888899999999999999999999999999999999999999999988876543

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.13  E-value=4.5e-07  Score=84.14  Aligned_cols=270  Identities=11%  Similarity=-0.004  Sum_probs=187.8

Q ss_pred             CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHH-HHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHH
Q 005966          376 KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDAT-LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTG  454 (667)
Q Consensus       376 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  454 (667)
                      +.|+.....+...+...|+.++|+..|++...  +.|+..+ .....-.+.+.|+++....+...+.... ..+...+-.
T Consensus       229 r~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~--~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV  305 (564)
T KOG1174|consen  229 RCNEHLMMALGKCLYYNGDYFQAEDIFSSTLC--ANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFV  305 (564)
T ss_pred             CccHHHHHHHhhhhhhhcCchHHHHHHHHHhh--CChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhh
Confidence            33444466777778888888888888887663  3343322 1111122345677777666666654332 122222222


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 005966          455 LIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLL  533 (667)
Q Consensus       455 l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~  533 (667)
                      -...+....+++.|..+-++.....| +...|-.-...+...|++++|.-.|+...... +-+..+|..|+.+|...|++
T Consensus       306 ~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~  384 (564)
T KOG1174|consen  306 HAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQMLA-PYRLEIYRGLFHSYLAQKRF  384 (564)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhcc-hhhHHHHHHHHHHHHhhchH
Confidence            33444556778888888777666543 34455555567788899999999998887742 23567899999999999999


Q ss_pred             HHHHHHHHHhHHhcCCCCchhHHHHHH-HHHh-hcCChHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHH
Q 005966          534 DEGLDLFNFMLENHQTCSRADHYTCIV-DLLG-RAGRLDEAYDLIRTM-PLKPTHA-VWGALLGACVIHGNVELGEVAAK  609 (667)
Q Consensus       534 ~~A~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~  609 (667)
                      .+|.-+-+...+  -++.+..+...++ ..+. .-.--++|..++++. .+.|+.. ..+.+...|...|..+.++.+++
T Consensus       385 kEA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe  462 (564)
T KOG1174|consen  385 KEANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLLE  462 (564)
T ss_pred             HHHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHHH
Confidence            999888887776  3444555555553 3333 333457788888876 6788654 67778888999999999999999


Q ss_pred             HhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCcc
Q 005966          610 WLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRK  652 (667)
Q Consensus       610 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~  652 (667)
                      +.+...|| ...+..|++++.....+++|.+.|....+.+++.
T Consensus       463 ~~L~~~~D-~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~~  504 (564)
T KOG1174|consen  463 KHLIIFPD-VNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPKS  504 (564)
T ss_pred             HHHhhccc-cHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCccc
Confidence            99999998 6788999999999999999999999888766543

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.10  E-value=4.3e-08  Score=98.82  Aligned_cols=255  Identities=13%  Similarity=0.052  Sum_probs=149.0

Q ss_pred             HhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhc-----C
Q 005966          390 VHNGLARKAVELFRQMLVEVVEPND-ATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKC-----G  463 (667)
Q Consensus       390 ~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g  463 (667)
                      ...|++++|++.+++-..  ..+|. .........+.+.|+.++|..++..+++.+ +.+..-|..+..+.+-.     .
T Consensus        15 ~e~g~~~~AL~~L~~~~~--~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~~   91 (517)
T PF12569_consen   15 EEAGDYEEALEHLEKNEK--QILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSDE   91 (517)
T ss_pred             HHCCCHHHHHHHHHhhhh--hCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccccc
Confidence            344555555555544222  12222 233334444555555555555555555554 33333344444443211     2


Q ss_pred             CHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 005966          464 SLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHG-ETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNF  542 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~  542 (667)
                      ..+...++|+++....|.......+.-.+.....+ ..+..++..+...|+++   +|..+-..|....+.+-..+++..
T Consensus        92 ~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPs---lF~~lk~Ly~d~~K~~~i~~l~~~  168 (517)
T PF12569_consen   92 DVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPS---LFSNLKPLYKDPEKAAIIESLVEE  168 (517)
T ss_pred             cHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCch---HHHHHHHHHcChhHHHHHHHHHHH
Confidence            34555566666555444433333332222221122 23555666677777543   455555555555555555555555


Q ss_pred             hHHhc-------------CCCCchhHH--HHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHH
Q 005966          543 MLENH-------------QTCSRADHY--TCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELGE  605 (667)
Q Consensus       543 ~~~~~-------------~~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~  605 (667)
                      .....             .-+|+...|  ..+...|...|++++|++++++. ...|+ +..|..-++.+-+.|++++|.
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~htPt~~ely~~KarilKh~G~~~~Aa  248 (517)
T PF12569_consen  169 YVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEHTPTLVELYMTKARILKHAGDLKEAA  248 (517)
T ss_pred             HHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHCCCHHHHH
Confidence            44311             123444334  44567778888888888888876 55564 556777777888888888888


Q ss_pred             HHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          606 VAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       606 ~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      +.++.+.++++.|...-.-.+.-+.+.|+.++|.+.+....+.+.
T Consensus       249 ~~~~~Ar~LD~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  249 EAMDEARELDLADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             HHHHHHHhCChhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            888888888888888888888888888888888888888877664

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 [], [].

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.08  E-value=8.3e-07  Score=85.58  Aligned_cols=249  Identities=13%  Similarity=0.084  Sum_probs=145.7

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCC------CchHHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLS------VVEVSTGL  455 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~l  455 (667)
                      ...+.....+..++..|++.+....+..  -+..-++..-.++...|.+...........+.|...      -...+..+
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre~rad~klIak~~~r~  304 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRELRADYKLIAKALARL  304 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHHHHHHHHHHHHHHHHh
Confidence            4455666666777777777777776543  333334445556667777666666555544433211      01112223


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV-TFTSALHACSHGGLLD  534 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~~~  534 (667)
                      ..+|.+.++++.++..|.+......++.       ...+....+++++..+...-.  .|... -...-...+.+.|++.
T Consensus       305 g~a~~k~~~~~~ai~~~~kaLte~Rt~~-------~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~  375 (539)
T KOG0548|consen  305 GNAYTKREDYEGAIKYYQKALTEHRTPD-------LLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYP  375 (539)
T ss_pred             hhhhhhHHhHHHHHHHHHHHhhhhcCHH-------HHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHH
Confidence            3456666777777777776544322211       122233344454444444332  23321 1222245567778888


Q ss_pred             HHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          535 EGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTH-AVWGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       535 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                      .|+..|.++++  ..|.|...|....-+|.+.|.+..|+.-.+.. ...|+. ..|..=+.++....+++.|.+.|++++
T Consensus       376 ~Av~~YteAIk--r~P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eal  453 (539)
T KOG0548|consen  376 EAVKHYTEAIK--RDPEDARLYSNRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEAL  453 (539)
T ss_pred             HHHHHHHHHHh--cCCchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88888888877  34566777888888888888888888776665 455543 344444555556677888888888888


Q ss_pred             ccCCCCCchHHHHHHHHhhcCCchHHHHHHH
Q 005966          613 ELEPENPGNYVLLSKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       613 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  643 (667)
                      +.+|++..+...+..++..........++.+
T Consensus       454 e~dp~~~e~~~~~~rc~~a~~~~~~~ee~~~  484 (539)
T KOG0548|consen  454 ELDPSNAEAIDGYRRCVEAQRGDETPEETKR  484 (539)
T ss_pred             hcCchhHHHHHHHHHHHHHhhcCCCHHHHHH
Confidence            8888877777777776665333333333333

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.08  E-value=6.8e-08  Score=82.61  Aligned_cols=196  Identities=15%  Similarity=0.015  Sum_probs=105.6

Q ss_pred             HHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCCh
Q 005966          420 LLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHG  498 (667)
Q Consensus       420 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  498 (667)
                      +.-.|...|+...|..-+++.++.. +.+..++..+...|.+.|..+.|.+.|+...+..| +..+.|....-+|..|++
T Consensus        41 Lal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg~~  119 (250)
T COG3063          41 LALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQGRP  119 (250)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCCCh
Confidence            3444555555555555555555544 34445555555666666666666666665555443 345555555556666666


Q ss_pred             HHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHH
Q 005966          499 ETAVSLFKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIR  577 (667)
Q Consensus       499 ~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  577 (667)
                      ++|...|++....-.-|. ..+|..+.-+..+.|+.+.|...|++.++  ..+........+.....+.|++-.|..+++
T Consensus       120 ~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~--~dp~~~~~~l~~a~~~~~~~~y~~Ar~~~~  197 (250)
T COG3063         120 EEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE--LDPQFPPALLELARLHYKAGDYAPARLYLE  197 (250)
T ss_pred             HHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH--hCcCCChHHHHHHHHHHhcccchHHHHHHH
Confidence            666666666555321121 13455555555566666666666666655  222223344455555556666666666655


Q ss_pred             hC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC
Q 005966          578 TM--PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPEN  618 (667)
Q Consensus       578 ~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  618 (667)
                      ..  ...++...+...+..-...||.+.+-+.-.++.+..|..
T Consensus       198 ~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~s  240 (250)
T COG3063         198 RYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPYS  240 (250)
T ss_pred             HHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCc
Confidence            54  233455555555555555566666655555555555553

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=99.08  E-value=2.6e-07  Score=83.47  Aligned_cols=322  Identities=13%  Similarity=0.094  Sum_probs=176.9

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHH---HHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHH
Q 005966          246 NIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMI---NGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSA  322 (667)
Q Consensus       246 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~  322 (667)
                      ++.-..-+.+.+...|++.+|+.-|....+.|+..|.++.   ..|...|+...|+.-+.+..+  ++||-..-.  +. 
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVle--lKpDF~~AR--iQ-  111 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLE--LKPDFMAAR--IQ-  111 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHh--cCccHHHHH--HH-
Confidence            3444455666777889999999999998888877777664   578888888888888888776  466643211  00 


Q ss_pred             hhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHH
Q 005966          323 CSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELF  402 (667)
Q Consensus       323 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  402 (667)
                                                     -...+.+.|.++.|..-|+.+.+.++..           |...+|.+-+
T Consensus       112 -------------------------------Rg~vllK~Gele~A~~DF~~vl~~~~s~-----------~~~~eaqskl  149 (504)
T KOG0624|consen  112 -------------------------------RGVVLLKQGELEQAEADFDQVLQHEPSN-----------GLVLEAQSKL  149 (504)
T ss_pred             -------------------------------hchhhhhcccHHHHHHHHHHHHhcCCCc-----------chhHHHHHHH
Confidence                                           1123445555555555555544333211           0011111100


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-CC
Q 005966          403 RQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-KD  481 (667)
Q Consensus       403 ~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~  481 (667)
                      ....      ........+..+...|+...|+.....+++.. +.+...+..-..+|...|++..|+.-++...... -+
T Consensus       150 ~~~~------e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~Dn  222 (504)
T KOG0624|consen  150 ALIQ------EHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDN  222 (504)
T ss_pred             HhHH------HHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccc
Confidence            0000      00112223334445556666665555555543 4455555555666666666666665555444332 23


Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH----HHHH---------HHHHhccCCHHHHHHHHHHhHHhcC
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVT----FTSA---------LHACSHGGLLDEGLDLFNFMLENHQ  548 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~----~~~l---------l~~~~~~g~~~~A~~~~~~~~~~~~  548 (667)
                      ....--+-..+...|+.+.++...++-++.  .||...    |..|         +......++|.++++..+...+...
T Consensus       223 Te~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep  300 (504)
T KOG0624|consen  223 TEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEP  300 (504)
T ss_pred             hHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCC
Confidence            344444455555666666666666665553  444421    1111         0112344566666666666655211


Q ss_pred             CCC--chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          549 TCS--RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       549 ~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                      ..+  ....+..+-.++...|++-+|++...+. ...|| ..++..-..+|.....++.|+.-|+++.+.+|+|..+-.
T Consensus       301 ~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~sn~~~re  379 (504)
T KOG0624|consen  301 EETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNESNTRARE  379 (504)
T ss_pred             cccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcccHHHHH
Confidence            101  1112333445566677777777777665 45554 567777777777777777788878877777777654433

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.00  E-value=9.1e-06  Score=82.23  Aligned_cols=410  Identities=11%  Similarity=0.076  Sum_probs=209.1

Q ss_pred             CCCCcchHHHHHH--HHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHh--------
Q 005966           71 SERSSFLYNTVMK--MYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLIT--------  140 (667)
Q Consensus        71 ~~~~~~~~~~l~~--~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--------  140 (667)
                      .+-|..+-..++.  .|..-|+.+.|.+..+.+..       ...|..+.+.|.+.++++-|+-.+..|...        
T Consensus       722 e~Cd~~TRkaml~FSfyvtiG~MD~AfksI~~IkS-------~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~  794 (1416)
T KOG3617|consen  722 ENCDESTRKAMLDFSFYVTIGSMDAAFKSIQFIKS-------DSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRR  794 (1416)
T ss_pred             cccCHHHHHhhhceeEEEEeccHHHHHHHHHHHhh-------hHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHH
Confidence            3446666666664  46667777777776665543       346777777777777777777666555322        


Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHH
Q 005966          141 GFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLP  220 (667)
Q Consensus       141 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~  220 (667)
                      ..+.+...-....-.-...|.+++|+.++.+-.+     |..|=..|-..|.+++|+++-+.--+  +. -..||..-..
T Consensus       795 a~q~~~e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DR--iH-Lr~Tyy~yA~  866 (1416)
T KOG3617|consen  795 AQQNGEEDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDR--IH-LRNTYYNYAK  866 (1416)
T ss_pred             HHhCCcchhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccc--ee-hhhhHHHHHH
Confidence            1111112222222233455666666666655432     33344445556666666665443211  11 1234444444


Q ss_pred             HcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHH
Q 005966          221 ACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGL  300 (667)
Q Consensus       221 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~  300 (667)
                      -+...++.+.|.+.|+....+.    ..+...|.      .++.....+.+++.  |...|.-...-+-..|+.+.|+.+
T Consensus       867 ~Lear~Di~~AleyyEK~~~ha----fev~rmL~------e~p~~~e~Yv~~~~--d~~L~~WWgqYlES~GemdaAl~~  934 (1416)
T KOG3617|consen  867 YLEARRDIEAALEYYEKAGVHA----FEVFRMLK------EYPKQIEQYVRRKR--DESLYSWWGQYLESVGEMDAALSF  934 (1416)
T ss_pred             HHHhhccHHHHHHHHHhcCChH----HHHHHHHH------hChHHHHHHHHhcc--chHHHHHHHHHHhcccchHHHHHH
Confidence            4445555565655555432110    11111111      12222333333333  334444455555567888888888


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcc
Q 005966          301 FQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTV  380 (667)
Q Consensus       301 ~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  380 (667)
                      |...++         |-++++..|-.|..++|.++-++      .-|....-.+.+.|-..|++.+|..+|.+...    
T Consensus       935 Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa----  995 (1416)
T KOG3617|consen  935 YSSAKD---------YFSMVRIKCIQGKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRAQA----  995 (1416)
T ss_pred             HHHhhh---------hhhheeeEeeccCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH----
Confidence            877754         44556666677777777776554      33455555677888888888888888876541    


Q ss_pred             cHHHHHHHH-------------HhCC--ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHH------
Q 005966          381 PWNAILAGC-------------VHNG--LARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCY------  439 (667)
Q Consensus       381 ~~~~li~~~-------------~~~~--~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~------  439 (667)
                       +..-|+.|             ...|  +.-.|-..|++.   |.     -+...+..|.+.|.+.+|+++--.      
T Consensus       996 -fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~a 1066 (1416)
T KOG3617|consen  996 -FSNAIRLCKENDMKDRLANLALMSGGSDLVSAARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSA 1066 (1416)
T ss_pred             -HHHHHHHHHhcCHHHHHHHHHhhcCchhHHHHHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHH
Confidence             12222211             1111  222233333332   11     112233345566666666554211      


Q ss_pred             --HHH--hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHH-cCCC
Q 005966          440 --LIR--YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQ-SGVQ  514 (667)
Q Consensus       440 --~~~--~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-~~~~  514 (667)
                        ++.  .....|+...+.-.+.++...++++|..++-...+       |...+.. |...+..-..++-+.|.- ++-.
T Consensus      1067 L~lIa~DLd~~sDp~ll~RcadFF~~~~qyekAV~lL~~ar~-------~~~Alql-C~~~nv~vtee~aE~mTp~Kd~~ 1138 (1416)
T KOG3617|consen 1067 LDLIAKDLDAGSDPKLLRRCADFFENNQQYEKAVNLLCLARE-------FSGALQL-CKNRNVRVTEEFAELMTPTKDDM 1138 (1416)
T ss_pred             HHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHHHHHHHHHHHH-------HHHHHHH-HhcCCCchhHHHHHhcCcCcCCC
Confidence              112  22234566666666667777777777666644332       2222222 233333323333333321 1123


Q ss_pred             CCH----HHHHHHHHHHhccCCHHHHHHHHHHh
Q 005966          515 PNE----VTFTSALHACSHGGLLDEGLDLFNFM  543 (667)
Q Consensus       515 p~~----~~~~~ll~~~~~~g~~~~A~~~~~~~  543 (667)
                      |+.    ..+..+...|.++|.+..|.+-|.++
T Consensus      1139 ~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQA 1171 (1416)
T KOG3617|consen 1139 PNEQERKQVLEQVAELCLQQGAYHAATKKFTQA 1171 (1416)
T ss_pred             ccHHHHHHHHHHHHHHHHhccchHHHHHHHhhh
Confidence            333    34566777888899988888777655

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.99  E-value=7.3e-07  Score=88.84  Aligned_cols=261  Identities=11%  Similarity=-0.036  Sum_probs=164.4

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHH---HHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          386 LAGCVHNGLARKAVELFRQMLVEVVEPND-ATLNS---LLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       386 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~---ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      ...+...|++++|.+.+++..+.  .|+. ..+..   ........+....+.+.+.. .....+........+...+..
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~--~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~  126 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDD--YPRDLLALKLHLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEE  126 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHhHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHH
Confidence            34556678999999999988765  3433 33331   11111224455555555443 111112233444566678889


Q ss_pred             cCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCH--HHHHHHHHHHhccCCHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQ-PNE--VTFTSALHACSHGGLLDEGL  537 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~~--~~~~~ll~~~~~~g~~~~A~  537 (667)
                      .|++++|...+++.....|+ ...+..+...+...|++++|...+++....... |+.  ..|..+...+...|++++|.
T Consensus       127 ~G~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~  206 (355)
T cd05804         127 AGQYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAAL  206 (355)
T ss_pred             cCCHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHH
Confidence            99999999999998887754 567788888999999999999999998875321 232  24557788889999999999


Q ss_pred             HHHHHhHHhcCCCCchhHH-H--HHHHHHhhcCChHHHHHH--H-HhC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHH
Q 005966          538 DLFNFMLENHQTCSRADHY-T--CIVDLLGRAGRLDEAYDL--I-RTM-PLKP---THAVWGALLGACVIHGNVELGEVA  607 (667)
Q Consensus       538 ~~~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~~~--~-~~~-~~~p---~~~~~~~l~~~~~~~g~~~~A~~~  607 (667)
                      .+++++.......+..... +  .+...+...|..+.+.+.  + ... ...|   ..........++...|+.+.|...
T Consensus       207 ~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         207 AIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             HHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence            9999986422211222111 1  223333344433222222  1 111 1101   112223566677889999999999


Q ss_pred             HHHhhccCC---------CCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          608 AKWLFELEP---------ENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       608 ~~~~~~~~p---------~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ++.+....-         .........+.++...|++++|.+.+.+.....
T Consensus       287 L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         287 LAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            988755221         134566778888999999999999999887654

A family member from Streptomyces toyocaensis, StaR is part of a gene cluster involved in the biosynthesis of glycopeptide antibiotics (GPAs), specifically A47934. It has been speculated that StaR could be a flavoprotein hydroxylating a tyrosine sidechain. Some family members have been annotated as proteins containing tetratricopeptide (TPR) repeats, which may at least indicate mostly alpha-helical secondary structure.

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.98  E-value=1.2e-06  Score=84.48  Aligned_cols=101  Identities=20%  Similarity=0.093  Sum_probs=53.2

Q ss_pred             HhhhcCChhhHHHhhcccC---CCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHH
Q 005966           53 LVRAYGHVSNVRILFDEMS---ERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKL  129 (667)
Q Consensus        53 ~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~  129 (667)
                      .....|+++.|..+|.+..   .+|-+.|+.-..+|++.|++++|++--.+-++.  .|.-.-.|+....++.-.|++++
T Consensus        11 aa~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   11 AAFSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             hhcccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHHH
Confidence            3344456666666665532   235555555566666666666666555555543  12223455555555555566666


Q ss_pred             HHHHHHHHHHhCCCCchHHHHHHHHHH
Q 005966          130 GIALHGRVLITGFDMDTFVGNCLIAMY  156 (667)
Q Consensus       130 a~~~~~~~~~~~~~~~~~~~~~li~~~  156 (667)
                      |..-|..-++.. +.+...++-+..++
T Consensus        89 A~~ay~~GL~~d-~~n~~L~~gl~~a~  114 (539)
T KOG0548|consen   89 AILAYSEGLEKD-PSNKQLKTGLAQAY  114 (539)
T ss_pred             HHHHHHHHhhcC-CchHHHHHhHHHhh
Confidence            666665555554 33444444444444

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.96  E-value=3.8e-08  Score=87.10  Aligned_cols=121  Identities=10%  Similarity=0.062  Sum_probs=93.8

Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHH-HHhcCC--HHH
Q 005966          529 HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGA-CVIHGN--VEL  603 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~-~~~~g~--~~~  603 (667)
                      ..++.+++...++...+  ..+.+...|..++..|...|++++|...+++. ...| +...+..+..+ +...|+  .++
T Consensus        51 ~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         51 SQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             CchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            35667777777777776  45567778888888888888888888888877 4555 56667777665 356666  588


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      |.++++++++.+|+++.++..++..+.+.|++++|+..++++.+....
T Consensus       129 A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~  176 (198)
T PRK10370        129 TREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            888888888888888888888888888888888888888888876654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.96  E-value=2.1e-06  Score=76.30  Aligned_cols=382  Identities=13%  Similarity=0.009  Sum_probs=197.5

Q ss_pred             cccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHH-HHHHHhCCChHHHH
Q 005966          222 CGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--RDVVTWTSM-INGYALNGDVRNAL  298 (667)
Q Consensus       222 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~l-i~~~~~~~~~~~a~  298 (667)
                      +.+..+++.+.+++..-.+.. +.+....+.|..+|....++..|-..++++..  |...-|... ...+.+.+.+.+|+
T Consensus        20 lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~i~ADAL   98 (459)
T KOG4340|consen   20 LIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKACIYADAL   98 (459)
T ss_pred             HHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhcccHHHH
Confidence            333334444444443333332 22455667777778888888888888888765  444444332 34566778888888


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccC-CC
Q 005966          299 GLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTS-KK  377 (667)
Q Consensus       299 ~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-~~  377 (667)
                      ++...|.+.   |+...-..-+.+..                                 ....+++..+..++++.. +.
T Consensus        99 rV~~~~~D~---~~L~~~~lqLqaAI---------------------------------kYse~Dl~g~rsLveQlp~en  142 (459)
T KOG4340|consen   99 RVAFLLLDN---PALHSRVLQLQAAI---------------------------------KYSEGDLPGSRSLVEQLPSEN  142 (459)
T ss_pred             HHHHHhcCC---HHHHHHHHHHHHHH---------------------------------hcccccCcchHHHHHhccCCC
Confidence            888887542   22211111111111                                 111233333333333333 12


Q ss_pred             CcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCC---------
Q 005966          378 KTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSV---------  448 (667)
Q Consensus       378 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---------  448 (667)
                      +..+.+.......+.|+++.|++-|+...+-+---....|+..+ +..+.+++..|.+...++++.|+..-         
T Consensus       143 ~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~t  221 (459)
T KOG4340|consen  143 EADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTT  221 (459)
T ss_pred             ccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCcccee
Confidence            22223333333334444444444444443322111222333222 22233444444444444443322110         


Q ss_pred             -------------------chHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CCcchHHHHHHHHHHcCChHHHHHHHH
Q 005966          449 -------------------VEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KDIVVWSVIIAGYGMHGHGETAVSLFK  506 (667)
Q Consensus       449 -------------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~  506 (667)
                                         +..++.-...+.+.|+++.|.+.+..|+.+.   .|++|...+.-.- ..+++.+..+-+.
T Consensus       222 egiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLq  300 (459)
T KOG4340|consen  222 EGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQ  300 (459)
T ss_pred             ccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHH
Confidence                               1223333445678899999999999998764   5777766554332 2345556666666


Q ss_pred             HHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHh-hcCChHHHHHHHHhCCCCCCH
Q 005966          507 EMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLG-RAGRLDEAYDLIRTMPLKPTH  585 (667)
Q Consensus       507 ~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~p~~  585 (667)
                      -+++.++ -...||..++-.|++..-++-|..++.+-....-.-.+...|+ |++++. -.-..++|++-+..+...-..
T Consensus       301 FLL~~nP-fP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~-LLdaLIt~qT~pEea~KKL~~La~~l~~  378 (459)
T KOG4340|consen  301 FLLQQNP-FPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYD-LLDALITCQTAPEEAFKKLDGLAGMLTE  378 (459)
T ss_pred             HHHhcCC-CChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHH-HHHHHHhCCCCHHHHHHHHHHHHHHHHH
Confidence            6666543 3356898899999999988888887654322000012233333 344444 345677777666654211011


Q ss_pred             HHHHHHHHH--HHhcCC---HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          586 AVWGALLGA--CVIHGN---VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       586 ~~~~~l~~~--~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ......+..  -...++   ...|++-++..+++--   .+....++.|....++.-+.+.|..-.+
T Consensus       379 kLRklAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~YL---PVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  379 KLRKLAIQVQEARHNRDDEAIRKAVNEYDETLEKYL---PVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHHH---HHHHHHHHhhccccccHHHHHHHHHHHh
Confidence            111111111  111122   2334445555555542   3677889999999999999999987554

>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=98.90  E-value=8.5e-08  Score=90.02  Aligned_cols=248  Identities=14%  Similarity=0.051  Sum_probs=155.8

Q ss_pred             HhcCCHHHHHHHHhccCCCCcc----cHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHH
Q 005966          359 AKCNLVKLSFQVFARTSKKKTV----PWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAM  434 (667)
Q Consensus       359 ~~~g~~~~a~~~~~~~~~~~~~----~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~  434 (667)
                      .-.|.+..++.-.+ ....+..    ...-+.+++...|+.+.++   .++... -.|.......+...+....+-+.+.
T Consensus        12 fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~-~~~~l~av~~la~y~~~~~~~e~~l   86 (290)
T PF04733_consen   12 FYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKS-SSPELQAVRLLAEYLSSPSDKESAL   86 (290)
T ss_dssp             HCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TT-SSCCCHHHHHHHHHHCTSTTHHCHH
T ss_pred             HHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccC-CChhHHHHHHHHHHHhCccchHHHH
Confidence            34566666664433 1111111    1334556667777666443   333322 2566666655555454444444554


Q ss_pred             HHHHHHHHhCCC-CCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 005966          435 NIHCYLIRYGFL-SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV  513 (667)
Q Consensus       435 ~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  513 (667)
                      .-++........ .+.........++...|++++|.+++...    .+.......+..+.+.++++.|.+.++.|.+.  
T Consensus        87 ~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~----~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--  160 (290)
T PF04733_consen   87 EELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG----GSLELLALAVQILLKMNRPDLAEKELKNMQQI--  160 (290)
T ss_dssp             HHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT----TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc----CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--
Confidence            444433322222 23333334445677789999998888764    35566677888999999999999999999874  


Q ss_pred             CCCHHHHHHHHHHHh----ccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHH
Q 005966          514 QPNEVTFTSALHACS----HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAV  587 (667)
Q Consensus       514 ~p~~~~~~~ll~~~~----~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~  587 (667)
                      ..| .+...+..++.    -.+.+.+|..+|+++.+  ..++++.+.+.+..+....|++++|.+++.+. ...| ++.+
T Consensus       161 ~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~  237 (290)
T PF04733_consen  161 DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDT  237 (290)
T ss_dssp             SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHH
T ss_pred             CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHH
Confidence            334 34444444433    23479999999999876  45678888999999999999999999998886 4445 6667


Q ss_pred             HHHHHHHHHhcCCH-HHHHHHHHHhhccCCCCCc
Q 005966          588 WGALLGACVIHGNV-ELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       588 ~~~l~~~~~~~g~~-~~A~~~~~~~~~~~p~~~~  620 (667)
                      +-.++-+....|+. +.+.+.+.++....|++|.
T Consensus       238 LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~h~~  271 (290)
T PF04733_consen  238 LANLIVCSLHLGKPTEAAERYLSQLKQSNPNHPL  271 (290)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHCHHHTTTSHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHhCCCChH
Confidence            77787777888877 7788999999999998543

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.

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.90  E-value=1.5e-07  Score=87.33  Aligned_cols=185  Identities=10%  Similarity=-0.013  Sum_probs=119.8

Q ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc----chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHH
Q 005966          448 VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI----VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE--VTFT  521 (667)
Q Consensus       448 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~  521 (667)
                      ....+..++..+.+.|++++|...|+++....|+.    ..+..+..++...|++++|+..++++.+.......  .++.
T Consensus        32 ~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~  111 (235)
T TIGR03302        32 PAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAYY  111 (235)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHHH
Confidence            34455556666777777777777777666554432    35566677777778888888888887765321111  1344


Q ss_pred             HHHHHHhcc--------CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHH
Q 005966          522 SALHACSHG--------GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLG  593 (667)
Q Consensus       522 ~ll~~~~~~--------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~  593 (667)
                      .+..++...        |++++|.+.++.+.+...  .+...+..+.....    .....           ......+..
T Consensus       112 ~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~p--~~~~~~~a~~~~~~----~~~~~-----------~~~~~~~a~  174 (235)
T TIGR03302       112 LRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRYP--NSEYAPDAKKRMDY----LRNRL-----------AGKELYVAR  174 (235)
T ss_pred             HHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHCC--CChhHHHHHHHHHH----HHHHH-----------HHHHHHHHH
Confidence            444444433        677888888888876322  22222222211100    11100           011235666


Q ss_pred             HHHhcCCHHHHHHHHHHhhccCCCCC---chHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          594 ACVIHGNVELGEVAAKWLFELEPENP---GNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .+.+.|+++.|+..++++++..|+++   .++..++.+|.+.|++++|.++++.+....
T Consensus       175 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       175 FYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            78899999999999999999987754   688999999999999999999999887654

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).

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.90  E-value=0.00018  Score=81.64  Aligned_cols=191  Identities=9%  Similarity=-0.099  Sum_probs=86.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCCChhH--HHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhccc
Q 005966          250 WNALVDMYVKCGSVNEARLVFDRMSERDVVT--WTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLY  327 (667)
Q Consensus       250 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  327 (667)
                      +......+...|++.+|..........+...  ...........|+++.+...+..+.......+..........+...|
T Consensus       344 h~raa~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g  423 (903)
T PRK04841        344 HRAAAEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQH  423 (903)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCC
Confidence            3344455667788887777666665432211  11122334456777776666665421111112222222233344556


Q ss_pred             chHHHHHHHHHHHHhcCC------CC--chHHhHHHHHHHhcCCHHHHHHHHhccCC----CCc----ccHHHHHHHHHh
Q 005966          328 YLKRGRSLHAWTIKQNLE------CE--VIVETALIDMYAKCNLVKLSFQVFARTSK----KKT----VPWNAILAGCVH  391 (667)
Q Consensus       328 ~~~~a~~~~~~~~~~~~~------~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~----~~~~~li~~~~~  391 (667)
                      +.+++...+......--.      +.  ......+...+...|+++.|...+++...    .+.    ...+.+...+..
T Consensus       424 ~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~  503 (903)
T PRK04841        424 RYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHC  503 (903)
T ss_pred             CHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHH
Confidence            777776666655432110      00  11111222334455666666655554321    111    012333444455


Q ss_pred             CCChHHHHHHHHHHHHCCC---CC--CHHHHHHHHHHHhCcCCHHHHHHHHHHH
Q 005966          392 NGLARKAVELFRQMLVEVV---EP--NDATLNSLLPAYAILADLQQAMNIHCYL  440 (667)
Q Consensus       392 ~~~~~~A~~~~~~m~~~g~---~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~  440 (667)
                      .|++++|...+.+.....-   .+  ...++..+...+...|+++.|...++..
T Consensus       504 ~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~a  557 (903)
T PRK04841        504 KGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKA  557 (903)
T ss_pred             cCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            5666666665555443210   00  1122333344445555666655555544

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=98.89  E-value=2e-06  Score=85.71  Aligned_cols=191  Identities=11%  Similarity=0.067  Sum_probs=134.0

Q ss_pred             CCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc------hhhhhhHhhhcCChhhHHHhhcccCC--C-CcchHHH
Q 005966           10 PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF------THLRSSLVRAYGHVSNVRILFDEMSE--R-SSFLYNT   80 (667)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~------~~~~~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~   80 (667)
                      |....++..++..+...++.+.+...+.++.+..+.+      .++....+...|++++|...+++...  | |..++..
T Consensus         3 p~~~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~   82 (355)
T cd05804           3 PDFALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL   82 (355)
T ss_pred             CccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH
Confidence            4456778888888888888888888888877776644      22222667788999999998887542  2 3334442


Q ss_pred             HHHHHH----hCCCchHHHHHHHHhHHcCCCCCCc-ccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHH
Q 005966           81 VMKMYA----QNGASHDSLKMFLGMLRLGEYNPDN-YTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAM  155 (667)
Q Consensus        81 l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~  155 (667)
                       ...+.    ..+..+.+.+.++...   ...|+. .....+..++...|++++|...+++..+.. +.+...+..+..+
T Consensus        83 -~~~~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i  157 (355)
T cd05804          83 -HLGAFGLGDFSGMRDHVARVLPLWA---PENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHV  157 (355)
T ss_pred             -hHHHHHhcccccCchhHHHHHhccC---cCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHH
Confidence             22222    2455555555555421   223333 334455567788999999999999999987 5667788888899


Q ss_pred             HHhcCCHHHHHHHhcccCCC-----Ch--hhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 005966          156 YMNFGEVKAARKVFDAMWEH-----SV--VSWNTLISGYFKNAYAKEALVVFDWMLK  205 (667)
Q Consensus       156 ~~~~g~~~~A~~~~~~~~~~-----~~--~~~~~li~~~~~~~~~~~A~~~~~~m~~  205 (667)
                      |...|++++|...++...+.     +.  ..|-.+...+...|++++|+.++++...
T Consensus       158 ~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~  214 (355)
T cd05804         158 LEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIA  214 (355)
T ss_pred             HHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhc
Confidence            99999999999998876432     21  2355678889999999999999999854

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.85  E-value=3.8e-05  Score=69.90  Aligned_cols=173  Identities=9%  Similarity=0.035  Sum_probs=95.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      +..-..+|...|++..|+.-++...+.. .-+..++-.+-..+...|+.+.++...++..+.+  |+-.....   .|  
T Consensus       192 ~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKld--pdHK~Cf~---~Y--  263 (504)
T KOG0624|consen  192 RQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLD--PDHKLCFP---FY--  263 (504)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccC--cchhhHHH---HH--
Confidence            4455566667777777766655554332 1222333334444455555555555544444332  22111100   00  


Q ss_pred             cCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH---HHHHHHHHHhccCCHHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV---TFTSALHACSHGGLLDEGLD  538 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---~~~~ll~~~~~~g~~~~A~~  538 (667)
                       .++.+..+.++.              +......++|.++++..+...+........   .+..+-.++...|++.+|++
T Consensus       264 -KklkKv~K~les--------------~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiq  328 (504)
T KOG0624|consen  264 -KKLKKVVKSLES--------------AEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQ  328 (504)
T ss_pred             -HHHHHHHHHHHH--------------HHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHH
Confidence             011111111111              122355677778888888777754331222   24445556677788888888


Q ss_pred             HHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          539 LFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       539 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      ...+++.  -.+.|+.++.--..+|.-...++.|+.-|++.
T Consensus       329 qC~evL~--~d~~dv~~l~dRAeA~l~dE~YD~AI~dye~A  367 (504)
T KOG0624|consen  329 QCKEVLD--IDPDDVQVLCDRAEAYLGDEMYDDAIHDYEKA  367 (504)
T ss_pred             HHHHHHh--cCchHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            8888876  33344777777888888888888888888877

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.84  E-value=7.9e-08  Score=80.43  Aligned_cols=122  Identities=8%  Similarity=-0.016  Sum_probs=70.2

Q ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC
Q 005966          503 SLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL  581 (667)
Q Consensus       503 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  581 (667)
                      .++++.++.  .|+.  +..+...+...|++++|...|+.+..  ..+.+...|..++.++.+.|++++|...|++. ..
T Consensus        14 ~~~~~al~~--~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         14 DILKQLLSV--DPET--VYASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHc--CHHH--HHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            344555443  3332  33445555666666666666666655  33345555666666666666666666666665 33


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          582 KP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       582 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      .| +...+..+..++...|+.++|+..++++++..|+++..+...+.+..
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~~~~~~~~~~~  137 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADASWSEIRQNAQI  137 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHH
Confidence            33 45556666666666666666666666666666666666655555443

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.82  E-value=9.6e-08  Score=79.91  Aligned_cols=109  Identities=10%  Similarity=-0.037  Sum_probs=92.2

Q ss_pred             HHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhcc
Q 005966          537 LDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFEL  614 (667)
Q Consensus       537 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  614 (667)
                      ..++++..+   ..|+  .+..+...+...|++++|...|+.. ...| +...|..+..++...|++++|+..+++++++
T Consensus        13 ~~~~~~al~---~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l   87 (144)
T PRK15359         13 EDILKQLLS---VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALML   87 (144)
T ss_pred             HHHHHHHHH---cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            345666655   2244  3556788889999999999999987 4555 7778899999999999999999999999999


Q ss_pred             CCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          615 EPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       615 ~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      +|+++.++..++.++...|++++|++.+++..+...
T Consensus        88 ~p~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p  123 (144)
T PRK15359         88 DASHPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSY  123 (144)
T ss_pred             CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            999999999999999999999999999999887654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.80  E-value=1.3e-05  Score=71.40  Aligned_cols=350  Identities=15%  Similarity=0.064  Sum_probs=159.2

Q ss_pred             ccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCC--CChhhHHH-HHHHHH
Q 005966          112 YTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE--HSVVSWNT-LISGYF  188 (667)
Q Consensus       112 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~-li~~~~  188 (667)
                      .-+.+.+..+.+..++..|++++..-.+.. +.+....+.|..+|-+..++..|-..++++..  |...-|.. -...+.
T Consensus        11 Geftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY   89 (459)
T KOG4340|consen   11 GEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLY   89 (459)
T ss_pred             CchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHH
Confidence            334555555555566666666655555443 23444555555555566666666655555532  22222221 123444


Q ss_pred             HcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHH
Q 005966          189 KNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARL  268 (667)
Q Consensus       189 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  268 (667)
                      +.+.+..|+.+...|...   |+...-..-+.+.                                 .....+++..+..
T Consensus        90 ~A~i~ADALrV~~~~~D~---~~L~~~~lqLqaA---------------------------------IkYse~Dl~g~rs  133 (459)
T KOG4340|consen   90 KACIYADALRVAFLLLDN---PALHSRVLQLQAA---------------------------------IKYSEGDLPGSRS  133 (459)
T ss_pred             HhcccHHHHHHHHHhcCC---HHHHHHHHHHHHH---------------------------------HhcccccCcchHH
Confidence            555556666655555431   2211111111111                                 1122344555555


Q ss_pred             HHhhcCC-CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCC
Q 005966          269 VFDRMSE-RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECE  347 (667)
Q Consensus       269 ~~~~~~~-~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  347 (667)
                      ++++.+. .+..+.+.......+.|+++.|++-|+...+-+---....|+..+..| +.++.+.|.+...++++.|++..
T Consensus       134 LveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaHy-~~~qyasALk~iSEIieRG~r~H  212 (459)
T KOG4340|consen  134 LVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAHY-SSRQYASALKHISEIIERGIRQH  212 (459)
T ss_pred             HHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHHH-hhhhHHHHHHHHHHHHHhhhhcC
Confidence            5555542 333333333333445555555555555554432222233344333332 23445555555555555544322


Q ss_pred             chHHh----HHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCCCHHHHHHHHH
Q 005966          348 VIVET----ALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVE-VVEPNDATLNSLLP  422 (667)
Q Consensus       348 ~~~~~----~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~  422 (667)
                      +..--    -.++.-.-.+-...+..-+       +..+|.-...+.+.++++.|.+.+.+|.-. .-..|.+|...+.-
T Consensus       213 PElgIGm~tegiDvrsvgNt~~lh~Sal-------~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al  285 (459)
T KOG4340|consen  213 PELGIGMTTEGIDVRSVGNTLVLHQSAL-------VEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQAL  285 (459)
T ss_pred             CccCccceeccCchhcccchHHHHHHHH-------HHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHH
Confidence            11100    0000000000000000000       001333444455667777777777776532 23456666655432


Q ss_pred             HHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CCcchHHHHHHHHHHcCChH
Q 005966          423 AYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KDIVVWSVIIAGYGMHGHGE  499 (667)
Q Consensus       423 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  499 (667)
                      .- ..+++....+-+..+...+ +-...+|..++-.||+..-++-|.+++.+-....   .+...|+.+=....-.-..+
T Consensus       286 ~n-~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~~lTyk~L~~Yly~LLdaLIt~qT~pE  363 (459)
T KOG4340|consen  286 MN-MDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAENAHLTYKFLTPYLYDLLDALITCQTAPE  363 (459)
T ss_pred             hc-ccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCcchhHHHhhHHHHHHHHHHHhCCCCHH
Confidence            21 2334445555555555554 3456788888888888888888888887654432   23333333222222233455


Q ss_pred             HHHHHHHHH
Q 005966          500 TAVSLFKEM  508 (667)
Q Consensus       500 ~a~~~~~~m  508 (667)
                      +|.+-++.+
T Consensus       364 ea~KKL~~L  372 (459)
T KOG4340|consen  364 EAFKKLDGL  372 (459)
T ss_pred             HHHHHHHHH
Confidence            555544443

>PLN02789 farnesyltranstransferase

Probab=98.79  E-value=1.8e-06  Score=82.31  Aligned_cols=215  Identities=12%  Similarity=0.073  Sum_probs=142.1

Q ss_pred             CCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcC-CHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCCh--HHHHH
Q 005966          428 ADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCG-SLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHG--ETAVS  503 (667)
Q Consensus       428 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~--~~a~~  503 (667)
                      +..++|......+++.. +-+..+++....++...| ++++++..++++....| +..+|+.....+.+.|+.  ++++.
T Consensus        51 e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npknyqaW~~R~~~l~~l~~~~~~~el~  129 (320)
T PLN02789         51 ERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPKNYQIWHHRRWLAEKLGPDAANKELE  129 (320)
T ss_pred             CCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCcchHHhHHHHHHHHHcCchhhHHHHH
Confidence            34444444444444433 222233333333444445 46777777777666553 445666555555555653  67788


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc---CCh----HHHHHHH
Q 005966          504 LFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA---GRL----DEAYDLI  576 (667)
Q Consensus       504 ~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~A~~~~  576 (667)
                      +++++.+... -|..+|.....++...|+++++++.++++++  ..+.+...|+....++.+.   |..    ++++++.
T Consensus       130 ~~~kal~~dp-kNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~--~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~  206 (320)
T PLN02789        130 FTRKILSLDA-KNYHAWSHRQWVLRTLGGWEDELEYCHQLLE--EDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYT  206 (320)
T ss_pred             HHHHHHHhCc-ccHHHHHHHHHHHHHhhhHHHHHHHHHHHHH--HCCCchhHHHHHHHHHHhccccccccccHHHHHHHH
Confidence            8888888653 3667888888888888889999999999888  2335566677766665544   222    4566666


Q ss_pred             HhC-CCCC-CHHHHHHHHHHHHhc----CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC-----------------
Q 005966          577 RTM-PLKP-THAVWGALLGACVIH----GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR-----------------  633 (667)
Q Consensus       577 ~~~-~~~p-~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-----------------  633 (667)
                      .++ ...| +...|+.+...+...    +...+|...+.++...+|.++.++..|+++|....                 
T Consensus       207 ~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~  286 (320)
T PLN02789        207 IDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDSNHVFALSDLLDLLCEGLQPTAEFRDTVDTLAEEL  286 (320)
T ss_pred             HHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccCCcHHHHHHHHHHHHhhhccchhhhhhhhcccccc
Confidence            444 5556 667888888888763    44567889999999999999999999999998643                 


Q ss_pred             -CchHHHHHHHHhh
Q 005966          634 -RWKDAENVRDVMD  646 (667)
Q Consensus       634 -~~~~A~~~~~~~~  646 (667)
                       ..++|.++++.+.
T Consensus       287 ~~~~~a~~~~~~l~  300 (320)
T PLN02789        287 SDSTLAQAVCSELE  300 (320)
T ss_pred             ccHHHHHHHHHHHH
Confidence             2367888888774

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.78  E-value=5.4e-07  Score=79.05  Aligned_cols=153  Identities=12%  Similarity=0.164  Sum_probs=79.5

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcC
Q 005966          488 IIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG  567 (667)
Q Consensus       488 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  567 (667)
                      +-..+...|+-+....+........ .-|.......+....+.|++.+|...+.+...  ..++|...|+.+.-+|.+.|
T Consensus        72 ~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq~G  148 (257)
T COG5010          72 LATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQLG  148 (257)
T ss_pred             HHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHHcc
Confidence            3344444555555554444433321 12333333445555555555555555555554  44455555555555555555


Q ss_pred             ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHH
Q 005966          568 RLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       568 ~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  643 (667)
                      ++++|..-|.+. .+.| ++..++.+...+.-.||.+.|+..+..+....+.|+.+-..|+.+....|++++|..+..
T Consensus       149 r~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~~  226 (257)
T COG5010         149 RFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIAV  226 (257)
T ss_pred             ChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhcc
Confidence            555555555544 3333 344455555555555555555555555555555555555555555555555555555543

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.74  E-value=8.3e-07  Score=93.28  Aligned_cols=128  Identities=13%  Similarity=0.040  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHH
Q 005966          517 EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGA  594 (667)
Q Consensus       517 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~  594 (667)
                      ...+..|.....+.|.+++|..+++.+.+  -.|.+......++..+.+.+++++|+..+++. ...|+ ......+..+
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~--~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~p~~~~~~~~~a~~  163 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQ--RFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGGSSSAREILLEAKS  163 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHh--hCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcCCCCHHHHHHHHHH
Confidence            44444444444555555555555555444  12122333344444455555555555555444 33332 2233333444


Q ss_pred             HHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          595 CVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       595 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      +.+.|++++|+.+|++++..+|+++.++..++.++.+.|+.++|...|++..
T Consensus       164 l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~  215 (694)
T PRK15179        164 WDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGL  215 (694)
T ss_pred             HHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4445555555555555555445555555555555555555555555555443

>PLN02789 farnesyltranstransferase

Probab=98.74  E-value=6.8e-07  Score=85.11  Aligned_cols=190  Identities=10%  Similarity=0.085  Sum_probs=147.1

Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcC-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH--
Q 005966          458 IYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHG-HGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLL--  533 (667)
Q Consensus       458 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~--  533 (667)
                      .+...++.++|..+...+....|+ ..+|+.-...+...| ++++++..++++.+...+ +..+|+.-...+.+.|+.  
T Consensus        46 ~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l~~l~~~~~  124 (320)
T PLN02789         46 VYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLAEKLGPDAA  124 (320)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHHHHcCchhh
Confidence            344567888999999998887664 467777777777777 679999999999987533 445666555555566653  


Q ss_pred             HHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CC----HHHH
Q 005966          534 DEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIH---GN----VELG  604 (667)
Q Consensus       534 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~----~~~A  604 (667)
                      +++..+++++++  ..+.+...|.....++.+.|++++|++.++++ ...| +...|+.......+.   |.    .+.+
T Consensus       125 ~~el~~~~kal~--~dpkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~e  202 (320)
T PLN02789        125 NKELEFTRKILS--LDAKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLEAMRDSE  202 (320)
T ss_pred             HHHHHHHHHHHH--hCcccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhccccccccccHHHH
Confidence            678899989987  45567888999999999999999999999998 4444 677888877766554   22    3578


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHhh----cCCchHHHHHHHHhhhCCC
Q 005966          605 EVAAKWLFELEPENPGNYVLLSKLYSA----VRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       605 ~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  650 (667)
                      +....+++..+|+|.++|..+..++..    .++..+|.+.+.+..+.++
T Consensus       203 l~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~~  252 (320)
T PLN02789        203 LKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKDS  252 (320)
T ss_pred             HHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhcccC
Confidence            888889999999999999999999988    3556789898888776544

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.71  E-value=7.9e-07  Score=88.80  Aligned_cols=224  Identities=14%  Similarity=-0.014  Sum_probs=171.3

Q ss_pred             CCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHH
Q 005966          411 EPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIA  490 (667)
Q Consensus       411 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  490 (667)
                      +|--..-..+...+...|-...|..+++++.         .+.-++.+|...|+..+|..+..+-.++.|+...|..+..
T Consensus       395 pp~Wq~q~~laell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGD  465 (777)
T KOG1128|consen  395 PPIWQLQRLLAELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGD  465 (777)
T ss_pred             CCcchHHHHHHHHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhh
Confidence            3333344455666677788888888887754         3445788888889888888888877776688888888887


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChH
Q 005966          491 GYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLD  570 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  570 (667)
                      ......-+++|.++.+.....       .-..+.....+.++++++.+.|+.-.+.  .+-...+|..+.-+..+.++++
T Consensus       466 v~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~q  536 (777)
T KOG1128|consen  466 VLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLEKEQ  536 (777)
T ss_pred             hccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHhhhH
Confidence            777766778888777664332       1112222233468899999999888773  3344567888888888999999


Q ss_pred             HHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          571 EAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       571 ~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      .|.+.|... ...|| ...|+++-.+|.+.|+..+|...++++++-+-++..+|....-+....|.|++|++.+.++.+.
T Consensus       537 ~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~~w~iWENymlvsvdvge~eda~~A~~rll~~  616 (777)
T KOG1128|consen  537 AAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDL  616 (777)
T ss_pred             HHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCCCCeeeechhhhhhhcccHHHHHHHHHHHHHh
Confidence            999998876 67775 4589999999999999999999999999998888899998888999999999999999998766


Q ss_pred             CCcc
Q 005966          649 GLRK  652 (667)
Q Consensus       649 ~~~~  652 (667)
                      ...+
T Consensus       617 ~~~~  620 (777)
T KOG1128|consen  617 RKKY  620 (777)
T ss_pred             hhhc
Confidence            5443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.69  E-value=2.2e-06  Score=91.49  Aligned_cols=202  Identities=14%  Similarity=0.116  Sum_probs=154.8

Q ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-C-----CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH
Q 005966          446 LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-K-----DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVT  519 (667)
Q Consensus       446 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  519 (667)
                      |.+...|-..+......++.++|+++.++....- +     -...|.++++.-...|.-+...++|+++.+.-  -....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc--d~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC--DAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc--chHHH
Confidence            4455566667777777888888888887765431 1     23478888887777787888888888888742  12345


Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC---HHHHHHHHHHH
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT---HAVWGALLGAC  595 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~  595 (667)
                      |..|...|.+.+++++|.++++.|.+.++  .....|..+++.+.+..+-+.|.+++.++ ..-|.   .......+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            77888888888999999999999988655  45566888888888888888888888776 43443   34556666667


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      .+.||.+++..+|+-.+...|...+.|..+++.-.+.|+.+.++.+|+++...++.
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~ 1666 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLS 1666 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCC
Confidence            78899999999999999988888889998888888889999999999988877654

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.68  E-value=0.00076  Score=69.84  Aligned_cols=215  Identities=9%  Similarity=-0.004  Sum_probs=139.7

Q ss_pred             ccCChhhHhHHHHHHHHhCCCc---hhhhhhHhhhcCChhhHHHhhcccC---CCCcchHHHHHHHHHhCCCchHHHHHH
Q 005966           25 ATKSIAGTKQLHAFIITSGPLF---THLRSSLVRAYGHVSNVRILFDEMS---ERSSFLYNTVMKMYAQNGASHDSLKMF   98 (667)
Q Consensus        25 ~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~a~~~~   98 (667)
                      .++.+..|.+...++++.-|..   ..+..-...+.|+.++|..+++...   ..|..+...+-.+|...|+.++|..+|
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Y  100 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLY  100 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHH
Confidence            4566778888888888888877   2222266778899999999888753   237778888999999999999999999


Q ss_pred             HHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC----------HHHHHHH
Q 005966           99 LGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGE----------VKAARKV  168 (667)
Q Consensus        99 ~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~----------~~~A~~~  168 (667)
                      ++..+.   .|+......+..++.+.+++.+-.+.--++-+. ++.+++.+=++++.+...-.          ..-|.+.
T Consensus       101 e~~~~~---~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~-~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m  176 (932)
T KOG2053|consen  101 ERANQK---YPSEELLYHLFMAYVREKSYKKQQKAALQLYKN-FPKRAYYFWSVISLILQSIFSENELLDPILLALAEKM  176 (932)
T ss_pred             HHHHhh---CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-CCcccchHHHHHHHHHHhccCCcccccchhHHHHHHH
Confidence            999865   677777788888888888777655555455443 35555555556666544311          2234555


Q ss_pred             hcccCCCC-----hhhHHHHHHHHHHcCChhHHHHHHH-HHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcC
Q 005966          169 FDAMWEHS-----VVSWNTLISGYFKNAYAKEALVVFD-WMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGR  242 (667)
Q Consensus       169 ~~~~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~~-~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  242 (667)
                      ++.+.+.+     ..-...-...+...|++++|++++. ..-+.-..-+...-+.-+..+...+++.+..++-..+...|
T Consensus       177 ~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  177 VQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            55554433     1111122234456778888888883 33332222233344455555666677777777766666665


Q ss_pred             C
Q 005966          243 L  243 (667)
Q Consensus       243 ~  243 (667)
                      .
T Consensus       257 ~  257 (932)
T KOG2053|consen  257 N  257 (932)
T ss_pred             C
Confidence            3

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.68  E-value=8.3e-06  Score=78.18  Aligned_cols=115  Identities=20%  Similarity=0.230  Sum_probs=79.9

Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHH
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~  603 (667)
                      .+...|++++|+..++.+++  ..|.|+..+...++.+.+.++.++|.+.++++ ...|+ ...+..+..++.+.|+..+
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHH
Confidence            34556777777777777766  44455656666777777777777777777776 45665 4556667777777777777


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHH
Q 005966          604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVR  642 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  642 (667)
                      |+..++.....+|+||..|..|+.+|...|+..+|....
T Consensus       393 ai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A~  431 (484)
T COG4783         393 AIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLAR  431 (484)
T ss_pred             HHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHHH
Confidence            777777777777777777777777776666554444433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=1.7e-06  Score=75.25  Aligned_cols=195  Identities=12%  Similarity=0.163  Sum_probs=112.9

Q ss_pred             CcCCHHHHHHHHHHHHH---hC-CCCCc-hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcc-hHHHHHHHHHHcCChH
Q 005966          426 ILADLQQAMNIHCYLIR---YG-FLSVV-EVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIV-VWSVIIAGYGMHGHGE  499 (667)
Q Consensus       426 ~~~~~~~a~~~~~~~~~---~~-~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~  499 (667)
                      ...+.++..+++..+..   .| ..++. ..|..++-+....|+.+.|...++.+....|... .-..-..-+-..|+++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchh
Confidence            44567777777776653   23 33332 2344445555566777777777776665554332 2111222344556677


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          500 TAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       500 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      +|+++|+.+++.+ +.|..++.-=+...-..|+--+|++-+....+  .+..|.+.|.-+.+.|...|++++|.-.++++
T Consensus       104 ~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  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEEL  180 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHH
Confidence            7777777777665 33555555555555556666667666666666  45566666777777777777777777777766


Q ss_pred             -CCCC-CHHHHHHHHHHHHhcC---CHHHHHHHHHHhhccCCCCCchHH
Q 005966          580 -PLKP-THAVWGALLGACVIHG---NVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       580 -~~~p-~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                       -..| ++..+..+...+...|   +.+.|.+.|.+++++.|.+...++
T Consensus       181 ll~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~~~ral~  229 (289)
T KOG3060|consen  181 LLIQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPKNLRALF  229 (289)
T ss_pred             HHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChHhHHHHH
Confidence             2334 4445555555543332   566667777777777765444443

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.64  E-value=2.4e-06  Score=75.14  Aligned_cols=134  Identities=17%  Similarity=0.109  Sum_probs=114.4

Q ss_pred             CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC--CCCCCHHHHHHH
Q 005966          514 QPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM--PLKPTHAVWGAL  591 (667)
Q Consensus       514 ~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l  591 (667)
                      .|+......+-..+...|+-+....+......  ..+.|......++....+.|++.+|...+++.  ..+||...|+.+
T Consensus        63 ~p~d~~i~~~a~a~~~~G~a~~~l~~~~~~~~--~~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~p~d~~~~~~l  140 (257)
T COG5010          63 NPEDLSIAKLATALYLRGDADSSLAVLQKSAI--AYPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLAPTDWEAWNLL  140 (257)
T ss_pred             CcchHHHHHHHHHHHhcccccchHHHHhhhhc--cCcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccCCCChhhhhHH
Confidence            44333225566677788888888888887655  45566667777999999999999999999998  356689999999


Q ss_pred             HHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          592 LGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       592 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ..+|.+.|+++.|...|.+++++.|.+|.+...|+-.|.-.|+++.|..++.+....+
T Consensus       141 gaaldq~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~  198 (257)
T COG5010         141 GAALDQLGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSP  198 (257)
T ss_pred             HHHHHHccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999999999987655

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.62  E-value=7e-06  Score=72.78  Aligned_cols=154  Identities=10%  Similarity=0.123  Sum_probs=117.1

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      +..|...|+++.+....+.+..  |. .       .+...++.++++..+++.++.. +.|...|..+...|...|++++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~--~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~   91 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLAD--PL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDN   91 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhC--cc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            4467777877776555443322  11 0       1112566788888888888765 4467789999999999999999


Q ss_pred             HHHHHHHhHHhcCCCCchhHHHHHHHHH-hhcCC--hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005966          536 GLDLFNFMLENHQTCSRADHYTCIVDLL-GRAGR--LDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKW  610 (667)
Q Consensus       536 A~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  610 (667)
                      |...|++..+  ..+.+...+..+..++ ...|+  .++|.+++++. ...| +...+..+...+...|++++|+..+++
T Consensus        92 A~~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~  169 (198)
T PRK10370         92 ALLAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQK  169 (198)
T ss_pred             HHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            9999999988  3445677788888864 67777  59999999998 5566 667888888899999999999999999


Q ss_pred             hhccCCCCCchH
Q 005966          611 LFELEPENPGNY  622 (667)
Q Consensus       611 ~~~~~p~~~~~~  622 (667)
                      ++++.|.+..-+
T Consensus       170 aL~l~~~~~~r~  181 (198)
T PRK10370        170 VLDLNSPRVNRT  181 (198)
T ss_pred             HHhhCCCCccHH
Confidence            999998866544

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.61  E-value=4.8e-07  Score=73.91  Aligned_cols=97  Identities=11%  Similarity=0.002  Sum_probs=85.2

Q ss_pred             hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          553 ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       553 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      ....-.+...+...|++++|..+|+-. ...| +...|..|..+|...|++++|+..|.++..++|+||..+..++.+|.
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L  114 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHH
Confidence            344555677788999999999999987 4566 66788999999999999999999999999999999999999999999


Q ss_pred             hcCCchHHHHHHHHhhhCC
Q 005966          631 AVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~  649 (667)
                      ..|+.++|++.|+.....-
T Consensus       115 ~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HcCCHHHHHHHHHHHHHHh
Confidence            9999999999999876543

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.60  E-value=3.2e-06  Score=82.36  Aligned_cols=252  Identities=16%  Similarity=0.106  Sum_probs=152.1

Q ss_pred             HHhcCCHHHHHHHHhccCCCCccc---HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhCcCCHHHH
Q 005966          358 YAKCNLVKLSFQVFARTSKKKTVP---WNAILAGCVHNGLARKAVELFRQMLVEVVEPND-ATLNSLLPAYAILADLQQA  433 (667)
Q Consensus       358 ~~~~g~~~~a~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a  433 (667)
                      +.+.|++.+|.-.|+.....++..   |.-|.......++-..|+..+++..+  +.|+. .....|.-.|...|.-..|
T Consensus       295 lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~--LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  295 LMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLE--LDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHh--cCCccHHHHHHHHHHHhhhhhHHHH
Confidence            345555666666665555444333   55555555555555555555555553  23322 3344444445555555555


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHH-HcC
Q 005966          434 MNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMV-QSG  512 (667)
Q Consensus       434 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~-~~~  512 (667)
                      ...++..++..++--          +..               ..+++...-+.  ..+..........++|-++. ..+
T Consensus       373 l~~L~~Wi~~~p~y~----------~l~---------------~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~  425 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYV----------HLV---------------SAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLP  425 (579)
T ss_pred             HHHHHHHHHhCccch----------hcc---------------ccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCC
Confidence            555555444331100          000               00000000000  11111112233444444444 444


Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHH-HHHH
Q 005966          513 VQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHA-VWGA  590 (667)
Q Consensus       513 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~  590 (667)
                      ..+|+.....|.-.|--.|.+++|...|+.++.  ..|-|..+||-|+..++...+.++|+..|+++ .++|..+ .+..
T Consensus       426 ~~~DpdvQ~~LGVLy~ls~efdraiDcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyN  503 (579)
T KOG1125|consen  426 TKIDPDVQSGLGVLYNLSGEFDRAVDCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYN  503 (579)
T ss_pred             CCCChhHHhhhHHHHhcchHHHHHHHHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehh
Confidence            346777777777778888999999999999987  45567889999999999999999999999987 6888754 7788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhccCCC-----CC-----chHHHHHHHHhhcCCchHHHH
Q 005966          591 LLGACVIHGNVELGEVAAKWLFELEPE-----NP-----GNYVLLSKLYSAVRRWKDAEN  640 (667)
Q Consensus       591 l~~~~~~~g~~~~A~~~~~~~~~~~p~-----~~-----~~~~~l~~~~~~~g~~~~A~~  640 (667)
                      |.-.|...|.+++|...|-.++.+.+.     +.     .+|..|=.++...++.+-+.+
T Consensus       504 lgIS~mNlG~ykEA~~hlL~AL~mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~  563 (579)
T KOG1125|consen  504 LGISCMNLGAYKEAVKHLLEALSMQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQE  563 (579)
T ss_pred             hhhhhhhhhhHHHHHHHHHHHHHhhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHH
Confidence            888999999999999999999877655     11     356666666666676664443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.60  E-value=1.5e-06  Score=86.85  Aligned_cols=190  Identities=17%  Similarity=0.204  Sum_probs=163.1

Q ss_pred             hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 005966          443 YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTS  522 (667)
Q Consensus       443 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  522 (667)
                      .+++|-...-..+...+...|-...|..+|+++.       .|.-.|.+|+..|+..+|..+..+-.+.  +|++..|..
T Consensus       392 ~~lpp~Wq~q~~laell~slGitksAl~I~Erle-------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~  462 (777)
T KOG1128|consen  392 PHLPPIWQLQRLLAELLLSLGITKSALVIFERLE-------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCL  462 (777)
T ss_pred             CCCCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHH
Confidence            3456777777888999999999999999998754       4888999999999999999999988883  789999999


Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005966          523 ALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGN  600 (667)
Q Consensus       523 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  600 (667)
                      +.+......-+++|.++.+.....        .-..+.....+.++++++.+.++.. .+.| ...+|..+..+..+.++
T Consensus       463 LGDv~~d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek  534 (777)
T KOG1128|consen  463 LGDVLHDPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEK  534 (777)
T ss_pred             hhhhccChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhh
Confidence            999888888899999998877552        1112223344589999999999875 5666 66799999999999999


Q ss_pred             HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       601 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ++.|...|...+.++|++..+|+.+..+|.+.|+..+|...+++..+.+
T Consensus       535 ~q~av~aF~rcvtL~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn  583 (777)
T KOG1128|consen  535 EQAAVKAFHRCVTLEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN  583 (777)
T ss_pred             hHHHHHHHHHHhhcCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC
Confidence            9999999999999999999999999999999999999999999998877

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.59  E-value=5.5e-06  Score=72.74  Aligned_cols=147  Identities=11%  Similarity=0.053  Sum_probs=83.6

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHH----Hhh
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDL----LGR  565 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~----~~~  565 (667)
                      ..|+..|++++|++..+...      +......=...+.+..+.+-|.+.+++|.+  .  .+-.+.+.|..+    ...
T Consensus       116 ~i~~~~~~~deAl~~~~~~~------~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~--i--ded~tLtQLA~awv~la~g  185 (299)
T KOG3081|consen  116 IIYMHDGDFDEALKALHLGE------NLEAAALNVQILLKMHRFDLAEKELKKMQQ--I--DEDATLTQLAQAWVKLATG  185 (299)
T ss_pred             HHhhcCCChHHHHHHHhccc------hHHHHHHHHHHHHHHHHHHHHHHHHHHHHc--c--chHHHHHHHHHHHHHHhcc
Confidence            34566666666666665521      111222222334455566666666666655  1  122333333333    333


Q ss_pred             cCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHH-HH
Q 005966          566 AGRLDEAYDLIRTM--PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAEN-VR  642 (667)
Q Consensus       566 ~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~-~~  642 (667)
                      .+.+.+|.-+|+++  +..|++.+.+..+.++...|++++|+.+++.++..++.+|.++..++.+-...|+..++.+ .+
T Consensus       186 gek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nliv~a~~~Gkd~~~~~r~l  265 (299)
T KOG3081|consen  186 GEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANLIVLALHLGKDAEVTERNL  265 (299)
T ss_pred             chhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCChHHHHHHH
Confidence            45566777777776  2566666666666667777777777777777777777777777766666666666554443 34


Q ss_pred             HHhh
Q 005966          643 DVMD  646 (667)
Q Consensus       643 ~~~~  646 (667)
                      .+++
T Consensus       266 ~QLk  269 (299)
T KOG3081|consen  266 SQLK  269 (299)
T ss_pred             HHHH
Confidence            4443

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.56  E-value=0.00056  Score=73.23  Aligned_cols=234  Identities=12%  Similarity=0.093  Sum_probs=168.5

Q ss_pred             CCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-h-hhhh-hHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHH
Q 005966           10 PKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-T-HLRS-SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYA   86 (667)
Q Consensus        10 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~-~~~~-~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~   86 (667)
                      |....++..|+..+...++++++.++.+..++..|.. . ++.. .+|...++.+++..+             .++....
T Consensus        28 p~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-------------~~l~~~~   94 (906)
T PRK14720         28 LSKFKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-------------NLIDSFS   94 (906)
T ss_pred             cchHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-------------hhhhhcc
Confidence            6678889999999999999999999999999999888 3 3333 667776775554443             4555556


Q ss_pred             hCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHH
Q 005966           87 QNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAAR  166 (667)
Q Consensus        87 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  166 (667)
                      ...++.-...+...|...   .-+..++..+..+|-+.|+.+++..+|+++++.. +-|+.+.|.+...|+.. ++++|+
T Consensus        95 ~~~~~~~ve~~~~~i~~~---~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~  169 (906)
T PRK14720         95 QNLKWAIVEHICDKILLY---GENKLALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAI  169 (906)
T ss_pred             cccchhHHHHHHHHHHhh---hhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHH
Confidence            666664444444555443   4455688889999999999999999999999998 77899999999999999 999999


Q ss_pred             HHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhc-CCCc
Q 005966          167 KVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGG-RLGK  245 (667)
Q Consensus       167 ~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~  245 (667)
                      +++...           +..+...+++.++.+++.++...  .|+..               +.-.++.+.+..+ |...
T Consensus       170 ~m~~KA-----------V~~~i~~kq~~~~~e~W~k~~~~--~~~d~---------------d~f~~i~~ki~~~~~~~~  221 (906)
T PRK14720        170 TYLKKA-----------IYRFIKKKQYVGIEEIWSKLVHY--NSDDF---------------DFFLRIERKVLGHREFTR  221 (906)
T ss_pred             HHHHHH-----------HHHHHhhhcchHHHHHHHHHHhc--Ccccc---------------hHHHHHHHHHHhhhccch
Confidence            887653           34477788999999999999874  33322               2222223333322 2233


Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHH
Q 005966          246 NIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYA  289 (667)
Q Consensus       246 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~  289 (667)
                      -+.++-.+-..|-...+++++..+|+.+.+   .|..+..-++..|.
T Consensus       222 ~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        222 LVGLLEDLYEPYKALEDWDEVIYILKKILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             hHHHHHHHHHHHhhhhhhhHHHHHHHHHHhcCCcchhhHHHHHHHHH
Confidence            455666677778888888999999888876   34555566666665

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.56  E-value=9.6e-07  Score=73.75  Aligned_cols=94  Identities=22%  Similarity=0.275  Sum_probs=52.3

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      ...++..+...|++++|.+.++.. ...| +...+..+...+...|+++.|...++++++..|+++..+..++.+|...|
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~g   99 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPDDPRPYFHAAECLLALG   99 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHcC
Confidence            334445555555555555555554 2223 44455555555555566666666666666666665666666666666666


Q ss_pred             CchHHHHHHHHhhhCC
Q 005966          634 RWKDAENVRDVMDEKG  649 (667)
Q Consensus       634 ~~~~A~~~~~~~~~~~  649 (667)
                      ++++|.+.+++..+..
T Consensus       100 ~~~~A~~~~~~al~~~  115 (135)
T TIGR02552       100 EPESALKALDLAIEIC  115 (135)
T ss_pred             CHHHHHHHHHHHHHhc
Confidence            6666666665555543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF12854 PPR_1: PPR repeat

Probab=98.54  E-value=1.5e-07  Score=55.52  Aligned_cols=33  Identities=36%  Similarity=0.614  Sum_probs=25.7

Q ss_pred             CCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcC
Q 005966          242 RLGKNIAAWNALVDMYVKCGSVNEARLVFDRMS  274 (667)
Q Consensus       242 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  274 (667)
                      |+.||..+|++||++|++.|++++|.++|++|+
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            567778888888888888888888888887764

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.53  E-value=0.0013  Score=64.30  Aligned_cols=150  Identities=17%  Similarity=0.084  Sum_probs=87.1

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCC-CchHHHHHHHHHHhcCCHHHHHHHHh
Q 005966          395 ARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLS-VVEVSTGLIDIYSKCGSLESAHKIFS  473 (667)
Q Consensus       395 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~  473 (667)
                      .+...+.++++...-..--..+|...+..-.+...+..|+.+|.+..+.+..+ .+.+.++++..|| .++.+-|.++|+
T Consensus       347 ~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFe  425 (656)
T KOG1914|consen  347 EKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFE  425 (656)
T ss_pred             hhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHH
Confidence            34444455544433222222345555666666666667777777776665554 5666666666555 456666667766


Q ss_pred             hCCCCCCCcc-hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          474 EIPIKDKDIV-VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE--VTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       474 ~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      --....+|.. --...+.-+...++-..+..+|++.+..++.|+.  ..|..++.-=..-|+...+.++-+++..
T Consensus       426 LGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  426 LGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             HHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            5444444433 3345556666666666677777777666555444  4566666666666777666666666554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.52  E-value=1.9e-05  Score=84.05  Aligned_cols=150  Identities=11%  Similarity=0.094  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005966          451 VSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH  529 (667)
Q Consensus       451 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  529 (667)
                      .+..+..+|-+.|+.++|..+|+++....| |+.+.|-+...|... +.++|.+++.+.+..               +..
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~---------------~i~  181 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKADRDNPEIVKKLATSYEEE-DKEKAITYLKKAIYR---------------FIK  181 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHh-hHHHHHHHHHHHHHH---------------HHh
Confidence            444555555555555555555555555442 344555555555555 555555555555442               333


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005966          530 GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAK  609 (667)
Q Consensus       530 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  609 (667)
                      .+++..+.++|.++..  ..+.+...+..+.......            ....--..++.-+-..|...+++++++.+++
T Consensus       182 ~kq~~~~~e~W~k~~~--~~~~d~d~f~~i~~ki~~~------------~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK  247 (906)
T PRK14720        182 KKQYVGIEEIWSKLVH--YNSDDFDFFLRIERKVLGH------------REFTRLVGLLEDLYEPYKALEDWDEVIYILK  247 (906)
T ss_pred             hhcchHHHHHHHHHHh--cCcccchHHHHHHHHHHhh------------hccchhHHHHHHHHHHHhhhhhhhHHHHHHH
Confidence            3455555555555554  1212222222211111111            0111123345555566777888999999999


Q ss_pred             HhhccCCCCCchHHHHHHHHh
Q 005966          610 WLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       610 ~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      .+++.+|.|..+...++.+|.
T Consensus       248 ~iL~~~~~n~~a~~~l~~~y~  268 (906)
T PRK14720        248 KILEHDNKNNKAREELIRFYK  268 (906)
T ss_pred             HHHhcCCcchhhHHHHHHHHH
Confidence            999999999999999998887

>PF12854 PPR_1: PPR repeat

Probab=98.52  E-value=1.4e-07  Score=55.66  Aligned_cols=33  Identities=36%  Similarity=0.460  Sum_probs=24.8

Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHhcccC
Q 005966          141 GFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMW  173 (667)
Q Consensus       141 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~  173 (667)
                      |+.||..+||.||.+|++.|++++|.++|++|+
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            567777777777777777777777777777763

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.49  E-value=1.1e-05  Score=74.87  Aligned_cols=59  Identities=22%  Similarity=0.181  Sum_probs=38.5

Q ss_pred             HHHHHHhhcCChHHHHHHHHhC-CCC---C-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCC
Q 005966          558 CIVDLLGRAGRLDEAYDLIRTM-PLK---P-THAVWGALLGACVIHGNVELGEVAAKWLFELEP  616 (667)
Q Consensus       558 ~l~~~~~~~g~~~~A~~~~~~~-~~~---p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  616 (667)
                      .+...+.+.|++++|+..+++. ...   | ....+..++.++.+.|++++|...++.+....|
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            4556677777777777777665 222   2 235666777777777777777777776665555

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).

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.49  E-value=0.00046  Score=78.38  Aligned_cols=322  Identities=12%  Similarity=-0.029  Sum_probs=184.9

Q ss_pred             cCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----CC---h-----hHHHHHHHHHHhC
Q 005966          224 YLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE----RD---V-----VTWTSMINGYALN  291 (667)
Q Consensus       224 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~---~-----~~~~~li~~~~~~  291 (667)
                      ..|+.+.+..+++.+.......+..........+...|++++|...++...+    .+   .     .....+...+...
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            4455555555554432111111222233344455566777777777665422    10   1     1111222344567


Q ss_pred             CChHHHHHHHHHHHhcCCCCCh----hhHHHHHHHhhcccchHHHHHHHHHHHHhcCC-----CCchHHhHHHHHHHhcC
Q 005966          292 GDVRNALGLFQLMQFEGVRPNS----LTIGSLLSACSSLYYLKRGRSLHAWTIKQNLE-----CEVIVETALIDMYAKCN  362 (667)
Q Consensus       292 ~~~~~a~~~~~~m~~~~~~p~~----~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g  362 (667)
                      |++++|...+++..+.-...+.    .....+...+...|+++.+...+.......-.     ........+...+...|
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            7888888777776552111111    22333444456677787777777666543111     11223445566777788


Q ss_pred             CHHHHHHHHhccCC-------CCc----ccHHHHHHHHHhCCChHHHHHHHHHHHHCC--CCCC--HHHHHHHHHHHhCc
Q 005966          363 LVKLSFQVFARTSK-------KKT----VPWNAILAGCVHNGLARKAVELFRQMLVEV--VEPN--DATLNSLLPAYAIL  427 (667)
Q Consensus       363 ~~~~a~~~~~~~~~-------~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~g--~~p~--~~~~~~ll~~~~~~  427 (667)
                      +++.|...+++...       .+.    ..+..+...+...|++++|...+.+.....  ..+.  ...+..+.......
T Consensus       546 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~  625 (903)
T PRK04841        546 FLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLAR  625 (903)
T ss_pred             CHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHc
Confidence            88888877665431       111    113344556667799999988888765431  1122  23344455567788


Q ss_pred             CCHHHHHHHHHHHHHhCCCCC-chHH-----HHHHHHHHhcCCHHHHHHHHhhCCCCCCC-c----chHHHHHHHHHHcC
Q 005966          428 ADLQQAMNIHCYLIRYGFLSV-VEVS-----TGLIDIYSKCGSLESAHKIFSEIPIKDKD-I----VVWSVIIAGYGMHG  496 (667)
Q Consensus       428 ~~~~~a~~~~~~~~~~~~~~~-~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~----~~~~~l~~~~~~~~  496 (667)
                      |+.+.|...++.......... ...+     ...+..+...|+.+.|...+.......+. .    ..+..+..++...|
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            999999988887754211111 1101     11224455688999999998776553211 1    11345667788899


Q ss_pred             ChHHHHHHHHHHHHc----CCCCCH-HHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          497 HGETAVSLFKEMVQS----GVQPNE-VTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       497 ~~~~a~~~~~~m~~~----~~~p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      ++++|...+++....    |..++. .+...+..++.+.|+.++|...+.++.+
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            999999999987753    322222 3566667778899999999999999887

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.46  E-value=3.1e-05  Score=67.64  Aligned_cols=188  Identities=13%  Similarity=0.054  Sum_probs=120.0

Q ss_pred             CCChHHHHHHHHHHHHC---C-CCCCHHH-HHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHH
Q 005966          392 NGLARKAVELFRQMLVE---V-VEPNDAT-LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLE  466 (667)
Q Consensus       392 ~~~~~~A~~~~~~m~~~---g-~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  466 (667)
                      ..++++.++++.++...   | ..++..+ |..++-+....|+.+-|...++.+...- +.+..+-..-.-.+...|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            45677777777776542   4 4555543 4455556666777777777777776554 445544444444556677788


Q ss_pred             HHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          467 SAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       467 ~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      +|.++++.+.+.+| |.+++-.-+......|+.-+|++-+.+..+. +..|...|.-+...|...|++++|.-.++++.-
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            88888887777664 4556666666666677777777777777665 455777788888888888888888888777765


Q ss_pred             hcCCCCchhHHHHHHHHHhhcC---ChHHHHHHHHhC-CCCC
Q 005966          546 NHQTCSRADHYTCIVDLLGRAG---RLDEAYDLIRTM-PLKP  583 (667)
Q Consensus       546 ~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p  583 (667)
                        -.|-+.-.+..+.+.+--.|   +++-|.++|.+. .+.|
T Consensus       183 --~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  183 --IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             --cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence              22233444555555544333   455566666665 4444

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.45  E-value=0.00015  Score=64.02  Aligned_cols=174  Identities=17%  Similarity=0.061  Sum_probs=123.7

Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 005966          438 CYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE  517 (667)
Q Consensus       438 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  517 (667)
                      +.+.......+......-...|.+.|++++|.+......    +....-.=+..+.+..+.+-|.+.+++|.+-.   +.
T Consensus        97 E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~----~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~id---ed  169 (299)
T KOG3081|consen   97 ELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE----NLEAAALNVQILLKMHRFDLAEKELKKMQQID---ED  169 (299)
T ss_pred             HHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc----hHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc---hH
Confidence            333333333333334444566888899999988887732    33333333455667778899999999998742   66


Q ss_pred             HHHHHHHHHHhc----cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC--CCCCCHHHHHHH
Q 005966          518 VTFTSALHACSH----GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM--PLKPTHAVWGAL  591 (667)
Q Consensus       518 ~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l  591 (667)
                      .|.+.|..++.+    .+.+.+|.-+|+++.+  ..+|+..+.+....++...|++++|..++++.  +...++.++-.+
T Consensus       170 ~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL~Nl  247 (299)
T KOG3081|consen  170 ATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETLANL  247 (299)
T ss_pred             HHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHHHHH
Confidence            677777777654    3578899999999977  57788888888888999999999999999887  344477777777


Q ss_pred             HHHHHhcCC-HHHHHHHHHHhhccCCCCCc
Q 005966          592 LGACVIHGN-VELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       592 ~~~~~~~g~-~~~A~~~~~~~~~~~p~~~~  620 (667)
                      +-.....|. .+--.+.+.++....|.++.
T Consensus       248 iv~a~~~Gkd~~~~~r~l~QLk~~~p~h~~  277 (299)
T KOG3081|consen  248 IVLALHLGKDAEVTERNLSQLKLSHPEHPF  277 (299)
T ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCcchH
Confidence            666666664 56667788888888888543

>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=98.43  E-value=4.4e-06  Score=81.14  Aligned_cols=122  Identities=16%  Similarity=0.131  Sum_probs=95.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVI  597 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  597 (667)
                      ...|+..+...++++.|..+++++.+..   |+.  ...++..+...++-.+|++++.+. ...| +...+..-...+..
T Consensus       172 v~~Ll~~l~~t~~~~~ai~lle~L~~~~---pev--~~~LA~v~l~~~~E~~AI~ll~~aL~~~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  172 VDTLLKYLSLTQRYDEAIELLEKLRERD---PEV--AVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHhcC---CcH--HHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHh
Confidence            4455666667778888888888887621   443  445777777777888888887776 3344 66667777777889


Q ss_pred             cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          598 HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      .++++.|..+.+++.+..|++-..|..|+.+|.+.|++++|+-.++.+.
T Consensus       247 k~~~~lAL~iAk~av~lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALEIAKKAVELSPSEFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            9999999999999999999999999999999999999999999988875

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.43  E-value=9.2e-06  Score=72.98  Aligned_cols=109  Identities=19%  Similarity=0.166  Sum_probs=91.7

Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHH
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~  603 (667)
                      -..+.++|++|+..|..+++  -.+-|+..|..-..+|.+.|.++.|++-.+.. .+.|. ..+|..|..+|...|++++
T Consensus        90 ~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~~  167 (304)
T KOG0553|consen   90 KLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYEE  167 (304)
T ss_pred             HHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHHH
Confidence            45678999999999999998  56667888889999999999999999988876 67775 4589999999999999999


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHhhcCCch
Q 005966          604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWK  636 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  636 (667)
                      |++.|+++++++|++......|-.+-.+.+...
T Consensus       168 A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  168 AIEAYKKALELDPDNESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCC
Confidence            999999999999999877777766655555444

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.43  E-value=4.4e-05  Score=80.59  Aligned_cols=132  Identities=8%  Similarity=0.087  Sum_probs=71.0

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHH
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV-TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIV  560 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  560 (667)
                      ...+-.|.....+.|.+++|..+++...+.  .|+.. ....+...+.+.+++++|...+++...  ..+.+......+.
T Consensus        86 ~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~a  161 (694)
T PRK15179         86 ELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLEA  161 (694)
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHHH
Confidence            445555555555555566666666555553  34432 344455555555666666666555554  3333344455555


Q ss_pred             HHHhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          561 DLLGRAGRLDEAYDLIRTMP-LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .++.+.|++++|..+|+++- ..| +..++..+..++...|+.++|...|+++++...+
T Consensus       162 ~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~  220 (694)
T PRK15179        162 KSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD  220 (694)
T ss_pred             HHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc
Confidence            55556666666666665552 333 2445555555555566666666666666554433

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.37  E-value=1.1e-05  Score=67.36  Aligned_cols=115  Identities=17%  Similarity=0.134  Sum_probs=89.6

Q ss_pred             HHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC
Q 005966          504 LFKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL  581 (667)
Q Consensus       504 ~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  581 (667)
                      .+++..+.  .|+ ......+...+...|++++|.+.++.+..  ..+.+...+..+...+.+.|++++|...+++. ..
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA--YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            45555554  343 34466677778888999999999998877  33456777888899999999999999988887 34


Q ss_pred             CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          582 KP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       582 ~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                      .| +...+..+...+...|+++.|...++++++..|++....
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  122 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGENPEYS  122 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccccchHH
Confidence            44 567788888889999999999999999999999876543

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.36  E-value=7.8e-05  Score=80.28  Aligned_cols=208  Identities=12%  Similarity=0.162  Sum_probs=123.5

Q ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHHHHh-CCCC---CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHH
Q 005966          415 ATLNSLLPAYAILADLQQAMNIHCYLIRY-GFLS---VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIA  490 (667)
Q Consensus       415 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  490 (667)
                      ..|-..+.-....++.++|+++.++.... ++.-   -...|.++++....-|.-+...++|+++.+-......|..|..
T Consensus      1459 i~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~~~L~~ 1538 (1710)
T KOG1070|consen 1459 ILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVHLKLLG 1538 (1710)
T ss_pred             hHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHHHHHHH
Confidence            34455555556666666666666665432 1111   1234555555555556666666677666654223455666777


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChH
Q 005966          491 GYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLD  570 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  570 (667)
                      .|.+.+..++|.++++.|.+. +.-....|...+..+.+..+-+.|..++.++++.....-......-.+..-.+.|+.+
T Consensus      1539 iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLEFk~GDae 1617 (1710)
T KOG1070|consen 1539 IYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLEFKYGDAE 1617 (1710)
T ss_pred             HHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHHhhcCCch
Confidence            777777777777777777764 2334456666777777777777777777777662211113334444555556677777


Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC--CCCCchHH
Q 005966          571 EAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELE--PENPGNYV  623 (667)
Q Consensus       571 ~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~  623 (667)
                      .+..+|+.. ...| ....|+..+..-.++|+.+.++.+|++++.+.  |.....++
T Consensus      1618 RGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfff 1674 (1710)
T KOG1070|consen 1618 RGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFF 1674 (1710)
T ss_pred             hhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHH
Confidence            777777665 2233 45567777777777777777777777776544  44444433

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.35  E-value=9e-05  Score=71.32  Aligned_cols=139  Identities=15%  Similarity=0.121  Sum_probs=94.7

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHH-HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhc
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSGVQPNEVT-FTSALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRA  566 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~  566 (667)
                      ...+...|+.++|+..++.++..  .|+... +......+.+.++.++|.+.++++..  .. |+ ....-.+..+|.+.
T Consensus       313 A~~~~~~~~~d~A~~~l~~L~~~--~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~--l~-P~~~~l~~~~a~all~~  387 (484)
T COG4783         313 ALQTYLAGQYDEALKLLQPLIAA--QPDNPYYLELAGDILLEANKAKEAIERLKKALA--LD-PNSPLLQLNLAQALLKG  387 (484)
T ss_pred             HHHHHHhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHh--cC-CCccHHHHHHHHHHHhc
Confidence            33445667777888888887765  444444 44445567778888888888888776  22 33 44555677788888


Q ss_pred             CChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHH
Q 005966          567 GRLDEAYDLIRTM--PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       567 g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      |++.+|+.+++..  ..+.|+..|..|..+|...|+..++...                 .++.|+-.|+|++|+..+.+
T Consensus       388 g~~~eai~~L~~~~~~~p~dp~~w~~LAqay~~~g~~~~a~~A-----------------~AE~~~~~G~~~~A~~~l~~  450 (484)
T COG4783         388 GKPQEAIRILNRYLFNDPEDPNGWDLLAQAYAELGNRAEALLA-----------------RAEGYALAGRLEQAIIFLMR  450 (484)
T ss_pred             CChHHHHHHHHHHhhcCCCCchHHHHHHHHHHHhCchHHHHHH-----------------HHHHHHhCCCHHHHHHHHHH
Confidence            8888888887776  2444677788888888888877665544                 45566677777777777777


Q ss_pred             hhhCC
Q 005966          645 MDEKG  649 (667)
Q Consensus       645 ~~~~~  649 (667)
                      ..++.
T Consensus       451 A~~~~  455 (484)
T COG4783         451 ASQQV  455 (484)
T ss_pred             HHHhc
Confidence            76654

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.27  E-value=3e-05  Score=65.29  Aligned_cols=115  Identities=13%  Similarity=0.040  Sum_probs=63.4

Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhCC-CCCCHH----HHHHHHHHHHhcCCHHH
Q 005966          530 GGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTMP-LKPTHA----VWGALLGACVIHGNVEL  603 (667)
Q Consensus       530 ~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~----~~~~l~~~~~~~g~~~~  603 (667)
                      .++...+...++.+.+.++-.+- ....-.+...+...|++++|...|++.. ..||+.    ....+...+...|++++
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            55666666666666553322111 1222234455666666666666666652 223321    33445555666777777


Q ss_pred             HHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          604 GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      |+..++.. ...+-.+.++..+|.+|.+.|++++|+..|++.
T Consensus       104 Al~~L~~~-~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQI-PDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhc-cCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            77776553 222233556666777777777777777777653

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.25  E-value=0.0059  Score=59.82  Aligned_cols=212  Identities=12%  Similarity=0.092  Sum_probs=143.0

Q ss_pred             HHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcC---CHHHHHHHHhhCCCCC--CCcchHHHHHHHHHHcCChHHHHHH
Q 005966          430 LQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCG---SLESAHKIFSEIPIKD--KDIVVWSVIIAGYGMHGHGETAVSL  504 (667)
Q Consensus       430 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~  504 (667)
                      .+++..+++..+..-...+..+|..+.+.--..-   +.+...+.++++....  .-..+|-.++..-.+..-...|..+
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~i  388 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKI  388 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHH
Confidence            3455555555544333334444544443222221   2555666666655543  1235677888888888889999999


Q ss_pred             HHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC---
Q 005966          505 FKEMVQSGVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP---  580 (667)
Q Consensus       505 ~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---  580 (667)
                      |.+..+.+..+ .....+.++.-++ .++.+-|.++|+.-++.++.  +...-...++.+...++-..|..+|++..   
T Consensus       389 F~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf~d--~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~  465 (656)
T KOG1914|consen  389 FKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKFGD--SPEYVLKYLDFLSHLNDDNNARALFERVLTSV  465 (656)
T ss_pred             HHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhcCC--ChHHHHHHHHHHHHhCcchhHHHHHHHHHhcc
Confidence            99999988777 5566777777555 57889999999988874543  44445668888999999999999999982   


Q ss_pred             CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC----CchHHHHHHHHhhcCCchHHHHHHHH
Q 005966          581 LKPT--HAVWGALLGACVIHGNVELGEVAAKWLFELEPEN----PGNYVLLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       581 ~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~----~~~~~~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      +.||  ..+|..++..-..-||...+.++-++....-|.+    ...-..+.+-|.=.+.+..-..-++.
T Consensus       466 l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~c~~~elk~  535 (656)
T KOG1914|consen  466 LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYPCSLDELKF  535 (656)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhcccccccHHHHHh
Confidence            3444  3589999999999999999999998877766622    12334455566666665544444433

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.25  E-value=1.8e-06  Score=61.93  Aligned_cols=66  Identities=18%  Similarity=0.178  Sum_probs=60.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC-CchHHHHHHHHhhhCC
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR-RWKDAENVRDVMDEKG  649 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~  649 (667)
                      +..+|..++..+...|++++|+..|+++++.+|+++.++..++.+|...| ++++|++.+++..+..
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~   68 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLD   68 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcC
Confidence            46688899999999999999999999999999999999999999999999 7999999999987643

...

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=98.21  E-value=1.4e-05  Score=72.38  Aligned_cols=112  Identities=17%  Similarity=0.117  Sum_probs=93.6

Q ss_pred             CCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CCHHHHHHHHHHhhccCCCCCchH
Q 005966          548 QTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIH---GNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       548 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                      ..|-|...|-.|...|.+.|++..|...|.+. ++.| ++..+..+..++..+   .+..++..++++++..+|.|+.+.
T Consensus       151 ~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         151 QNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             hCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            34567888999999999999999999999887 4444 666777777765433   357899999999999999999999


Q ss_pred             HHHHHHHhhcCCchHHHHHHHHhhhCCCccCCCeeEE
Q 005966          623 VLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLI  659 (667)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  659 (667)
                      ..|+..++..|++.+|...++.|.+.....+|.-+.|
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~~i  267 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRSLI  267 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHHHH
Confidence            9999999999999999999999999988777765544

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.20  E-value=1.3e-06  Score=65.55  Aligned_cols=78  Identities=19%  Similarity=0.279  Sum_probs=52.5

Q ss_pred             cCChHHHHHHHHhC-CCCC---CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHH
Q 005966          566 AGRLDEAYDLIRTM-PLKP---THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENV  641 (667)
Q Consensus       566 ~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~  641 (667)
                      .|++++|+.+++++ ...|   +...+..+..++.+.|++++|..++++ .+.+|.++.....++.+|.+.|++++|++.
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            45666777666666 2222   344555567777777777777777777 666666667777778888888888888887


Q ss_pred             HHH
Q 005966          642 RDV  644 (667)
Q Consensus       642 ~~~  644 (667)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            765

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.19  E-value=3.1e-06  Score=59.78  Aligned_cols=59  Identities=20%  Similarity=0.267  Sum_probs=53.0

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          591 LLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       591 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +...+...|++++|+..++++++..|+++.++..++.++...|++++|...++++.+..
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~   61 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELD   61 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            45678899999999999999999999999999999999999999999999999987654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.19  E-value=1.7e-05  Score=64.40  Aligned_cols=94  Identities=15%  Similarity=0.077  Sum_probs=53.6

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC---CchHHHHHH
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPEN---PGNYVLLSK  627 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~  627 (667)
                      +..++..+.+.|++++|.+.++++ ...|+    ...+..+..++.+.|+++.|...+++++...|++   +.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~   84 (119)
T TIGR02795         5 YYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGM   84 (119)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHH
Confidence            344455555566666666655555 22222    2344455556666666666666666666665553   345566666


Q ss_pred             HHhhcCCchHHHHHHHHhhhCC
Q 005966          628 LYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ++.+.|++++|...++++.+..
T Consensus        85 ~~~~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        85 SLQELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HHHHhCChHHHHHHHHHHHHHC
Confidence            6666666666666666665554

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.

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.19  E-value=0.013  Score=61.16  Aligned_cols=221  Identities=13%  Similarity=0.093  Sum_probs=112.2

Q ss_pred             CChhhHHHhhcccCCC-CcchHHHHHHH--HHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHH
Q 005966           58 GHVSNVRILFDEMSER-SSFLYNTVMKM--YAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALH  134 (667)
Q Consensus        58 g~~~~A~~~~~~~~~~-~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~  134 (667)
                      +++.+|....+++..+ ....|..++.+  +.+.|+.++|..+++.....+  ..|..|...+-.+|...+..++|..+|
T Consensus        23 ~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~--~~D~~tLq~l~~~y~d~~~~d~~~~~Y  100 (932)
T KOG2053|consen   23 SQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLK--GTDDLTLQFLQNVYRDLGKLDEAVHLY  100 (932)
T ss_pred             HHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCC--CCchHHHHHHHHHHHHHhhhhHHHHHH
Confidence            5556666666554332 22233344443  345666777776666665441  225556666666666667777777777


Q ss_pred             HHHHHhCCCCchHHHHHHHHHHHhcCCHH----HHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 005966          135 GRVLITGFDMDTFVGNCLIAMYMNFGEVK----AARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEP  210 (667)
Q Consensus       135 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~----~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  210 (667)
                      ++.....  |+......+..+|.|.+.+.    .|++++...++.--.-|+.+--.+......+.+..   .        
T Consensus       101 e~~~~~~--P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk~~yyfWsV~Slilqs~~~~~~~~~---~--------  167 (932)
T KOG2053|consen  101 ERANQKY--PSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPKRAYYFWSVISLILQSIFSENELLD---P--------  167 (932)
T ss_pred             HHHHhhC--CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcccchHHHHHHHHHHhccCCccccc---c--------
Confidence            6666553  44555555666666665544    34444444444333333322221111111111111   0        


Q ss_pred             ChHHHHHHHHHcccCcchHHHHHHHHHHHhcC-CCcchhHHHHHHHHHHhcCCHHHHHHHHhh-c----CCCChhHHHHH
Q 005966          211 DCASVVSVLPACGYLKEIEMGRMIHELVAGGR-LGKNIAAWNALVDMYVKCGSVNEARLVFDR-M----SERDVVTWTSM  284 (667)
Q Consensus       211 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~----~~~~~~~~~~l  284 (667)
                                     --+..|...++.+.+.+ .-.+..-...-...+...|++++|++++.. .    ...+...-+.-
T Consensus       168 ---------------i~l~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~  232 (932)
T KOG2053|consen  168 ---------------ILLALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKK  232 (932)
T ss_pred             ---------------hhHHHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHH
Confidence                           00122344444444333 111111122222334566788888888732 2    22344444556


Q ss_pred             HHHHHhCCChHHHHHHHHHHHhcC
Q 005966          285 INGYALNGDVRNALGLFQLMQFEG  308 (667)
Q Consensus       285 i~~~~~~~~~~~a~~~~~~m~~~~  308 (667)
                      +..+...+++.+..++-.++...|
T Consensus       233 ~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  233 LDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHHHhcChHHHHHHHHHHHHhC
Confidence            677777888888888888887765

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=98.18  E-value=1.6e-05  Score=61.56  Aligned_cols=94  Identities=21%  Similarity=0.252  Sum_probs=77.0

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      +..++..+...|++++|...+++. ...| +...+..+...+...|+++.|...++++....|.++..+..++.++...|
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            455677777888888888888876 3444 44667778888888899999999999999999998888999999999999


Q ss_pred             CchHHHHHHHHhhhCC
Q 005966          634 RWKDAENVRDVMDEKG  649 (667)
Q Consensus       634 ~~~~A~~~~~~~~~~~  649 (667)
                      ++++|...+++..+..
T Consensus        83 ~~~~a~~~~~~~~~~~   98 (100)
T cd00189          83 KYEEALEAYEKALELD   98 (100)
T ss_pred             hHHHHHHHHHHHHccC
Confidence            9999999998876543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.14  E-value=0.00017  Score=60.77  Aligned_cols=126  Identities=13%  Similarity=0.104  Sum_probs=83.9

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCch--hHHHHHH
Q 005966          485 WSVIIAGYGMHGHGETAVSLFKEMVQSGVQPN--EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRA--DHYTCIV  560 (667)
Q Consensus       485 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~l~  560 (667)
                      |..++..+ ..++...+...++.+.+....-.  ......+...+...|++++|...|+.+.... ..|..  .....+.
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~-~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANA-PDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-CCHHHHHHHHHHHH
Confidence            33344444 47778888888888887632211  1234445566778888888888888888732 22221  2334467


Q ss_pred             HHHhhcCChHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          561 DLLGRAGRLDEAYDLIRTMPLK-PTHAVWGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                      .++...|++++|+..++..... ..+..+...+..+...|++++|+..|++++
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~Al  145 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKAL  145 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHhC
Confidence            7788888888888888776422 244566677777888899999988888764

>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=98.13  E-value=0.0001  Score=71.74  Aligned_cols=127  Identities=12%  Similarity=0.164  Sum_probs=99.4

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005966          450 EVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH  529 (667)
Q Consensus       450 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  529 (667)
                      .....|+..+...++++.|.++|+++.+..|+  ....++..+...++..+|++++++.++.. +-+...+..-...|.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHh
Confidence            34445666777788889999999998885554  45567788888888889999999988753 3355566666677888


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCC
Q 005966          530 GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPL  581 (667)
Q Consensus       530 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  581 (667)
                      .++++.|+.+.+++.+  -.|.+..+|..|+.+|...|++++|+-.++.++.
T Consensus       247 k~~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm  296 (395)
T PF09295_consen  247 KKKYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCPM  296 (395)
T ss_pred             cCCHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcC
Confidence            9999999999999987  4445567899999999999999999999998863

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.10  E-value=5.8e-06  Score=49.76  Aligned_cols=34  Identities=50%  Similarity=0.789  Sum_probs=31.7

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC
Q 005966          178 VSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPD  211 (667)
Q Consensus       178 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  211 (667)
                      .+||++|.+|++.|++++|.++|++|.+.|+.||
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.

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=98.07  E-value=0.012  Score=56.50  Aligned_cols=242  Identities=16%  Similarity=0.173  Sum_probs=138.4

Q ss_pred             HHHHHHHHHCCCCCCHH-HHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCC----CchHHHHHHHHHHhcCCHHHHHHHHh
Q 005966          399 VELFRQMLVEVVEPNDA-TLNSLLPAYAILADLQQAMNIHCYLIRYGFLS----VVEVSTGLIDIYSKCGSLESAHKIFS  473 (667)
Q Consensus       399 ~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~  473 (667)
                      +++++.....-+.|+.. ....+...+..  +.+++..+.+.+....+.+    -..++..++....+.++...|...+.
T Consensus       245 mq~l~~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~  322 (549)
T PF07079_consen  245 MQILENWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLA  322 (549)
T ss_pred             HHHHHHHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHH
Confidence            34444444444566543 23334444433  5555555555444332221    23456667777778888888887777


Q ss_pred             hCCCCCCCcchH-------HHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHH---HHHhccCC-HHHHHH
Q 005966          474 EIPIKDKDIVVW-------SVIIAGYGM----HGHGETAVSLFKEMVQSGVQPNEVTFTSAL---HACSHGGL-LDEGLD  538 (667)
Q Consensus       474 ~~~~~~~~~~~~-------~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll---~~~~~~g~-~~~A~~  538 (667)
                      -+....|+...-       ..+-+..+.    .-+...=+.+|+.....++.--. ....|+   .-+-+.|. -++|+.
T Consensus       323 lL~~ldp~~svs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~DiDrqQ-Lvh~L~~~Ak~lW~~g~~dekaln  401 (549)
T PF07079_consen  323 LLKILDPRISVSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDIDRQQ-LVHYLVFGAKHLWEIGQCDEKALN  401 (549)
T ss_pred             HHHhcCCcchhhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcccHHH-HHHHHHHHHHHHHhcCCccHHHHH
Confidence            665544543311       122222221    11233445566666665432211 122222   22445555 788999


Q ss_pred             HHHHhHHhcCCCCchhHHHHHHH----HHhh---cCChHHH---HHHHHhCCCCC----CHHHHHHHHHH--HHhcCCHH
Q 005966          539 LFNFMLENHQTCSRADHYTCIVD----LLGR---AGRLDEA---YDLIRTMPLKP----THAVWGALLGA--CVIHGNVE  602 (667)
Q Consensus       539 ~~~~~~~~~~~~~~~~~~~~l~~----~~~~---~g~~~~A---~~~~~~~~~~p----~~~~~~~l~~~--~~~~g~~~  602 (667)
                      +++.+++  -.+-|...-|.+..    .|..   ...+.+-   ...+++.++.|    +...-+.|..|  ...+|++.
T Consensus       402 LLk~il~--ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~  479 (549)
T PF07079_consen  402 LLKLILQ--FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYH  479 (549)
T ss_pred             HHHHHHH--hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHH
Confidence            9998887  22234443332211    1211   1222222   23344555544    34466777777  56799999


Q ss_pred             HHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          603 LGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       603 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      ++.-.-.-+.+..| .|.+|..+|-++....+|+||..++..+.
T Consensus       480 kc~~ys~WL~~iaP-S~~~~RLlGl~l~e~k~Y~eA~~~l~~LP  522 (549)
T PF07079_consen  480 KCYLYSSWLTKIAP-SPQAYRLLGLCLMENKRYQEAWEYLQKLP  522 (549)
T ss_pred             HHHHHHHHHHHhCC-cHHHHHHHHHHHHHHhhHHHHHHHHHhCC
Confidence            99999999999999 49999999999999999999999998764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=98.07  E-value=0.00033  Score=58.20  Aligned_cols=134  Identities=11%  Similarity=0.084  Sum_probs=107.2

Q ss_pred             CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC---CHHHH
Q 005966          513 VQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP---THAVW  588 (667)
Q Consensus       513 ~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~  588 (667)
                      ..|...--..|..+....|++.+|...|++... ..+.-|......+..+....+++..|...++++ ...|   ++.+.
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            356666667788888899999999999999887 566677777888888888999999999888886 2222   23345


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          589 GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       589 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ..+.+.+...|..+.|+..|+.++.-.|+ +......+..+.++|+..+|...+..+.+.
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg-~~ar~~Y~e~La~qgr~~ea~aq~~~v~d~  222 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPG-PQARIYYAEMLAKQGRLREANAQYVAVVDT  222 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCC-HHHHHHHHHHHHHhcchhHHHHHHHHHHHH
Confidence            56777888999999999999999999998 888888899999999988888776665543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.06  E-value=2.7e-05  Score=76.35  Aligned_cols=108  Identities=14%  Similarity=0.099  Sum_probs=92.0

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005966          523 ALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGN  600 (667)
Q Consensus       523 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  600 (667)
                      -...+...|++++|+..|+++++  ..+.+...|..+..+|.+.|++++|+..++++ ...| +...+..++.+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~--~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAID--LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            34567788999999999999998  44456778888999999999999999999988 5556 66688889999999999


Q ss_pred             HHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       601 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      +++|+..++++++++|+++.+...+..+..+.
T Consensus        86 ~~eA~~~~~~al~l~P~~~~~~~~l~~~~~kl  117 (356)
T PLN03088         86 YQTAKAALEKGASLAPGDSRFTKLIKECDEKI  117 (356)
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            99999999999999999998888777665544

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.05  E-value=8.6e-06  Score=48.56  Aligned_cols=33  Identities=33%  Similarity=0.508  Sum_probs=29.6

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC
Q 005966          178 VSWNTLISGYFKNAYAKEALVVFDWMLKSGVEP  210 (667)
Q Consensus       178 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p  210 (667)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
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            588999999999999999999999999988887

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.04  E-value=8.2e-05  Score=60.40  Aligned_cols=105  Identities=10%  Similarity=0.090  Sum_probs=71.7

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC----HHHHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCS-RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT----HAVWGALL  592 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~  592 (667)
                      ++..+...+.+.|++++|...+..+.+.....+ ....+..++.++.+.|++++|...++++ ...|+    ...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445556666777777777777777766332111 1334556777788888888888887776 23333    44677777


Q ss_pred             HHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          593 GACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       593 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                      .++.+.|+.+.|...++++++..|+++.+..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~  114 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPGSSAAKL  114 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcCChhHHH
Confidence            7788888888888888888888888665443

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.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=98.02  E-value=0.013  Score=55.02  Aligned_cols=280  Identities=18%  Similarity=0.167  Sum_probs=181.9

Q ss_pred             cCCHHHHHHHHhccC---CCCcccHHHHHHH--HHhCCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhCcCCHHHH
Q 005966          361 CNLVKLSFQVFARTS---KKKTVPWNAILAG--CVHNGLARKAVELFRQMLVEVVEPND--ATLNSLLPAYAILADLQQA  433 (667)
Q Consensus       361 ~g~~~~a~~~~~~~~---~~~~~~~~~li~~--~~~~~~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a  433 (667)
                      .|+-..|.++-.+..   ..|..+.-.++.+  -.-.|+++.|.+-|+.|...   |..  .-+..|.-.-.+.|+.+.|
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~d---PEtRllGLRgLyleAqr~GareaA  173 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDD---PETRLLGLRGLYLEAQRLGAREAA  173 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcC---hHHHHHhHHHHHHHHHhcccHHHH
Confidence            355555555544332   3343343334433  23468999999999988742   222  2233344444577888888


Q ss_pred             HHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CCcc--hHHHHHHHH---HHcCChHHHHHHH
Q 005966          434 MNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KDIV--VWSVIIAGY---GMHGHGETAVSLF  505 (667)
Q Consensus       434 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~--~~~~l~~~~---~~~~~~~~a~~~~  505 (667)
                      +++-+..-..- +.-.-.....+...+..|+++.|+++.+.-....   ++..  .--.|+.+-   .-.-+...|...-
T Consensus       174 r~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A  252 (531)
T COG3898         174 RHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDA  252 (531)
T ss_pred             HHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHH
Confidence            88877765543 3345667778888999999999999988654432   3332  122222221   1123456666666


Q ss_pred             HHHHHcCCCCCHHH-HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC----C
Q 005966          506 KEMVQSGVQPNEVT-FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM----P  580 (667)
Q Consensus       506 ~~m~~~~~~p~~~~-~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~  580 (667)
                      .+..+  +.||... -..-..++.+.|+..++-.+++.+-+   ..|.+.++..  ..+.+.|+  .++.-+++.    .
T Consensus       253 ~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK---~ePHP~ia~l--Y~~ar~gd--ta~dRlkRa~~L~s  323 (531)
T COG3898         253 LEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWK---AEPHPDIALL--YVRARSGD--TALDRLKRAKKLES  323 (531)
T ss_pred             HHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHh---cCCChHHHHH--HHHhcCCC--cHHHHHHHHHHHHh
Confidence            66555  5677643 44456778999999999999999977   2355544432  23345554  344333333    3


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc-CCchHHHHHHHHhhhCCCccCCCe
Q 005966          581 LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV-RRWKDAENVRDVMDEKGLRKAPAH  656 (667)
Q Consensus       581 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~~~~~~~~  656 (667)
                      .+| +......+..+....|++..|..-.+.+....|. .++|..|+++-... |+-.++...+-+..+..  .+|.+
T Consensus       324 lk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pr-es~~lLlAdIeeAetGDqg~vR~wlAqav~AP--rdPaW  398 (531)
T COG3898         324 LKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPR-ESAYLLLADIEEAETGDQGKVRQWLAQAVKAP--RDPAW  398 (531)
T ss_pred             cCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCch-hhHHHHHHHHHhhccCchHHHHHHHHHHhcCC--CCCcc
Confidence            555 5557778888889999999999999999999998 78899999997766 99999999998877653  44544

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.01  E-value=5.5e-05  Score=65.91  Aligned_cols=94  Identities=13%  Similarity=0.061  Sum_probs=55.6

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      +..++..+...|++++|...+++. ...|+    ...+..+...+.+.|+++.|+..++++++..|+++..+..++.+|.
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~  117 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPKQPSALNNIAVIYH  117 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            444444555555555555555544 11111    2355566666666777777777777777777776666666777776


Q ss_pred             hcCC--------------chHHHHHHHHhhhCC
Q 005966          631 AVRR--------------WKDAENVRDVMDEKG  649 (667)
Q Consensus       631 ~~g~--------------~~~A~~~~~~~~~~~  649 (667)
                      ..|+              +++|.+.+++..+.+
T Consensus       118 ~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~  150 (172)
T PRK02603        118 KRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLA  150 (172)
T ss_pred             HcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhC
Confidence            6665              456666666655544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.01  E-value=1.3e-05  Score=48.16  Aligned_cols=35  Identities=37%  Similarity=0.703  Sum_probs=30.0

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 005966          483 VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE  517 (667)
Q Consensus       483 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  517 (667)
                      .+||+++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         1 ~~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         1 VTYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             CcHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            36888999999999999999999999988888873

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.99  E-value=9e-05  Score=72.67  Aligned_cols=103  Identities=16%  Similarity=0.075  Sum_probs=83.2

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcC
Q 005966          488 IIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG  567 (667)
Q Consensus       488 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  567 (667)
                      ....+...|++++|+..|++.++.. +-+...|..+..+|...|++++|+..++++++  ..+.+...|..++.+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~--l~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIE--LDPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhC
Confidence            3556778899999999999999864 33566788888899999999999999999988  34456777888999999999


Q ss_pred             ChHHHHHHHHhC-CCCCCHHHHHHHHH
Q 005966          568 RLDEAYDLIRTM-PLKPTHAVWGALLG  593 (667)
Q Consensus       568 ~~~~A~~~~~~~-~~~p~~~~~~~l~~  593 (667)
                      ++++|+..|++. ...|+.......+.
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l~  111 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLIK  111 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            999999999987 56675554444433

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.99  E-value=2.1e-05  Score=70.76  Aligned_cols=90  Identities=18%  Similarity=0.157  Sum_probs=81.4

Q ss_pred             HHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchH
Q 005966          560 VDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKD  637 (667)
Q Consensus       560 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  637 (667)
                      .+-+.+.++|++|+..|.++ .+.| |.+.|..-..+|.+.|.++.|++-.+.++.++|....+|..|+.+|...|++++
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            34567899999999999987 6776 777788888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhCC
Q 005966          638 AENVRDVMDEKG  649 (667)
Q Consensus       638 A~~~~~~~~~~~  649 (667)
                      |++.|++.++..
T Consensus       168 A~~aykKaLeld  179 (304)
T KOG0553|consen  168 AIEAYKKALELD  179 (304)
T ss_pred             HHHHHHhhhccC
Confidence            999999877654

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=97.97  E-value=1.6e-05  Score=47.42  Aligned_cols=33  Identities=36%  Similarity=0.600  Sum_probs=30.2

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCC
Q 005966          279 VTWTSMINGYALNGDVRNALGLFQLMQFEGVRP  311 (667)
Q Consensus       279 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  311 (667)
                      .+|+.+|.+|++.|+++.|.++|++|.+.|++|
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            589999999999999999999999999999887

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.95  E-value=7.5e-05  Score=64.84  Aligned_cols=93  Identities=14%  Similarity=-0.085  Sum_probs=72.6

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      ....|..++..+...|++++|+..+++. ...|+    ..++..+...+...|++++|+..+++++++.|.....+..++
T Consensus        34 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~~~~~~~~la  113 (168)
T CHL00033         34 EAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPFLPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHH
Confidence            3455667777777888888888888876 23232    347888888899999999999999999999999888888888


Q ss_pred             HHHh-------hcCCchHHHHHHHH
Q 005966          627 KLYS-------AVRRWKDAENVRDV  644 (667)
Q Consensus       627 ~~~~-------~~g~~~~A~~~~~~  644 (667)
                      .+|.       +.|++++|...+++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHHH
Confidence            8888       88888755555544

>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=97.94  E-value=9.6e-06  Score=57.94  Aligned_cols=54  Identities=17%  Similarity=0.316  Sum_probs=45.0

Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ...|++++|+..++++++..|+++.++..++.+|.+.|++++|.++++++....
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~   55 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQD   55 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGG
T ss_pred             hhccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            467888888888888888888888888888888888888888888888877654

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.92  E-value=2.8e-05  Score=56.42  Aligned_cols=59  Identities=14%  Similarity=0.146  Sum_probs=52.0

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          592 LGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       592 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ...+.+.++++.|..+++++++++|+++..+...+.+|...|++++|.+.+++..+.+.
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p   60 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSP   60 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCC
Confidence            34678889999999999999999999999999999999999999999999999887664

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.85  E-value=5.3e-05  Score=56.70  Aligned_cols=80  Identities=19%  Similarity=0.318  Sum_probs=35.8

Q ss_pred             cCChHHHHHHHHHHHHcCCC-CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHH
Q 005966          495 HGHGETAVSLFKEMVQSGVQ-PNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAY  573 (667)
Q Consensus       495 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  573 (667)
                      .|+++.|+.+++++.+.... |+...+..+..+|.+.|++++|..+++. .+..+  .+......++.++.+.|++++|+
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~--~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP--SNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH--CHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC--CCHHHHHHHHHHHHHhCCHHHHH
Confidence            34555555555555554321 1223333355555555555555555555 21011  12222333455555555555555


Q ss_pred             HHHH
Q 005966          574 DLIR  577 (667)
Q Consensus       574 ~~~~  577 (667)
                      ++++
T Consensus        79 ~~l~   82 (84)
T PF12895_consen   79 KALE   82 (84)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            5554

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.84  E-value=0.00055  Score=70.20  Aligned_cols=140  Identities=16%  Similarity=0.113  Sum_probs=87.7

Q ss_pred             CcchHHHHHHHHHH--c---CChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhcc--------CCHHHHHHHHHHhHHh
Q 005966          481 DIVVWSVIIAGYGM--H---GHGETAVSLFKEMVQSGVQPNE-VTFTSALHACSHG--------GLLDEGLDLFNFMLEN  546 (667)
Q Consensus       481 ~~~~~~~l~~~~~~--~---~~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~--------g~~~~A~~~~~~~~~~  546 (667)
                      +...|...+.+...  .   ++...|..+|++.++.  .|+. ..+..+..++...        +++..+.+...+....
T Consensus       336 ~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al  413 (517)
T PRK10153        336 QGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVAL  413 (517)
T ss_pred             CHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhc
Confidence            44556655555332  2   2256777777777774  4554 2333333322211        1233444444443332


Q ss_pred             cCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          547 HQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       547 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                      ...+.+...|..+.-.....|++++|...++++ ...|+...|..++..+...|+.++|...+++++.++|.+|..|
T Consensus       414 ~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~pt~~  490 (517)
T PRK10153        414 PELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGENTLY  490 (517)
T ss_pred             ccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCchHH
Confidence            223345566777766667778888888888887 5667777888888888888888888888888888888877533

>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=97.84  E-value=0.00021  Score=55.08  Aligned_cols=93  Identities=24%  Similarity=0.218  Sum_probs=54.2

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005966          522 SALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHG  599 (667)
Q Consensus       522 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  599 (667)
                      .+...+...|++++|...++.+.+  ..+.+...+..+..++...|++++|.+.+++. ...| +...+..+...+...|
T Consensus         5 ~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (100)
T cd00189           5 NLGNLYYKLGDYDEALEYYEKALE--LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLG   82 (100)
T ss_pred             HHHHHHHHHhcHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHH
Confidence            344445555666666666666554  12223344555666666666666666666654 2223 3345666666667777


Q ss_pred             CHHHHHHHHHHhhccCC
Q 005966          600 NVELGEVAAKWLFELEP  616 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~p  616 (667)
                      +++.|...++++++..|
T Consensus        83 ~~~~a~~~~~~~~~~~~   99 (100)
T cd00189          83 KYEEALEAYEKALELDP   99 (100)
T ss_pred             hHHHHHHHHHHHHccCC
Confidence            77777777777766665

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.84  E-value=0.00042  Score=65.13  Aligned_cols=157  Identities=10%  Similarity=0.051  Sum_probs=114.9

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhH-------------H
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADH-------------Y  556 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~-------------~  556 (667)
                      .++.-.|++++|..+--..++.. ..+......-..++...++.+.|...|++.+.   ..|+...             +
T Consensus       177 ~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~~  252 (486)
T KOG0550|consen  177 ECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEVK  252 (486)
T ss_pred             hhhhhcccchhHHHHHHHHHhcc-cchhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHHH
Confidence            45677888999988887777653 11222222222334556788889888888766   2243322             2


Q ss_pred             HHHHHHHhhcCChHHHHHHHHhC-CCC-----CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          557 TCIVDLLGRAGRLDEAYDLIRTM-PLK-----PTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       557 ~~l~~~~~~~g~~~~A~~~~~~~-~~~-----p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      ..-.+-..+.|++.+|.+.+.+. .+.     |+...|.....+..+.|+.++|+.--+.+++++|.-..++..-+.++.
T Consensus       253 k~~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  253 KERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHL  332 (486)
T ss_pred             HhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHH
Confidence            22334566889999999999887 444     445566666677788999999999999999999999999999999999


Q ss_pred             hcCCchHHHHHHHHhhhCCC
Q 005966          631 AVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ..++|++|++.+++..+..-
T Consensus       333 ~le~~e~AV~d~~~a~q~~~  352 (486)
T KOG0550|consen  333 ALEKWEEAVEDYEKAMQLEK  352 (486)
T ss_pred             HHHHHHHHHHHHHHHHhhcc
Confidence            99999999999999876543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.84  E-value=0.00045  Score=65.24  Aligned_cols=135  Identities=17%  Similarity=0.164  Sum_probs=100.8

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          483 VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHA-CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       483 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      .+|-.++....+.+..+.|..+|.+.++.+ ......|...... +...++.+.|..+|+...+.  ++.+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~--f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK--FPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH--HTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHH
Confidence            367888888888888999999999998543 3344455544444 34456777799999999984  4566777889999


Q ss_pred             HHhhcCChHHHHHHHHhC-CCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          562 LLGRAGRLDEAYDLIRTM-PLKPTH----AVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      .+.+.|+.+.|..+|++. ..-|..    ..|...+..-.+.|+.+....+.+++.+..|++..
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~~~~  142 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPEDNS  142 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTTS-H
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhhhH
Confidence            999999999999999987 333333    48999999999999999999999999988888443

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.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.82  E-value=0.0065  Score=60.67  Aligned_cols=86  Identities=16%  Similarity=0.089  Sum_probs=51.5

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC-CCCCHHH--------
Q 005966          517 EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP-LKPTHAV--------  587 (667)
Q Consensus       517 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~--------  587 (667)
                      ..+...+..-+.+...+.-|.++|.+|-.          ..++++.....++|++|+.+.++.+ ..||...        
T Consensus       747 re~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE  816 (1081)
T KOG1538|consen  747 REPLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAE  816 (1081)
T ss_pred             hhHHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhCccccccccchHHHHhhh
Confidence            34455555555566667777777777744          3456777778888888888888774 4444321        


Q ss_pred             ---HHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          588 ---WGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       588 ---~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                         +...-.++.+.|+..+|.++++++-
T Consensus       817 ~DrFeEAqkAfhkAGr~~EA~~vLeQLt  844 (1081)
T KOG1538|consen  817 NDRFEEAQKAFHKAGRQREAVQVLEQLT  844 (1081)
T ss_pred             hhhHHHHHHHHHHhcchHHHHHHHHHhh
Confidence               1222234555566666666666543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.82  E-value=0.0005  Score=59.91  Aligned_cols=130  Identities=15%  Similarity=0.134  Sum_probs=83.4

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHH
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPN--EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCI  559 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  559 (667)
                      ...+..+...+...|++++|...|++..+....+.  ...+..+..++.+.|++++|...+.++.+.  .+.+...+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHH
Confidence            34566677777778888888888888776543332  245666777777788888888888777762  22344555666


Q ss_pred             HHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCC
Q 005966          560 VDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       560 ~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      +.++...|+...+..-++..                  ...+++|.++++++++.+|++   +..++..+...|+
T Consensus       113 g~~~~~~g~~~~a~~~~~~A------------------~~~~~~A~~~~~~a~~~~p~~---~~~~~~~~~~~~~  166 (172)
T PRK02603        113 AVIYHKRGEKAEEAGDQDEA------------------EALFDKAAEYWKQAIRLAPNN---YIEAQNWLKTTGR  166 (172)
T ss_pred             HHHHHHcCChHhHhhCHHHH------------------HHHHHHHHHHHHHHHhhCchh---HHHHHHHHHhcCc
Confidence            66666666655554332221                  123677889999999999885   4445555544443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.81  E-value=0.035  Score=53.08  Aligned_cols=104  Identities=16%  Similarity=0.182  Sum_probs=51.1

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      +.-+...|+...|.++-.+..-  |+...|...+.+++..++|++-.++...      +-++.-|...+.+|.+.|...+
T Consensus       184 i~~li~~~~~k~A~kl~k~Fkv--~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~~~~~e  255 (319)
T PF04840_consen  184 IRKLIEMGQEKQAEKLKKEFKV--PDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKYGNKKE  255 (319)
T ss_pred             HHHHHHCCCHHHHHHHHHHcCC--cHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHCCCHHH
Confidence            3344445555555555555544  5555555555555555555544443221      1123445555555555555555


Q ss_pred             HHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHh
Q 005966          536 GLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRT  578 (667)
Q Consensus       536 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  578 (667)
                      |..+..++       +    +..-+..|.++|++.+|.+...+
T Consensus       256 A~~yI~k~-------~----~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  256 ASKYIPKI-------P----DEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHHHhC-------C----hHHHHHHHHHCCCHHHHHHHHHH
Confidence            55554441       1    12234455555555555554433

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

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.79  E-value=5.4e-05  Score=53.35  Aligned_cols=61  Identities=23%  Similarity=0.322  Sum_probs=49.4

Q ss_pred             HHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC
Q 005966          559 IVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       559 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      ++..+...|++++|.+.|++. ...| +...+..+..++...|++++|...++++++..|++|
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~~p   65 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPDNP   65 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-H
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCC
Confidence            456778889999999999887 5556 566788888889999999999999999999999874

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.79  E-value=0.0022  Score=58.95  Aligned_cols=176  Identities=7%  Similarity=0.007  Sum_probs=104.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCCCcch----HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005966          454 GLIDIYSKCGSLESAHKIFSEIPIKDKDIVV----WSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH  529 (667)
Q Consensus       454 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  529 (667)
                      .....+.+.|++++|.+.|+.+....|+...    .-.++.++.+.+++++|...+++..+..+.-....+.....+.+.
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~Y~~g~~~  116 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVLYMRGLTN  116 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHHHHHHHhh
Confidence            3444556677777777777777766554422    134556677788888888888887775332222223332222221


Q ss_pred             --cC---------------C---HHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHH
Q 005966          530 --GG---------------L---LDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWG  589 (667)
Q Consensus       530 --~g---------------~---~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~  589 (667)
                        .+               +   ..+|...|+.+++.+   |+.             .-..+|...+..+...--. .-.
T Consensus       117 ~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~y---P~S-------------~ya~~A~~rl~~l~~~la~-~e~  179 (243)
T PRK10866        117 MALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRGY---PNS-------------QYTTDATKRLVFLKDRLAK-YEL  179 (243)
T ss_pred             hhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHHC---cCC-------------hhHHHHHHHHHHHHHHHHH-HHH
Confidence              11               1   223445555555422   332             2233343333332100000 112


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCC---CchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPEN---PGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      .+...|.+.|.+..|..-++.+++.-|+.   +.++..++.+|...|..++|..+...+.
T Consensus       180 ~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        180 SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            45566889999999999999999988874   4567788999999999999999887654

>PRK15331 chaperone protein SicA; Provisional

Probab=97.79  E-value=0.00019  Score=59.20  Aligned_cols=87  Identities=16%  Similarity=0.122  Sum_probs=69.9

Q ss_pred             HHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHH
Q 005966          561 DLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDA  638 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  638 (667)
                      .-+-..|++++|..+|+-+ ...| ++.-|..|..+|...+++++|+..|..+..++++||...+..+.+|...|+.++|
T Consensus        45 y~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         45 YEFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHH
Confidence            3345788888888888876 2333 5666777777788888899999999988888888888888999999999999999


Q ss_pred             HHHHHHhhh
Q 005966          639 ENVRDVMDE  647 (667)
Q Consensus       639 ~~~~~~~~~  647 (667)
                      +..|+...+
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            888888766

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=97.77  E-value=0.042  Score=52.95  Aligned_cols=125  Identities=15%  Similarity=0.171  Sum_probs=69.0

Q ss_pred             HHhcCC-HHHHHHHHhhCCCCCC-CcchHHHHHH----HHHH---cCChHHHHHHHHHHHHcCCCCCHH----HHHHHHH
Q 005966          459 YSKCGS-LESAHKIFSEIPIKDK-DIVVWSVIIA----GYGM---HGHGETAVSLFKEMVQSGVQPNEV----TFTSALH  525 (667)
Q Consensus       459 ~~~~g~-~~~A~~~~~~~~~~~~-~~~~~~~l~~----~~~~---~~~~~~a~~~~~~m~~~~~~p~~~----~~~~ll~  525 (667)
                      +.+.|. -++|..+++.+..-.+ |...-|.+..    +|.+   .....+-+.+-+-+.+.|+.|-.+    .-+.|.+
T Consensus       389 lW~~g~~dekalnLLk~il~ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaD  468 (549)
T PF07079_consen  389 LWEIGQCDEKALNLLKLILQFTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLAD  468 (549)
T ss_pred             HHhcCCccHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHH
Confidence            444454 6677777777665432 3333332222    1211   122333344444445566665432    3344444


Q ss_pred             H--HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHH
Q 005966          526 A--CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVW  588 (667)
Q Consensus       526 ~--~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~  588 (667)
                      +  +...|++.++.-.-..+.+   +.|++.+|..++-++....++++|.+++.+++  |+..++
T Consensus       469 AEyLysqgey~kc~~ys~WL~~---iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~LP--~n~~~~  528 (549)
T PF07079_consen  469 AEYLYSQGEYHKCYLYSSWLTK---IAPSPQAYRLLGLCLMENKRYQEAWEYLQKLP--PNERMR  528 (549)
T ss_pred             HHHHHhcccHHHHHHHHHHHHH---hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhCC--CchhhH
Confidence            4  3456777777665555544   45777777777777777778888888877764  344444

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.67  E-value=0.0014  Score=67.35  Aligned_cols=136  Identities=17%  Similarity=0.098  Sum_probs=98.9

Q ss_pred             CCCCCHHHHHHHHHHHhc--c---CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc--------CChHHHHHHHHh
Q 005966          512 GVQPNEVTFTSALHACSH--G---GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA--------GRLDEAYDLIRT  578 (667)
Q Consensus       512 ~~~p~~~~~~~ll~~~~~--~---g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~A~~~~~~  578 (667)
                      +.+.|...|...+++...  .   +..++|..+|+++.+  ..|-....|..+..++...        +++..+.+..++
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~  409 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDN  409 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHH
Confidence            346677888888887443  2   347799999999988  3323344555544444322        223445555555


Q ss_pred             C---C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          579 M---P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       579 ~---~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .   . ...++..+..+.-.....|++++|...++++++++|. ...|..++.+|...|+.++|.+.+++......
T Consensus       410 a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps-~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        410 IVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMS-WLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             hhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCC-HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            3   1 3335567777777777889999999999999999995 78999999999999999999999999887653

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.67  E-value=5.5e-05  Score=43.82  Aligned_cols=31  Identities=52%  Similarity=0.737  Sum_probs=24.3

Q ss_pred             hhHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 005966          178 VSWNTLISGYFKNAYAKEALVVFDWMLKSGV  208 (667)
Q Consensus       178 ~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~  208 (667)
                      ++||.+|++|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4688888888888888888888888877664

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=97.67  E-value=0.0025  Score=55.27  Aligned_cols=63  Identities=13%  Similarity=0.091  Sum_probs=36.8

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          483 VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPN--EVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       483 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      ..|..+...+...|++++|+..|++.......|.  ..++..+...+...|++++|...++++.+
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455555566666666666666666665422221  23555566666666666666666666655

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.65  E-value=0.00058  Score=56.19  Aligned_cols=94  Identities=12%  Similarity=-0.055  Sum_probs=71.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVI  597 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  597 (667)
                      ...+..-+...|++++|.++|+.+..  -.+-+...|-.|.-++...|++++|+..|... ...| |+..+..+..++..
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~  115 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLA  115 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            44445556778888888888888876  33345667778888888888888888888887 3444 66778888888888


Q ss_pred             cCCHHHHHHHHHHhhccC
Q 005966          598 HGNVELGEVAAKWLFELE  615 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~  615 (667)
                      .|+.+.|+..|+.++...
T Consensus       116 lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        116 CDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             cCCHHHHHHHHHHHHHHh
Confidence            888888888888887765

>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=97.65  E-value=6e-05  Score=53.77  Aligned_cols=62  Identities=24%  Similarity=0.369  Sum_probs=34.8

Q ss_pred             hcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          565 RAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       565 ~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      ..|++++|++.|+++ ...| +...+..++.+|.+.|++++|..+++++....|+++.++..++
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~l~a   66 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQDPDNPEYQQLLA   66 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTTHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCHHHHHHHHh
Confidence            455566666666555 2233 4555555666666666666666666666666666555544444

...

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=97.65  E-value=2.4e-05  Score=46.05  Aligned_cols=34  Identities=29%  Similarity=0.396  Sum_probs=31.4

Q ss_pred             HHHHhhccCCCCCchHHHHHHHHhhcCCchHHHH
Q 005966          607 AAKWLFELEPENPGNYVLLSKLYSAVRRWKDAEN  640 (667)
Q Consensus       607 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  640 (667)
                      +++++++++|+|+.+|..|+.+|...|++++|++
T Consensus         1 ~y~kAie~~P~n~~a~~nla~~~~~~g~~~~A~~   34 (34)
T PF13431_consen    1 CYKKAIELNPNNAEAYNNLANLYLNQGDYEEAIA   34 (34)
T ss_pred             ChHHHHHHCCCCHHHHHHHHHHHHHCcCHHhhcC
Confidence            3789999999999999999999999999999963

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.62  E-value=0.063  Score=50.72  Aligned_cols=260  Identities=15%  Similarity=0.075  Sum_probs=171.0

Q ss_pred             HHHHHHHHHh--CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHH
Q 005966          382 WNAILAGCVH--NGLARKAVELFRQMLVEVVEPNDATLNSLLPAY--AILADLQQAMNIHCYLIRYGFLSVVEVSTGLID  457 (667)
Q Consensus       382 ~~~li~~~~~--~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  457 (667)
                      |..|-.++..  .|+-..|.++-.+-... +..|...+..++.+-  .-.|+++.|.+-|+.|.... +.-.--...|.-
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~l-lssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dP-EtRllGLRgLyl  162 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKL-LSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDP-ETRLLGLRGLYL  162 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhh-hhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcCh-HHHHHhHHHHHH
Confidence            5556566554  46767776665554322 445555666666554  45799999999999997532 111112233444


Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHH--HHHHHHHHHh--c-c
Q 005966          458 IYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSG-VQPNEV--TFTSALHACS--H-G  530 (667)
Q Consensus       458 ~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~--~~~~ll~~~~--~-~  530 (667)
                      .-.+.|..+.|...-++....-|. .-.+.+.+...|..|+|+.|+++++.-++.. +.++..  .-..|+.+-.  . .
T Consensus       163 eAqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ld  242 (531)
T COG3898         163 EAQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLD  242 (531)
T ss_pred             HHHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhc
Confidence            445788889888888877665554 4578899999999999999999999877643 344442  2233333211  1 1


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCchhHH-HHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHH-HHH
Q 005966          531 GLLDEGLDLFNFMLENHQTCSRADHY-TCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGNVELG-EVA  607 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A-~~~  607 (667)
                      .+...|...-.+..   .+.|+...- -.-...|.+.|+..++-.+++.+ +..|.+.++...  ...+.|+.... .+-
T Consensus       243 adp~~Ar~~A~~a~---KL~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~ia~lY--~~ar~gdta~dRlkR  317 (531)
T COG3898         243 ADPASARDDALEAN---KLAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPDIALLY--VRARSGDTALDRLKR  317 (531)
T ss_pred             CChHHHHHHHHHHh---hcCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChHHHHHH--HHhcCCCcHHHHHHH
Confidence            23445555444443   355664322 23456789999999999999998 777887766443  34466775333 233


Q ss_pred             HHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          608 AKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       608 ~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      .+++.++.|++......++..-...|++..|..--+...+.
T Consensus       318 a~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~  358 (531)
T COG3898         318 AKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE  358 (531)
T ss_pred             HHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh
Confidence            45667799999999999999999999999888777665543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.62  E-value=0.00034  Score=64.66  Aligned_cols=98  Identities=10%  Similarity=0.084  Sum_probs=47.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC----CHHHHHHHHH
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP----THAVWGALLG  593 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p----~~~~~~~l~~  593 (667)
                      |...+....+.|++++|...|+.+++.+...+- ...+..++..|...|++++|...|+++ ...|    .+..+..++.
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            444443334456666666666666653321110 123444555555555555555555554 1112    1233444444


Q ss_pred             HHHhcCCHHHHHHHHHHhhccCCC
Q 005966          594 ACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+...|+.+.|..+++++++..|+
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~yP~  249 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKYPG  249 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcC
Confidence            444555555555555555555555

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.60  E-value=8.2e-05  Score=43.07  Aligned_cols=31  Identities=39%  Similarity=0.693  Sum_probs=24.4

Q ss_pred             hHHHHHHHHHHhCCChHHHHHHHHHHHhcCC
Q 005966          279 VTWTSMINGYALNGDVRNALGLFQLMQFEGV  309 (667)
Q Consensus       279 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~  309 (667)
                      ++||.+|.+|++.|++++|.++|++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            3688888888888888888888888877664

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.

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.51  E-value=0.14  Score=52.10  Aligned_cols=152  Identities=14%  Similarity=0.119  Sum_probs=78.0

Q ss_pred             cchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHHhCCChHHHHHH
Q 005966          226 KEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE-----RDVVTWTSMINGYALNGDVRNALGL  300 (667)
Q Consensus       226 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~~~~~~a~~~  300 (667)
                      |++++|++++-.+-+++         .-+..+.+.|++-...++++.=..     .-..+|+.+...+.....|++|.+.
T Consensus       748 g~feeaek~yld~drrD---------LAielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~y  818 (1189)
T KOG2041|consen  748 GEFEEAEKLYLDADRRD---------LAIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKY  818 (1189)
T ss_pred             cchhHhhhhhhccchhh---------hhHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            55555555554444332         224445555666665555554322     1123566666666666666666666


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcc
Q 005966          301 FQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTV  380 (667)
Q Consensus       301 ~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  380 (667)
                      |..-...         ...+.++.+...+++-+.+-     ..++.+....-.+.+++.+.|.-++|.+.+-+...+.  
T Consensus       819 Y~~~~~~---------e~~~ecly~le~f~~LE~la-----~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s~pk--  882 (1189)
T KOG2041|consen  819 YSYCGDT---------ENQIECLYRLELFGELEVLA-----RTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRSLPK--  882 (1189)
T ss_pred             HHhccch---------HhHHHHHHHHHhhhhHHHHH-----HhcCcccchHHHHHHHHHhhchHHHHHHHHHhccCcH--
Confidence            6543210         11223333333333222221     2235556666667777777777777766665544332  


Q ss_pred             cHHHHHHHHHhCCChHHHHHHHHHH
Q 005966          381 PWNAILAGCVHNGLARKAVELFRQM  405 (667)
Q Consensus       381 ~~~~li~~~~~~~~~~~A~~~~~~m  405 (667)
                         ..+..|...+++.+|.++-++.
T Consensus       883 ---aAv~tCv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  883 ---AAVHTCVELNQWGEAVELAQRF  904 (1189)
T ss_pred             ---HHHHHHHHHHHHHHHHHHHHhc
Confidence               3345566666677776665543

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.51  E-value=0.0012  Score=50.20  Aligned_cols=81  Identities=10%  Similarity=0.015  Sum_probs=69.2

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHhHHcCCC-CCCcccHHHHHHHhcccc--------chHHHHHHHHHHHHhCCCCchH
Q 005966           77 LYNTVMKMYAQNGASHDSLKMFLGMLRLGEY-NPDNYTYPIVIKACTDLA--------WRKLGIALHGRVLITGFDMDTF  147 (667)
Q Consensus        77 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~  147 (667)
                      +....|..+...+++...-.+|+.+.+. ++ -|+..+|+.++.+.+++.        +.-....+|++|+..+++|+..
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN-~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~e  105 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRN-GITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhc-CCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHH
Confidence            4455677777889999999999999999 78 899999999998887543        4556788999999999999999


Q ss_pred             HHHHHHHHHHh
Q 005966          148 VGNCLIAMYMN  158 (667)
Q Consensus       148 ~~~~li~~~~~  158 (667)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            99999988765

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 [, , ].

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.49  E-value=0.00015  Score=46.01  Aligned_cols=42  Identities=26%  Similarity=0.416  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHH
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSK  627 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  627 (667)
                      .++..+..++...|++++|++.++++++..|+|+.++..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPDDPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHHHHHHhhh
Confidence            467888999999999999999999999999999999988875

>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=97.48  E-value=0.00025  Score=50.67  Aligned_cols=65  Identities=18%  Similarity=0.226  Sum_probs=52.1

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC-CHHHHHHHHHHhhccCC
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHG-NVELGEVAAKWLFELEP  616 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p  616 (667)
                      ++..|..++..+...|++++|+..|++. ...| +...|..+..++...| ++++|+..++++++++|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            3456777888888888888888888876 4455 5567888888888888 69999999999998887

...

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.44  E-value=0.0033  Score=61.84  Aligned_cols=118  Identities=13%  Similarity=0.124  Sum_probs=61.5

Q ss_pred             CCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh--CCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC--CCcchHH
Q 005966          411 EPNDATLNSLLPAYAILADLQQAMNIHCYLIRY--GFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD--KDIVVWS  486 (667)
Q Consensus       411 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~  486 (667)
                      +.+...+..++..+....+++.+..++-.....  ....-+.+..++++.|.+.|..+++..+++.=..-|  ||..++|
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            344445555555555555555555555554432  112223333455566666666666666555544444  5666666


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACS  528 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  528 (667)
                      .|+..+.+.|++..|.++...|...+...+..|+...+.+|.
T Consensus       143 ~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  143 LLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            666666666666666666555555544444444444444433

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=97.44  E-value=0.096  Score=53.29  Aligned_cols=156  Identities=8%  Similarity=0.057  Sum_probs=93.8

Q ss_pred             HhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCC----cccHHHHHHHhccccchH
Q 005966           53 LVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPD----NYTYPIVIKACTDLAWRK  128 (667)
Q Consensus        53 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~ll~~~~~~~~~~  128 (667)
                      +-+-.|++++|++++-++-.+|     .-|..+.+.|+|-....+++.-    |...|    ..+++.+...++....++
T Consensus       743 i~~~~g~feeaek~yld~drrD-----LAielr~klgDwfrV~qL~r~g----~~d~dD~~~e~A~r~ig~~fa~~~~We  813 (1189)
T KOG2041|consen  743 ISAFYGEFEEAEKLYLDADRRD-----LAIELRKKLGDWFRVYQLIRNG----GSDDDDEGKEDAFRNIGETFAEMMEWE  813 (1189)
T ss_pred             HhhhhcchhHhhhhhhccchhh-----hhHHHHHhhhhHHHHHHHHHcc----CCCcchHHHHHHHHHHHHHHHHHHHHH
Confidence            3444578888888887776666     3355666777776666655432    22222    245777777777777777


Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCC
Q 005966          129 LGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGV  208 (667)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~  208 (667)
                      +|.+.|..-...         ...+.+|.+..++++-+.+...+++ +....-.+...+.+.|.-++|.+.|-+.-    
T Consensus       814 ~A~~yY~~~~~~---------e~~~ecly~le~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~s----  879 (1189)
T KOG2041|consen  814 EAAKYYSYCGDT---------ENQIECLYRLELFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRRS----  879 (1189)
T ss_pred             HHHHHHHhccch---------HhHHHHHHHHHhhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhcc----
Confidence            777777543211         2356666677777777766666655 33445566677777777777777664331    


Q ss_pred             CCChHHHHHHHHHcccCcchHHHHHHHH
Q 005966          209 EPDCASVVSVLPACGYLKEIEMGRMIHE  236 (667)
Q Consensus       209 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~  236 (667)
                      .|     ...+.+|...++|.+|.++-+
T Consensus       880 ~p-----kaAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  880 LP-----KAAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             Cc-----HHHHHHHHHHHHHHHHHHHHH
Confidence            12     123445566666666655543

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.43  E-value=0.00051  Score=66.62  Aligned_cols=63  Identities=13%  Similarity=0.039  Sum_probs=37.4

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHhhcc
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHA----VWGALLGACVIHGNVELGEVAAKWLFEL  614 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~  614 (667)
                      +...++.+..+|.+.|++++|+..|++. .+.|+..    +|..+..+|...|+.++|+..+++++++
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3455666666666666666666666653 4555432    3566666666666666666666666665

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.40  E-value=0.02  Score=47.92  Aligned_cols=125  Identities=9%  Similarity=0.032  Sum_probs=61.0

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHH
Q 005966          480 KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCI  559 (667)
Q Consensus       480 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  559 (667)
                      |.+..--.|..++.+.|+..+|...|++...--+.-|......+.++....+++..|..+++++.+.+...-+++....+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            33444444555555555555665555555543233444555555555555556666666555555422211222233445


Q ss_pred             HHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHH
Q 005966          560 VDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGNVELG  604 (667)
Q Consensus       560 ~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A  604 (667)
                      ...|...|++++|...|+.. ..-|++...........++|+.++|
T Consensus       167 aR~laa~g~~a~Aesafe~a~~~ypg~~ar~~Y~e~La~qgr~~ea  212 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAISYYPGPQARIYYAEMLAKQGRLREA  212 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHHhCCCHHHHHHHHHHHHHhcchhHH
Confidence            55555566666555555554 3444444333333334444443333

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.40  E-value=0.0025  Score=48.48  Aligned_cols=81  Identities=14%  Similarity=0.149  Sum_probs=65.6

Q ss_pred             hHHHHHHHHHHcCChhHHHHHHHHHHHCCC-CCChHHHHHHHHHcccCc--------chHHHHHHHHHHHhcCCCcchhH
Q 005966          179 SWNTLISGYFKNAYAKEALVVFDWMLKSGV-EPDCASVVSVLPACGYLK--------EIEMGRMIHELVAGGRLGKNIAA  249 (667)
Q Consensus       179 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  249 (667)
                      +-...|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ..-....+++.|+..++.|+..+
T Consensus        27 t~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~et  106 (120)
T PF08579_consen   27 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDET  106 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHH
Confidence            334556667777999999999999999999 999999999999876543        23356778888888899999999


Q ss_pred             HHHHHHHHHh
Q 005966          250 WNALVDMYVK  259 (667)
Q Consensus       250 ~~~l~~~~~~  259 (667)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            9998887754

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 [, , ].

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.39  E-value=0.00047  Score=49.93  Aligned_cols=65  Identities=18%  Similarity=0.293  Sum_probs=52.6

Q ss_pred             HHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHH
Q 005966          561 DLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLL  625 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  625 (667)
                      ..|.+.+++++|+++++++ ...| ++..|......+...|++++|.+.++++++..|+++......
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~~~~~~~   69 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPDDPDARALR   69 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcHHHHHHH
Confidence            5678888999999998887 4555 556777788888999999999999999999999877665543

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.39  E-value=0.0039  Score=61.33  Aligned_cols=117  Identities=11%  Similarity=0.072  Sum_probs=63.7

Q ss_pred             CCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcC--CCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhHH
Q 005966          208 VEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGR--LGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE----RDVVTW  281 (667)
Q Consensus       208 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~  281 (667)
                      ...+......++..+....+++.+..++-......  ...-..|..++++.|.+.|..++++.++..=..    ||..++
T Consensus        62 ~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~  141 (429)
T PF10037_consen   62 KPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSF  141 (429)
T ss_pred             CCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhH
Confidence            33445555556666666666666666555555431  111223344666666666666666665555443    566666


Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhh
Q 005966          282 TSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACS  324 (667)
Q Consensus       282 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~  324 (667)
                      |.+|..+.+.|++..|.++...|...+...+..|+...+.+|.
T Consensus       142 n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~  184 (429)
T PF10037_consen  142 NLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCY  184 (429)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHH
Confidence            6666666666666666666666555555455555544444443

The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This entry represents a family of small ribosomal proteins possessing one of three conserved sequence blocks found in proteins that stimulate the dissociation of guanine nucleotides from G-proteins. This leaves open the possibility that they may be functional partners of GTP-binding ribosomal proteins [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.35  E-value=0.0033  Score=49.97  Aligned_cols=84  Identities=20%  Similarity=0.050  Sum_probs=43.9

Q ss_pred             HHHhhcCChHHHHHHHHhC---CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC---CCchHHHHHHHHhhc
Q 005966          561 DLLGRAGRLDEAYDLIRTM---PLKPT--HAVWGALLGACVIHGNVELGEVAAKWLFELEPE---NPGNYVLLSKLYSAV  632 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~---~~~~~~~l~~~~~~~  632 (667)
                      .++-..|+.++|+.+|++.   +..+.  ...+-.+...+...|++++|..++++.....|+   +......++-++...
T Consensus         9 ~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~~~   88 (120)
T PF12688_consen    9 WAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALYNL   88 (120)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHHC
Confidence            3444455555555555543   11111  123444555556666666666666666665555   444455555566666


Q ss_pred             CCchHHHHHHHH
Q 005966          633 RRWKDAENVRDV  644 (667)
Q Consensus       633 g~~~~A~~~~~~  644 (667)
                      |++++|++.+-.
T Consensus        89 gr~~eAl~~~l~  100 (120)
T PF12688_consen   89 GRPKEALEWLLE  100 (120)
T ss_pred             CCHHHHHHHHHH
Confidence            666666665543

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.34  E-value=0.00078  Score=63.27  Aligned_cols=130  Identities=8%  Similarity=0.008  Sum_probs=93.6

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhH---HhcCCCC-chhHHHHHHHHHhhcCChHHHHHHHHhC-------C-CCCCH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFML---ENHQTCS-RADHYTCIVDLLGRAGRLDEAYDLIRTM-------P-LKPTH  585 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~---~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~-~~p~~  585 (667)
                      ..|..|...|.-.|+++.|+...+.=+   +.+|... ....+..+.+++.-.|+++.|.+.|+..       + .....
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            457777777778899999988766432   2244322 2345677888999999999999988864       1 11233


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhccC------CCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFELE------PENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ....+|.+.|.-..++++|+..+.+=+.+.      .....++.+|+.+|...|..++|+.+.+.-++
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            456678888888888999999888654322      22356888999999999999999998877543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.29  E-value=0.0078  Score=47.87  Aligned_cols=91  Identities=20%  Similarity=0.234  Sum_probs=59.9

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-chhHHHHHHHHHh
Q 005966          488 IIAGYGMHGHGETAVSLFKEMVQSGVQPNE--VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCS-RADHYTCIVDLLG  564 (667)
Q Consensus       488 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  564 (667)
                      +..++-..|+.++|+.+|++....|+....  ..+..+.+++...|++++|..+++.....+...+ +......+.-++.
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            455667778888888888888887765442  3566677778888888888888888776432211 2222223444666


Q ss_pred             hcCChHHHHHHHHh
Q 005966          565 RAGRLDEAYDLIRT  578 (667)
Q Consensus       565 ~~g~~~~A~~~~~~  578 (667)
                      ..|+.++|++.+-.
T Consensus        87 ~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   87 NLGRPKEALEWLLE  100 (120)
T ss_pred             HCCCHHHHHHHHHH
Confidence            77888888776544

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.29  E-value=0.0041  Score=59.15  Aligned_cols=133  Identities=17%  Similarity=0.224  Sum_probs=69.0

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC---CCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGV---QPNE--VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      .....|...|++++|.+.|.+..+...   .+..  ..|.....+|.+ +++++|...++++.+                
T Consensus        40 ~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~-~~~~~Ai~~~~~A~~----------------  102 (282)
T PF14938_consen   40 KAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKK-GDPDEAIECYEKAIE----------------  102 (282)
T ss_dssp             HHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHH-TTHHHHHHHHHHHHH----------------
T ss_pred             HHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh-hCHHHHHHHHHHHHH----------------
Confidence            345567777888888877777654211   1111  123333333333 366666666555543                


Q ss_pred             HHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-CCHHHHHHHHHHhhccCCCC------CchHHHHHHHHhhcCC
Q 005966          562 LLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIH-GNVELGEVAAKWLFELEPEN------PGNYVLLSKLYSAVRR  634 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~  634 (667)
                      .|...|++..|-+++.+            +...|... |+++.|++.|+++.+....+      ..++..++.++.+.|+
T Consensus       103 ~y~~~G~~~~aA~~~~~------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~  170 (282)
T PF14938_consen  103 IYREAGRFSQAAKCLKE------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGR  170 (282)
T ss_dssp             HHHHCT-HHHHHHHHHH------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-
T ss_pred             HHHhcCcHHHHHHHHHH------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCC
Confidence            45555655555554443            44445555 66666666666665532111      1234456666777777


Q ss_pred             chHHHHHHHHhhhC
Q 005966          635 WKDAENVRDVMDEK  648 (667)
Q Consensus       635 ~~~A~~~~~~~~~~  648 (667)
                      +++|.+.|+++...
T Consensus       171 y~~A~~~~e~~~~~  184 (282)
T PF14938_consen  171 YEEAIEIYEEVAKK  184 (282)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHH
Confidence            77777777666543

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.27  E-value=0.0053  Score=56.90  Aligned_cols=94  Identities=13%  Similarity=0.042  Sum_probs=63.6

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC---CchHHHHHH
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKPTH----AVWGALLGACVIHGNVELGEVAAKWLFELEPEN---PGNYVLLSK  627 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~  627 (667)
                      |..-+..+.+.|++++|+..|+.. ...|+.    ..+..++..+...|+++.|...|+++++..|++   +.++..++.
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            444444445567777877777776 334432    466667777777788888888888877777664   445556677


Q ss_pred             HHhhcCCchHHHHHHHHhhhCC
Q 005966          628 LYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +|...|++++|.++++++.+..
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~y  247 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKY  247 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC
Confidence            7777788888888877776654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.24  E-value=0.049  Score=51.85  Aligned_cols=256  Identities=9%  Similarity=-0.044  Sum_probs=138.1

Q ss_pred             HHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh--hHhhhcCChhhHHHhhcccC-CCCc--chHHHHHHHHHhCCCch
Q 005966           19 LVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS--SLVRAYGHVSNVRILFDEMS-ERSS--FLYNTVMKMYAQNGASH   92 (667)
Q Consensus        19 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--~~~~~~g~~~~A~~~~~~~~-~~~~--~~~~~l~~~~~~~g~~~   92 (667)
                      ...++....++..|...+..+++..|.+ ++..+  ..|...|++++|.--...-. -+|.  ..+.-.-+.+...++..
T Consensus        55 ~gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~kd~~~k~~~r~~~c~~a~~~~i  134 (486)
T KOG0550|consen   55 EGNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVRLKDGFSKGQLREGQCHLALSDLI  134 (486)
T ss_pred             hcchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhheecCCCccccccchhhhhhhhHHHH
Confidence            4445556677889999999999999998 66555  66777788887765443221 1111  11222222222222222


Q ss_pred             HH---------------HHHHHHhHHcCCCCCCcccHHHHH-HHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHH
Q 005966           93 DS---------------LKMFLGMLRLGEYNPDNYTYPIVI-KACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMY  156 (667)
Q Consensus        93 ~a---------------~~~~~~~~~~~~~~~~~~~~~~ll-~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~  156 (667)
                      +|               +..++.....-.-+|...++..+- .++.-.+++.+|.++--..++.. ..+....-.-..++
T Consensus       135 ~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld-~~n~~al~vrg~~~  213 (486)
T KOG0550|consen  135 EAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD-ATNAEALYVRGLCL  213 (486)
T ss_pred             HHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc-cchhHHHHhccccc
Confidence            22               222222222200112223333332 44556778888887777776665 33333322222334


Q ss_pred             HhcCCHHHHHHHhcccCCCChhhHH---------------HHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHH
Q 005966          157 MNFGEVKAARKVFDAMWEHSVVSWN---------------TLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPA  221 (667)
Q Consensus       157 ~~~g~~~~A~~~~~~~~~~~~~~~~---------------~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  221 (667)
                      --.++.+.|...|++-...++....               .=..-..++|++..|.+.+.+.+.  +.|+          
T Consensus       214 yy~~~~~ka~~hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~--idP~----------  281 (486)
T KOG0550|consen  214 YYNDNADKAINHFQQALRLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALN--IDPS----------  281 (486)
T ss_pred             ccccchHHHHHHHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhc--CCcc----------
Confidence            4456777777777776544332221               111223344555555555555443  2232          


Q ss_pred             cccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhH---HHHHHHHHHhCCChHHHH
Q 005966          222 CGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVT---WTSMINGYALNGDVRNAL  298 (667)
Q Consensus       222 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~~~~~~a~  298 (667)
                                          +..++...|-.......+.|+.++|+.--+....-|..-   |-.-..++...++|++|.
T Consensus       282 --------------------n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~syikall~ra~c~l~le~~e~AV  341 (486)
T KOG0550|consen  282 --------------------NKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSSYIKALLRRANCHLALEKWEEAV  341 (486)
T ss_pred             --------------------ccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                234566667777777777888888887777776655432   222234455567778888


Q ss_pred             HHHHHHHhc
Q 005966          299 GLFQLMQFE  307 (667)
Q Consensus       299 ~~~~~m~~~  307 (667)
                      +-|++..+.
T Consensus       342 ~d~~~a~q~  350 (486)
T KOG0550|consen  342 EDYEKAMQL  350 (486)
T ss_pred             HHHHHHHhh
Confidence            777776654

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.21  E-value=0.0064  Score=54.46  Aligned_cols=168  Identities=12%  Similarity=0.116  Sum_probs=87.2

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCc----chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc--
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDI----VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH--  529 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~--  529 (667)
                      ...+...|++.+|.+.|+.+....|+.    ...-.++.++.+.|+++.|...++++++.-+.-....+...+.+.+.  
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~~   91 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYYK   91 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHHH
Confidence            344455566666666666655544432    23445566667777777777777776664222111112222111111  


Q ss_pred             -----------cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005966          530 -----------GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIH  598 (667)
Q Consensus       530 -----------~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  598 (667)
                                 .+...+|...|+.+++                -|-......+|...+..+...- ...-..++..|.+.
T Consensus        92 ~~~~~~~~~~D~~~~~~A~~~~~~li~----------------~yP~S~y~~~A~~~l~~l~~~l-a~~e~~ia~~Y~~~  154 (203)
T PF13525_consen   92 QIPGILRSDRDQTSTRKAIEEFEELIK----------------RYPNSEYAEEAKKRLAELRNRL-AEHELYIARFYYKR  154 (203)
T ss_dssp             HHHHHH-TT---HHHHHHHHHHHHHHH----------------H-TTSTTHHHHHHHHHHHHHHH-HHHHHHHHHHHHCT
T ss_pred             hCccchhcccChHHHHHHHHHHHHHHH----------------HCcCchHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHc
Confidence                       1122234444444443                3333333344443333331000 00112356668899


Q ss_pred             CCHHHHHHHHHHhhccCCCCC---chHHHHHHHHhhcCCchHHHH
Q 005966          599 GNVELGEVAAKWLFELEPENP---GNYVLLSKLYSAVRRWKDAEN  640 (667)
Q Consensus       599 g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~  640 (667)
                      |.+..|..-++.+++.-|+.+   .++..++..|.+.|..+.|..
T Consensus       155 ~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~~  199 (203)
T PF13525_consen  155 GKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAADT  199 (203)
T ss_dssp             T-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHHH
Confidence            999999999999999999854   356788999999999885543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.20  E-value=0.023  Score=54.08  Aligned_cols=110  Identities=17%  Similarity=0.260  Sum_probs=54.4

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHc-CChHHHHHHHHHHHHc----CCCCC--HHHHHHHHHHHh
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMH-GHGETAVSLFKEMVQS----GVQPN--EVTFTSALHACS  528 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~----~~~p~--~~~~~~ll~~~~  528 (667)
                      +..|...|++..|-..+.+             +...|... |++++|++.|++..+.    | .+.  ..++..+...+.
T Consensus       101 ~~~y~~~G~~~~aA~~~~~-------------lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~-~~~~a~~~~~~~A~l~~  166 (282)
T PF14938_consen  101 IEIYREAGRFSQAAKCLKE-------------LAEIYEEQLGDYEKAIEYYQKAAELYEQEG-SPHSAAECLLKAADLYA  166 (282)
T ss_dssp             HHHHHHCT-HHHHHHHHHH-------------HHHHHCCTT--HHHHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCcHHHHHHHHHH-------------HHHHHHHHcCCHHHHHHHHHHHHHHHHHCC-ChhhHHHHHHHHHHHHH
Confidence            4455566666655554443             33445555 6677777777665542    2 111  123455566666


Q ss_pred             ccCCHHHHHHHHHHhHHhcCC----CCchh-HHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          529 HGGLLDEGLDLFNFMLENHQT----CSRAD-HYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~~~~~~----~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      +.|++++|.++|+++......    ..++. .+...+-++...|++..|.+.+++.
T Consensus       167 ~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~  222 (282)
T PF14938_consen  167 RLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERY  222 (282)
T ss_dssp             HTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            777777777777766552111    11111 2223333455566666666666664

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.17  E-value=0.0037  Score=59.14  Aligned_cols=129  Identities=7%  Similarity=0.058  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh-cCChHHHHHHHHhC--CCCCCHHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR-AGRLDEAYDLIRTM--PLKPTHAVWGALLGA  594 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~  594 (667)
                      .+|..++....+.+..+.|..+|.++.+...  .+..+|-..+.+-.+ .++.+.|..+|+..  ....+...|...+..
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~--~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~f~~~~~~~~~Y~~~   79 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKR--CTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCC--S-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCC--CCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            4677788888888889999999999986333  334456555555344 56667799999987  355577889999999


Q ss_pred             HHhcCCHHHHHHHHHHhhccCCCCC---chHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          595 CVIHGNVELGEVAAKWLFELEPENP---GNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       595 ~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      +.+.|+.+.|..+|++++..-|.+.   ..|...+..=.+.|+.+...++.+++.+.
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            9999999999999999999877754   47888888888899999999999998765

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.

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.13  E-value=0.42  Score=49.47  Aligned_cols=111  Identities=13%  Similarity=0.086  Sum_probs=85.1

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 005966          516 NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGAC  595 (667)
Q Consensus       516 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~  595 (667)
                      ...+.+--+.-+...|+..+|.++-.+.+=     ||...|-.-+.+++..++|++-+++-++.+.   +..|.-++.+|
T Consensus       683 ~dlSl~dTv~~li~~g~~k~a~ql~~~Fki-----pdKr~~wLk~~aLa~~~kweeLekfAkskks---PIGy~PFVe~c  754 (829)
T KOG2280|consen  683 VDLSLHDTVTTLILIGQNKRAEQLKSDFKI-----PDKRLWWLKLTALADIKKWEELEKFAKSKKS---PIGYLPFVEAC  754 (829)
T ss_pred             ccCcHHHHHHHHHHccchHHHHHHHHhcCC-----cchhhHHHHHHHHHhhhhHHHHHHHHhccCC---CCCchhHHHHH
Confidence            334555566667788999999888776543     8888888888999999999998888777642   55677788899


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHH
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVR  642 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  642 (667)
                      .++|+.++|...+-+.-.+.        ..+.+|.+.|++.+|.+.-
T Consensus       755 ~~~~n~~EA~KYiprv~~l~--------ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRVGGLQ--------EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HhcccHHHHhhhhhccCChH--------HHHHHHHHhccHHHHHHHH
Confidence            99999999988876643332        5778888999998888753

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.12  E-value=0.033  Score=49.52  Aligned_cols=133  Identities=8%  Similarity=-0.026  Sum_probs=84.4

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCC----CCchhHHHHHH
Q 005966          485 WSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQT----CSRADHYTCIV  560 (667)
Q Consensus       485 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~~~~l~  560 (667)
                      -+.++..+.-.|.+.-.+..+++.++...+.++.....|.+.-.+.|+.+.|...|+...+..+.    .-...+.....
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            34555566666777777777888777665556666777777777788888888888866653322    11222222333


Q ss_pred             HHHhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          561 DLLGRAGRLDEAYDLIRTMP-LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ..+.-++++.+|...+.+.. ..| |+...|.-.-+..-.|+...|++.++.+++..|.
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence            44556677777777777763 222 4455555555555667777777777777777776

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.11  E-value=0.025  Score=51.80  Aligned_cols=113  Identities=16%  Similarity=0.126  Sum_probs=86.4

Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc---CChHHHHHHHHhC-C
Q 005966          505 FKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA---GRLDEAYDLIRTM-P  580 (667)
Q Consensus       505 ~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~-~  580 (667)
                      ++.-+..+ +-|...|..|...|...|+++.|...|.+..+.  .+++...+..+..++...   ....++..+|+++ .
T Consensus       145 Le~~L~~n-P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL--~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~  221 (287)
T COG4235         145 LETHLQQN-PGDAEGWDLLGRAYMALGRASDALLAYRNALRL--AGDNPEILLGLAEALYYQAGQQMTAKARALLRQALA  221 (287)
T ss_pred             HHHHHHhC-CCCchhHHHHHHHHHHhcchhHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHh
Confidence            33333443 446789999999999999999999999999884  445556677777666543   3567788999988 5


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          581 LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       581 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      .+| |......|...+...|++.+|...++.+++..|.+..
T Consensus       222 ~D~~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~  262 (287)
T COG4235         222 LDPANIRALSLLAFAAFEQGDYAEAAAAWQMLLDLLPADDP  262 (287)
T ss_pred             cCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcCCCCCc
Confidence            555 6667777788899999999999999999998887543

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=97.09  E-value=0.006  Score=57.96  Aligned_cols=94  Identities=16%  Similarity=0.093  Sum_probs=78.9

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      .+..+.-+|.+.+++.+|++..++. . .+++.-.+..-..++...|+++.|+..|++++++.|+|-.+...|+.+-.+.
T Consensus       259 ~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nka~~~el~~l~~k~  338 (397)
T KOG0543|consen  259 CHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPSNKAARAELIKLKQKI  338 (397)
T ss_pred             HhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            4667888999999999999998887 4 4457778888899999999999999999999999999999988888887776


Q ss_pred             CCchHH-HHHHHHhhhC
Q 005966          633 RRWKDA-ENVRDVMDEK  648 (667)
Q Consensus       633 g~~~~A-~~~~~~~~~~  648 (667)
                      .++.+. .++|..|-.+
T Consensus       339 ~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  339 REYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHhhc
Confidence            655544 7788888654

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.08  E-value=0.069  Score=47.57  Aligned_cols=131  Identities=14%  Similarity=0.036  Sum_probs=97.0

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHH-----HHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVST-----GLI  456 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~l~  456 (667)
                      .+.++..+.-.|.+.-.+.++++.++...+.+..-...+.+.-.+.||.+.|...++...+..-..+...++     ...
T Consensus       180 my~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n~a  259 (366)
T KOG2796|consen  180 MYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMNSA  259 (366)
T ss_pred             HHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhhhh
Confidence            455666667778888888889988887667777778888888888999999999998776543333333333     334


Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 005966          457 DIYSKCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSG  512 (667)
Q Consensus       457 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  512 (667)
                      ..|.-.+++..|...+.+++..+ .++...|.-.-+..-.|+..+|++..+.|++..
T Consensus       260 ~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~  316 (366)
T KOG2796|consen  260 FLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQD  316 (366)
T ss_pred             hheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccC
Confidence            45666788888888888888766 355666666666667788899999999998863

>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=97.07  E-value=0.00061  Score=50.10  Aligned_cols=62  Identities=8%  Similarity=0.056  Sum_probs=46.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhcc----CCCC---CchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFEL----EPEN---PGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----~p~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      .+++.+...+...|++++|+..+++++++    ++++   ..++..++.+|...|++++|++++++..+
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            35677777788888888888888887753    2222   34677889999999999999999888654

...

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=97.05  E-value=0.013  Score=47.50  Aligned_cols=91  Identities=15%  Similarity=0.126  Sum_probs=67.8

Q ss_pred             HHHHHhhcCChHHHHHHHHhCC----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc---hHHHHHHHHh
Q 005966          559 IVDLLGRAGRLDEAYDLIRTMP----LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG---NYVLLSKLYS  630 (667)
Q Consensus       559 l~~~~~~~g~~~~A~~~~~~~~----~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~  630 (667)
                      -.....+.|++++|.+.|+.+.    ..| ....-..++.++.+.|+++.|...+++.++++|.++.   +++..|-++.
T Consensus        16 ~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~~   95 (142)
T PF13512_consen   16 EAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHHH
Confidence            3444557888888888888872    222 3456777889999999999999999999999998876   4555666666


Q ss_pred             hcCC---------------chHHHHHHHHhhhCC
Q 005966          631 AVRR---------------WKDAENVRDVMDEKG  649 (667)
Q Consensus       631 ~~g~---------------~~~A~~~~~~~~~~~  649 (667)
                      +...               ..+|...|+++++.-
T Consensus        96 ~~~~~~~~~~~~~drD~~~~~~A~~~f~~lv~~y  129 (142)
T PF13512_consen   96 EQDEGSLQSFFRSDRDPTPARQAFRDFEQLVRRY  129 (142)
T ss_pred             HHhhhHHhhhcccccCcHHHHHHHHHHHHHHHHC
Confidence            6655               677888888877653

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=96.99  E-value=0.14  Score=47.23  Aligned_cols=199  Identities=13%  Similarity=0.007  Sum_probs=95.7

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccH---HHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHH
Q 005966           75 SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTY---PIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNC  151 (667)
Q Consensus        75 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~---~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  151 (667)
                      ...+-.....+...|++++|++.|+.+...  .|-+..+-   ..+..++.+.+++++|...+++.++..+.....-+..
T Consensus        32 ~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         32 PSEIYATAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            333334555566677888888888887765  22222222   3344666677777777777777777654322223333


Q ss_pred             HHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHH
Q 005966          152 LIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMG  231 (667)
Q Consensus       152 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a  231 (667)
                      .+.+.+....-...+.-+..+...+           .......+|+..|+++++.  -|+.             .-..+|
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~-----------rD~~~~~~A~~~~~~li~~--yP~S-------------~ya~~A  163 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSD-----------RDPQHARAAFRDFSKLVRG--YPNS-------------QYTTDA  163 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccc-----------cCHHHHHHHHHHHHHHHHH--CcCC-------------hhHHHH
Confidence            3333321100000000000000000           0000112344444444442  2331             112223


Q ss_pred             HHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CC----hhHHHHHHHHHHhCCChHHHHHHHHHHH
Q 005966          232 RMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--RD----VVTWTSMINGYALNGDVRNALGLFQLMQ  305 (667)
Q Consensus       232 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~----~~~~~~li~~~~~~~~~~~a~~~~~~m~  305 (667)
                      ...+..+...-    ...--.+...|.+.|.+..|..-|+.+.+  |+    ..+...++.+|...|..++|......+.
T Consensus       164 ~~rl~~l~~~l----a~~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        164 TKRLVFLKDRL----AKYELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHHHHHHHHH----HHHHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            22222222110    01112455667777787777777777765  32    3345567778888888888877766554

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.99  E-value=0.12  Score=49.93  Aligned_cols=161  Identities=17%  Similarity=0.123  Sum_probs=91.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCC----C-CcchHHHHHHHHHH---cCChHHHHHHHHHHHHcCCCCCHHHHHHHHH
Q 005966          454 GLIDIYSKCGSLESAHKIFSEIPIKD----K-DIVVWSVIIAGYGM---HGHGETAVSLFKEMVQSGVQPNEVTFTSALH  525 (667)
Q Consensus       454 ~l~~~~~~~g~~~~A~~~~~~~~~~~----~-~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  525 (667)
                      .++-.|-...+++..+++.+.+....    + ....-....-++.+   .|+.++|++++..+....-.+++.+|..+..
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            33444556666666666666665541    0 11112233344555   6777777777777555555666677776665


Q ss_pred             HHhc---------cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChH----HHHHHH---Hh-C------CCC
Q 005966          526 ACSH---------GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLD----EAYDLI---RT-M------PLK  582 (667)
Q Consensus       526 ~~~~---------~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~----~A~~~~---~~-~------~~~  582 (667)
                      .|-.         ....++|...|.+.-+   ..|+...--.++..+.-.|...    +..++-   .. .      ...
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            5422         1246677777776644   3344432222333333333211    222222   11 1      122


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          583 PTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       583 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .|.-.+.+++.++.-.||.++|.+.+++++++.|+
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~~  337 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKPP  337 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCCc
Confidence            34456678888899999999999999999999877

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.98  E-value=0.3  Score=45.09  Aligned_cols=195  Identities=21%  Similarity=0.154  Sum_probs=84.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCC--CC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHH-H
Q 005966          451 VSTGLIDIYSKCGSLESAHKIFSEIPI--KD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALH-A  526 (667)
Q Consensus       451 ~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~-~  526 (667)
                      ........+...+.+..+...+.....  .. .....+......+...+++..+...+.........+ ......... .
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~  139 (291)
T COG0457          61 LLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLALGA  139 (291)
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHHHH
Confidence            333344444444444444444444332  11 223334444444444444555555555554432221 111111111 4


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCC--CCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC--HHHHHHHHHHHHhcCCH
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQT--CSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT--HAVWGALLGACVIHGNV  601 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~~g~~  601 (667)
                      +...|+++.|...+..... ...  ......+......+...++.++|...+.+. ...|+  ...+..+...+...+++
T Consensus       140 ~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (291)
T COG0457         140 LYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLGKY  218 (291)
T ss_pred             HHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcccH
Confidence            4455555555555555533 110  011222222333344455555555555544 22222  34444455555555555


Q ss_pred             HHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          602 ELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       602 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      +.|...+..+....|.....+..++..+...|+++++...+++..+
T Consensus       219 ~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         219 EEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555444444444444444445555555555443

>PRK11906 transcriptional regulator; Provisional

Probab=96.93  E-value=0.013  Score=57.37  Aligned_cols=145  Identities=12%  Similarity=0.088  Sum_probs=101.5

Q ss_pred             ChHHHHHHHHHHHH-cCCCCCH-HHHHHHHHHHhcc---------CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh
Q 005966          497 HGETAVSLFKEMVQ-SGVQPNE-VTFTSALHACSHG---------GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR  565 (667)
Q Consensus       497 ~~~~a~~~~~~m~~-~~~~p~~-~~~~~ll~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  565 (667)
                      ..+.|+.+|.+... ..+.|+. ..|..+..++...         ....+|.++-++..+  -.+.|+.....++.++.-
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve--ld~~Da~a~~~~g~~~~~  350 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD--ITTVDGKILAIMGLITGL  350 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHh
Confidence            35678889999882 2346664 4566666554322         234566777777776  344566667777777777


Q ss_pred             cCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH--HHHHHHhhcCCchHHHHH
Q 005966          566 AGRLDEAYDLIRTM-PLKPTH-AVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV--LLSKLYSAVRRWKDAENV  641 (667)
Q Consensus       566 ~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~--~l~~~~~~~g~~~~A~~~  641 (667)
                      .++++.|...|++. ...||. .+|......+.-.|+.++|.+.++++++++|....+-.  ..++.|+..+ .++|+++
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            88899999999988 467754 46777777788899999999999999999998655444  4444576655 6777777


Q ss_pred             HHH
Q 005966          642 RDV  644 (667)
Q Consensus       642 ~~~  644 (667)
                      +-+
T Consensus       430 ~~~  432 (458)
T PRK11906        430 YYK  432 (458)
T ss_pred             Hhh
Confidence            643

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.93  E-value=0.0075  Score=47.07  Aligned_cols=88  Identities=22%  Similarity=0.229  Sum_probs=47.9

Q ss_pred             HHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC----chHHHHHHHHhhcCCc
Q 005966          562 LLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENP----GNYVLLSKLYSAVRRW  635 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~----~~~~~l~~~~~~~g~~  635 (667)
                      ++...|+++.|++.|.+. ..-| ....||.-..+++-+|+.++|..-+++++++.-+..    .+|..-+.+|...|+.
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            344555566666555554 2222 445556666666666666666666666665543321    2344555556666666


Q ss_pred             hHHHHHHHHhhhCC
Q 005966          636 KDAENVRDVMDEKG  649 (667)
Q Consensus       636 ~~A~~~~~~~~~~~  649 (667)
                      +.|..-|+..-+.|
T Consensus       132 d~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  132 DAARADFEAAAQLG  145 (175)
T ss_pred             HHHHHhHHHHHHhC
Confidence            66666666555444

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.93  E-value=0.42  Score=45.91  Aligned_cols=104  Identities=16%  Similarity=0.100  Sum_probs=48.7

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhc
Q 005966          383 NAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKC  462 (667)
Q Consensus       383 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  462 (667)
                      +..+.-+...|+...|.++-++..    .|+...|...+.+++..++|++-.++...      .-++.-|...+..+.+.
T Consensus       181 ~~Ti~~li~~~~~k~A~kl~k~Fk----v~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~~~  250 (319)
T PF04840_consen  181 NDTIRKLIEMGQEKQAEKLKKEFK----VPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACLKY  250 (319)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHcC----CcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHHHC
Confidence            333444444455555544444432    34445555555555555555544433211      12234455555555555


Q ss_pred             CCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHH
Q 005966          463 GSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSL  504 (667)
Q Consensus       463 g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  504 (667)
                      |+..+|..++..+.        +..-+..|.+.|++.+|.+.
T Consensus       251 ~~~~eA~~yI~k~~--------~~~rv~~y~~~~~~~~A~~~  284 (319)
T PF04840_consen  251 GNKKEASKYIPKIP--------DEERVEMYLKCGDYKEAAQE  284 (319)
T ss_pred             CCHHHHHHHHHhCC--------hHHHHHHHHHCCCHHHHHHH
Confidence            55555555554421        13344455555555555443

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

>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=96.87  E-value=0.011  Score=51.19  Aligned_cols=88  Identities=18%  Similarity=0.299  Sum_probs=67.2

Q ss_pred             CCcchHHHHHHHHHH-----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc----------------CCHHHHHH
Q 005966          480 KDIVVWSVIIAGYGM-----HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG----------------GLLDEGLD  538 (667)
Q Consensus       480 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~----------------g~~~~A~~  538 (667)
                      .+-.+|..++..|.+     .|..+=....+..|.+-|+.-|..+|+.|++.+=+.                .+-+-|++
T Consensus        45 k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i~  124 (228)
T PF06239_consen   45 KDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAID  124 (228)
T ss_pred             ccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHHH
Confidence            555666666666653     466777777888888888888888899888876543                23456888


Q ss_pred             HHHHhHHhcCCCCchhHHHHHHHHHhhcCC
Q 005966          539 LFNFMLENHQTCSRADHYTCIVDLLGRAGR  568 (667)
Q Consensus       539 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  568 (667)
                      ++++|.. +|+.||.+++..+++.+.+.+.
T Consensus       125 lL~qME~-~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  125 LLEQMEN-NGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHH-cCCCCcHHHHHHHHHHhccccH
Confidence            9999988 8888999999999888877664

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>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=96.83  E-value=0.015  Score=50.46  Aligned_cols=89  Identities=10%  Similarity=0.065  Sum_probs=59.4

Q ss_pred             CCChhhHHHHHHHHHHc-----CChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccC----------------cchHHHH
Q 005966          174 EHSVVSWNTLISGYFKN-----AYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYL----------------KEIEMGR  232 (667)
Q Consensus       174 ~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~----------------~~~~~a~  232 (667)
                      .++..+|..++..|.+.     |..+=....++.|.+-|+.-|..+|+.||..+=+.                .+-+-|.
T Consensus        44 ~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~hyp~Qq~c~i  123 (228)
T PF06239_consen   44 AKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFMHYPRQQECAI  123 (228)
T ss_pred             cccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhccCcHHHHHHH
Confidence            34555566666655543     45555556667777777777777777777765432                1345677


Q ss_pred             HHHHHHHhcCCCcchhHHHHHHHHHHhcCC
Q 005966          233 MIHELVAGGRLGKNIAAWNALVDMYVKCGS  262 (667)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  262 (667)
                      .++++|...|+-||..++..+++.+++.+.
T Consensus       124 ~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  124 DLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence            888888888888888888888887766554

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=96.81  E-value=0.25  Score=44.44  Aligned_cols=71  Identities=13%  Similarity=0.079  Sum_probs=50.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCCCc---hHHHHHHHHhhcCCchHHHHHHHHhhhCCCccCCCeeEEEeCCE
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPENPG---NYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLIEVRNI  664 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  664 (667)
                      .+.+.|.+.|.+..|..-++.+++.-|+.+.   ++..+..+|.+.|-.++|...-+-+.. +..   ...|+..+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~-N~p---~s~~~~~~~~  245 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLENYPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA-NYP---DSQWYKDAYR  245 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhccccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh-cCC---CCcchhhhhh
Confidence            4556688899999999999999888776443   566778889999999988887655533 332   3336654433

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.76  E-value=0.039  Score=49.41  Aligned_cols=141  Identities=13%  Similarity=0.075  Sum_probs=78.8

Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh
Q 005966          488 IIAGYGMHGHGETAVSLFKEMVQSGVQPN--EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR  565 (667)
Q Consensus       488 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  565 (667)
                      ....+...|++.+|.+.|+++....+...  ......++.++.+.|++++|...++..++.++..|... +.....+.+.
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~-~A~Y~~g~~~   89 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKAD-YALYMLGLSY   89 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHH-HHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchh-hHHHHHHHHH
Confidence            34456677888888888888877532211  23455667777888888888888888877665545432 1111111111


Q ss_pred             cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc-----------------hHHHHHHH
Q 005966          566 AGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG-----------------NYVLLSKL  628 (667)
Q Consensus       566 ~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----------------~~~~l~~~  628 (667)
                      ........                   ......+....|...++.++...|+++.                 .-..++..
T Consensus        90 ~~~~~~~~-------------------~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~  150 (203)
T PF13525_consen   90 YKQIPGIL-------------------RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNRLAEHELYIARF  150 (203)
T ss_dssp             HHHHHHHH--------------------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhCccch-------------------hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            11111110                   0112233445566666666666666443                 23457888


Q ss_pred             HhhcCCchHHHHHHHHhhhC
Q 005966          629 YSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       629 ~~~~g~~~~A~~~~~~~~~~  648 (667)
                      |.+.|.+..|...++.+.+.
T Consensus       151 Y~~~~~y~aA~~r~~~v~~~  170 (203)
T PF13525_consen  151 YYKRGKYKAAIIRFQYVIEN  170 (203)
T ss_dssp             HHCTT-HHHHHHHHHHHHHH
T ss_pred             HHHcccHHHHHHHHHHHHHH
Confidence            99999999999999998764

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.75  E-value=0.46  Score=43.82  Aligned_cols=222  Identities=18%  Similarity=0.145  Sum_probs=149.6

Q ss_pred             ChHHHHHHHHHHHHCCCC-CCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh-CCCCCchHHHHHHHHHHhcCCHHHHHHH
Q 005966          394 LARKAVELFRQMLVEVVE-PNDATLNSLLPAYAILADLQQAMNIHCYLIRY-GFLSVVEVSTGLIDIYSKCGSLESAHKI  471 (667)
Q Consensus       394 ~~~~A~~~~~~m~~~g~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~  471 (667)
                      ....+...+......... .....+......+...+.+..+...+...... ........+......+...+++..+.+.
T Consensus        38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  117 (291)
T COG0457          38 ELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALEL  117 (291)
T ss_pred             hHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHH
Confidence            344444444444433222 12455556666666777777777776666543 3344555666667777777888888888


Q ss_pred             HhhCCCCCCCc-chHHHHHH-HHHHcCChHHHHHHHHHHHHcCC--CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc
Q 005966          472 FSEIPIKDKDI-VVWSVIIA-GYGMHGHGETAVSLFKEMVQSGV--QPNEVTFTSALHACSHGGLLDEGLDLFNFMLENH  547 (667)
Q Consensus       472 ~~~~~~~~~~~-~~~~~l~~-~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~  547 (667)
                      +.......++. ........ .+...|+++.|...+.+......  ......+......+...++.+.+...+....+  
T Consensus       118 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~--  195 (291)
T COG0457         118 LEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKALK--  195 (291)
T ss_pred             HHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHh--
Confidence            88777654333 22333333 68889999999999999866321  11233444444556778899999999999987  


Q ss_pred             CCCC-chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          548 QTCS-RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       548 ~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ..+. ....+..+...+...+++++|...+... ...|+ ...+..+...+...+..+.+...+.+.....|.
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  268 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDPD  268 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCcc
Confidence            3333 4667888888899999999999998887 44554 455555666655777899999999999999887

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.69  E-value=0.0056  Score=58.16  Aligned_cols=65  Identities=12%  Similarity=0.002  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .+++.+..+|.+.+++..|++...++++++|.|+.+++.-+.+|...|+++.|+..|+++++..+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P  322 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEP  322 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCC
Confidence            46778888899999999999999999999999999999999999999999999999999987653

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.67  E-value=1  Score=46.82  Aligned_cols=79  Identities=16%  Similarity=0.198  Sum_probs=36.2

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      +.-+...|+..+|.++-.+..-  ||-..|-.-+.++...+++++-.++-+.+.      .+.-|.-...+|.+.|+.++
T Consensus       691 v~~li~~g~~k~a~ql~~~Fki--pdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n~~E  762 (829)
T KOG2280|consen  691 VTTLILIGQNKRAEQLKSDFKI--PDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGNKDE  762 (829)
T ss_pred             HHHHHHccchHHHHHHHHhcCC--cchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhcccHHH
Confidence            3334444555555555554444  555555555555555555544433322221      12334444445555555555


Q ss_pred             HHHHHHH
Q 005966          536 GLDLFNF  542 (667)
Q Consensus       536 A~~~~~~  542 (667)
                      |.+++-+
T Consensus       763 A~KYipr  769 (829)
T KOG2280|consen  763 AKKYIPR  769 (829)
T ss_pred             Hhhhhhc
Confidence            5554443

>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=96.64  E-value=0.0028  Score=46.48  Aligned_cols=60  Identities=20%  Similarity=0.214  Sum_probs=33.4

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhCC-----CC---CC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhcc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTMP-----LK---PT-HAVWGALLGACVIHGNVELGEVAAKWLFEL  614 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~---p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  614 (667)
                      +++.+...|...|++++|++.+++.-     ..   |+ ..++..+...+...|++++|++.+++++++
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~i   75 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALDI   75 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            34455555555555555555555440     11   11 235566666777777777777777776653

...

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.54  E-value=0.86  Score=44.30  Aligned_cols=142  Identities=17%  Similarity=0.239  Sum_probs=89.3

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH-HHHH
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTF-TSAL  524 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~ll  524 (667)
                      ..+|.++++...+..-++.|..+|.+..+.+   +++..+++++.-++. |+..-|..+|+--...  .||...| .-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            3456667777777777888888887776654   677778887776654 5667778888765553  3444433 3445


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHH
Q 005966          525 HACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLG  593 (667)
Q Consensus       525 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~  593 (667)
                      .-+.+.++-+.|..+|+...+.-....-..+|..+++--..-|++..+..+=+++ ..-|...+...+..
T Consensus       474 ~fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQen~~evF~S  543 (660)
T COG5107         474 LFLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQENLIEVFTS  543 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCcHhHHHHHHH
Confidence            5566777888888888866552111112456777777777778887777666665 23344433333333

>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=96.48  E-value=0.0091  Score=50.34  Aligned_cols=68  Identities=24%  Similarity=0.273  Sum_probs=54.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh-----hCCCccCC
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD-----EKGLRKAP  654 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~  654 (667)
                      .+..++..+...|+++.|....++++..+|-+...+..+..+|...|+..+|.+.++++.     +.|+.++|
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            556677778899999999999999999999999999999999999999999999999875     45665544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.40  E-value=0.02  Score=55.99  Aligned_cols=59  Identities=17%  Similarity=0.045  Sum_probs=29.8

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCch----hHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRA----DHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      ..++.+..+|...|++++|+..|++.++.   .|+.    ..|..+..+|...|+.++|++.++++
T Consensus        76 ~a~~NLG~AL~~lGryeEAIa~f~rALeL---~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         76 EDAVNLGLSLFSKGRVKDALAQFETALEL---NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555555555555555555555555441   1221    22455555555555555555555554

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.35  E-value=0.16  Score=46.58  Aligned_cols=116  Identities=12%  Similarity=0.082  Sum_probs=49.7

Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHH---HHHHHHhcCCHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGA---LLGACVIHGNVELG  604 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---l~~~~~~~g~~~~A  604 (667)
                      ...|++.+|..+|+.....  .+-+...-..++.+|...|+.+.|..++..++..-....+..   -+....+..+..+.
T Consensus       145 ~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         145 IEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            3445555555555555441  112233344455555555555555555555532221111111   11111222221111


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          605 EVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       605 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                       ..+++-...+|+|...-..|+..|...|+.++|.+.+=.+.
T Consensus       223 -~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l  263 (304)
T COG3118         223 -QDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALL  263 (304)
T ss_pred             -HHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             12233344555555555555555555555555555444433

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.29  E-value=0.52  Score=47.84  Aligned_cols=88  Identities=14%  Similarity=0.091  Sum_probs=61.0

Q ss_pred             CchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH----
Q 005966          551 SRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS----  626 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~----  626 (667)
                      .+.++...+..-+.+...+.-|-++|.+|+..      ..++......+++.+|..+.++.-+..|+   +|.-.+    
T Consensus       745 ~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~------ksiVqlHve~~~W~eAFalAe~hPe~~~d---Vy~pyaqwLA  815 (1081)
T KOG1538|consen  745 AEREPLLLCATYLKKLDSPGLAAEIFLKMGDL------KSLVQLHVETQRWDEAFALAEKHPEFKDD---VYMPYAQWLA  815 (1081)
T ss_pred             hhhhHHHHHHHHHhhccccchHHHHHHHhccH------HHHhhheeecccchHhHhhhhhCcccccc---ccchHHHHhh
Confidence            34455656666666777888899999998622      34666677889999999999888777776   443333    


Q ss_pred             ---------HHHhhcCCchHHHHHHHHhhh
Q 005966          627 ---------KLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       627 ---------~~~~~~g~~~~A~~~~~~~~~  647 (667)
                               .+|.+.|+-.||..+++++..
T Consensus       816 E~DrFeEAqkAfhkAGr~~EA~~vLeQLtn  845 (1081)
T KOG1538|consen  816 ENDRFEEAQKAFHKAGRQREAVQVLEQLTN  845 (1081)
T ss_pred             hhhhHHHHHHHHHHhcchHHHHHHHHHhhh
Confidence                     456666666666666666654

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.28  E-value=0.06  Score=51.13  Aligned_cols=95  Identities=8%  Similarity=-0.022  Sum_probs=47.9

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHH----hcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-------C-CCCCHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLE----NHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-------P-LKPTHA  586 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~-~~p~~~  586 (667)
                      .+..+..++.-.|+++.|.+.|+....    ............+|.+.|.-..++++|+.++.+-       . ..-...
T Consensus       237 A~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~R  316 (639)
T KOG1130|consen  237 AHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELR  316 (639)
T ss_pred             hhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHH
Confidence            455555556666666666665554322    1111112223334555555555666666655442       0 111233


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      .+.+|..++...|..++|..+.++.++
T Consensus       317 acwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  317 ACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            455566666666666666666665543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.21  E-value=0.037  Score=51.58  Aligned_cols=239  Identities=10%  Similarity=-0.030  Sum_probs=118.4

Q ss_pred             HHhCCChHHHHHHHHHHHHC--CCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHh--CCCCC---chHHHHHHHHHHh
Q 005966          389 CVHNGLARKAVELFRQMLVE--VVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRY--GFLSV---VEVSTGLIDIYSK  461 (667)
Q Consensus       389 ~~~~~~~~~A~~~~~~m~~~--g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~---~~~~~~l~~~~~~  461 (667)
                      +..+.+.++|+..+.+-...  .....-.++..+..+.+..|.++++...--..++.  ....+   -..|..+...+.+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            44567778888877766543  11122346666777777777777765543221111  01111   2233344444444


Q ss_pred             cCCHHHHHHHHhhCCCCC---CC---cchHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CC--CHHHHHHHHHHHhcc
Q 005966          462 CGSLESAHKIFSEIPIKD---KD---IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV---QP--NEVTFTSALHACSHG  530 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~---~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p--~~~~~~~ll~~~~~~  530 (667)
                      .-++.+++.+-+.-....   |.   .....++..++.-.+.++++++.|+...+.--   .|  ....+..|.+.|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            445555554443322221   10   12223344555555667777777776554211   11  113566666667777


Q ss_pred             CCHHHHHHHHHHhHH---hcCCCCchhHHH-----HHHHHHhhcCChHHHHHHHHhC-------CCCC-CHHHHHHHHHH
Q 005966          531 GLLDEGLDLFNFMLE---NHQTCSRADHYT-----CIVDLLGRAGRLDEAYDLIRTM-------PLKP-THAVWGALLGA  594 (667)
Q Consensus       531 g~~~~A~~~~~~~~~---~~~~~~~~~~~~-----~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~  594 (667)
                      .++++|.-+..++.+   ..++..-..-|.     .|..++...|++-+|.+..++.       +..| -...+..+...
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            777777666555433   122211111122     2334555666666666665554       1122 12234555666


Q ss_pred             HHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          595 CVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       595 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      |+..||.|.|..-|+++......   .-..++++..
T Consensus       256 yR~~gd~e~af~rYe~Am~~m~~---~gdrmgqv~a  288 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQAMGTMAS---LGDRMGQVEA  288 (518)
T ss_pred             HHhcccHhHHHHHHHHHHHHHhh---hhhhHHHHHH
Confidence            67777777777766666655433   3344444443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=96.08  E-value=0.02  Score=48.59  Aligned_cols=101  Identities=16%  Similarity=0.059  Sum_probs=55.6

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCch-----hHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHH
Q 005966          524 LHACSHGGLLDEGLDLFNFMLENHQTCSRA-----DHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTH-AVWGALLGACV  596 (667)
Q Consensus       524 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~  596 (667)
                      ..-+.+.|++++|..-|..+++  ..++..     ..|..-..++.+.+.++.|++-..+. .+.|+. ..+..-..+|.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale--~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALE--SCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYE  179 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHH--hCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHH
Confidence            3445666777777777777766  222221     23444445566666666666665554 344422 23333344555


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      +...++.|++-|+++++.+|....+....+
T Consensus       180 k~ek~eealeDyKki~E~dPs~~ear~~i~  209 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILESDPSRREAREAIA  209 (271)
T ss_pred             hhhhHHHHHHHHHHHHHhCcchHHHHHHHH
Confidence            666666777777777776666444433333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.05  E-value=0.18  Score=47.31  Aligned_cols=221  Identities=13%  Similarity=0.125  Sum_probs=119.2

Q ss_pred             HhcCCHHHHHHHHhccCCCC------cccHHHHHHHHHhCCChHHHHHHHHH-HHHC-CCCCCH---HHHHHHHHHHhCc
Q 005966          359 AKCNLVKLSFQVFARTSKKK------TVPWNAILAGCVHNGLARKAVELFRQ-MLVE-VVEPND---ATLNSLLPAYAIL  427 (667)
Q Consensus       359 ~~~g~~~~a~~~~~~~~~~~------~~~~~~li~~~~~~~~~~~A~~~~~~-m~~~-g~~p~~---~~~~~ll~~~~~~  427 (667)
                      ....+.++|+..+.+...+-      ..++..+..+.+..|.+++++..--. |.-. ......   ..|..+-.++.+.
T Consensus        17 y~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l   96 (518)
T KOG1941|consen   17 YQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKL   96 (518)
T ss_pred             hcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34566667766665543221      12255566677777777766543221 1110 011111   1233333333333


Q ss_pred             CCHHHHHHHHHHHHHh-CCCC---CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-----C--CcchHHHHHHHHHHcC
Q 005966          428 ADLQQAMNIHCYLIRY-GFLS---VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-----K--DIVVWSVIIAGYGMHG  496 (667)
Q Consensus       428 ~~~~~a~~~~~~~~~~-~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~--~~~~~~~l~~~~~~~~  496 (667)
                      -++.+++.+-..-... |..|   .-....++..++.-.+.++++.+.|+.....-     |  ...++-.|...|.+..
T Consensus        97 ~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   97 CEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            3333443333322211 1111   12334456677777778888888887653321     2  3457788888888889


Q ss_pred             ChHHHHHHHHHHHH----cCCCCCHHHH-----HHHHHHHhccCCHHHHHHHHHHhHHh---cCCCCc-hhHHHHHHHHH
Q 005966          497 HGETAVSLFKEMVQ----SGVQPNEVTF-----TSALHACSHGGLLDEGLDLFNFMLEN---HQTCSR-ADHYTCIVDLL  563 (667)
Q Consensus       497 ~~~~a~~~~~~m~~----~~~~p~~~~~-----~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~~-~~~~~~l~~~~  563 (667)
                      ++++|.-+..+..+    .++.--...|     ..+.-++...|..-+|.+.-++..+.   +|..+. ......+.+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            99998877766544    2322111122     22344566778888888777766552   233222 23455678888


Q ss_pred             hhcCChHHHHHHHHhC
Q 005966          564 GRAGRLDEAYDLIRTM  579 (667)
Q Consensus       564 ~~~g~~~~A~~~~~~~  579 (667)
                      ...|+.|.|+.-|+..
T Consensus       257 R~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQA  272 (518)
T ss_pred             HhcccHhHHHHHHHHH
Confidence            8889888888777663

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=96.02  E-value=2.1  Score=43.58  Aligned_cols=128  Identities=13%  Similarity=0.093  Sum_probs=90.4

Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcc-cHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHH
Q 005966           74 SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNY-TYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCL  152 (667)
Q Consensus        74 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  152 (667)
                      +...|+.+|.---...+.+.+..+++.++..   .|-.. -|......=.+.|..+.+..+|++.+.. ++.+...|...
T Consensus        44 ~f~~wt~li~~~~~~~~~~~~r~~y~~fL~k---yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y  119 (577)
T KOG1258|consen   44 DFDAWTTLIQENDSIEDVDALREVYDIFLSK---YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQA-IPLSVDLWLSY  119 (577)
T ss_pred             cccchHHHHhccCchhHHHHHHHHHHHHHhh---CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-hhhHHHHHHHH
Confidence            4457877776666666667777888888854   44433 3444444445778888999999888754 56777777777


Q ss_pred             HHHHHh-cCCHHHHHHHhcccCC------CChhhHHHHHHHHHHcCChhHHHHHHHHHHH
Q 005966          153 IAMYMN-FGEVKAARKVFDAMWE------HSVVSWNTLISGYFKNAYAKEALVVFDWMLK  205 (667)
Q Consensus       153 i~~~~~-~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~  205 (667)
                      +..+.. .|+.+...+.|+....      .+..-|...|.--..++++.....++++.++
T Consensus       120 ~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRile  179 (577)
T KOG1258|consen  120 LAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILE  179 (577)
T ss_pred             HHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHh
Confidence            665543 4777887777776533      2455788888877888889999999999887

>PRK11906 transcriptional regulator; Provisional

Probab=95.97  E-value=0.34  Score=47.80  Aligned_cols=146  Identities=13%  Similarity=0.012  Sum_probs=100.7

Q ss_pred             CHHHHHHHHhhCC---CCCCC-cchHHHHHHHHHHc---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005966          464 SLESAHKIFSEIP---IKDKD-IVVWSVIIAGYGMH---------GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG  530 (667)
Q Consensus       464 ~~~~A~~~~~~~~---~~~~~-~~~~~~l~~~~~~~---------~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  530 (667)
                      ..+.|..+|.+..   ...|+ ...|..+..++...         .+..+|.++-++..+.+ +-|......+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            3567888999888   54455 34555555554322         23566788888888876 45778888888877888


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHh-CCCCCCHH---HHHHHHHHHHhcCCHHHHHH
Q 005966          531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRT-MPLKPTHA---VWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~---~~~~l~~~~~~~g~~~~A~~  606 (667)
                      ++++.|...|++...  -.|.....|......+.-.|+.++|.+.+++ +...|...   .....+..|+.+ ..+.|+.
T Consensus       352 ~~~~~a~~~f~rA~~--L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~~-~~~~~~~  428 (458)
T PRK11906        352 GQAKVSHILFEQAKI--HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVPN-PLKNNIK  428 (458)
T ss_pred             cchhhHHHHHHHHhh--cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcCC-chhhhHH
Confidence            889999999999987  2333355676677777889999999999998 57777543   333334455554 4566777


Q ss_pred             HHHHhhc
Q 005966          607 AAKWLFE  613 (667)
Q Consensus       607 ~~~~~~~  613 (667)
                      ++-+-.+
T Consensus       429 ~~~~~~~  435 (458)
T PRK11906        429 LYYKETE  435 (458)
T ss_pred             HHhhccc
Confidence            6655433

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.94  E-value=0.5  Score=46.74  Aligned_cols=121  Identities=14%  Similarity=0.115  Sum_probs=78.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC--CCCCHH--HHHHHHHHH
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP--LKPTHA--VWGALLGAC  595 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~--~~~~l~~~~  595 (667)
                      -..+..++.+.|+.++|++.++++.+.........+...|+.++...+.+.++..++.+..  .-|...  .|+..+-..
T Consensus       262 KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLka  341 (539)
T PF04184_consen  262 KRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKA  341 (539)
T ss_pred             HHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHH
Confidence            3446667778899999999999998744333345567789999999999999999998874  124433  344444333


Q ss_pred             HhcCC---------------HHHHHHHHHHhhccCCCCCchHHHH------HHHHhhcCCchHHHHH
Q 005966          596 VIHGN---------------VELGEVAAKWLFELEPENPGNYVLL------SKLYSAVRRWKDAENV  641 (667)
Q Consensus       596 ~~~g~---------------~~~A~~~~~~~~~~~p~~~~~~~~l------~~~~~~~g~~~~A~~~  641 (667)
                      +..+|               ...|.+.+.++++.+|--|..+..+      -..+.+.|+ .||+.+
T Consensus       342 Rav~d~fs~e~a~rRGls~ae~~aveAi~RAvefNPHVp~YLLe~K~LilPPehilkrGD-SEAiaY  407 (539)
T PF04184_consen  342 RAVGDKFSPEAASRRGLSPAEMNAVEAIHRAVEFNPHVPKYLLEMKSLILPPEHILKRGD-SEAIAY  407 (539)
T ss_pred             HhhccccCchhhhhcCCChhHHHHHHHHHHHHHhCCCCchhhhccCCCCCChHHhcCCCc-HHHHHH
Confidence            43333               1346678889999888755433211      223445564 555554

The molecular function of this protein is uncertain.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=95.93  E-value=1.8  Score=42.19  Aligned_cols=130  Identities=17%  Similarity=0.159  Sum_probs=79.0

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchh-HHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSG-VQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRAD-HYTCIVD  561 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~~l~~  561 (667)
                      +|-..+..-.+..-.+.|..+|-+..+.| +.++...++.++.-++ .|+..-|..+|+.-..  .+ ||.. .-+-.+.
T Consensus       399 v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~--~f-~d~~~y~~kyl~  474 (660)
T COG5107         399 VFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLL--KF-PDSTLYKEKYLL  474 (660)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHH--hC-CCchHHHHHHHH
Confidence            45555555566666677777777777766 4455566666666443 4666677777766555  22 3322 2233455


Q ss_pred             HHhhcCChHHHHHHHHhC--CCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          562 LLGRAGRLDEAYDLIRTM--PLKPT--HAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+.+.++-+.|..+|++.  ++..+  ..+|..++..-..-|+...+..+-++..+.-|.
T Consensus       475 fLi~inde~naraLFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~~pQ  534 (660)
T COG5107         475 FLIRINDEENARALFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRELVPQ  534 (660)
T ss_pred             HHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHHcCc
Confidence            566677777777777754  12222  346666666666777777777777777777766

>PRK15331 chaperone protein SicA; Provisional

Probab=95.93  E-value=0.15  Score=42.49  Aligned_cols=20  Identities=5%  Similarity=-0.159  Sum_probs=8.5

Q ss_pred             HHHHhhcCChHHHHHHHHhC
Q 005966          560 VDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       560 ~~~~~~~g~~~~A~~~~~~~  579 (667)
                      ..+|...|+.+.|...|+..
T Consensus       112 gqC~l~l~~~~~A~~~f~~a  131 (165)
T PRK15331        112 GQCQLLMRKAAKARQCFELV  131 (165)
T ss_pred             HHHHHHhCCHHHHHHHHHHH
Confidence            34444444444444444433

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.92  E-value=0.019  Score=33.71  Aligned_cols=32  Identities=31%  Similarity=0.276  Sum_probs=20.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPEN  618 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~  618 (667)
                      .|..+...+...|++++|++.++++++++|+|
T Consensus         3 ~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~~   34 (34)
T PF07719_consen    3 AWYYLGQAYYQLGNYEEAIEYFEKALELDPNN   34 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTTS
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHCcCC
Confidence            45556666667777777777777777766653

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 ....

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.92  E-value=0.077  Score=49.04  Aligned_cols=160  Identities=12%  Similarity=-0.032  Sum_probs=116.5

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchh----HHHHHHHHHhhcCC
Q 005966          493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRAD----HYTCIVDLLGRAGR  568 (667)
Q Consensus       493 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~  568 (667)
                      .-.|+..+|...++++++. .+.|...+...-.+|...|+.+.-...++++...  -.++..    ....+..++..+|-
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~--wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK--WNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc--cCCCCcHHHHHHHHHHhhHHHhcc
Confidence            4578888999999999986 4567788888889999999999999999988763  234433    33345566778999


Q ss_pred             hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC----CCchHHHHHHHHhhcCCchHHHHHH
Q 005966          569 LDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE----NPGNYVLLSKLYSAVRRWKDAENVR  642 (667)
Q Consensus       569 ~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~  642 (667)
                      +++|.+.-++. ++.| |.-...+..-.....|+..++.+++++--..=.+    -..-|-+.+-.+.+.+.++.|+++|
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999999887 4444 5555566666677889999999988775332211    1223556777788889999999999


Q ss_pred             HHhhhCCCccCCC
Q 005966          643 DVMDEKGLRKAPA  655 (667)
Q Consensus       643 ~~~~~~~~~~~~~  655 (667)
                      ++=.-+...++.+
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            9854444455555

>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=95.92  E-value=0.5  Score=37.46  Aligned_cols=141  Identities=16%  Similarity=0.139  Sum_probs=82.8

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH
Q 005966          492 YGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       492 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  571 (667)
                      +.-.|..++..++..+.....   +..-++-++--....-+-+-..++++.+-+-    -|          ...+|++..
T Consensus        12 ~ildG~V~qGveii~k~v~Ss---ni~E~NWvICNiiDaa~C~yvv~~LdsIGki----FD----------is~C~NlKr   74 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNSS---NIKEYNWVICNIIDAADCDYVVETLDSIGKI----FD----------ISKCGNLKR   74 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHHS----HHHHTHHHHHHHHH--HHHHHHHHHHHGGG----S-----------GGG-S-THH
T ss_pred             HHHhchHHHHHHHHHHHcCcC---CccccceeeeecchhhchhHHHHHHHHHhhh----cC----------chhhcchHH
Confidence            445678888888888877642   3333333333222223333444444444331    12          124555555


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      ....+-.+..  +.......+.....+|..+.-.+++..+.+.+..+|..+.-++.+|.+.|+..+|.+++.++=++|++
T Consensus        75 Vi~C~~~~n~--~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   75 VIECYAKRNK--LSEYVDLALDILVKQGKKDQLDKIYNELKKNEEINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             HHHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH-----S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             HHHHHHHhcc--hHHHHHHHHHHHHHhccHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            5555555432  34455666777889999999999999888655556889999999999999999999999999998875

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.92  E-value=0.35  Score=49.59  Aligned_cols=115  Identities=17%  Similarity=0.078  Sum_probs=67.7

Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCchhHHHH-HHHHHhhcCChHHHHHHHHhCC-----C-CCCHHHHHHHHHHHHhcCCHH
Q 005966          530 GGLLDEGLDLFNFMLENHQTCSRADHYTC-IVDLLGRAGRLDEAYDLIRTMP-----L-KPTHAVWGALLGACVIHGNVE  602 (667)
Q Consensus       530 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~g~~~~A~~~~~~~~-----~-~p~~~~~~~l~~~~~~~g~~~  602 (667)
                      ....+.|.++++.+.+.+   |+...|.. -...+...|++++|++.|++.-     . +-....+..+++.+...++++
T Consensus       246 ~~~~~~a~~lL~~~~~~y---P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~  322 (468)
T PF10300_consen  246 DVPLEEAEELLEEMLKRY---PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWE  322 (468)
T ss_pred             CCCHHHHHHHHHHHHHhC---CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHH
Confidence            345566666666666522   44444433 2344556677777777776541     1 112334556666677777787


Q ss_pred             HHHHHHHHhhccCCCCCch-HHHHHHHHhhcCCc-------hHHHHHHHHhhh
Q 005966          603 LGEVAAKWLFELEPENPGN-YVLLSKLYSAVRRW-------KDAENVRDVMDE  647 (667)
Q Consensus       603 ~A~~~~~~~~~~~p~~~~~-~~~l~~~~~~~g~~-------~~A~~~~~~~~~  647 (667)
                      +|...+.++.+...-.... ++..+-+|...|+.       ++|.++|+++..
T Consensus       323 ~A~~~f~~L~~~s~WSka~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  323 EAAEYFLRLLKESKWSKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            7777777777755443333 33445566677777       777777777654

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.

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.86  E-value=0.054  Score=49.09  Aligned_cols=101  Identities=15%  Similarity=0.161  Sum_probs=58.3

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC-CchhHHHHHHHHHhhcCChHHHHHHHHhC----CCCC-CHHHHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTC-SRADHYTCIVDLLGRAGRLDEAYDLIRTM----PLKP-THAVWGALL  592 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p-~~~~~~~l~  592 (667)
                      .|+.-+. +.+.|++..|...|...++.+.-. -....+-.|+.++...|++++|..+|..+    +..| -+..+..+.
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            4555554 445566777777777777632111 01122444666666777777776666655    2222 334555666


Q ss_pred             HHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          593 GACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       593 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      ....+.|+.++|..+++++.+..|+.+.
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~YP~t~a  250 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKRYPGTDA  250 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHCCCCHH
Confidence            6666666666666666666666666443

>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=95.86  E-value=0.12  Score=41.66  Aligned_cols=96  Identities=15%  Similarity=0.168  Sum_probs=57.7

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACS  528 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  528 (667)
                      ..++..++.++++.|+++....+++..-....+...         ..+.         --....+.|+..++.+++.+|+
T Consensus         2 e~~~~~ii~al~r~g~~~~i~~~i~~~WgI~~~~~~---------~~~~---------~~~~spl~Pt~~lL~AIv~sf~   63 (126)
T PF12921_consen    2 EELLCNIIYALGRSGQLDSIKSYIKSVWGIDVNGKK---------KEGD---------YPPSSPLYPTSRLLIAIVHSFG   63 (126)
T ss_pred             hHHHHHHHHHHhhcCCHHHHHHHHHHhcCCCCCCcc---------ccCc---------cCCCCCCCCCHHHHHHHHHHHH
Confidence            345666677777777777776666655432211000         0000         1112335677777777777777


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHH
Q 005966          529 HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDL  562 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  562 (667)
                      ..|++..|.++.+...+.++++.+...|..|+.-
T Consensus        64 ~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   64 YNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             hcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            7777777777777777777766666667666653

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=95.84  E-value=1.7  Score=41.17  Aligned_cols=100  Identities=16%  Similarity=0.068  Sum_probs=49.1

Q ss_pred             HHHHHHHHHhCcCCHHH---HHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHH
Q 005966          416 TLNSLLPAYAILADLQQ---AMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAG  491 (667)
Q Consensus       416 ~~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~  491 (667)
                      ++..++.++...+..+.   |..+++.+.. .++..+.++..-+..+.+.++.+.+.+.+.+|...-+ ....+..++..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~-e~~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~~~~e~~~~~~l~~  164 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLES-EYGNKPEVFLLKLEILLKSFDEEEYEEILMRMIRSVDHSESNFDSILHH  164 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHH-hCCCCcHHHHHHHHHHhccCChhHHHHHHHHHHHhcccccchHHHHHHH
Confidence            45566666666665443   3334444432 2233344444455566666677777777766655422 23344444444


Q ss_pred             HH--HcCChHHHHHHHHHHHHcCCCCC
Q 005966          492 YG--MHGHGETAVSLFKEMVQSGVQPN  516 (667)
Q Consensus       492 ~~--~~~~~~~a~~~~~~m~~~~~~p~  516 (667)
                      +.  .......|...+..+....+.|.
T Consensus       165 i~~l~~~~~~~a~~~ld~~l~~r~~~~  191 (278)
T PF08631_consen  165 IKQLAEKSPELAAFCLDYLLLNRFKSS  191 (278)
T ss_pred             HHHHHhhCcHHHHHHHHHHHHHHhCCC
Confidence            31  11223445555555554434443

It is also involved in sporulation [].

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.79  E-value=3.3  Score=43.97  Aligned_cols=54  Identities=9%  Similarity=0.167  Sum_probs=38.3

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 005966          454 GLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMV  509 (667)
Q Consensus       454 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  509 (667)
                      -++..+.+..+.+.+..+.+...+  -++..|..++..+.+.+..+...++..+.+
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~--~~p~l~~~~L~yF~~~~~i~~~~~~v~~vl  763 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGK--EDPSLWLHALKYFVSEESIEDCYEIVYKVL  763 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCc--cChHHHHHHHHHHhhhcchhhHHHHHHHHH
Confidence            355667777788888888877766  467788888888888886666555554444

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=95.78  E-value=0.063  Score=45.17  Aligned_cols=72  Identities=14%  Similarity=0.192  Sum_probs=55.4

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHH-----HhCCCCchHHHH
Q 005966           77 LYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVL-----ITGFDMDTFVGN  150 (667)
Q Consensus        77 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  150 (667)
                      +...++..+...|++++|+...+.+...  .|.+...|..++.++...|+..+|.++|+.+.     +.|+.|+..+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~--dP~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALAL--DPYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHH--STT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            4556777888899999999999999987  67788899999999999999999999998875     458888877644

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.77  E-value=0.5  Score=39.33  Aligned_cols=42  Identities=7%  Similarity=0.093  Sum_probs=18.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH  529 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  529 (667)
                      .++..+...+.......+++.+...+ ..+....+.++..|++
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~   53 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAK   53 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHH
Confidence            34444444444444444444444443 1233344444444443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=95.76  E-value=0.018  Score=33.91  Aligned_cols=32  Identities=22%  Similarity=0.203  Sum_probs=22.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+|..++..+...|++++|+..++++++++|+
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            35666777777777777777777777777775

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 ....

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=95.75  E-value=0.97  Score=41.66  Aligned_cols=151  Identities=17%  Similarity=0.057  Sum_probs=105.7

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCCh
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL  569 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  569 (667)
                      ......|+..+|..+|+....... -+...-..+..+|...|+.+.|..++..+-.+.. .........-+..+.+....
T Consensus       142 ~~~~~~e~~~~a~~~~~~al~~~~-~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~-~~~~~~l~a~i~ll~qaa~~  219 (304)
T COG3118         142 KELIEAEDFGEAAPLLKQALQAAP-ENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQ-DKAAHGLQAQIELLEQAAAT  219 (304)
T ss_pred             hhhhhccchhhHHHHHHHHHHhCc-ccchHHHHHHHHHHHcCChHHHHHHHHhCcccch-hhHHHHHHHHHHHHHHHhcC
Confidence            345678889999999998888642 2445667788889999999999999988754211 11222223345566666666


Q ss_pred             HHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC--CCCCchHHHHHHHHhhcCCchHHHHHH
Q 005966          570 DEAYDLIRTMPLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELE--PENPGNYVLLSKLYSAVRRWKDAENVR  642 (667)
Q Consensus       570 ~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~  642 (667)
                      .+...+-++....| |...-..+...+...|+.+.|.+.+-.+++.+  -.|..+-..+..++...|.-+.+...+
T Consensus       220 ~~~~~l~~~~aadPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~~~  295 (304)
T COG3118         220 PEIQDLQRRLAADPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVLAY  295 (304)
T ss_pred             CCHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHHHH
Confidence            66666666665556 67777888888999999999998888777654  446778888888888888554444433

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.70  E-value=0.31  Score=45.29  Aligned_cols=160  Identities=9%  Similarity=-0.017  Sum_probs=112.6

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH----HHHHHhccCCH
Q 005966          459 YSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTS----ALHACSHGGLL  533 (667)
Q Consensus       459 ~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~----ll~~~~~~g~~  533 (667)
                      ..-.|+..+|...++++.+..| |..+++..-.++.-.|+.+.-...++++.-. ..||...|..    +.-++...|-+
T Consensus       113 ~~~~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  113 LWGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIY  191 (491)
T ss_pred             hhccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccc
Confidence            3456788888888888887765 6788888889999999999999999998764 3456544433    33345678999


Q ss_pred             HHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCC------HHHHHHHHHHHHhcCCHHHHHHH
Q 005966          534 DEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPT------HAVWGALLGACVIHGNVELGEVA  607 (667)
Q Consensus       534 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~------~~~~~~l~~~~~~~g~~~~A~~~  607 (667)
                      ++|++.-++..+  -.+.|.=..-++...+.-.|++.++.+++.+-...-+      ..-|-...-.+...+.++.|+++
T Consensus       192 ~dAEk~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  192 DDAEKQADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             hhHHHHHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            999999998877  2233443344567778889999999999888642111      11233344445667899999999


Q ss_pred             HHHhh--ccCCCCCch
Q 005966          608 AKWLF--ELEPENPGN  621 (667)
Q Consensus       608 ~~~~~--~~~p~~~~~  621 (667)
                      |.+-+  ++..+|..+
T Consensus       270 yD~ei~k~l~k~Da~a  285 (491)
T KOG2610|consen  270 YDREIWKRLEKDDAVA  285 (491)
T ss_pred             HHHHHHHHhhccchhh
Confidence            98543  455555533

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.69  E-value=0.12  Score=46.90  Aligned_cols=85  Identities=16%  Similarity=0.201  Sum_probs=36.7

Q ss_pred             cCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCch-hHHHHHHHHHhhcCChHH
Q 005966          495 HGHGETAVSLFKEMVQSGVQP--NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRA-DHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       495 ~~~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~  571 (667)
                      .|++..|...|...++..+.-  ....+--|..++...|++++|..+|..+.+.++..|.. +.+.-|..+..+.|+.++
T Consensus       154 sgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~  233 (262)
T COG1729         154 SGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDE  233 (262)
T ss_pred             cCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHH
Confidence            344555555555544432110  01123334444445555555555555444433333322 334444444445555555


Q ss_pred             HHHHHHhC
Q 005966          572 AYDLIRTM  579 (667)
Q Consensus       572 A~~~~~~~  579 (667)
                      |-..++++
T Consensus       234 A~atl~qv  241 (262)
T COG1729         234 ACATLQQV  241 (262)
T ss_pred             HHHHHHHH
Confidence            55444444

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=95.67  E-value=1.6  Score=42.48  Aligned_cols=91  Identities=13%  Similarity=-0.041  Sum_probs=41.2

Q ss_pred             HHHhCCChHHHHHHHHHHHHCC---CCCCHHHHHHHHHHHhC---cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          388 GCVHNGLARKAVELFRQMLVEV---VEPNDATLNSLLPAYAI---LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       388 ~~~~~~~~~~A~~~~~~m~~~g---~~p~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      +|....+++..+++++.|....   +.-....-.....++.+   .|+.++|.+++..+....-.+++.++..+...|-.
T Consensus       150 SyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~gL~GRIyKD  229 (374)
T PF13281_consen  150 SYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTLGLLGRIYKD  229 (374)
T ss_pred             HhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHHHHHHHHHHH
Confidence            4555555566666665555321   00011111122223333   55666666666554444445555555555544421


Q ss_pred             ---------cCCHHHHHHHHhhCCCC
Q 005966          462 ---------CGSLESAHKIFSEIPIK  478 (667)
Q Consensus       462 ---------~g~~~~A~~~~~~~~~~  478 (667)
                               ....++|...|.+.-+.
T Consensus       230 ~~~~s~~~d~~~ldkAi~~Y~kgFe~  255 (374)
T PF13281_consen  230 LFLESNFTDRESLDKAIEWYRKGFEI  255 (374)
T ss_pred             HHHHcCccchHHHHHHHHHHHHHHcC
Confidence                     11245555555554443

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=95.66  E-value=0.76  Score=41.96  Aligned_cols=60  Identities=12%  Similarity=0.028  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      ++......|..+|.+.+|.++.++++.++|-+...+..|..+|...|+--+|.+.++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            445556778999999999999999999999999999999999999999999999998875

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.66  E-value=3  Score=42.55  Aligned_cols=182  Identities=12%  Similarity=0.090  Sum_probs=98.0

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC  527 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  527 (667)
                      ...+...++.-.+.|+.+.+.-+|++...-- .-...|--.+.-....|+.+-|..++.+..+--++-.+.+-..-..-+
T Consensus       297 l~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~  376 (577)
T KOG1258|consen  297 LKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFE  376 (577)
T ss_pred             HHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHH
Confidence            3445555555666667776666666654411 112344444444445577777776666665543222222221112223


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCch-hHHHHHHHHHhhcCChHHHH---HHHHhC-CCCCCHHHH----HHHHHH-HHh
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRA-DHYTCIVDLLGRAGRLDEAY---DLIRTM-PLKPTHAVW----GALLGA-CVI  597 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~---~~~~~~-~~~p~~~~~----~~l~~~-~~~  597 (667)
                      ...|+++.|..+++.+...  . |+. ..-.--+....+.|..+.+.   +++... ..+-+..+.    ....+. +.-
T Consensus       377 e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i  453 (577)
T KOG1258|consen  377 ESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKI  453 (577)
T ss_pred             HhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHH
Confidence            4557788888888777763  2 432 22223345556677777776   444433 111122222    122222 334


Q ss_pred             cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          598 HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      .++.+.|..++.++.+..|++...|..+.......+
T Consensus       454 ~~d~~~a~~~l~~~~~~~~~~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  454 REDADLARIILLEANDILPDCKVLYLELIRFELIQP  489 (577)
T ss_pred             hcCHHHHHHHHHHhhhcCCccHHHHHHHHHHHHhCC
Confidence            577788888888888888887777777776665544

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.53  E-value=1.1  Score=39.99  Aligned_cols=23  Identities=9%  Similarity=0.040  Sum_probs=10.6

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQ  404 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~  404 (667)
                      |..-..+|...+++++|...+.+
T Consensus        34 yekAAvafRnAk~feKakdcLlk   56 (308)
T KOG1585|consen   34 YEKAAVAFRNAKKFEKAKDCLLK   56 (308)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHH
Confidence            33444444444555555444443

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.51  E-value=4.2  Score=43.23  Aligned_cols=54  Identities=11%  Similarity=0.089  Sum_probs=40.4

Q ss_pred             HHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          559 IVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       559 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      ++..++...+++.+..+.+..+.. ++..|..++..+.+.+..+.-.+...++++
T Consensus       711 l~~~~~q~~d~E~~it~~~~~g~~-~p~l~~~~L~yF~~~~~i~~~~~~v~~vl~  764 (933)
T KOG2114|consen  711 LMLYFQQISDPETVITLCERLGKE-DPSLWLHALKYFVSEESIEDCYEIVYKVLE  764 (933)
T ss_pred             HHHHHHHhhChHHHHHHHHHhCcc-ChHHHHHHHHHHhhhcchhhHHHHHHHHHH
Confidence            556677788888888888887644 788888899988888877666666655543

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.48  E-value=0.98  Score=37.56  Aligned_cols=126  Identities=13%  Similarity=0.230  Sum_probs=84.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005966          452 STGLIDIYSKCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG  530 (667)
Q Consensus       452 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  530 (667)
                      ...++..+...+.......+++.+...+ .+....+.++..|++.+ ..+.++.++.      .++......+++.|.+.
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~~~   82 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKLNSENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCEKA   82 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHccCccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHHHc
Confidence            3467788888889999999999887765 45668889999998764 3444445442      12334455577778888


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc-CChHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 005966          531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA-GRLDEAYDLIRTMPLKPTHAVWGALLGACVI  597 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  597 (667)
                      +.++++..++.++..          +...+..+... ++++.|.+++.+.   .++..|..++..+..
T Consensus        83 ~l~~~~~~l~~k~~~----------~~~Al~~~l~~~~d~~~a~~~~~~~---~~~~lw~~~~~~~l~  137 (140)
T smart00299       83 KLYEEAVELYKKDGN----------FKDAIVTLIEHLGNYEKAIEYFVKQ---NNPELWAEVLKALLD  137 (140)
T ss_pred             CcHHHHHHHHHhhcC----------HHHHHHHHHHcccCHHHHHHHHHhC---CCHHHHHHHHHHHHc
Confidence            888888888777633          33334444444 7788888877763   256677777666553

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.46  E-value=0.12  Score=40.70  Aligned_cols=90  Identities=23%  Similarity=0.188  Sum_probs=59.6

Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC-CC-CH---HHHHHHHHHHHhcC
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL-KP-TH---AVWGALLGACVIHG  599 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p-~~---~~~~~l~~~~~~~g  599 (667)
                      +.+..|+.+.|++.|.+.+.  ..|.....||.-..++.-+|+.++|++-+++. .. .| ..   ..+..-...|+..|
T Consensus        52 alaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            35667778888888877776  44455666777777777788888887777665 11 11 11   13444445577788


Q ss_pred             CHHHHHHHHHHhhccCCC
Q 005966          600 NVELGEVAAKWLFELEPE  617 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~p~  617 (667)
                      +.+.|..-|+.+-+++..
T Consensus       130 ~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGSK  147 (175)
T ss_pred             chHHHHHhHHHHHHhCCH
Confidence            888888888877666544

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.28  E-value=0.59  Score=38.12  Aligned_cols=116  Identities=12%  Similarity=0.008  Sum_probs=71.7

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCC--CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSGVQP--NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA  566 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  566 (667)
                      .....+.|++++|.+.|+.+...-..+  ....-..++.+|.+.+++++|...+++.++.+...|++. |.....+++.-
T Consensus        17 a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vd-Ya~Y~~gL~~~   95 (142)
T PF13512_consen   17 AQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVD-YAYYMRGLSYY   95 (142)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCcc-HHHHHHHHHHH
Confidence            344556788888888888887752211  224566677788888888888888888888766666654 44444444433


Q ss_pred             CChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          567 GRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       567 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      ...+..+.-+-  ..+             +..+....|...|+++++.-|+++.
T Consensus        96 ~~~~~~~~~~~--~~d-------------rD~~~~~~A~~~f~~lv~~yP~S~y  134 (142)
T PF13512_consen   96 EQDEGSLQSFF--RSD-------------RDPTPARQAFRDFEQLVRRYPNSEY  134 (142)
T ss_pred             HHhhhHHhhhc--ccc-------------cCcHHHHHHHHHHHHHHHHCcCChh
Confidence            33222222111  111             1223456888899999999998643

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=95.23  E-value=5.4  Score=42.88  Aligned_cols=49  Identities=20%  Similarity=0.315  Sum_probs=29.3

Q ss_pred             cCCHHHHHHHHHHhhccC---CCCCc-hH-----HHHHHHHhhcCCchHHHHHHHHhh
Q 005966          598 HGNVELGEVAAKWLFELE---PENPG-NY-----VLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~---p~~~~-~~-----~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      .|+..+.......+..+.   |+... .|     ..+.+.|...|+.++|....++..
T Consensus       547 ~~~~~e~~~~s~~a~~~A~k~~d~~~~LW~~v~~~~l~~~~~~~G~~~ka~~~~~~~~  604 (608)
T PF10345_consen  547 EGDVGEQAKKSARAFQLAKKSSDYSDQLWHLVASGMLADSYEVQGDRDKAEEARQQLD  604 (608)
T ss_pred             cCCHHHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHcCcHHHHHHHHHHHH
Confidence            677766666555554432   33222 22     144556778888888888877654

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=95.18  E-value=0.89  Score=39.60  Aligned_cols=178  Identities=15%  Similarity=0.109  Sum_probs=88.7

Q ss_pred             CCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 005966          463 GSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       463 g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~  541 (667)
                      |-+.-|.--|.......|+ +..||-+.--+...|+++.|.+.|+...+.+..-+-...|.-+ ++.-.|+++-|.+-+.
T Consensus        79 GL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi-~~YY~gR~~LAq~d~~  157 (297)
T COG4785          79 GLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGI-ALYYGGRYKLAQDDLL  157 (297)
T ss_pred             hHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccce-eeeecCchHhhHHHHH
Confidence            3333344444444444454 3567777777777888888888888777754332222222222 2344577777777666


Q ss_pred             HhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHH-HhCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHhhccCCCC-
Q 005966          542 FMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLI-RTMPLKPTHAVWGALLGA-CVIHGNVELGEVAAKWLFELEPEN-  618 (667)
Q Consensus       542 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~-~~~~g~~~~A~~~~~~~~~~~p~~-  618 (667)
                      ..-......|-...|--++   ...-++.+|..-+ ++.. .-|..-|...+-. |..+=..   +..++++..-..++ 
T Consensus       158 ~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~-~~d~e~WG~~iV~~yLgkiS~---e~l~~~~~a~a~~n~  230 (297)
T COG4785         158 AFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAE-KSDKEQWGWNIVEFYLGKISE---ETLMERLKADATDNT  230 (297)
T ss_pred             HHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHH-hccHhhhhHHHHHHHHhhccH---HHHHHHHHhhccchH
Confidence            6555333333333332222   2334555665433 3332 2233333332222 2211111   12223332222222 


Q ss_pred             ------CchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          619 ------PGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       619 ------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                            ..+|+.|++.|...|+.++|..+|+-....
T Consensus       231 ~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaian  266 (297)
T COG4785         231 SLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVAN  266 (297)
T ss_pred             HHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHH
Confidence                  346777888888888888888888765543

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=95.10  E-value=4  Score=40.69  Aligned_cols=178  Identities=9%  Similarity=0.038  Sum_probs=101.0

Q ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005966          447 SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHA  526 (667)
Q Consensus       447 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  526 (667)
                      .+....-+++..++..-+..-.+.+..+|..-+.+-..|..++.+|... ..++-..+|+++.+..+. |.+.-..|..-
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~~  141 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYGESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELADK  141 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHHH
Confidence            3444455566666666666666666666666555666677777777766 446666777777765432 33333444444


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCC---c---hhHHHHHHHHHhhcCChHHHHHHHHhCC----CCCCHHHHHHHHHHHH
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCS---R---ADHYTCIVDLLGRAGRLDEAYDLIRTMP----LKPTHAVWGALLGACV  596 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~---~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~l~~~~~  596 (667)
                      |.+ ++.+.+..+|.++... -+ |   +   .+.|.-+...-  ..+.+..+.+..+.+    ..--...+..+-.-|.
T Consensus       142 yEk-ik~sk~a~~f~Ka~yr-fI-~~~q~~~i~evWeKL~~~i--~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys  216 (711)
T COG1747         142 YEK-IKKSKAAEFFGKALYR-FI-PRRQNAAIKEVWEKLPELI--GDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYS  216 (711)
T ss_pred             HHH-hchhhHHHHHHHHHHH-hc-chhhhhhHHHHHHHHHHhc--cccHHHHHHHHHHHHHhhccchHHHHHHHHHHHhc
Confidence            444 6667777777766652 11 2   1   11333333211  344555555555542    2223334445555666


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ...++.+|++++..+++.+..|..+...++.-+..
T Consensus       217 ~~eN~~eai~Ilk~il~~d~k~~~ar~~~i~~lRd  251 (711)
T COG1747         217 ENENWTEAIRILKHILEHDEKDVWARKEIIENLRD  251 (711)
T ss_pred             cccCHHHHHHHHHHHhhhcchhhhHHHHHHHHHHH
Confidence            77778888888887777777766666666555443

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=94.90  E-value=2.4  Score=37.08  Aligned_cols=130  Identities=18%  Similarity=0.079  Sum_probs=78.2

Q ss_pred             hHhhhcCChhhHHHhhcccC--CC-CcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchH
Q 005966           52 SLVRAYGHVSNVRILFDEMS--ER-SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRK  128 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~  128 (667)
                      .+|...|-..-|+--|+...  .| -+.+||-|.--+...|+++.|.+.|+...+.  .+....+.....-++--.|+++
T Consensus        73 vlYDSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~EL--Dp~y~Ya~lNRgi~~YY~gR~~  150 (297)
T COG4785          73 VLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRYK  150 (297)
T ss_pred             chhhhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhcc--CCcchHHHhccceeeeecCchH
Confidence            66777777777777777642  33 3567888888888899999999999998876  3334444444444445678888


Q ss_pred             HHHHHHHHHHHhCCCCchHHHHHHHHHHHhc--CCHHHHHH-HhcccCCCChhhHHHHHHHH
Q 005966          129 LGIALHGRVLITGFDMDTFVGNCLIAMYMNF--GEVKAARK-VFDAMWEHSVVSWNTLISGY  187 (667)
Q Consensus       129 ~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~--g~~~~A~~-~~~~~~~~~~~~~~~li~~~  187 (667)
                      .|.+-+...-... +.|++-   .+..|...  -++.+|.. +.++....|..-|...|-.|
T Consensus       151 LAq~d~~~fYQ~D-~~DPfR---~LWLYl~E~k~dP~~A~tnL~qR~~~~d~e~WG~~iV~~  208 (297)
T COG4785         151 LAQDDLLAFYQDD-PNDPFR---SLWLYLNEQKLDPKQAKTNLKQRAEKSDKEQWGWNIVEF  208 (297)
T ss_pred             hhHHHHHHHHhcC-CCChHH---HHHHHHHHhhCCHHHHHHHHHHHHHhccHhhhhHHHHHH
Confidence            8887776666655 333321   12233332  34455543 33344444545555544443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=94.89  E-value=0.044  Score=50.68  Aligned_cols=95  Identities=13%  Similarity=0.026  Sum_probs=67.8

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC-CC-CCHHHHHHHHHHHHhcCCH
Q 005966          524 LHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP-LK-PTHAVWGALLGACVIHGNV  601 (667)
Q Consensus       524 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~-p~~~~~~~l~~~~~~~g~~  601 (667)
                      .+-|.++|.+++|+..|...+.  ..+-+..++..-..+|.+..++..|..-....- +. --...|..-+.+-...|+.
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~~  181 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGNN  181 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhhH
Confidence            4568889999999999988876  333377778888888999888888877666542 11 1112344444555566888


Q ss_pred             HHHHHHHHHhhccCCCCCc
Q 005966          602 ELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       602 ~~A~~~~~~~~~~~p~~~~  620 (667)
                      ++|.+-++.++++.|.+..
T Consensus       182 ~EAKkD~E~vL~LEP~~~E  200 (536)
T KOG4648|consen  182 MEAKKDCETVLALEPKNIE  200 (536)
T ss_pred             HHHHHhHHHHHhhCcccHH
Confidence            8999999999999998443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=94.86  E-value=4.4  Score=42.77  Aligned_cols=251  Identities=14%  Similarity=0.085  Sum_probs=143.4

Q ss_pred             HHhCCChHHHHHHHHHHHH-------CCCCCCHHHHHHHHHHHhCc----C-CHHHHHHHHHHHHHhCCCCCchHHHHHH
Q 005966          389 CVHNGLARKAVELFRQMLV-------EVVEPNDATLNSLLPAYAIL----A-DLQQAMNIHCYLIRYGFLSVVEVSTGLI  456 (667)
Q Consensus       389 ~~~~~~~~~A~~~~~~m~~-------~g~~p~~~~~~~ll~~~~~~----~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~  456 (667)
                      +....+.+.|+.+|+...+       .|   .......+-.+|.+.    . +.+.|..++....+.|. |+....-..+
T Consensus       259 ~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  259 YGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELGN-PDAQYLLGVL  334 (552)
T ss_pred             ccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcCC-chHHHHHHHH
Confidence            3345667777777777655       44   222334444445443    2 56677777777777763 3333322222


Q ss_pred             HHHHh-cCCHHHHHHHHhhCCCCCCCcchHH-HHHHHH--HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC
Q 005966          457 DIYSK-CGSLESAHKIFSEIPIKDKDIVVWS-VIIAGY--GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGL  532 (667)
Q Consensus       457 ~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~-~l~~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~  532 (667)
                      ..... ..+...|.++|......+-....|. +++...  ....+...|..++.+..+.| .|...--...+..+.. ++
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~  412 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GR  412 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-cc
Confidence            22222 2456788888888776652222222 221111  13347888999999998887 4443333333444444 77


Q ss_pred             HHHHHHHHHHhHHhcCCCCchhHHHHHHHHH---h--h--cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc----CCH
Q 005966          533 LDEGLDLFNFMLENHQTCSRADHYTCIVDLL---G--R--AGRLDEAYDLIRTMPLKPTHAVWGALLGACVIH----GNV  601 (667)
Q Consensus       533 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~---~--~--~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~----g~~  601 (667)
                      ++.+.-.+..+.+ .+.......-..+....   .  .  ..+.+.+...+.+...+-+......+...|..-    .+.
T Consensus       413 ~~~~~~~~~~~a~-~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~  491 (552)
T KOG1550|consen  413 YDTALALYLYLAE-LGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFSLYSRAAAQGNADAILKLGDYYYYGLGTGRDP  491 (552)
T ss_pred             ccHHHHHHHHHHH-hhhhHHhhHHHHHHHhccccccccccccchhHHHHHHHHHHhccCHHHHhhhcceeeecCCCCCCh
Confidence            7777666666655 33321111111111111   1  1  235667777777776566666677776665433    468


Q ss_pred             HHHHHHHHHhhccCCCCCchHHHHHHHHhhc-C--CchHHHHHHHHhhhCC
Q 005966          602 ELGEVAAKWLFELEPENPGNYVLLSKLYSAV-R--RWKDAENVRDVMDEKG  649 (667)
Q Consensus       602 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g--~~~~A~~~~~~~~~~~  649 (667)
                      +.|...+.++-...   +.....++.++..- |  .+..|..++++..+.+
T Consensus       492 ~~a~~~y~~a~~~~---~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~~~~  539 (552)
T KOG1550|consen  492 EKAAAQYARASEQG---AQALFNLGYMHEHGEGIKVLHLAKRYYDQASEED  539 (552)
T ss_pred             HHHHHHHHHHHHhh---hHHHhhhhhHHhcCcCcchhHHHHHHHHHHHhcC
Confidence            88999888888777   66788888887652 2  2578888888876644

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.79  E-value=0.79  Score=46.30  Aligned_cols=157  Identities=11%  Similarity=0.090  Sum_probs=95.1

Q ss_pred             HHHHhCCCchHHHHHHH--HhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcC
Q 005966           83 KMYAQNGASHDSLKMFL--GMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFG  160 (667)
Q Consensus        83 ~~~~~~g~~~~a~~~~~--~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  160 (667)
                      +...-+|+++++.+..+  ++...  ++  ..-.+.+++-+.+.|..+.|.++-.         |+.   .-.....++|
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~--i~--~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~---~rFeLAl~lg  332 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPN--IP--KDQGQSIARFLEKKGYPELALQFVT---------DPD---HRFELALQLG  332 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG------HHHHHHHHHHHHHTT-HHHHHHHSS----------HH---HHHHHHHHCT
T ss_pred             HHHHHcCChhhhhhhhhhhhhccc--CC--hhHHHHHHHHHHHCCCHHHHHhhcC---------ChH---HHhHHHHhcC
Confidence            44555788888777765  33322  22  3447778888888888888888743         332   2345667899


Q ss_pred             CHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHh
Q 005966          161 EVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAG  240 (667)
Q Consensus       161 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  240 (667)
                      +++.|.++.++..  +...|..|.....++|+++-|.+.|.+...         |..++-.+.-.|+.+.-.++.+....
T Consensus       333 ~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~  401 (443)
T PF04053_consen  333 NLDIALEIAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEE  401 (443)
T ss_dssp             -HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHH
Confidence            9999999988775  667999999999999999999999887643         33444445555666666666665555


Q ss_pred             cCCCcchhHHHHHHHHHHhcCCHHHHHHHHhh
Q 005966          241 GRLGKNIAAWNALVDMYVKCGSVNEARLVFDR  272 (667)
Q Consensus       241 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  272 (667)
                      .|-      ++....++.-.|++++..+++.+
T Consensus       402 ~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  402 RGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             TT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             ccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            441      33334444455666666555544

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.

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.75  E-value=0.77  Score=45.53  Aligned_cols=54  Identities=17%  Similarity=0.094  Sum_probs=27.5

Q ss_pred             HHHHHhhcCChHHHHHHHHhC-CCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          559 IVDLLGRAGRLDEAYDLIRTM-PLKPT---HAVWGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       559 l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                      +..++.+.|+.++|++.++++ +..|.   ..+...|+.++...+.+.++..++.+.-
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            444444556666665555555 22221   2244555555555556655555555543

The molecular function of this protein is uncertain.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.74  E-value=0.35  Score=43.74  Aligned_cols=97  Identities=14%  Similarity=0.085  Sum_probs=72.5

Q ss_pred             HHHhcccC--CCChhhHHHHHHHHHHc-----CChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcc-----------
Q 005966          166 RKVFDAMW--EHSVVSWNTLISGYFKN-----AYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKE-----------  227 (667)
Q Consensus       166 ~~~~~~~~--~~~~~~~~~li~~~~~~-----~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-----------  227 (667)
                      ++.|....  ++|-.+|-..+..+...     +.++-....++.|.+-|+.-|..+|..+|+.+-+..-           
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            44555554  55777888877777543     4556666678889999999999999999998755332           


Q ss_pred             -----hHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCC
Q 005966          228 -----IEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGS  262 (667)
Q Consensus       228 -----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  262 (667)
                           -+-+..+++.|..+|+.||..+-..|++++++.+-
T Consensus       134 HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~  173 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNF  173 (406)
T ss_pred             hCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccc
Confidence                 24567888888888888888888888888877765

>PF12921 ATP13: Mitochondrial ATPase expression; InterPro: IPR024319 ATPase expression protein 2 (also known as ATP13 in some species) is necessary for the expression of subunit 9 of mitochondrial ATPase

Probab=94.70  E-value=0.44  Score=38.40  Aligned_cols=95  Identities=17%  Similarity=0.162  Sum_probs=55.2

Q ss_pred             ChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhc--CCCChhHHHHHHHHH
Q 005966          211 DCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRM--SERDVVTWTSMINGY  288 (667)
Q Consensus       211 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~li~~~  288 (667)
                      |..++..++.++++.|+++....+.+..-.  +..+..         ...+.       +..-  ..|+.....+++.+|
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~Wg--I~~~~~---------~~~~~-------~~~~spl~Pt~~lL~AIv~sf   62 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWG--IDVNGK---------KKEGD-------YPPSSPLYPTSRLLIAIVHSF   62 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcC--CCCCCc---------cccCc-------cCCCCCCCCCHHHHHHHHHHH
Confidence            345666667777777776666666644332  221110         00000       1110  126777788888888


Q ss_pred             HhCCChHHHHHHHHHHHhc-CCCCChhhHHHHHHHh
Q 005966          289 ALNGDVRNALGLFQLMQFE-GVRPNSLTIGSLLSAC  323 (667)
Q Consensus       289 ~~~~~~~~a~~~~~~m~~~-~~~p~~~t~~~ll~~~  323 (667)
                      +.+|++..|+++++...+. +++.+..++..|+.-+
T Consensus        63 ~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   63 GYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            8888888888888877653 5666666666666543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=94.57  E-value=2.6  Score=43.30  Aligned_cols=162  Identities=12%  Similarity=0.020  Sum_probs=94.6

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCC-CCCCH-----HHHHHHHHHHhC----cCCHHHHHHHHHHHHHhCCCCCchH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEV-VEPND-----ATLNSLLPAYAI----LADLQQAMNIHCYLIRYGFLSVVEV  451 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g-~~p~~-----~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  451 (667)
                      ...++....-.|+-+.+++.+.+-.+.+ +.-..     .+|..++..++.    ..+.+.|.++++.+.+.- |.+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~y-P~s~lf  269 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKRY-PNSALF  269 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHhC-CCcHHH
Confidence            4445555556677777777777655432 22111     233444443333    456777888887777653 333333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhCCCCC---C--CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005966          452 STGLIDIYSKCGSLESAHKIFSEIPIKD---K--DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHA  526 (667)
Q Consensus       452 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  526 (667)
                      .-.-.+.+...|++++|.+.|++.....   +  ....+--+.-.+....+|++|.+.|.++.+.. .-+..+|..+..+
T Consensus       270 l~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  270 LFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHH
Confidence            3344566677888888888888655422   1  22334445566777788888888888888753 2233444444443


Q ss_pred             -HhccCCH-------HHHHHHHHHhHH
Q 005966          527 -CSHGGLL-------DEGLDLFNFMLE  545 (667)
Q Consensus       527 -~~~~g~~-------~~A~~~~~~~~~  545 (667)
                       +...|+.       ++|.++|.++..
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHHH
Confidence             3455666       777777776643

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.46  E-value=0.06  Score=32.12  Aligned_cols=26  Identities=12%  Similarity=0.118  Sum_probs=20.4

Q ss_pred             hHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          621 NYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      ++..|+.+|.+.|+|++|++++++..
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            36778888999999999999888844

>PF04053 Coatomer_WDAD: Coatomer WD associated region ; InterPro: IPR006692 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=94.36  E-value=1.1  Score=45.37  Aligned_cols=157  Identities=13%  Similarity=0.040  Sum_probs=83.6

Q ss_pred             HHHhcCCHHHHHHHHh--hCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          458 IYSKCGSLESAHKIFS--EIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       458 ~~~~~g~~~~A~~~~~--~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      ...-.++++++.++..  ++... -+....+.++.-+.+.|..+.|+.+...         +.+   -.....+.|+++.
T Consensus       270 ~av~~~d~~~v~~~i~~~~ll~~-i~~~~~~~i~~fL~~~G~~e~AL~~~~D---------~~~---rFeLAl~lg~L~~  336 (443)
T PF04053_consen  270 TAVLRGDFEEVLRMIAASNLLPN-IPKDQGQSIARFLEKKGYPELALQFVTD---------PDH---RFELALQLGNLDI  336 (443)
T ss_dssp             HHHHTT-HHH-----HHHHTGGG---HHHHHHHHHHHHHTT-HHHHHHHSS----------HHH---HHHHHHHCT-HHH
T ss_pred             HHHHcCChhhhhhhhhhhhhccc-CChhHHHHHHHHHHHCCCHHHHHhhcCC---------hHH---HhHHHHhcCCHHH
Confidence            3444667777555443  22211 1234466666777777777777765332         211   1122345677777


Q ss_pred             HHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC
Q 005966          536 GLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELE  615 (667)
Q Consensus       536 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  615 (667)
                      |.++.+..       ++...|..|.+...++|+++-|.+.+++.+      -+..|+-.|...|+.+.-.++.+.+...+
T Consensus       337 A~~~a~~~-------~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~------d~~~L~lLy~~~g~~~~L~kl~~~a~~~~  403 (443)
T PF04053_consen  337 ALEIAKEL-------DDPEKWKQLGDEALRQGNIELAEECYQKAK------DFSGLLLLYSSTGDREKLSKLAKIAEERG  403 (443)
T ss_dssp             HHHHCCCC-------STHHHHHHHHHHHHHTTBHHHHHHHHHHCT-------HHHHHHHHHHCT-HHHHHHHHHHHHHTT
T ss_pred             HHHHHHhc-------CcHHHHHHHHHHHHHcCCHHHHHHHHHhhc------CccccHHHHHHhCCHHHHHHHHHHHHHcc
Confidence            76653322       455567778888888888888888877765      24455556667777766666665554443


Q ss_pred             CCCCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          616 PENPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       616 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      -     +.....++.-.|+.++..+++.+-
T Consensus       404 ~-----~n~af~~~~~lgd~~~cv~lL~~~  428 (443)
T PF04053_consen  404 D-----INIAFQAALLLGDVEECVDLLIET  428 (443)
T ss_dssp             ------HHHHHHHHHHHT-HHHHHHHHHHT
T ss_pred             C-----HHHHHHHHHHcCCHHHHHHHHHHc
Confidence            2     233333455567888777777653

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.

>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=94.28  E-value=2.2  Score=33.98  Aligned_cols=138  Identities=16%  Similarity=0.152  Sum_probs=71.9

Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHH
Q 005966          391 HNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHK  470 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  470 (667)
                      -.|..++..++..+...+   .+..-++.++--....-+-+...+.++.+   |-.-|          ...+|++.....
T Consensus        14 ldG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsI---GkiFD----------is~C~NlKrVi~   77 (161)
T PF09205_consen   14 LDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSI---GKIFD----------ISKCGNLKRVIE   77 (161)
T ss_dssp             HTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHH---GGGS-----------GGG-S-THHHHH
T ss_pred             HhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHH---hhhcC----------chhhcchHHHHH
Confidence            356677777777776643   23333444433333333333333333332   21111          223455555555


Q ss_pred             HHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCC
Q 005966          471 IFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQT  549 (667)
Q Consensus       471 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~  549 (667)
                      .+-.+-   .+.......+..+...|+-++-.+++..+.+.+ .|++.....+..+|.+.|+..++.+++.++-+ .|.
T Consensus        78 C~~~~n---~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACe-kG~  151 (161)
T PF09205_consen   78 CYAKRN---KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACE-KGL  151 (161)
T ss_dssp             HHHHTT------HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHH-TT-
T ss_pred             HHHHhc---chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH-hch
Confidence            444432   244455666777788888888888888877643 67788888888888888888888888888766 444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=94.06  E-value=0.082  Score=33.31  Aligned_cols=32  Identities=16%  Similarity=0.223  Sum_probs=28.8

Q ss_pred             CchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          619 PGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       619 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      |.++..++.+|.+.|++++|++.++++.+...
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P   32 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDP   32 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc
Confidence            45788999999999999999999999998764

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.05  E-value=2.6  Score=36.35  Aligned_cols=114  Identities=11%  Similarity=0.103  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHH--HHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHH-----HHHHHhhcCChHHH
Q 005966          500 TAVSLFKEMVQSGVQPNEVTFT--SALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTC-----IVDLLGRAGRLDEA  572 (667)
Q Consensus       500 ~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~-----l~~~~~~~g~~~~A  572 (667)
                      +.....+++.........-.+.  .+...+...|++++|..-++.....    |.-+.+..     |.......|.+|+|
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 KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ----TKDENLKALAALRLARVQLQQKKADAA  145 (207)
T ss_pred             hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc----chhHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            4555556666543222222222  2345577888999999888877641    22222333     45667788999999


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          573 YDLIRTMPLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       573 ~~~~~~~~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      +..++...-+. .......-...+...|+.++|+..|+++++..++
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            99888864221 2223344556688889999999999999888755

>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=94.02  E-value=2.4  Score=35.40  Aligned_cols=94  Identities=20%  Similarity=0.135  Sum_probs=46.3

Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP-LKPTHAVWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~  606 (667)
                      .+.++.+++..++..+.-...-.|...++  -+..+.+.|+|.+|+.+|+++. ..|....-..|+..|.....-..-..
T Consensus        21 l~~~~~~D~e~lL~ALrvLRP~~~e~~~~--~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~Wr~   98 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLRPEFPELDLF--DGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSWRR   98 (160)
T ss_pred             HccCChHHHHHHHHHHHHhCCCchHHHHH--HHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHHHH
Confidence            34556666666666664422222222222  2334556677777777776663 33444444455555554433333344


Q ss_pred             HHHHhhccCCCCCchHHH
Q 005966          607 AAKWLFELEPENPGNYVL  624 (667)
Q Consensus       607 ~~~~~~~~~p~~~~~~~~  624 (667)
                      ..+++++..++ +.+...
T Consensus        99 ~A~evle~~~d-~~a~~L  115 (160)
T PF09613_consen   99 YADEVLESGAD-PDARAL  115 (160)
T ss_pred             HHHHHHhcCCC-hHHHHH
Confidence            45555555543 444433

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=93.93  E-value=0.82  Score=39.26  Aligned_cols=85  Identities=12%  Similarity=0.124  Sum_probs=41.2

Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHh
Q 005966          491 GYGMHGHGETAVSLFKEMVQSGVQPNE-----VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLG  564 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~  564 (667)
                      -+...|++++|..-|.+.++. ++|..     +.|..-..++.+.+.++.|+.-..+.++   +.|+ .....--..+|.
T Consensus       104 ~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie---l~pty~kAl~RRAeaye  179 (271)
T KOG4234|consen  104 ELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE---LNPTYEKALERRAEAYE  179 (271)
T ss_pred             HhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh---cCchhHHHHHHHHHHHH
Confidence            355566666666666666554 22221     1233333345555666666655555554   1121 112222234555


Q ss_pred             hcCChHHHHHHHHhC
Q 005966          565 RAGRLDEAYDLIRTM  579 (667)
Q Consensus       565 ~~g~~~~A~~~~~~~  579 (667)
                      +...+++|++-|+++
T Consensus       180 k~ek~eealeDyKki  194 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKI  194 (271)
T ss_pred             hhhhHHHHHHHHHHH
Confidence            556666666665555

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=93.84  E-value=0.67  Score=42.08  Aligned_cols=110  Identities=16%  Similarity=0.185  Sum_probs=71.8

Q ss_pred             HHHHhhCCCCCCCcchHHHHHHHHHH-----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC------------
Q 005966          469 HKIFSEIPIKDKDIVVWSVIIAGYGM-----HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGG------------  531 (667)
Q Consensus       469 ~~~~~~~~~~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g------------  531 (667)
                      +..|..+.....|-.+|.+.+..|..     .+.++-....++.|.+.|+.-|..+|+.|++.+-+..            
T Consensus        54 e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~  133 (406)
T KOG3941|consen   54 EKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFL  133 (406)
T ss_pred             hhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHh
Confidence            33444444322455666666666643     3456666677788888888888888888887765442            


Q ss_pred             ----CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCCh-HHHHHHHHhC
Q 005966          532 ----LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL-DEAYDLIRTM  579 (667)
Q Consensus       532 ----~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~  579 (667)
                          +-+=++.++++|.. +|+.||.++-..|++++.+.+.. .+..+++-.|
T Consensus       134 HYP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  134 HYPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             hCchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                22346778888877 88888888888888888877753 2333444334

>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=93.83  E-value=0.11  Score=30.45  Aligned_cols=31  Identities=19%  Similarity=0.094  Sum_probs=18.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      +|..+...+...|++++|...++++++++|+
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            3445555566666666666666666666553

...

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.78  E-value=3.5  Score=45.63  Aligned_cols=80  Identities=16%  Similarity=-0.005  Sum_probs=34.3

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 005966          525 HACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELG  604 (667)
Q Consensus       525 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  604 (667)
                      .+|...|+|++|+.+..++..  +..--..+-..|+.-+...+++-+|-++..+....|..     .+..+++...+++|
T Consensus       973 ~a~~~~~dWr~~l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eA 1045 (1265)
T KOG1920|consen  973 KAYKECGDWREALSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEA 1045 (1265)
T ss_pred             HHHHHhccHHHHHHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHH
Confidence            344444555555554444432  11011111234445555555555555555554333322     22233444455555


Q ss_pred             HHHHHHh
Q 005966          605 EVAAKWL  611 (667)
Q Consensus       605 ~~~~~~~  611 (667)
                      .++....
T Consensus      1046 lrva~~~ 1052 (1265)
T KOG1920|consen 1046 LRVASKA 1052 (1265)
T ss_pred             HHHHHhc
Confidence            5554443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.75  E-value=0.099  Score=31.15  Aligned_cols=28  Identities=14%  Similarity=-0.020  Sum_probs=21.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhcc
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFEL  614 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  614 (667)
                      +|..|...|.+.|++++|+.++++++.+
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677888888888888888888886543

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.70  E-value=0.074  Score=31.09  Aligned_cols=30  Identities=13%  Similarity=0.175  Sum_probs=25.9

Q ss_pred             chHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          620 GNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .++..++.+|...|++++|++.+++..+..
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~   31 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHC
Confidence            468899999999999999999999987754

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 ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.64  E-value=1  Score=37.76  Aligned_cols=51  Identities=14%  Similarity=0.122  Sum_probs=29.1

Q ss_pred             HHhcCCHHHHHHHHhhcCCC----ChhHHHHHHHHHHhCCChHHHHHHHHHHHhc
Q 005966          257 YVKCGSVNEARLVFDRMSER----DVVTWTSMINGYALNGDVRNALGLFQLMQFE  307 (667)
Q Consensus       257 ~~~~g~~~~A~~~~~~~~~~----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  307 (667)
                      +...|.+++.....+.+..+    -...-..|.-+-.+.|++.+|...|..+...
T Consensus       142 LvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~D  196 (221)
T COG4649         142 LVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAND  196 (221)
T ss_pred             HhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHcc
Confidence            34556666666655555431    1223345555566777777777777776653

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.54  E-value=15  Score=41.02  Aligned_cols=174  Identities=11%  Similarity=0.048  Sum_probs=95.5

Q ss_pred             HHHhCCChHHHHHHHHHHHHC-----CCCCCHH--HHHHHHHHHhCcC--CHHHHHHHHHHH--HHh---CCCCCchHHH
Q 005966          388 GCVHNGLARKAVELFRQMLVE-----VVEPNDA--TLNSLLPAYAILA--DLQQAMNIHCYL--IRY---GFLSVVEVST  453 (667)
Q Consensus       388 ~~~~~~~~~~A~~~~~~m~~~-----g~~p~~~--~~~~ll~~~~~~~--~~~~a~~~~~~~--~~~---~~~~~~~~~~  453 (667)
                      +-..+.++.+=+-+++++...     .++.|..  -|...+......|  -++++..+.++-  ...   -..|+...+.
T Consensus       860 Aq~SqkDPkEyLP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k  939 (1265)
T KOG1920|consen  860 AQKSQKDPKEYLPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQK  939 (1265)
T ss_pred             HHHhccChHHHHHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHH
Confidence            344456777777777666632     1112221  2333333333333  344443332210  000   0234444443


Q ss_pred             HH----HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHH--HHHHHHHH
Q 005966          454 GL----IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVT--FTSALHAC  527 (667)
Q Consensus       454 ~l----~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~  527 (667)
                      ..    .+-+...+.+++|.-+|+..-.       ..-.+.+|...|+|.+|+.+..++...   -+...  -..|..-+
T Consensus       940 ~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk-------lekAl~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L 1009 (1265)
T KOG1920|consen  940 VIYEAYADHLREELMSDEAALMYERCGK-------LEKALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRL 1009 (1265)
T ss_pred             HHHHHHHHHHHHhccccHHHHHHHHhcc-------HHHHHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHH
Confidence            33    3444456667777666665544       234566777777888777777766431   12222  25566777


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP  580 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  580 (667)
                      ...++.-+|-++......+    |     .--+..|+++..|++|+.+....+
T Consensus      1010 ~e~~kh~eAa~il~e~~sd----~-----~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1010 VEQRKHYEAAKILLEYLSD----P-----EEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHcccchhHHHHHHHHhcC----H-----HHHHHHHhhHhHHHHHHHHHHhcc
Confidence            8888888888877766541    2     234567888888999998877764

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.31  E-value=4.9  Score=35.77  Aligned_cols=62  Identities=8%  Similarity=-0.027  Sum_probs=32.0

Q ss_pred             HHHHHHhhc-CChHHHHHHHHhCC-----CCCCHHHHHHHHH---HHHhcCCHHHHHHHHHHhhccCCCCC
Q 005966          558 CIVDLLGRA-GRLDEAYDLIRTMP-----LKPTHAVWGALLG---ACVIHGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       558 ~l~~~~~~~-g~~~~A~~~~~~~~-----~~p~~~~~~~l~~---~~~~~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      .+...|... .++++|+..++...     ...+...-..++.   .-...+++.+|+.+|+++-...-+++
T Consensus       118 ~iaEiyEsdl~d~ekaI~~YE~Aae~yk~ees~ssANKC~lKvA~yaa~leqY~~Ai~iyeqva~~s~~n~  188 (288)
T KOG1586|consen  118 EIAEIYESDLQDFEKAIAHYEQAAEYYKGEESVSSANKCLLKVAQYAAQLEQYSKAIDIYEQVARSSLDNN  188 (288)
T ss_pred             hHHHHHhhhHHHHHHHHHHHHHHHHHHcchhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch
Confidence            344455443 56666666666551     1112222222222   23355778888888887766554443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=93.30  E-value=14  Score=39.80  Aligned_cols=116  Identities=10%  Similarity=0.032  Sum_probs=69.3

Q ss_pred             cCChHHHHHHHHHHHHcC-CCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH
Q 005966          495 HGHGETAVSLFKEMVQSG-VQPNE--VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       495 ~~~~~~a~~~~~~m~~~~-~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  571 (667)
                      ..+.+.|..++.+..... ..+..  .....+.......+..++|...+.....   ...+.......+..-.+.++++.
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            456688888888775533 22222  2233343333333225666666665543   11244445555566668889988


Q ss_pred             HHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          572 AYDLIRTMP--LKPTHAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       572 A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      +...+..|+  ..-...-..-+.++....|+.++|...|+++..
T Consensus       331 ~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        331 LNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             HHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            888888884  222333345566676778999999999888743

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.18  E-value=2.3  Score=42.12  Aligned_cols=65  Identities=22%  Similarity=0.225  Sum_probs=56.2

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC----CCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELEPE----NPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ...+|..++..+++.|.++.|...+.++....+.    .|.+...-++++...|+..+|+..++...+.
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4557899999999999999999999999886522    4678888899999999999999999988873

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.08  E-value=9.9  Score=37.59  Aligned_cols=34  Identities=9%  Similarity=-0.074  Sum_probs=29.8

Q ss_pred             CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          599 GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       599 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      ++.+.+...|+++.+..|.....+..++..+.+.
T Consensus       272 ~~~~~~~~~~~~a~~~~~~~~k~~~~~a~~~~~~  305 (352)
T PF02259_consen  272 ESSDEILKYYKEATKLDPSWEKAWHSWALFNDKL  305 (352)
T ss_pred             ccHHHHHHHHHHHHHhChhHHHHHHHHHHHHHHH
Confidence            7889999999999999999888888888887654

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.79  E-value=7  Score=35.08  Aligned_cols=57  Identities=5%  Similarity=0.049  Sum_probs=28.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCC--CCchhHHHHHHHHHhhcCChHHHHHHHH
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQT--CSRADHYTCIVDLLGRAGRLDEAYDLIR  577 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~  577 (667)
                      |...+-.+....++..|...++.--+..++  +-+..+...|+.+| ..|+.+++.+++.
T Consensus       193 ~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl~  251 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVLS  251 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHHc
Confidence            444444555556666666666653332222  12334444555555 4555665555443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.68  E-value=7.7  Score=35.29  Aligned_cols=54  Identities=20%  Similarity=0.201  Sum_probs=28.5

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCH----HHHHHHHHHHhccCCHHHHHHHHHHhH
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSGVQPNE----VTFTSALHACSHGGLLDEGLDLFNFML  544 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~g~~~~A~~~~~~~~  544 (667)
                      ..-|.+.|.+..|..-+++|++.  -|+.    ..+-.+..+|...|..++|...-+-+.
T Consensus       174 aryY~kr~~~~AA~nR~~~v~e~--y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~  231 (254)
T COG4105         174 ARYYLKRGAYVAAINRFEEVLEN--YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLG  231 (254)
T ss_pred             HHHHHHhcChHHHHHHHHHHHhc--cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHH
Confidence            34455666666666666666654  1221    234445555666666666555544443

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.68  E-value=0.13  Score=30.15  Aligned_cols=30  Identities=17%  Similarity=0.150  Sum_probs=26.0

Q ss_pred             chHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          620 GNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .+|..+|.+|...|++++|+..+++..+..
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~   31 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELD   31 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHC
Confidence            468899999999999999999999988754

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 ....

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=92.64  E-value=0.53  Score=43.61  Aligned_cols=59  Identities=20%  Similarity=0.291  Sum_probs=32.7

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      ++..++..+...|+++.+.+.++++ ...| +...|..++.+|...|+...|+..|+++.+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~  215 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKK  215 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHHH
Confidence            3445555555556666555555554 3333 555555666666666666666655555543

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.60  E-value=6.8  Score=34.91  Aligned_cols=19  Identities=21%  Similarity=0.183  Sum_probs=10.0

Q ss_pred             CCHHHHHHHHHHhhccCCC
Q 005966          599 GNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       599 g~~~~A~~~~~~~~~~~p~  617 (667)
                      .|.-.+...+++..+++|.
T Consensus       209 ~D~v~a~~ALeky~~~dP~  227 (288)
T KOG1586|consen  209 ADEVNAQRALEKYQELDPA  227 (288)
T ss_pred             ccHHHHHHHHHHHHhcCCc
Confidence            4444555555555555554

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=92.49  E-value=3.7  Score=39.03  Aligned_cols=94  Identities=14%  Similarity=0.238  Sum_probs=49.3

Q ss_pred             HHHHHHHhhCCCCC-----CCcchHHHHHHHHHHcCC----hHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhccCC--
Q 005966          466 ESAHKIFSEIPIKD-----KDIVVWSVIIAGYGMHGH----GETAVSLFKEMVQSGVQPNEV--TFTSALHACSHGGL--  532 (667)
Q Consensus       466 ~~A~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~----~~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~g~--  532 (667)
                      .+|.++|+.|++..     ++...+..++..  ..++    .+.+..+|+.+.+.|+..+..  ....++..+.....  
T Consensus       120 ~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~  197 (297)
T PF13170_consen  120 QRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEK  197 (297)
T ss_pred             HHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHH
Confidence            34555555555544     233344444333  2222    245667777787777665443  23333332222222  


Q ss_pred             HHHHHHHHHHhHHhcCCCCchhHHHHHHHH
Q 005966          533 LDEGLDLFNFMLENHQTCSRADHYTCIVDL  562 (667)
Q Consensus       533 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  562 (667)
                      ..++.++++.+.+ .++++....|..++-.
T Consensus       198 v~r~~~l~~~l~~-~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  198 VARVIELYNALKK-NGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHH-cCCccccccccHHHHH
Confidence            3467777777777 5777776666655443

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.41  E-value=0.77  Score=37.52  Aligned_cols=70  Identities=16%  Similarity=0.084  Sum_probs=46.5

Q ss_pred             hcCChHHHHHHHHhCC-CCCCHHHH-HHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCC
Q 005966          565 RAGRLDEAYDLIRTMP-LKPTHAVW-GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       565 ~~g~~~~A~~~~~~~~-~~p~~~~~-~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      ..++++++..++..+. ..|+..-. ..-...+...|++.+|.++++.+.+..+..|..-..++.++...|+
T Consensus        22 ~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~~~~p~~kAL~A~CL~al~D   93 (153)
T TIGR02561        22 RSADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSSAGAPPYGKALLALCLNAKGD   93 (153)
T ss_pred             hcCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhccCCCchHHHHHHHHHHHhcCC
Confidence            4677777777777773 45543322 2234446677788888888877777776666666677777777776

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=91.88  E-value=0.19  Score=27.27  Aligned_cols=24  Identities=17%  Similarity=0.077  Sum_probs=19.1

Q ss_pred             chHHHHHHHHhhcCCchHHHHHHH
Q 005966          620 GNYVLLSKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~  643 (667)
                      .+...++.++...|++++|...++
T Consensus         2 ~a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    2 RARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHh
Confidence            456778888888888888888775

The tetratricopeptide repeat (TPR) motif is a protein-protein interaction module found in multiple copies in a number of functionally different proteins that facilitates specific interactions with a partner protein(s) [].; GO: 0042802 identical protein binding

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=91.87  E-value=7.2  Score=33.15  Aligned_cols=58  Identities=16%  Similarity=0.221  Sum_probs=36.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhc
Q 005966          250 WNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFE  307 (667)
Q Consensus       250 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  307 (667)
                      +..+++.+...|++-+|.++.+.....+...-..++.+..+.+|...-..+++-..+.
T Consensus        92 ~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~ff~~~  149 (167)
T PF07035_consen   92 YEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRFFEER  149 (167)
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4556667777788888888877765544444555666666666666555555555443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.80  E-value=3.9  Score=38.87  Aligned_cols=130  Identities=9%  Similarity=0.082  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC--c----CCHHHHHHHHHHHHHhCC---CCCchHHHHHHHHHHhcCCH
Q 005966          395 ARKAVELFRQMLVEVVEPNDATLNSLLPAYAI--L----ADLQQAMNIHCYLIRYGF---LSVVEVSTGLIDIYSKCGSL  465 (667)
Q Consensus       395 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~----~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~  465 (667)
                      +++.+.+++.|.+.|++-+..+|.+.......  .    ....++..+++.|.+...   .++...+..++..  ..++.
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~  155 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDV  155 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccH
Confidence            35667788899999999888877764433333  2    235678889999987653   2344444444433  33333


Q ss_pred             ----HHHHHHHhhCCCCC---CC-cchHHHHHHHHHHcCC--hHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005966          466 ----ESAHKIFSEIPIKD---KD-IVVWSVIIAGYGMHGH--GETAVSLFKEMVQSGVQPNEVTFTSALHA  526 (667)
Q Consensus       466 ----~~A~~~~~~~~~~~---~~-~~~~~~l~~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  526 (667)
                          +.++.+|+.+...+   .| ......++........  ..++.++++.+.+.|+++....|..+.-.
T Consensus       156 e~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlL  226 (297)
T PF13170_consen  156 EELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHH
Confidence                45666777766644   22 2333333333222222  45788999999999999888776655433

>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=91.79  E-value=12  Score=35.50  Aligned_cols=17  Identities=12%  Similarity=0.094  Sum_probs=10.4

Q ss_pred             hCCChHHHHHHHHHHHH
Q 005966          391 HNGLARKAVELFRQMLV  407 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~  407 (667)
                      +.|+.+.|..++.+...
T Consensus         5 ~~~~~~~A~~~~~K~~~   21 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKD   21 (278)
T ss_pred             hhCCHHHHHHHHHHhhh
Confidence            45666666666666554

It is also involved in sporulation [].

>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=91.69  E-value=0.23  Score=41.96  Aligned_cols=83  Identities=13%  Similarity=0.033  Sum_probs=36.9

Q ss_pred             HHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh---cCChHHHHHHHHhC--------CCCCCH-HHHHHHHHHHHhcC-
Q 005966          533 LDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR---AGRLDEAYDLIRTM--------PLKPTH-AVWGALLGACVIHG-  599 (667)
Q Consensus       533 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~~--------~~~p~~-~~~~~l~~~~~~~g-  599 (667)
                      ++.|.+..+....  ..|.|...++....++..   .....++.+++++.        .+.|+. .++..+..++...+ 
T Consensus         7 FE~ark~aea~y~--~nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen    7 FEHARKKAEAAYA--KNPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--hCcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh
Confidence            4555555555443  233445544444444432   22323333333332        345543 45666666655433 


Q ss_pred             ----------CHHHHHHHHHHhhccCCC
Q 005966          600 ----------NVELGEVAAKWLFELEPE  617 (667)
Q Consensus       600 ----------~~~~A~~~~~~~~~~~p~  617 (667)
                                .+++|...|+++...+|+
T Consensus        85 l~~d~~~A~~~F~kA~~~FqkAv~~~P~  112 (186)
T PF06552_consen   85 LTPDTAEAEEYFEKATEYFQKAVDEDPN  112 (186)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHHH-TT
T ss_pred             hcCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence                      245555555566666666

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.59  E-value=0.17  Score=29.21  Aligned_cols=28  Identities=11%  Similarity=0.170  Sum_probs=19.6

Q ss_pred             hHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          621 NYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ++..++.+|.+.|++++|.+.|+++.+.
T Consensus         2 a~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    2 ALYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            4566777777777777777777776654

>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=91.47  E-value=0.043  Score=45.98  Aligned_cols=85  Identities=11%  Similarity=0.107  Sum_probs=63.4

Q ss_pred             HHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhH
Q 005966          116 IVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKE  195 (667)
Q Consensus       116 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  195 (667)
                      .+++.+.+.+.+.....+++.+...+...+....+.++..|++.++.+...++++....   .....++..+.+.|.+++
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            45677777888888888899998877677789999999999999888898888884332   334566667777777777


Q ss_pred             HHHHHHHH
Q 005966          196 ALVVFDWM  203 (667)
Q Consensus       196 A~~~~~~m  203 (667)
                      |.-++.++
T Consensus        89 a~~Ly~~~   96 (143)
T PF00637_consen   89 AVYLYSKL   96 (143)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHc
Confidence            77777664

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.

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=91.12  E-value=8.3  Score=32.37  Aligned_cols=20  Identities=15%  Similarity=0.258  Sum_probs=9.7

Q ss_pred             HHhcCCHHHHHHHHhhCCCC
Q 005966          459 YSKCGSLESAHKIFSEIPIK  478 (667)
Q Consensus       459 ~~~~g~~~~A~~~~~~~~~~  478 (667)
                      +.+.|++.+|..+|+++...
T Consensus        54 ~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   54 HIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HHHhCCHHHHHHHHHHHhcc
Confidence            44445555555555554443

>PRK10941 hypothetical protein; Provisional

Probab=91.08  E-value=0.91  Score=42.24  Aligned_cols=62  Identities=19%  Similarity=0.156  Sum_probs=49.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          588 WGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       588 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .+.+-.++.+.++++.|.++.+.++.+.|++|.-+.-.|-+|.+.|.+..|..-++...+.-
T Consensus       184 l~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~  245 (269)
T PRK10941        184 LDTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQC  245 (269)
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhC
Confidence            45566667888888888888888888888888888888888888888888888888776654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=90.98  E-value=0.66  Score=43.27  Aligned_cols=87  Identities=18%  Similarity=0.148  Sum_probs=59.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc-
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSGVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA-  566 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  566 (667)
                      ..-|.+.|.+++|+..|.+....  .| |.+++..-..+|.+...+..|..-...++.     .|    ...+.+|.|. 
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 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA-----LD----KLYVKAYSRRM  172 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH-----hh----HHHHHHHHHHH
Confidence            36688899999999999988774  45 888888888899999888888777766655     11    1234555554 


Q ss_pred             ------CChHHHHHHHHhC-CCCCCHH
Q 005966          567 ------GRLDEAYDLIRTM-PLKPTHA  586 (667)
Q Consensus       567 ------g~~~~A~~~~~~~-~~~p~~~  586 (667)
                            |...+|.+-++.. .+.|...
T Consensus       173 ~AR~~Lg~~~EAKkD~E~vL~LEP~~~  199 (536)
T KOG4648|consen  173 QARESLGNNMEAKKDCETVLALEPKNI  199 (536)
T ss_pred             HHHHHHhhHHHHHHhHHHHHhhCcccH
Confidence                  4555555554443 4667643

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.81  E-value=0.41  Score=27.87  Aligned_cols=29  Identities=21%  Similarity=0.269  Sum_probs=26.0

Q ss_pred             chHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          620 GNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      .+|..++.+|...|++++|.+.|++..+.
T Consensus         2 ~~~~~lg~~y~~~~~~~~A~~~~~~a~~~   30 (34)
T PF13181_consen    2 EAYYNLGKIYEQLGDYEEALEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTTSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            36889999999999999999999998764

...

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=90.74  E-value=7.4  Score=33.68  Aligned_cols=90  Identities=11%  Similarity=-0.047  Sum_probs=66.0

Q ss_pred             HHHHHhhcCChHHHHHHHHhCCCCCCHHHH-----HHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          559 IVDLLGRAGRLDEAYDLIRTMPLKPTHAVW-----GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       559 l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~-----~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      +...+..+|++++|..-++..-..|....+     ..|.+.....|.++.|...++...+..-. +-.-..-++++...|
T Consensus        95 lAk~~ve~~~~d~A~aqL~~~l~~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~-~~~~elrGDill~kg  173 (207)
T COG2976          95 LAKAEVEANNLDKAEAQLKQALAQTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWA-AIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHccchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHH-HHHHHHhhhHHHHcC
Confidence            446678899999999999876433433333     34455677889999999887765433211 223556799999999


Q ss_pred             CchHHHHHHHHhhhCC
Q 005966          634 RWKDAENVRDVMDEKG  649 (667)
Q Consensus       634 ~~~~A~~~~~~~~~~~  649 (667)
                      +.++|+.-+++..+.+
T Consensus       174 ~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         174 DKQEARAAYEKALESD  189 (207)
T ss_pred             chHHHHHHHHHHHHcc
Confidence            9999999999998876

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=90.73  E-value=0.45  Score=27.34  Aligned_cols=30  Identities=13%  Similarity=0.024  Sum_probs=25.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          588 WGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       588 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      +..++.++.+.|++++|...++++++..|+
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            455677788899999999999999998887

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.38  E-value=14  Score=33.70  Aligned_cols=258  Identities=13%  Similarity=0.135  Sum_probs=144.5

Q ss_pred             cCCHHHHHHHHhccCCC----C---cccHHHHHHHHHhCCChHHHHHHHHHHHHC---CC--CCCHHHHHHHHHHHhCcC
Q 005966          361 CNLVKLSFQVFARTSKK----K---TVPWNAILAGCVHNGLARKAVELFRQMLVE---VV--EPNDATLNSLLPAYAILA  428 (667)
Q Consensus       361 ~g~~~~a~~~~~~~~~~----~---~~~~~~li~~~~~~~~~~~A~~~~~~m~~~---g~--~p~~~~~~~ll~~~~~~~  428 (667)
                      ..++++|+.-|.+..+-    +   ......++....+.+++++.++.|++|..-   .+  .-+..+.++++...+.+.
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            34566777766655421    1   112456788888889999999888887642   11  234456777777666666


Q ss_pred             CHHHHHHHHHHHHH-----hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCC-----CC--------CcchHHHHHH
Q 005966          429 DLQQAMNIHCYLIR-----YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIK-----DK--------DIVVWSVIIA  490 (667)
Q Consensus       429 ~~~~a~~~~~~~~~-----~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-----~~--------~~~~~~~l~~  490 (667)
                      +.+--..+++.-.+     .+-..--.+-+.|...|...|.+.+..++++++...     |.        -...|..-|.
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            65555555443221     111122234455777788788887777777665332     11        1346777788


Q ss_pred             HHHHcCChHHHHHHHHHHHHcC-CCCCHHHHHHHHHHH-----hccCCHHHHHHHHHHhHHh---cCCCCc--hhHHHHH
Q 005966          491 GYGMHGHGETAVSLFKEMVQSG-VQPNEVTFTSALHAC-----SHGGLLDEGLDLFNFMLEN---HQTCSR--ADHYTCI  559 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~ll~~~-----~~~g~~~~A~~~~~~~~~~---~~~~~~--~~~~~~l  559 (667)
                      .|...++-.....+|++.+... --|-+..... ++-|     .+.|.+++|..-|-++.+.   .|.+..  .--|..|
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImGv-IRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVL  278 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMGV-IRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVL  278 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchHHHhH-HHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHH
Confidence            8888888888888888776522 2344444443 3434     4668898887554444332   233222  2235566


Q ss_pred             HHHHhhcCChHHHHHHHHh--C---CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHH
Q 005966          560 VDLLGRAGRLDEAYDLIRT--M---PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLL  625 (667)
Q Consensus       560 ~~~~~~~g~~~~A~~~~~~--~---~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  625 (667)
                      .+++.+.|--     -|+.  +   +..|.......++.+|.. ++..+-+++++.-...--+||.+..++
T Consensus       279 ANMLmkS~iN-----PFDsQEAKPyKNdPEIlAMTnlv~aYQ~-NdI~eFE~Il~~~~~~IM~DpFIReh~  343 (440)
T KOG1464|consen  279 ANMLMKSGIN-----PFDSQEAKPYKNDPEILAMTNLVAAYQN-NDIIEFERILKSNRSNIMDDPFIREHI  343 (440)
T ss_pred             HHHHHHcCCC-----CCcccccCCCCCCHHHHHHHHHHHHHhc-ccHHHHHHHHHhhhccccccHHHHHHH
Confidence            7777766521     1111  1   234455567778887764 344444444443333333445444433

>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=90.35  E-value=0.79  Score=30.11  Aligned_cols=37  Identities=24%  Similarity=0.152  Sum_probs=28.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHH
Q 005966          588 WGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVL  624 (667)
Q Consensus       588 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  624 (667)
                      +..+.-++.+.|++++|.+..+.+++.+|+|..+...
T Consensus         4 lY~lAig~ykl~~Y~~A~~~~~~lL~~eP~N~Qa~~L   40 (53)
T PF14853_consen    4 LYYLAIGHYKLGEYEKARRYCDALLEIEPDNRQAQSL   40 (53)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHTTS-HHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhhCCCcHHHHHH
Confidence            3456678889999999999999999999997665543

>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=90.19  E-value=7.6  Score=33.73  Aligned_cols=96  Identities=9%  Similarity=-0.037  Sum_probs=51.2

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHH--HH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV--TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYT--CI  559 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~--~l  559 (667)
                      .+..+..-|++.|+.+.|++.|.++.+....|...  .+..++......+++..+.....++........|...-+  ..
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            45556666666677777777776666654343332  345566666666677766666666554221111111111  11


Q ss_pred             --HHHHhhcCChHHHHHHHHhC
Q 005966          560 --VDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       560 --~~~~~~~g~~~~A~~~~~~~  579 (667)
                        +-.+...+++.+|-+.|-..
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHcc
Confidence              11233466777777776665

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.

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.13  E-value=0.64  Score=28.58  Aligned_cols=26  Identities=15%  Similarity=0.012  Sum_probs=12.1

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                      +++.+...|...|++++|+.++++++
T Consensus         4 ~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    4 ALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            34444444555555555555554443

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=90.02  E-value=9.5  Score=40.36  Aligned_cols=149  Identities=17%  Similarity=0.097  Sum_probs=81.8

Q ss_pred             HcCChHHHHHHHHHHHH-------cCCCCCHHHHHHHHHHHhccC-----CHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          494 MHGHGETAVSLFKEMVQ-------SGVQPNEVTFTSALHACSHGG-----LLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       494 ~~~~~~~a~~~~~~m~~-------~~~~p~~~~~~~ll~~~~~~g-----~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      ...+.+.|+.+|+.+.+       .|   .......+..+|.+..     +.+.|..++....+ .+. |+....  +..
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~-~g~-~~a~~~--lg~  333 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAE-LGN-PDAQYL--LGV  333 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcCCCCccccHHHHHHHHHHHHh-cCC-chHHHH--HHH
Confidence            44566666666666554       44   2223444555555432     55667777777766 343 444322  333


Q ss_pred             HHhhc---CChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc-C
Q 005966          562 LLGRA---GRLDEAYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV-R  633 (667)
Q Consensus       562 ~~~~~---g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g  633 (667)
                      ++...   .+...|.++|......-....+..+...+..    ..+.+.|...++++-+.+  ++.+...++..+.-. +
T Consensus       334 ~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g--~~~A~~~~~~~~~~g~~  411 (552)
T KOG1550|consen  334 LYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG--NPSAAYLLGAFYEYGVG  411 (552)
T ss_pred             HHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc--ChhhHHHHHHHHHHccc
Confidence            33322   3567788877777434444444444333322    236788888888887777  344444444443322 7


Q ss_pred             CchHHHHHHHHhhhCCCc
Q 005966          634 RWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       634 ~~~~A~~~~~~~~~~~~~  651 (667)
                      +++.+.-.+..+.+.|.+
T Consensus       412 ~~~~~~~~~~~~a~~g~~  429 (552)
T KOG1550|consen  412 RYDTALALYLYLAELGYE  429 (552)
T ss_pred             cccHHHHHHHHHHHhhhh
Confidence            777777776666665543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=89.98  E-value=2.4  Score=41.69  Aligned_cols=142  Identities=18%  Similarity=0.145  Sum_probs=92.5

Q ss_pred             HHHHHHcCChHHHHH-HHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcC
Q 005966          489 IAGYGMHGHGETAVS-LFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG  567 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  567 (667)
                      |.--...|+.-.|-+ ++.-++...-.|+...+.+.+  +...|+++.+.+.+....+  -+.....+..+++...-+.|
T Consensus       296 i~k~~~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~i--~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~  371 (831)
T PRK15180        296 ITKQLADGDIIAASQQLFAALRNQQQDPVLIQLRSVI--FSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLA  371 (831)
T ss_pred             HHHHhhccCHHHHHHHHHHHHHhCCCCchhhHHHHHH--HHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchh
Confidence            334456777776655 444455443456655444443  5678999999998887766  33345556778888888999


Q ss_pred             ChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC-CCchHHHHHHH-HhhcCC
Q 005966          568 RLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE-NPGNYVLLSKL-YSAVRR  634 (667)
Q Consensus       568 ~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~-~~~~g~  634 (667)
                      ++++|...-..| + .-.++.+...........|-++++....++++.++|. +.+....|... |..-|+
T Consensus       372 r~~~a~s~a~~~l~~eie~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~v~~~~~~~~~~~~~  442 (831)
T PRK15180        372 RWREALSTAEMMLSNEIEDEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGWVNFLSSTQYFNDGN  442 (831)
T ss_pred             hHHHHHHHHHHHhccccCChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccceeeeccceeccCcc
Confidence            999999988877 2 2224444444444556678889999999999988876 44444444332 554444

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=89.91  E-value=2.1  Score=39.76  Aligned_cols=77  Identities=10%  Similarity=0.072  Sum_probs=56.3

Q ss_pred             hHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHH-----hCCCCchHHHHH
Q 005966           77 LYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLI-----TGFDMDTFVGNC  151 (667)
Q Consensus        77 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~  151 (667)
                      ++..++..+...|+++.+.+.++.+...  .+-+...|..++.++.+.|+...|+..|+.+.+     .|+.|...+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~--dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIEL--DPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            4555667777778888888888888876  566777788888888888888888887777665     467777766665


Q ss_pred             HHHH
Q 005966          152 LIAM  155 (667)
Q Consensus       152 li~~  155 (667)
                      ....
T Consensus       233 y~~~  236 (280)
T COG3629         233 YEEI  236 (280)
T ss_pred             HHHH
Confidence            5554

>PF11207 DUF2989: Protein of unknown function (DUF2989); InterPro: IPR021372 Some members in this bacterial family of proteins are annotated as lipoproteins however this cannot be confirmed

Probab=89.79  E-value=1.6  Score=37.99  Aligned_cols=71  Identities=18%  Similarity=0.144  Sum_probs=49.6

Q ss_pred             hHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC----CCchHHHHHHHHhhcCCchHHH
Q 005966          569 LDEAYDLIRTMPLKP--THAVWGALLGACVIHGNVELGEVAAKWLFELEPE----NPGNYVLLSKLYSAVRRWKDAE  639 (667)
Q Consensus       569 ~~~A~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~  639 (667)
                      -++|++.|-.+.-.|  +...+...+..|....|.++++.++-+++++.+.    ||.++..|+.+|.+.|+++.|-
T Consensus       122 d~~A~~~fL~~E~~~~l~t~elq~aLAtyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~AY  198 (203)
T PF11207_consen  122 DQEALRRFLQLEGTPELETAELQYALATYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQAY  198 (203)
T ss_pred             cHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhhh
Confidence            466777776664222  2233334444455577889999999999886543    5788999999999999988874

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=89.61  E-value=33  Score=36.90  Aligned_cols=88  Identities=15%  Similarity=0.077  Sum_probs=42.3

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC-CCCCchHHHHHHHHHHh---
Q 005966          386 LAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYG-FLSVVEVSTGLIDIYSK---  461 (667)
Q Consensus       386 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~---  461 (667)
                      ...+.-.|.++.|++.+-+  ..+...+.+.+...+..+.-.+-.+...   ..+.... -.|.+--+..|+..|.+   
T Consensus       265 f~~LlLtgqFE~AI~~L~~--~~~~~~dAVH~AIaL~~~gLL~~~~~~~---~~lls~~~~~~~~ln~arLI~~Y~~~F~  339 (613)
T PF04097_consen  265 FQVLLLTGQFEAAIEFLYR--NEFNRVDAVHFAIALAYYGLLRVSDSSS---APLLSVDPGDPPPLNFARLIGQYTRSFE  339 (613)
T ss_dssp             HHHHHHTT-HHHHHHHHHT----T-HHHHHHHHHHHHHTT---------------------------HHHHHHHHHHTTT
T ss_pred             HHHHHHHhhHHHHHHHHHh--hccCcccHHHHHHHHHHcCCCCCCCccc---cceeeecCCCCCCcCHHHHHHHHHHHHh
Confidence            3445567999999998877  2345666777776666554333222211   2221111 11222456677777765   


Q ss_pred             cCCHHHHHHHHhhCCCC
Q 005966          462 CGSLESAHKIFSEIPIK  478 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~  478 (667)
                      ..+..+|.+.|--+...
T Consensus       340 ~td~~~Al~Y~~li~~~  356 (613)
T PF04097_consen  340 ITDPREALQYLYLICLF  356 (613)
T ss_dssp             TT-HHHHHHHHHGGGGS
T ss_pred             ccCHHHHHHHHHHHHHc
Confidence            56788888888766553

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=89.49  E-value=0.57  Score=27.39  Aligned_cols=32  Identities=19%  Similarity=0.207  Sum_probs=20.9

Q ss_pred             HHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHH
Q 005966          134 HGRVLITGFDMDTFVGNCLIAMYMNFGEVKAAR  166 (667)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~  166 (667)
                      |++.++.. |-+...|+.+..+|...|++++|+
T Consensus         2 y~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            34445554 556677777777777777777764

>PF10602 RPN7: 26S proteasome subunit RPN7; InterPro: IPR019585 This entry represents the regulatory subunit RPN7 (known as the non-ATPase regulatory subunit 6 in higher eukaryotes) of the 26S proteasome

Probab=89.39  E-value=3.3  Score=35.97  Aligned_cols=90  Identities=16%  Similarity=0.054  Sum_probs=42.9

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhCCC---CC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCC--CCCch----HH
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTMPL---KP--THAVWGALLGACVIHGNVELGEVAAKWLFELEP--ENPGN----YV  623 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~~~---~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p--~~~~~----~~  623 (667)
                      .+..+++.|.+.|+.++|++.+.++..   .|  -...+..+++.+...||+..+.....++...-.  +|...    -.
T Consensus        38 ~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk~  117 (177)
T PF10602_consen   38 ALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLKV  117 (177)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHHH
Confidence            344555556666666666666655521   11  112344555555556666666665555543221  11111    11


Q ss_pred             HHHHHHhhcCCchHHHHHHHH
Q 005966          624 LLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      .-|-.+...|++.+|.+.|-.
T Consensus       118 ~~gL~~l~~r~f~~AA~~fl~  138 (177)
T PF10602_consen  118 YEGLANLAQRDFKEAAELFLD  138 (177)
T ss_pred             HHHHHHHHhchHHHHHHHHHc
Confidence            122224445666666666544

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.

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=89.36  E-value=2.5  Score=37.74  Aligned_cols=56  Identities=14%  Similarity=-0.028  Sum_probs=32.2

Q ss_pred             HHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          593 GACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       593 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      .++...|++-++++.-..++...|+|..+|+.-+.+....=+.++|.+-|..+.+.
T Consensus       238 QC~L~~~e~yevleh~seiL~~~~~nvKA~frRakAhaa~Wn~~eA~~D~~~vL~l  293 (329)
T KOG0545|consen  238 QCLLKKEEYYEVLEHCSEILRHHPGNVKAYFRRAKAHAAVWNEAEAKADLQKVLEL  293 (329)
T ss_pred             HHHhhHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhcCHHHHHHHHHHHHhc
Confidence            33444555555666666666666666666666666555555555555555555543

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=89.17  E-value=2  Score=38.52  Aligned_cols=64  Identities=14%  Similarity=0.024  Sum_probs=44.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHH-------HhhccC--CC----CCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          587 VWGALLGACVIHGNVELGEVAAK-------WLFELE--PE----NPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~-------~~~~~~--p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .+..+.+.|...|+.+....+++       ++.+..  |.    +....+.+|.++.+.|++++|.+.|.++...+-
T Consensus       120 l~LrlAWlyR~~~~~~~E~~fl~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~  196 (214)
T PF09986_consen  120 LCLRLAWLYRDLGDEENEKRFLRKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKK  196 (214)
T ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCC
Confidence            45666777777777554444444       444322  22    245777899999999999999999999876553

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=89.06  E-value=27  Score=35.17  Aligned_cols=87  Identities=9%  Similarity=0.080  Sum_probs=37.7

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH---hhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhc
Q 005966          524 LHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL---GRAGRLDEAYDLIRTM--PLKPTHAVWGALLGACVIH  598 (667)
Q Consensus       524 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~  598 (667)
                      +.-+.+.|-+++|...+..+..  .-+|+...|..+|..-   ..+| ..-+.++++.+  ..-.|+..|...+.--...
T Consensus       467 l~~~~e~~~~~~ark~y~~l~~--lpp~sl~l~r~miq~e~~~~sc~-l~~~r~~yd~a~~~fg~d~~lw~~y~~~e~~~  543 (568)
T KOG2396|consen  467 LDWAYESGGYKKARKVYKSLQE--LPPFSLDLFRKMIQFEKEQESCN-LANIREYYDRALREFGADSDLWMDYMKEELPL  543 (568)
T ss_pred             HHHHHHhcchHHHHHHHHHHHh--CCCccHHHHHHHHHHHhhHhhcC-chHHHHHHHHHHHHhCCChHHHHHHHHhhccC
Confidence            3333444444444444444443  2233444444444321   1122 34444444444  1224445555555444455


Q ss_pred             CCHHHHHHHHHHhhc
Q 005966          599 GNVELGEVAAKWLFE  613 (667)
Q Consensus       599 g~~~~A~~~~~~~~~  613 (667)
                      |..+.+-.++.++.+
T Consensus       544 g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  544 GRPENCGQIYWRAMK  558 (568)
T ss_pred             CCcccccHHHHHHHH
Confidence            555555555555543

>KOG4642 consensus Chaperone-dependent E3 ubiquitin protein ligase (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=89.01  E-value=0.9  Score=40.27  Aligned_cols=54  Identities=13%  Similarity=0.070  Sum_probs=26.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          592 LGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       592 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      +-.+.+..+++.+..--.+++++.|+.....+.|+..+.....+++|+..+++.
T Consensus        51 alchlk~~~~~~v~~dcrralql~~N~vk~h~flg~~~l~s~~~~eaI~~Lqra  104 (284)
T KOG4642|consen   51 ALCHLKLKHWEPVEEDCRRALQLDPNLVKAHYFLGQWLLQSKGYDEAIKVLQRA  104 (284)
T ss_pred             HHHHHHhhhhhhhhhhHHHHHhcChHHHHHHHHHHHHHHhhccccHHHHHHHHH
Confidence            333444444444444444555555554444455555544444555555554444

>PRK09687 putative lyase; Provisional

Probab=88.93  E-value=21  Score=33.78  Aligned_cols=25  Identities=12%  Similarity=-0.142  Sum_probs=11.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhccCC
Q 005966          591 LLGACVIHGNVELGEVAAKWLFELEP  616 (667)
Q Consensus       591 l~~~~~~~g~~~~A~~~~~~~~~~~p  616 (667)
                      .+.+....|+. +|...++++.+..|
T Consensus       241 a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        241 IIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             HHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            34444444443 45555555555444

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=88.50  E-value=1  Score=33.82  Aligned_cols=61  Identities=13%  Similarity=-0.009  Sum_probs=37.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC--CchHHHHHHHHhhcCCch-HHHHHHHH
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELEPEN--PGNYVLLSKLYSAVRRWK-DAENVRDV  644 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~-~A~~~~~~  644 (667)
                      |......+...+...|+++.|.+.+-.+++.+|+.  ..+-..|..++...|.-+ -+.++..+
T Consensus        21 D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~~~plv~~~RRk   84 (90)
T PF14561_consen   21 DLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGPGDPLVSEYRRK   84 (90)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-TT-HHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCCCChHHHHHHHH
Confidence            55666777777777788888877777777776653  556667777777777643 33334333

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=88.45  E-value=14  Score=31.24  Aligned_cols=53  Identities=11%  Similarity=0.068  Sum_probs=23.0

Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 005966          494 MHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLEN  546 (667)
Q Consensus       494 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  546 (667)
                      ..|.+++.....+-+...+-+--...-..|.-+-.+.|++.+|.+.|..+..+
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            34444444444444333221111222333434444555555555555555543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=88.23  E-value=0.72  Score=28.33  Aligned_cols=29  Identities=21%  Similarity=0.203  Sum_probs=24.4

Q ss_pred             chHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          620 GNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      .++..|+.+|...|++++|..++++..+.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            36788999999999999999999998653

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.14  E-value=1.1  Score=39.23  Aligned_cols=64  Identities=19%  Similarity=0.176  Sum_probs=48.3

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      .+..+..+.+.+++.+|+...+.- +.+| |......++..++-.|++++|..-++-+-++.|++.
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t   69 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDT   69 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccc
Confidence            344556777888888888877654 5566 555677778888888999999888888888888754

>smart00028 TPR Tetratricopeptide repeats

Probab=87.50  E-value=1.1  Score=25.09  Aligned_cols=26  Identities=12%  Similarity=0.087  Sum_probs=12.5

Q ss_pred             hHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          621 NYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      ++..++.+|...|++++|...+++..
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~   28 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKAL   28 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            34444445555555555555544443

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.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.97  E-value=1.1  Score=28.09  Aligned_cols=27  Identities=19%  Similarity=0.305  Sum_probs=21.3

Q ss_pred             HHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          623 VLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ..|+.+|...|+.+.|+++++++.+.|
T Consensus         3 LdLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         3 LDLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             hHHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            457888888888888888888877644

This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.

>PRK12798 chemotaxis protein; Reviewed

Probab=86.90  E-value=34  Score=33.83  Aligned_cols=186  Identities=18%  Similarity=0.219  Sum_probs=124.9

Q ss_pred             cCCHHHHHHHHhhCCCCC--CCcchHHHHHHHH-HHcCChHHHHHHHHHHHHcCCCCCHH----HHHHHHHHHhccCCHH
Q 005966          462 CGSLESAHKIFSEIPIKD--KDIVVWSVIIAGY-GMHGHGETAVSLFKEMVQSGVQPNEV----TFTSALHACSHGGLLD  534 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~-~~~~~~~~a~~~~~~m~~~~~~p~~~----~~~~ll~~~~~~g~~~  534 (667)
                      .|+.++|.+.+..+....  +....+-.|+.+- ....++.+|+++|+..+-.  -|...    ...--+......|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            689999999998887654  4456677776654 4566899999999988763  45442    3444455567889999


Q ss_pred             HHHHHHHHhHHhcCCCCchhHHHH-HHHHHhhc---CChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005966          535 EGLDLFNFMLENHQTCSRADHYTC-IVDLLGRA---GRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKW  610 (667)
Q Consensus       535 ~A~~~~~~~~~~~~~~~~~~~~~~-l~~~~~~~---g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~  610 (667)
                      ++..+-......+...|-...|.. +...+.+.   -..+.-..++..|.-.-....|..+.+.-.-.|+.+.|....++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            988887777765655555444333 33333333   33444455666664333455888888889999999999999999


Q ss_pred             hhccCCCCCchHHHHHHHHh-----hcCCchHHHHHHHHhhhCCC
Q 005966          611 LFELEPENPGNYVLLSKLYS-----AVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       611 ~~~~~p~~~~~~~~l~~~~~-----~~g~~~~A~~~~~~~~~~~~  650 (667)
                      +..+... ...-...+.+|.     -..+.++|.+.+..+....+
T Consensus       283 A~~L~~~-~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~~~L  326 (421)
T PRK12798        283 ALKLADP-DSADAARARLYRGAALVASDDAESALEELSQIDRDKL  326 (421)
T ss_pred             HHHhccC-CCcchHHHHHHHHHHccCcccHHHHHHHHhcCChhhC
Confidence            9988744 344344444443     34568888888877755443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=86.86  E-value=3.7  Score=30.70  Aligned_cols=54  Identities=17%  Similarity=0.115  Sum_probs=39.4

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHH
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLL  625 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  625 (667)
                      ++.-+-.+-.-|++.+..+.+++|++.+|+..|.++++-+...-..+...|..+
T Consensus        29 ~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~~~~~y~~~   82 (103)
T cd00923          29 GLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGAHKEIYPYI   82 (103)
T ss_pred             HHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCchhhHHHH
Confidence            333344446889999999999999999999999999997765444334444433

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.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.75  E-value=12  Score=28.34  Aligned_cols=88  Identities=14%  Similarity=0.199  Sum_probs=60.2

Q ss_pred             cchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHH
Q 005966          125 AWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWML  204 (667)
Q Consensus       125 ~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~  204 (667)
                      ...++|..+-+.+...+- ....+--.-++.+.+.|++++|..+.+.+.-||...|-.|-.  .+.|..+....-+.+|.
T Consensus        19 HcHqEA~tIAdwL~~~~~-~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla   95 (115)
T TIGR02508        19 HCHQEANTIADWLHLKGE-SEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLA   95 (115)
T ss_pred             hHHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHH
Confidence            356777777777766542 233333444566788999999999999999899999987765  35666676777777776


Q ss_pred             HCCCCCChHHHH
Q 005966          205 KSGVEPDCASVV  216 (667)
Q Consensus       205 ~~g~~p~~~~~~  216 (667)
                      ..| .|....|.
T Consensus        96 ~sg-~p~lq~Fa  106 (115)
T TIGR02508        96 ASG-DPRLQTFV  106 (115)
T ss_pred             hCC-CHHHHHHH
Confidence            655 34444443

YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion). The secretion system delivers effector proteins, designate Yops (Yersinia outer proteins) in Yersinia. This family consists of YscG of Yersinia, and functionally equivalent type III secretion machinery protein in other species: AscG in Aeromonas, LscG in Photorhabdus luminescens, etc.

>PRK09687 putative lyase; Provisional

Probab=86.44  E-value=30  Score=32.77  Aligned_cols=146  Identities=9%  Similarity=-0.024  Sum_probs=62.7

Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCCh----hHHHHHHHHHHHCCCCCChHHHHHH
Q 005966          143 DMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYA----KEALVVFDWMLKSGVEPDCASVVSV  218 (667)
Q Consensus       143 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~----~~A~~~~~~m~~~g~~p~~~~~~~l  218 (667)
                      .+|..+....+..+...|..+-...+..-...+|...-...+.++.+.|..    .++...+..+...  .|+...-...
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR~~A  111 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVRASA  111 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHHHHH
Confidence            445555555555555555433333333333344555555566666666653    3456666555332  3444444444


Q ss_pred             HHHcccCcchHH--HHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHh
Q 005966          219 LPACGYLKEIEM--GRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYAL  290 (667)
Q Consensus       219 l~~~~~~~~~~~--a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~  290 (667)
                      +.+++..+....  .....+.....-..++..+....+.++++.|+.+....+..-+..+|...-...+.++.+
T Consensus       112 ~~aLG~~~~~~~~~~~~a~~~l~~~~~D~~~~VR~~a~~aLg~~~~~~ai~~L~~~L~d~~~~VR~~A~~aLg~  185 (280)
T PRK09687        112 INATGHRCKKNPLYSPKIVEQSQITAFDKSTNVRFAVAFALSVINDEAAIPLLINLLKDPNGDVRNWAAFALNS  185 (280)
T ss_pred             HHHHhcccccccccchHHHHHHHHHhhCCCHHHHHHHHHHHhccCCHHHHHHHHHHhcCCCHHHHHHHHHHHhc
Confidence            444443321110  011111111111123444555555555555553322222333333444444444444443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.41  E-value=4.4  Score=30.66  Aligned_cols=55  Identities=15%  Similarity=0.099  Sum_probs=37.6

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      ++.-+-.+-.-|++.+..+.+++|++.+|+..|.++++-+...-.+....|..+.
T Consensus        32 glN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~~Y~~~l   86 (108)
T PF02284_consen   32 GLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKEIYPYIL   86 (108)
T ss_dssp             HHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TTHHHHHH
T ss_pred             HHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHHHHHHHH
Confidence            3333444467899999999999999999999999999988766655444555444

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 ....

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=85.84  E-value=0.61  Score=43.69  Aligned_cols=118  Identities=15%  Similarity=0.130  Sum_probs=66.7

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcCCHHHH
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHA-VWGALLGACVIHGNVELG  604 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~g~~~~A  604 (667)
                      ....|.++.|++.|...++  ..++....|..-..++.+.+++..|++-+... .+.||.. .|..-..+-+..|++++|
T Consensus       124 Aln~G~~~~ai~~~t~ai~--lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~a  201 (377)
T KOG1308|consen  124 ALNDGEFDTAIELFTSAIE--LNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEA  201 (377)
T ss_pred             HhcCcchhhhhcccccccc--cCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHH
Confidence            3445667777777776665  33455555555666666666666666655554 4555443 344444455556777777


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          605 EVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       605 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ...+..+.+++-+ +..-..|-.+.-..+..++-...+++.++
T Consensus       202 a~dl~~a~kld~d-E~~~a~lKeV~p~a~ki~e~~~k~er~~~  243 (377)
T KOG1308|consen  202 AHDLALACKLDYD-EANSATLKEVFPNAGKIEEHRRKYERARE  243 (377)
T ss_pred             HHHHHHHHhcccc-HHHHHHHHHhccchhhhhhchhHHHHHHH
Confidence            7777766666544 33444444455555555554444444443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=85.52  E-value=10  Score=35.37  Aligned_cols=101  Identities=12%  Similarity=0.138  Sum_probs=68.2

Q ss_pred             hCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-----CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH
Q 005966          443 YGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-----KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE  517 (667)
Q Consensus       443 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  517 (667)
                      .|.+.+..+...++..-....++++++..+-++....     |+.. -.+.+.. +-.-++++++.++..=++.|+-||.
T Consensus        58 ~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~-~~~~irl-llky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   58 RGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWT-IHTWIRL-LLKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             cCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcccc-HHHHHHH-HHccChHHHHHHHhCcchhccccch
Confidence            3445555555666666666677788877776665542     1211 1222222 2334567888888888888889999


Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      .+++.+++.+.+.+++.+|.++...|..
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~  163 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMM  163 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            9999999999999999888888777665

>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=85.35  E-value=1.9  Score=36.64  Aligned_cols=68  Identities=10%  Similarity=0.007  Sum_probs=34.1

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHH---HHHHHHHHhccCCHHHHHHHHHHhHHhc----CCCCc-hhHHHHHHHHHhhc
Q 005966          498 GETAVSLFKEMVQSGVQPNEVT---FTSALHACSHGGLLDEGLDLFNFMLENH----QTCSR-ADHYTCIVDLLGRA  566 (667)
Q Consensus       498 ~~~a~~~~~~m~~~~~~p~~~~---~~~ll~~~~~~g~~~~A~~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~  566 (667)
                      ++.|.+.++.-...+ +.|...   |...+.-+++.....++.++++....+.    .+.|+ ...+.++..+|...
T Consensus         7 FE~ark~aea~y~~n-P~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~   82 (186)
T PF06552_consen    7 FEHARKKAEAAYAKN-PLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSL   82 (186)
T ss_dssp             HHHHHHHHHHHHHH--TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHH
Confidence            455666666654443 223333   3334444555566667777776665422    23454 35566666666543

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.

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=85.32  E-value=6.9  Score=29.33  Aligned_cols=60  Identities=12%  Similarity=0.196  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHH
Q 005966          499 ETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIV  560 (667)
Q Consensus       499 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  560 (667)
                      -++.+-+..+....+.|++......+++|.+.+++.-|.++++.++.+.+.  +...|..++
T Consensus        24 we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~l   83 (103)
T cd00923          24 WELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYIL   83 (103)
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHH
Confidence            345556666666777888888888888888888888888888877653332  333455444

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=85.09  E-value=20  Score=29.60  Aligned_cols=52  Identities=17%  Similarity=0.021  Sum_probs=27.3

Q ss_pred             cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC
Q 005966          427 LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD  479 (667)
Q Consensus       427 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  479 (667)
                      .++.+.+..+++.+.-.. |.....-..-.-.+...|++.+|..+|+++.+..
T Consensus        23 ~~d~~D~e~lLdALrvLr-P~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLR-PNLKELDMFDGWLLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             cCCHHHHHHHHHHHHHhC-CCccccchhHHHHHHHcCCHHHHHHHHHhhhccC
Confidence            455555555555554332 1112222222334566777777777777776653

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=84.94  E-value=7.1  Score=29.61  Aligned_cols=60  Identities=12%  Similarity=0.186  Sum_probs=38.5

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          500 TAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       500 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      +..+-+..+....+.|++......+.+|.+.+++.-|.++++.++.+.+..  ...|..++.
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~--~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNK--KEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccCh--HHHHHHHHH
Confidence            345555666666778888888888888888888888888888887744433  225655543

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 ....

>COG5159 RPN6 26S proteasome regulatory complex component [Posttranslational modification, protein turnover, chaperones]

Probab=84.93  E-value=28  Score=32.15  Aligned_cols=156  Identities=12%  Similarity=0.057  Sum_probs=74.5

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHH-------HHHHHHHHHhccCCHHHHHHHHHHhHH---hcCCCCchhHHHH
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSGVQPNEV-------TFTSALHACSHGGLLDEGLDLFNFMLE---NHQTCSRADHYTC  558 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-------~~~~ll~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~~~~~~  558 (667)
                      ..-..+.+++++|+..+.++...|+..|..       +...+...|.+.|++..-.++.....+   +.-.+.......+
T Consensus        10 a~~~v~~~~~~~ai~~yk~iL~kg~s~dek~~nEqE~tvlel~~lyv~~g~~~~l~~~i~~sre~m~~ftk~k~~Kiirt   89 (421)
T COG5159          10 ANNAVKSNDIEKAIGEYKRILGKGVSKDEKTLNEQEATVLELFKLYVSKGDYCSLGDTITSSREAMEDFTKPKITKIIRT   89 (421)
T ss_pred             HHHhhhhhhHHHHHHHHHHHhcCCCChhhhhhhHHHHHHHHHHHHHHhcCCcchHHHHHHhhHHHHHHhcchhHHHHHHH
Confidence            334456677777888888877777655543       344456667777766654444332221   1222223334444


Q ss_pred             HHHHHhh-cCChHHHHHHHHhC-C--CCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHhhc------cCCCCCchHH
Q 005966          559 IVDLLGR-AGRLDEAYDLIRTM-P--LKPT-----HAVWGALLGACVIHGNVELGEVAAKWLFE------LEPENPGNYV  623 (667)
Q Consensus       559 l~~~~~~-~g~~~~A~~~~~~~-~--~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~p~~~~~~~  623 (667)
                      |++.+.. ...++.-+.++... .  .+..     ...-..++..+.+.|.+..|+....-++.      -.|.-..++.
T Consensus        90 Liekf~~~~dsl~dqi~v~~~~iewA~rEkr~fLr~~Le~Kli~l~y~~~~YsdalalIn~ll~ElKk~DDK~~Li~vhl  169 (421)
T COG5159          90 LIEKFPYSSDSLEDQIKVLTALIEWADREKRKFLRLELECKLIYLLYKTGKYSDALALINPLLHELKKYDDKINLITVHL  169 (421)
T ss_pred             HHHhcCCCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHhhcCccceeehhh
Confidence            4444432 22333333333322 0  0000     01112344455566666666655543321      1133334455


Q ss_pred             HHHHHHhhcCCchHHHHHHHH
Q 005966          624 LLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      .-..+|.+..+..++..-+..
T Consensus       170 lESKvyh~irnv~KskaSLTa  190 (421)
T COG5159         170 LESKVYHEIRNVSKSKASLTA  190 (421)
T ss_pred             hhHHHHHHHHhhhhhhhHHHH
Confidence            555566665555555554443

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=84.79  E-value=48  Score=33.62  Aligned_cols=48  Identities=10%  Similarity=-0.028  Sum_probs=23.5

Q ss_pred             CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          532 LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       532 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      +.+...++..++.+..|...-...+.-+-.-|....++++|++++...
T Consensus       184 D~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~Ys~~eN~~eai~Ilk~i  231 (711)
T COG1747         184 DKDFFLRLQKKIQTKLGEGRGSVLMQDVYKKYSENENWTEAIRILKHI  231 (711)
T ss_pred             cHHHHHHHHHHHHHhhccchHHHHHHHHHHHhccccCHHHHHHHHHHH
Confidence            444445555555444444333344444445555555555555555533

>smart00028 TPR Tetratricopeptide repeats

Probab=84.65  E-value=1.4  Score=24.50  Aligned_cols=31  Identities=19%  Similarity=0.122  Sum_probs=27.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+..+...+...|+++.|...++++++..|+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~   33 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDPN   33 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            5677888899999999999999999988774

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=84.23  E-value=19  Score=37.09  Aligned_cols=29  Identities=21%  Similarity=0.130  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          517 EVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       517 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      ..-|..|.++....|++..|.+.|.+...
T Consensus       666 ~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d  694 (794)
T KOG0276|consen  666 EVKWRQLGDAALSAGELPLASECFLRARD  694 (794)
T ss_pred             hHHHHHHHHHHhhcccchhHHHHHHhhcc
Confidence            34455555555555555555555554443

>KOG0376 consensus Serine-threonine phosphatase 2A, catalytic subunit [General function prediction only]

Probab=84.04  E-value=0.98  Score=44.54  Aligned_cols=103  Identities=14%  Similarity=0.103  Sum_probs=71.4

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHH-HHHHHHHHHHhcC
Q 005966          523 ALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHA-VWGALLGACVIHG  599 (667)
Q Consensus       523 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~~g  599 (667)
                      -+..+...+.++.|..++.++++   ..|+ +..|..-..++.+.+++-.|+.=+.++ +..|+.. .|..-..+|...+
T Consensus        10 ean~~l~~~~fd~avdlysKaI~---ldpnca~~~anRa~a~lK~e~~~~Al~Da~kaie~dP~~~K~Y~rrg~a~m~l~   86 (476)
T KOG0376|consen   10 EANEALKDKVFDVAVDLYSKAIE---LDPNCAIYFANRALAHLKVESFGGALHDALKAIELDPTYIKAYVRRGTAVMALG   86 (476)
T ss_pred             HHhhhcccchHHHHHHHHHHHHh---cCCcceeeechhhhhheeechhhhHHHHHHhhhhcCchhhheeeeccHHHHhHH
Confidence            34456677888889988888887   2354 444545557778888888887665554 5666433 4444456677778


Q ss_pred             CHHHHHHHHHHhhccCCCCCchHHHHHHH
Q 005966          600 NVELGEVAAKWLFELEPENPGNYVLLSKL  628 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  628 (667)
                      .+.+|...+++...+.|+++.+...+-.+
T Consensus        87 ~~~~A~~~l~~~~~l~Pnd~~~~r~~~Ec  115 (476)
T KOG0376|consen   87 EFKKALLDLEKVKKLAPNDPDATRKIDEC  115 (476)
T ss_pred             HHHHHHHHHHHhhhcCcCcHHHHHHHHHH
Confidence            88888888888888888887776655443

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=83.72  E-value=50  Score=33.04  Aligned_cols=119  Identities=11%  Similarity=-0.032  Sum_probs=73.8

Q ss_pred             cccchHHHHH-HHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCC---CChhhHHHHHHHHHHcCChhHHHH
Q 005966          123 DLAWRKLGIA-LHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE---HSVVSWNTLISGYFKNAYAKEALV  198 (667)
Q Consensus       123 ~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~  198 (667)
                      ..|++..|-+ ++.-+....-.|+.....+  ..+...|+++.+...+.....   ....+..++++...+.|+++.|..
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~--~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a~s  378 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRS--VIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREALS  378 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHH--HHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHHHH
Confidence            4566655544 4444444433454444333  345677888888888766533   355677888888888899999999


Q ss_pred             HHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCC
Q 005966          199 VFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLG  244 (667)
Q Consensus       199 ~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  244 (667)
                      .-.-|....++. ..............|-++++...+..+...+.+
T Consensus       379 ~a~~~l~~eie~-~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~  423 (831)
T PRK15180        379 TAEMMLSNEIED-EEVLTVAAGSADALQLFDKSYHYWKRVLLLNPE  423 (831)
T ss_pred             HHHHHhccccCC-hhheeeecccHHHHhHHHHHHHHHHHHhccCCh
Confidence            888887766552 223222233334556677777777777665433

>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=83.56  E-value=1.2e+02  Score=37.38  Aligned_cols=276  Identities=14%  Similarity=0.095  Sum_probs=144.6

Q ss_pred             hHHHHHHHhcCCHHHHHHHHhc-cCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhCcCC
Q 005966          352 TALIDMYAKCNLVKLSFQVFAR-TSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPN-DATLNSLLPAYAILAD  429 (667)
Q Consensus       352 ~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~  429 (667)
                      ..+...|+.-+++|....+... ...++   ...-|......|++..|...|+.+...  .|+ ..+++.++......|.
T Consensus      1424 fllq~lY~~i~dpDgV~Gv~~~r~a~~s---l~~qil~~e~~g~~~da~~Cye~~~q~--~p~~~~~~~g~l~sml~~~~ 1498 (2382)
T KOG0890|consen 1424 FLLQNLYGSIHDPDGVEGVSARRFADPS---LYQQILEHEASGNWADAAACYERLIQK--DPDKEKHHSGVLKSMLAIQH 1498 (2382)
T ss_pred             HHHHHHHHhcCCcchhhhHHHHhhcCcc---HHHHHHHHHhhccHHHHHHHHHHhhcC--CCccccchhhHHHhhhcccc
Confidence            3344466666666665555542 22222   223344455678888888888888754  444 5567777776667777


Q ss_pred             HHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHH--HHHHHHcCChH--HHHHHH
Q 005966          430 LQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVI--IAGYGMHGHGE--TAVSLF  505 (667)
Q Consensus       430 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~--~a~~~~  505 (667)
                      ++...-..+......-+.....++.=+.+-.+.++++.......   .  .+...|...  ...+.+..+-+  .-.+..
T Consensus      1499 l~t~i~~~dg~~~~~se~~~~~~s~~~eaaW~l~qwD~~e~~l~---~--~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i 1573 (2382)
T KOG0890|consen 1499 LSTEILHLDGLIINRSEEVDELNSLGVEAAWRLSQWDLLESYLS---D--RNIEYWSVESIGKLLLRNKKKDEIATLDLI 1573 (2382)
T ss_pred             hhHHHhhhcchhhccCHHHHHHHHHHHHHHhhhcchhhhhhhhh---c--ccccchhHHHHHHHHHhhcccchhhHHHHH
Confidence            77666655444332212222223333344466677776666655   1  344455544  22222222211  111233


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH----------hHHhcCCCCch------hHHHHHHHHHhhcCCh
Q 005966          506 KEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNF----------MLENHQTCSRA------DHYTCIVDLLGRAGRL  569 (667)
Q Consensus       506 ~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~----------~~~~~~~~~~~------~~~~~l~~~~~~~g~~  569 (667)
                      +.+++.-+.|        +.+|+..|.+..+.++.-+          .....+..++.      ..|...+   .+.+..
T Consensus      1574 ~~~r~~~i~~--------lsa~s~~~Sy~~~Y~~~~kLH~l~el~~~~~~l~~~s~~~~s~~~sd~W~~Rl---~~tq~s 1642 (2382)
T KOG0890|consen 1574 ENSRELVIEN--------LSACSIEGSYVRSYEILMKLHLLLELENSIEELKKVSYDEDSANNSDNWKNRL---ERTQPS 1642 (2382)
T ss_pred             HHHHHHhhhh--------HHHhhccchHHHHHHHHHHHHHHHHHHHHHHHhhccCccccccccchhHHHHH---HHhchh
Confidence            3333321111        1122222221122111111          11111222221      2222222   222222


Q ss_pred             HHHHH---HHHhC----CCCC-----CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchH
Q 005966          570 DEAYD---LIRTM----PLKP-----THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKD  637 (667)
Q Consensus       570 ~~A~~---~~~~~----~~~p-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  637 (667)
                      ..+.+   .+++.    ...|     -..+|....+.++..|.++.|....-++.+..  -|.++...++.+...|+...
T Consensus      1643 ~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~nall~A~e~r--~~~i~~E~AK~lW~~gd~~~ 1720 (2382)
T KOG0890|consen 1643 FRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNALLNAKESR--LPEIVLERAKLLWQTGDELN 1720 (2382)
T ss_pred             HHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHHHHhhhhcc--cchHHHHHHHHHHhhccHHH
Confidence            22222   22221    1222     23578999999999999999999998888877  35699999999999999999


Q ss_pred             HHHHHHHhhhCCC
Q 005966          638 AENVRDVMDEKGL  650 (667)
Q Consensus       638 A~~~~~~~~~~~~  650 (667)
                      |+.+++.-.+...
T Consensus      1721 Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1721 ALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999876553

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=83.36  E-value=21  Score=36.78  Aligned_cols=44  Identities=23%  Similarity=0.200  Sum_probs=19.9

Q ss_pred             hcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHH
Q 005966          461 KCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEM  508 (667)
Q Consensus       461 ~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  508 (667)
                      +.|+++.|.++..+.    .+..-|..|..+....+++..|.+.|.+.
T Consensus       649 ~lgrl~iA~~la~e~----~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a  692 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEA----NSEVKWRQLGDAALSAGELPLASECFLRA  692 (794)
T ss_pred             hcCcHHHHHHHHHhh----cchHHHHHHHHHHhhcccchhHHHHHHhh
Confidence            344444444444332    22334455555555555555555444443

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=82.53  E-value=5.6  Score=31.97  Aligned_cols=71  Identities=14%  Similarity=0.048  Sum_probs=43.4

Q ss_pred             CchhHHHHHHHHHhhcCC---hHHHHHHHHhC-C-CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCch
Q 005966          551 SRADHYTCIVDLLGRAGR---LDEAYDLIRTM-P-LKPT--HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGN  621 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~-~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  621 (667)
                      ++..+-..+..++.+..+   ..+.+.++++. + ..|+  ......|.-++.+.++++.+++..+..++.+|+|..+
T Consensus        30 ~s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e~~n~Qa  107 (149)
T KOG3364|consen   30 VSKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETEPNNRQA  107 (149)
T ss_pred             chHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhCCCcHHH
Confidence            555555566667766554   33445566655 2 3332  2344556666777788888888887777777775443

>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=82.45  E-value=30  Score=29.52  Aligned_cols=37  Identities=8%  Similarity=0.228  Sum_probs=20.6

Q ss_pred             HHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHH
Q 005966          234 IHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVF  270 (667)
Q Consensus       234 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  270 (667)
                      +...+.+.+++++...+..+++.+.+.|++..-..++
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qll   52 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLL   52 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3344444555666666666666666666655444443

>KOG0551 consensus Hsp90 co-chaperone CNS1 (contains TPR repeats) [Posttranslational modification, protein turnover, chaperones]

Probab=82.25  E-value=5.6  Score=37.45  Aligned_cols=89  Identities=16%  Similarity=0.141  Sum_probs=66.4

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-C---CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-P---LKP--THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~---~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                      |.-=++-|.+..++..|...|.+- .   -.|  +.+.|+.-..+....|++..|+.-..+++..+|.+..+|+.=+.++
T Consensus        84 ~KeeGN~~fK~Kryk~A~~~Yt~Glk~kc~D~dlnavLY~NRAAa~~~l~NyRs~l~Dcs~al~~~P~h~Ka~~R~Akc~  163 (390)
T KOG0551|consen   84 YKEEGNEYFKEKRYKDAVESYTEGLKKKCADPDLNAVLYTNRAAAQLYLGNYRSALNDCSAALKLKPTHLKAYIRGAKCL  163 (390)
T ss_pred             HHHHhHHHHHhhhHHHHHHHHHHHHhhcCCCccHHHHHHhhHHHHHHHHHHHHHHHHHHHHHHhcCcchhhhhhhhhHHH
Confidence            333445677788888888888775 1   223  3345666666667789999999999999999999999999999999


Q ss_pred             hhcCCchHHHHHHHH
Q 005966          630 SAVRRWKDAENVRDV  644 (667)
Q Consensus       630 ~~~g~~~~A~~~~~~  644 (667)
                      ....++++|....+.
T Consensus       164 ~eLe~~~~a~nw~ee  178 (390)
T KOG0551|consen  164 LELERFAEAVNWCEE  178 (390)
T ss_pred             HHHHHHHHHHHHHhh
Confidence            888886666665554

>PF09477 Type_III_YscG: Bacterial type II secretion system chaperone protein (type_III_yscG); InterPro: IPR013348 YscG is a molecular chaperone for YscE, where both are part of the type III secretion system that in Yersinia is designated Ysc (Yersinia secretion)

Probab=81.84  E-value=21  Score=27.40  Aligned_cols=81  Identities=16%  Similarity=0.155  Sum_probs=53.9

Q ss_pred             ccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 005966          124 LAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWM  203 (667)
Q Consensus       124 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  203 (667)
                      ....++|..+.+.+...+- ....+--..+..+.+.|++++|+..=.....||...|-.|-.  .+.|-.+++...+.++
T Consensus        19 ~HcH~EA~tIa~wL~~~~~-~~E~v~lIr~~sLmNrG~Yq~ALl~~~~~~~pdL~p~~AL~a--~klGL~~~~e~~l~rl   95 (116)
T PF09477_consen   19 HHCHQEANTIADWLEQEGE-MEEVVALIRLSSLMNRGDYQEALLLPQCHCYPDLEPWAALCA--WKLGLASALESRLTRL   95 (116)
T ss_dssp             TT-HHHHHHHHHHHHHTTT-THHHHHHHHHHHHHHTT-HHHHHHHHTTS--GGGHHHHHHHH--HHCT-HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHhhHHHHHHHHhcccCCCccHHHHHHHHH--HhhccHHHHHHHHHHH
Confidence            4567888888888887763 344444455566788899999976666667788888877654  4677778888777777


Q ss_pred             HHCC
Q 005966          204 LKSG  207 (667)
Q Consensus       204 ~~~g  207 (667)
                      ...|
T Consensus        96 a~~g   99 (116)
T PF09477_consen   96 ASSG   99 (116)
T ss_dssp             CT-S
T ss_pred             HhCC
Confidence            6554

The secretion system delivers effector proteins, designated Yops (Yersinia outer proteins), in Yersinia. This entry consists of YscG from Yersinia, and functionally equivalent type III secretion proteins in other species: e.g. AscG in Aeromonas and LscG in Photorhabdus luminescens.; GO: 0009405 pathogenesis; PDB: 3PH0_D 2UWJ_G 2P58_C.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=81.60  E-value=1.4  Score=36.72  Aligned_cols=84  Identities=19%  Similarity=0.244  Sum_probs=55.4

Q ss_pred             HHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHH
Q 005966          319 LLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKA  398 (667)
Q Consensus       319 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A  398 (667)
                      ++..+.+.+..+....+++.+...+...+..+.+.++..|++.+..+...++++....   .....++..|.+.|.+++|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~~a   89 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYEEA   89 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHHHH
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHHHH
Confidence            4556666667777777777777666666777888888888888777777777773333   3345566666666776666


Q ss_pred             HHHHHHH
Q 005966          399 VELFRQM  405 (667)
Q Consensus       399 ~~~~~~m  405 (667)
                      .-++.++
T Consensus        90 ~~Ly~~~   96 (143)
T PF00637_consen   90 VYLYSKL   96 (143)
T ss_dssp             HHHHHCC
T ss_pred             HHHHHHc
Confidence            6666554

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.

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=81.38  E-value=13  Score=34.77  Aligned_cols=100  Identities=11%  Similarity=0.066  Sum_probs=53.3

Q ss_pred             CCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCC-CCh-----hhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHH
Q 005966          141 GFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE-HSV-----VSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCAS  214 (667)
Q Consensus       141 ~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-~~~-----~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~  214 (667)
                      |.+.+..+...++..-....++++++..+-.+.. ++.     .+-.+.++.+ -.-++++++.++..=.+-|+.||..+
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            3344444445555544555666666665544422 111     0111122222 22355567777766667777777777


Q ss_pred             HHHHHHHcccCcchHHHHHHHHHHHhc
Q 005966          215 VVSVLPACGYLKEIEMGRMIHELVAGG  241 (667)
Q Consensus       215 ~~~ll~~~~~~~~~~~a~~~~~~~~~~  241 (667)
                      ++.+|..+.+.+++..|..+.-.|+..
T Consensus       138 ~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  138 FCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            777777776666666666555554443

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=81.24  E-value=84  Score=33.84  Aligned_cols=32  Identities=13%  Similarity=0.226  Sum_probs=23.8

Q ss_pred             HHhHHHHHHHhcCCHHHHHHHHhccCCCCccc
Q 005966          350 VETALIDMYAKCNLVKLSFQVFARTSKKKTVP  381 (667)
Q Consensus       350 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  381 (667)
                      +...|+..|...+++..|..++-...+.+...
T Consensus       507 L~e~La~LYl~d~~Y~~Al~~ylklk~~~vf~  538 (846)
T KOG2066|consen  507 LLEVLAHLYLYDNKYEKALPIYLKLQDKDVFD  538 (846)
T ss_pred             HHHHHHHHHHHccChHHHHHHHHhccChHHHH
Confidence            33448888888889999988888777665544

>KOG1498 consensus 26S proteasome regulatory complex, subunit RPN5/PSMD12 [Posttranslational modification, protein turnover, chaperones]

Probab=81.21  E-value=57  Score=31.87  Aligned_cols=97  Identities=15%  Similarity=0.196  Sum_probs=71.3

Q ss_pred             HHHHHHHhhcCChHHHHHHHHhCCCCC--------CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc-------h
Q 005966          557 TCIVDLLGRAGRLDEAYDLIRTMPLKP--------THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG-------N  621 (667)
Q Consensus       557 ~~l~~~~~~~g~~~~A~~~~~~~~~~p--------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------~  621 (667)
                      ..|...+..+|+.++|..++.+.+.+.        -......-++.|...+|+-.|.-+.+++....-+++.       .
T Consensus       135 k~L~~ike~~Gdi~~Aa~il~el~VETygsm~~~ekV~fiLEQmrKOG~~~D~vra~i~skKI~~K~F~~~~~~~lKlky  214 (439)
T KOG1498|consen  135 KMLAKIKEEQGDIAEAADILCELQVETYGSMEKSEKVAFILEQMRLCLLRLDYVRAQIISKKINKKFFEKPDVQELKLKY  214 (439)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHhcchhhhhhhHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhHHhcCCccHHHHHHHH
Confidence            346677888999999999998875321        1112233467788899999999998888765544443       5


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHhhhCCCccC
Q 005966          622 YVLLSKLYSAVRRWKDAENVRDVMDEKGLRKA  653 (667)
Q Consensus       622 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  653 (667)
                      |..++....+.+.|=++-..++..-..|-.+.
T Consensus       215 Y~lmI~l~lh~~~Yl~v~~~Yraiy~t~~vk~  246 (439)
T KOG1498|consen  215 YELMIRLGLHDRAYLNVCRSYRAIYDTGNVKE  246 (439)
T ss_pred             HHHHHHhcccccchhhHHHHHHHHhccccccc
Confidence            77888888888999999999988877666555

>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=81.17  E-value=1.5e+02  Score=36.72  Aligned_cols=105  Identities=13%  Similarity=-0.004  Sum_probs=69.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC--CCCCC--------HHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM--PLKPT--------HAV  587 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~--------~~~  587 (667)
                      .+|....+.....|.++.|...+-.+.+ .. .|..  +--.+..+...|+-..|+.++++.  ...|+        +..
T Consensus      1671 e~wLqsAriaR~aG~~q~A~nall~A~e-~r-~~~i--~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~~~~~~~~~~~p~~ 1746 (2382)
T KOG0890|consen 1671 ECWLQSARIARLAGHLQRAQNALLNAKE-SR-LPEI--VLERAKLLWQTGDELNALSVLQEILSKNFPDLHTPYTDTPQS 1746 (2382)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhhhh-cc-cchH--HHHHHHHHHhhccHHHHHHHHHHHHHhhcccccCCccccchh
Confidence            5688888888889999999888777766 22 3444  445667788899999999888875  11111        222


Q ss_pred             HHHHHHH--------H-HhcCC--HHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          588 WGALLGA--------C-VIHGN--VELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       588 ~~~l~~~--------~-~~~g~--~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      -+.++..        | ...|+  .+.-++.|..+.+..|.....++.++
T Consensus      1747 ~n~~i~~~~~L~~~~~~~es~n~~s~~ilk~Y~~~~ail~ewe~~hy~l~ 1796 (2382)
T KOG0890|consen 1747 VNLLIFKKAKLKITKYLEESGNFESKDILKYYHDAKAILPEWEDKHYHLG 1796 (2382)
T ss_pred             hhhhhhhhHHHHHHHHHHHhcchhHHHHHHHHHHHHHHcccccCceeeHH
Confidence            2222211        2 23344  35567788889999998777777777

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=80.63  E-value=26  Score=28.98  Aligned_cols=78  Identities=10%  Similarity=0.198  Sum_probs=47.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHhcccCC---------CChhhHHHHHHHHHHcCC-hhHHHHHHHHHHHCCCCCChHHHHH
Q 005966          148 VGNCLIAMYMNFGEVKAARKVFDAMWE---------HSVVSWNTLISGYFKNAY-AKEALVVFDWMLKSGVEPDCASVVS  217 (667)
Q Consensus       148 ~~~~li~~~~~~g~~~~A~~~~~~~~~---------~~~~~~~~li~~~~~~~~-~~~A~~~~~~m~~~g~~p~~~~~~~  217 (667)
                      ..|.++.-....+++...+.+++.+..         .+-.+|++++.+.+...- ---+..+|+.|++.+.+++..-|..
T Consensus        41 fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk~~~~~~t~~dy~~  120 (145)
T PF13762_consen   41 FINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLKKNDIEFTPSDYSC  120 (145)
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHHHcCCCCCHHHHHH
Confidence            456666666666666666666665521         244567777776655444 3345566777776666777777777


Q ss_pred             HHHHcccC
Q 005966          218 VLPACGYL  225 (667)
Q Consensus       218 ll~~~~~~  225 (667)
                      ++.+|.+.
T Consensus       121 li~~~l~g  128 (145)
T PF13762_consen  121 LIKAALRG  128 (145)
T ss_pred             HHHHHHcC
Confidence            77766554

>PRK10941 hypothetical protein; Provisional

Probab=80.55  E-value=10  Score=35.47  Aligned_cols=69  Identities=10%  Similarity=0.039  Sum_probs=51.3

Q ss_pred             HHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHH
Q 005966          557 TCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLL  625 (667)
Q Consensus       557 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  625 (667)
                      +.+-.+|.+.++++.|+.+.+.+ ...| |+.-+..-+..|.+.|....|..-++..++..|++|.+-..-
T Consensus       185 ~nLK~~~~~~~~~~~AL~~~e~ll~l~P~dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp~a~~ik  255 (269)
T PRK10941        185 DTLKAALMEEKQMELALRASEALLQFDPEDPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDPISEMIR  255 (269)
T ss_pred             HHHHHHHHHcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCchhHHHHH
Confidence            34556777888888888888877 4555 555677777778888888888888888888888877765543

---

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	667
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-13
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-10
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	3e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-06
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	2e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	9e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	1e-06
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	2e-06
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	1e-04
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	2e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 72.9 bits (177), Expect = 2e-13
 Identities = 14/138 (10%), Positives = 46/138 (33%), Gaps = 7/138 (5%)

Query: 193 AKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNA 252
            + A  + D   ++   P    +  +L        +++ +      +  +L        A
Sbjct: 73  KQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLA 132

Query: 253 LVDMYVKCGSVNEARLVFDRMSER-------DVVTWTSMINGYALNGDVRNALGLFQLMQ 305
                +    +  A  +      +        +  + +++ G+A  G  +  + +  +++
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 306 FEGVRPNSLTIGSLLSAC 323
             G+ P+ L+  + L   
Sbjct: 193 DAGLTPDLLSYAAALQCM 210

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 62.1 bits (149), Expect = 4e-10
 Identities = 26/195 (13%), Positives = 56/195 (28%), Gaps = 5/195 (2%)

Query: 395 ARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTG 454
            + A  L          P +  L  LL        L           +       +    
Sbjct: 73  KQMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLA 132

Query: 455 LIDIYSKCGSLESAHKI---FSEIPIKDK--DIVVWSVIIAGYGMHGHGETAVSLFKEMV 509
                     L  AH +         K K   + +++ ++ G+   G  +  V +   + 
Sbjct: 133 FFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVK 192

Query: 510 QSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL 569
            +G+ P+ +++ +AL            ++     +       +A     ++    RA  L
Sbjct: 193 DAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL 252

Query: 570 DEAYDLIRTMPLKPT 584
              + +  T  L P 
Sbjct: 253 KAVHKVKPTFSLPPQ 267

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 52.9 bits (125), Expect = 3e-07
 Identities = 16/129 (12%), Positives = 47/129 (36%), Gaps = 8/129 (6%)

Query: 203 MLKSGVEPDCASVVSVLPACGYLKEIEMG-RMIHELVAGGRLGK--NIAAWNALVDMYVK 259
             ++ +      +++    C    ++ +   ++       +  K   +  +NA++  + +
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 260 CGSVNEARLVFDRMSER----DVVTWTSMINGYALNG-DVRNALGLFQLMQFEGVRPNSL 314
            G+  E   V   + +     D++++ + +        D        + M  EG++  +L
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 315 TIGSLLSAC 323
               LLS  
Sbjct: 238 FTAVLLSEE 246

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 50.6 bits (119), Expect = 1e-06
 Identities = 18/170 (10%), Positives = 43/170 (25%), Gaps = 19/170 (11%)

Query: 61  SNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKA 120
           S          +    L +  M    ++                    P       +++ 
Sbjct: 54  SGEFKALTRRLQVEPRLLSKQMAGCLEDCTRQAPES------------PWEEQLARLLQE 101

Query: 121 CTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEH----- 175
                   +  A  G+                    +   ++  A  +            
Sbjct: 102 APGKLSLDVEQAPSGQHSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRK 161

Query: 176 --SVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACG 223
             ++  +N ++ G+ +    KE + V   +  +G+ PD  S  + L   G
Sbjct: 162 LLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMG 211

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 46.7 bits (109), Expect = 2e-05
 Identities = 16/138 (11%), Positives = 40/138 (28%), Gaps = 7/138 (5%)

Query: 295 RNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETAL 354
           + A  L    +     P    +  LL        L   ++      +  L  +     A 
Sbjct: 74  QMAGCLEDCTRQAPESPWEEQLARLLQEAPGKLSLDVEQAPSGQHSQAQLSGQQQRLLAF 133

Query: 355 IDMYAKCNLVKLSFQVFARTSKKKTVP-------WNAILAGCVHNGLARKAVELFRQMLV 407
                  + + L+  +      ++          +NA++ G    G  ++ V +   +  
Sbjct: 134 FKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKD 193

Query: 408 EVVEPNDATLNSLLPAYA 425
             + P+  +  + L    
Sbjct: 194 AGLTPDLLSYAAALQCMG 211

>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 = 51.4 bits (122), Expect = 9e-07
 Identities = 49/331 (14%), Positives = 104/331 (31%), Gaps = 104/331 (31%)

Query: 394 LARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVST 453
           L  K  E+ ++ + EV+  N          Y  L    +       ++   ++   +   
Sbjct: 71  LLSKQEEMVQKFVEEVLRIN----------YKFLMSPIKTEQRQPSMMTRMYIEQRDRLY 120

Query: 454 GLIDIYSKCGSLESAHKIFSEIPIKD--------KDIVVWSVIIAGYGMHGHGETAVSLF 505
               +++K  ++           ++         K++++        G+ G G+T   + 
Sbjct: 121 NDNQVFAK-YNVSRLQPYLK---LRQALLELRPAKNVLI-------DGVLGSGKT--WVA 167

Query: 506 KEMVQS-GVQ---PNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD 561
            ++  S  VQ     ++ + +  +  S   +L+    L   +  N    SR+DH + I  
Sbjct: 168 LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW--TSRSDHSSNIKL 225

Query: 562 LLGRAGRLDEAYDLIRTMPLKPTHA-------------VWGALLGAC------------- 595
                 R+      +R +     +               W A   +C             
Sbjct: 226 ------RIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQVTD 279

Query: 596 -----------VIHGNV-----ELGEVAAKWL----FELEPE----NPGNYVLLSKLYSA 631
                      + H ++     E+  +  K+L     +L  E    NP     LS +  +
Sbjct: 280 FLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNP---RRLSIIAES 336

Query: 632 VR----RWKDAENVRDVMDEKGLRKAPAHSL 658
           +R     W   +N + V  +K L      SL
Sbjct: 337 IRDGLATW---DNWKHVNCDK-LTTIIESSL 363

>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 = 51.0 bits (121), Expect = 1e-06
 Identities = 51/369 (13%), Positives = 112/369 (30%), Gaps = 96/369 (26%)

Query: 225 LKEIEMGRMIHELVAG-GRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTS 283
           L E+   + +  L+ G    GK   A +  +   V+C    +   +F          W +
Sbjct: 144 LLELRPAKNV--LIDGVLGSGKTWVALDVCLSYKVQCKMDFK---IF----------WLN 188

Query: 284 MINGYALNGDVRNALGLF-QLMQFEGVRPNS-----LTIGSLLSACSSLYYLKRG-RSL- 335
           + N  +    +     L  Q+      R +      L I S+ +    L   K     L 
Sbjct: 189 LKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLL 248

Query: 336 ------HAWTIKQ-NLECEVIVET---ALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAI 385
                 +A      NL C++++ T    + D              F   +    +  +  
Sbjct: 249 VLLNVQNAKAWNAFNLSCKILLTTRFKQVTD--------------FLSAATTTHISLDHH 294

Query: 386 LAGCVHNGLARKAVELFRQMLVEVVE--PNDATLNSLLPAYAILADLQQAMNIHC-YLIR 442
                      +   L  + L    +  P +    +     +I+A+  +           
Sbjct: 295 SMTLTP----DEVKSLLLKYLDCRPQDLPREVLTTNPR-RLSIIAESIRDGLATWDNWKH 349

Query: 443 YG---FLSVVEVSTGLID------IYSKCGSLESAHKIFSE---IPIKDKDIVVWSVIIA 490
                  +++E S  +++      ++ +         +F     IP     + +W  +I 
Sbjct: 350 VNCDKLTTIIESSLNVLEPAEYRKMFDRLS-------VFPPSAHIPTILLSL-IWFDVIK 401

Query: 491 GYGMHGHGETAVSLFKEMVQSGV---QPNEVTFTSALHACSHGGLLDEGLDLFNFMLENH 547
                      + +  ++ +  +   QP E T +  + +      L+  + L N     H
Sbjct: 402 --------SDVMVVVNKLHKYSLVEKQPKESTIS--IPSI----YLELKVKLEN-EYALH 446

Query: 548 QTCSRADHY 556
           ++    DHY
Sbjct: 447 RSI--VDHY 453

>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 = 50.2 bits (119), Expect = 2e-06
 Identities = 83/578 (14%), Positives = 159/578 (27%), Gaps = 163/578 (28%)

Query: 7   HTLPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITS-GPLFTHLRSSLVRAYGHVSNVRI 65
             +  T  L   L+ +          + +  F+       +  L S +       S +  
Sbjct: 59  DAVSGTLRLFWTLLSK--------QEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTR 110

Query: 66  LFDEMSERSSFLYNTV---MKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVI---- 118
           ++ E  +R   LYN      K        +  L+  L  LR  +         ++I    
Sbjct: 111 MYIEQRDR---LYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKN--------VLIDGVL 159

Query: 119 ---KACTDLAWRKLGIALHGRVLITGFDMDTF---VGNC---------LIAMYMNFGEVK 163
              K    +A            +    D   F   + NC         L  +        
Sbjct: 160 GSGKTW--VA----LDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNW 213

Query: 164 AARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFD-----WMLKSGVEPDC------ 212
            +R    +  +  + S    +    K+   +  L+V           +     C      
Sbjct: 214 TSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKAWNA-FNLSCKILLTT 272

Query: 213 --ASVVSVLPACGY----LKEIEMG-------------------------RMIHELV--- 238
               V   L A       L    M                             +      
Sbjct: 273 RFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSI 332

Query: 239 AGGRLGKNIAAWN-----------ALVDMYVKCGSVNEARLVFDRMS--ERDV------- 278
               +   +A W+            +++  +      E R +FDR+S             
Sbjct: 333 IAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL 392

Query: 279 -VTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIG------SLLSACSSLYYLKR 331
            + W  +I   +    V N L  + L++    +P   TI        L     + Y L R
Sbjct: 393 SLIWFDVI--KSDVMVVVNKLHKYSLVE---KQPKESTISIPSIYLELKVKLENEYALHR 447

Query: 332 GRSLHAWTIKQNLECEVIVETALIDMY---------AKCNLVK---------LSFQVFAR 373
              +  + I +  + + ++   L D Y               +         L F+   +
Sbjct: 448 -SIVDHYNIPKTFDSDDLIPPYL-DQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQ 505

Query: 374 TSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQA 433
             +  +  WNA  +G + N L +  ++ ++  + +    ND     L+   AIL  L + 
Sbjct: 506 KIRHDSTAWNA--SGSILNTLQQ--LKFYKPYICD----NDPKYERLV--NAILDFLPKI 555

Query: 434 MNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKI 471
                 LI   +  ++ +   L+         E AHK 
Sbjct: 556 EEN---LICSKYTDLLRI--ALMAEDE--AIFEEAHKQ 586

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus} Length = 291

 Score = 43.2 bits (101), Expect = 1e-04
 Identities = 30/274 (10%), Positives = 74/274 (27%), Gaps = 18/274 (6%)

Query: 391 HNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVE 450
           + G  ++ +   +++     E +      L  AY         ++     I+      ++
Sbjct: 11  YIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLD----EIKPSSAPELQ 66

Query: 451 VSTGLIDIYSKCGSLESAHKIFSE---IPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKE 507
                 +  +     ++            +   +     +  + Y    + + A+    +
Sbjct: 67  AVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ 126

Query: 508 MVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG 567
                     V              LD        M +  +  +     T  V L     
Sbjct: 127 GDSLECMAMTV------QILLKLDRLDLARKELKKMQDQDEDATLTQLATAWVSLAAGGE 180

Query: 568 RLDEAYDLIRTMP-LKPTHAVWGALLGACVIH-GNVELGEVAAKWLFELEPENPGNYVLL 625
           +L +AY + + M        +      AC +  G  E  E   +   + +  +P   + L
Sbjct: 181 KLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPETLINL 240

Query: 626 SKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLI 659
             L   + +  +  N       +      +H  I
Sbjct: 241 VVLSQHLGKPPEVTN---RYLSQLKDAHRSHPFI 271

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7 Length = 308

 Score = 43.1 bits (101), Expect = 2e-04
 Identities = 15/130 (11%), Positives = 38/130 (29%), Gaps = 5/130 (3%)

Query: 151 CLIAMYMNFGEVKAARKVFDAM----WEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKS 206
                  +  + +    +++ +         + +   +    +    K   ++F    + 
Sbjct: 104 AYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED 163

Query: 207 GVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEA 266
                   V + L      K+  +   I EL    + G       A +D        N  
Sbjct: 164 ARTRHHVYVTAALMEYYCSKDKSVAFKIFEL-GLKKYGDIPEYVLAYIDYLSHLNEDNNT 222

Query: 267 RLVFDRMSER 276
           R++F+R+   
Sbjct: 223 RVLFERVLTS 232

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	667
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.94
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.91
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.89
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.86
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.85
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.84
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.83
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.83
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.83
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.82
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.79
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.79
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.79
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.78
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.78
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.77
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.76
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.75
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.71
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.69
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.69
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.69
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.67
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.65
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.63
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.62
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.62
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.61
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.61
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.61
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.6
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.6
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.59
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.59
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.57
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.57
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.57
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.56
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.55
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.54
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.54
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.54
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.54
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.51
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.51
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.51
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.48
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.46
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.45
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.45
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.43
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.42
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.42
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.42
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.41
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.4
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.4
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.39
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.39
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.37
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.36
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.35
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.33
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.33
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.32
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.28
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.25
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.22
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.21
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.21
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.2
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.19
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.19
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.18
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.16
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.15
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.15
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.14
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.14
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.12
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.09
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.08
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.07
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.07
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.06
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.06
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.05
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.03
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.03
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.01
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.99
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.97
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.95
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.95
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.95
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.95
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	98.94
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.94
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.93
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.93
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.9
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.89
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.88
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.85
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.84
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.84
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.83
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.82
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.81
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.81
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.8
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.8
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.8
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.77
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.76
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.75
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.73
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.72
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.72
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.72
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.71
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.68
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.68
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.68
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.67
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.66
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.66
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.66
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.66
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.65
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.64
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.63
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.63
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.62
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.61
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.61
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.61
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.59
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.59
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.57
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.55
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.52
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.51
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.49
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.49
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.48
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.48
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.48
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.48
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.47
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.46
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.45
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.44
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.44
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.44
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.43
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.41
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.41
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.4
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.4
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.4
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.39
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.38
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.37
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.37
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.36
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.36
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.34
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.33
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.32
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.32
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.29
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.21
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.2
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.17
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.17
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.16
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.15
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.14
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.14
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	98.09
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.09
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.07
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.06
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.03
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.99
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.94
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.91
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.76
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.66
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.65
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.63
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.54
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.52
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.51
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.48
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.41
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.37
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.36
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.29
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.28
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.22
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.14
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.14
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	97.12
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.92
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.77
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.73
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.49
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.37
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.32
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.3
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	96.18
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.76
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.71
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.68
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.67
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	95.37
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.92
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.92
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.82
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.59
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	94.25
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	93.58
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	92.79
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	92.66
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	92.25
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	91.62
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.62
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.42
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.24
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	91.17
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	90.56
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	90.45
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	90.35
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	90.18
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.7
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	88.43
2p58_C	116	Putative type III secretion protein YSCG; type III	88.32
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	88.21
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.57
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	87.34
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.63
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	86.57
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	85.8
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	85.34
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	83.89
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	83.03
2p58_C	116	Putative type III secretion protein YSCG; type III	82.61
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	81.25
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.85
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	80.77
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	80.24

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.8e-42  Score=369.62  Aligned_cols=503  Identities=8%  Similarity=-0.054  Sum_probs=391.7

Q ss_pred             hHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHH
Q 005966           52 SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGI  131 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  131 (667)
                      ..+...|....+...|+.++.+++..|+.++..+.+.|++++|+.+|+++...   .|+..++..++.+|.+.|++++|.
T Consensus        61 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~p~~~~~~~l~~~~~~~g~~~~A~  137 (597)
T 2xpi_A           61 NNTSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLDI---TGNPNDAFWLAQVYCCTGDYARAK  137 (597)
T ss_dssp             ---------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---HCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             ccccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHhh---CCCchHHHHHHHHHHHcCcHHHHH
Confidence            44566788888899999998889999999999999999999999999999965   678899999999999999999999


Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCC-------------------ChhhHHHHHHHHHHcCC
Q 005966          132 ALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEH-------------------SVVSWNTLISGYFKNAY  192 (667)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~  192 (667)
                      .+|+.+...  +++..+++.++.+|.+.|++++|+++|+++...                   +..+|+.++.+|.+.|+
T Consensus       138 ~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  215 (597)
T 2xpi_A          138 CLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSN  215 (597)
T ss_dssp             HHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCC
Confidence            999988654  688999999999999999999999999965433                   47899999999999999


Q ss_pred             hhHHHHHHHHHHHCCCCCC-hHHHHHHHHHcccCcchHHH--HHH-HHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHH
Q 005966          193 AKEALVVFDWMLKSGVEPD-CASVVSVLPACGYLKEIEMG--RMI-HELVAGGRLGKNIAAWNALVDMYVKCGSVNEARL  268 (667)
Q Consensus       193 ~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a--~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  268 (667)
                      +++|+++|++|.+.  .|+ ...+..+...+...+..+.+  ..+ +..+...+..+...+|+.++..|.+.|++++|.+
T Consensus       216 ~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~  293 (597)
T 2xpi_A          216 FDRAKECYKEALMV--DAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAED  293 (597)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh--CchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHH
Confidence            99999999999885  354 34455555544444333322  222 5555555555566677888889999999999999


Q ss_pred             HHhhcCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCC
Q 005966          269 VFDRMSE--RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLEC  346 (667)
Q Consensus       269 ~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~  346 (667)
                      +|+++.+  ++..+|+.++..|.+.|++++|+++|+++.+.+  |+                                  
T Consensus       294 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~----------------------------------  337 (597)
T 2xpi_A          294 YLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID--PY----------------------------------  337 (597)
T ss_dssp             HHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT----------------------------------
T ss_pred             HHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC--cc----------------------------------
Confidence            9999987  788899999999999999999999999987643  21                                  


Q ss_pred             CchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC
Q 005966          347 EVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAI  426 (667)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~  426 (667)
                                                     +..+|+.++.++.+.|++++|.++++++.+. .+.+..++..+...|.+
T Consensus       338 -------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~  385 (597)
T 2xpi_A          338 -------------------------------NLDVYPLHLASLHESGEKNKLYLISNDLVDR-HPEKAVTWLAVGIYYLC  385 (597)
T ss_dssp             -------------------------------CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH-CTTSHHHHHHHHHHHHH
T ss_pred             -------------------------------cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh-CcccHHHHHHHHHHHHH
Confidence                                           1223445555556666666777777766643 23456667777777777


Q ss_pred             cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHH
Q 005966          427 LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLF  505 (667)
Q Consensus       427 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  505 (667)
                      .|++++|.++|+.+.+.. +.+..+++.++.+|.+.|++++|.++|+++....| +..+|+.++.+|.+.|++++|.++|
T Consensus       386 ~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  464 (597)
T 2xpi_A          386 VNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYL  464 (597)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHH
Confidence            777777777777776654 44567788888888888888888888888766554 6788999999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCCc--hhHHHHHHHHHhhcCChHHHHHHHHhC-
Q 005966          506 KEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENH---QTCSR--ADHYTCIVDLLGRAGRLDEAYDLIRTM-  579 (667)
Q Consensus       506 ~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-  579 (667)
                      +++.+.. +.+..+|..++..|.+.|++++|.++|+++.+..   +..|+  ..+|..++.+|.+.|++++|.+.++++ 
T Consensus       465 ~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  543 (597)
T 2xpi_A          465 QSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGL  543 (597)
T ss_dssp             HHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence            9999875 4477889999999999999999999999998732   55676  778999999999999999999999987 


Q ss_pred             CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          580 PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       580 ~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ...| +..+|..++.+|...|++++|...++++++++|+++.++..++.+|..
T Consensus       544 ~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~  596 (597)
T 2xpi_A          544 LLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPNEIMASDLLKRALEE  596 (597)
T ss_dssp             HHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTC-
T ss_pred             HhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCChHHHHHHHHHHhc
Confidence            3344 788999999999999999999999999999999999999999988864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=1.6e-41  Score=363.80  Aligned_cols=484  Identities=9%  Similarity=-0.076  Sum_probs=403.3

Q ss_pred             HHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHH
Q 005966          156 YMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIH  235 (667)
Q Consensus       156 ~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  235 (667)
                      +.+.|....+...+..++.+++..|+.++..+.+.|++++|+.+|++|..  ..|+..++..+..+|.+.|++++|..++
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~  140 (597)
T 2xpi_A           63 TSTDGSFLKERNAQNTDSLSREDYLRLWRHDALMQQQYKCAAFVGEKVLD--ITGNPNDAFWLAQVYCCTGDYARAKCLL  140 (597)
T ss_dssp             -------------------CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HHCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ccccCccCCCCCccccchHHHHHHHHHHHHHHHHccCchHHHHHHHHHHh--hCCCchHHHHHHHHHHHcCcHHHHHHHH
Confidence            45567777788888888888899999999999999999999999999985  5688899999999999999999999999


Q ss_pred             HHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCC-------------------ChhHHHHHHHHHHhCCChHH
Q 005966          236 ELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSER-------------------DVVTWTSMINGYALNGDVRN  296 (667)
Q Consensus       236 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------------------~~~~~~~li~~~~~~~~~~~  296 (667)
                      +.+...  +++..+++.++.+|.+.|++++|.++|+++...                   +..+|+.++.+|.+.|++++
T Consensus       141 ~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  218 (597)
T 2xpi_A          141 TKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDR  218 (597)
T ss_dssp             HHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHH
Confidence            987643  578889999999999999999999999965443                   37899999999999999999


Q ss_pred             HHHHHHHHHhcCCCCCh-hhHHHHHHHhhcccchHHH--HHH-HHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHh
Q 005966          297 ALGLFQLMQFEGVRPNS-LTIGSLLSACSSLYYLKRG--RSL-HAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFA  372 (667)
Q Consensus       297 a~~~~~~m~~~~~~p~~-~t~~~ll~~~~~~~~~~~a--~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  372 (667)
                      |+++|++|.+.+  |+. ..+..+...+...+..+..  ..+ +..+...+..+...+++.++..|.+.|++++|.++|+
T Consensus       219 A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  296 (597)
T 2xpi_A          219 AKECYKEALMVD--AKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLS  296 (597)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--chhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHH
Confidence            999999998854  443 3344444433333322221  111 3444444445556677778899999999999999999


Q ss_pred             ccCC--CCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCch
Q 005966          373 RTSK--KKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVE  450 (667)
Q Consensus       373 ~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  450 (667)
                      ++..  ++..+|+.++..|.+.|++++|+++|+++.+.+ +.+..++..++.++...|++++|..+++.+.+.. +.+..
T Consensus       297 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~  374 (597)
T 2xpi_A          297 SINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAV  374 (597)
T ss_dssp             TSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHH
T ss_pred             HhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHH
Confidence            9986  777889999999999999999999999999765 3367789999999999999999999999998765 66788


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005966          451 VSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH  529 (667)
Q Consensus       451 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  529 (667)
                      ++..++.+|.+.|++++|.++|+++....| +..+|+.++.+|.+.|++++|+++|+++.+.+ +.+..+|..++.+|.+
T Consensus       375 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~  453 (597)
T 2xpi_A          375 TWLAVGIYYLCVNKISEARRYFSKSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQ  453 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHH
Confidence            999999999999999999999999876555 57799999999999999999999999999875 4577899999999999


Q ss_pred             cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-------CCCCC--HHHHHHHHHHHHhcCC
Q 005966          530 GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-------PLKPT--HAVWGALLGACVIHGN  600 (667)
Q Consensus       530 ~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~g~  600 (667)
                      .|++++|.++|+++.+.  .+.+..+|..++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|+
T Consensus       454 ~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~  531 (597)
T 2xpi_A          454 LGNILLANEYLQSSYAL--FQYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKM  531 (597)
T ss_dssp             HTCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTC
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcC
Confidence            99999999999999983  4457888999999999999999999999988       34777  7899999999999999


Q ss_pred             HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       601 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      +++|+..++++++..|+++.++..++.+|.+.|++++|.+.++++.+...
T Consensus       532 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p  581 (597)
T 2xpi_A          532 YDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISP  581 (597)
T ss_dssp             HHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCC
Confidence            99999999999999999999999999999999999999999999988653

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=8.3e-27  Score=234.96  Aligned_cols=371  Identities=11%  Similarity=0.092  Sum_probs=270.5

Q ss_pred             cccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHH
Q 005966          222 CGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNAL  298 (667)
Q Consensus       222 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~  298 (667)
                      +.+.|++++|...+..+.+.. +.+...+..+...+...|++++|...++...+   .+..+|..+...+.+.|++++|+
T Consensus         9 ~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~   87 (388)
T 1w3b_A            9 EYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAI   87 (388)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHH
Confidence            445566666666665555543 22344455555555566666666665555433   34445555666666666666666


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccC---
Q 005966          299 GLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTS---  375 (667)
Q Consensus       299 ~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---  375 (667)
                      +.|+++.+.  .|+                                  +...+..+...+.+.|++++|...|+++.   
T Consensus        88 ~~~~~al~~--~p~----------------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  131 (388)
T 1w3b_A           88 EHYRHALRL--KPD----------------------------------FIDGYINLAAALVAAGDMEGAVQAYVSALQYN  131 (388)
T ss_dssp             HHHHHHHHH--CTT----------------------------------CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHc--Ccc----------------------------------hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            666665542  222                                  23344455555555555555555555443   


Q ss_pred             CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHH
Q 005966          376 KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGL  455 (667)
Q Consensus       376 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  455 (667)
                      +.+...+..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+
T Consensus       132 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l  209 (388)
T 1w3b_A          132 PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINL  209 (388)
T ss_dssp             TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHH
Confidence            2223336666777777788888888888877642 3345677788888888888888888888888765 4566778888


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLD  534 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~  534 (667)
                      ...+...|++++|...|++.....| +..++..+...+...|++++|+..|+++.+.+ +.+..++..+..++.+.|+++
T Consensus       210 g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~  288 (388)
T 1w3b_A          210 GNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVA  288 (388)
T ss_dssp             HHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            8889999999999998887766555 46788889999999999999999999999864 234668888999999999999


Q ss_pred             HHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          535 EGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       535 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                      +|...++++.+  ..+.+..++..++..+.+.|++++|.+.++++ ...| +..++..++..+.+.|++++|+..+++++
T Consensus       289 ~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~  366 (388)
T 1w3b_A          289 EAEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAI  366 (388)
T ss_dssp             HHHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHh--hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999988  34567788999999999999999999999987 4445 57788999999999999999999999999


Q ss_pred             ccCCCCCchHHHHHHHHhhcCC
Q 005966          613 ELEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       613 ~~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      ++.|+++.++..++.++...|+
T Consensus       367 ~~~p~~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          367 RISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TTCTTCHHHHHHHHHHHHHTCC
T ss_pred             hhCCCCHHHHHhHHHHHHHccC
Confidence            9999999999999999887764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.96  E-value=8e-26  Score=227.73  Aligned_cols=354  Identities=16%  Similarity=0.093  Sum_probs=287.5

Q ss_pred             HHHhCCChHHHHHHHHHHHhcCCCCChh-hHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHH
Q 005966          287 GYALNGDVRNALGLFQLMQFEGVRPNSL-TIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVK  365 (667)
Q Consensus       287 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~-t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  365 (667)
                      .+.+.|++++|.+.+.++.+.  .|+.. .+..+...+...|+.+.+...+....+.. +.+...+..+...|.+.|+++
T Consensus         8 ~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~-p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            8 REYQAGDFEAAERHCMQLWRQ--EPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHH
Confidence            344455555555555555443  23322 22333333444555555555555554433 445667888888889999999


Q ss_pred             HHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 005966          366 LSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPN-DATLNSLLPAYAILADLQQAMNIHCYLI  441 (667)
Q Consensus       366 ~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~  441 (667)
                      +|...|+++.   +.+...|..+..++.+.|++++|.+.|+++.+.  .|+ ...+..+...+...|++++|...++.+.
T Consensus        85 ~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al  162 (388)
T 1w3b_A           85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHH
Confidence            9999988765   334456999999999999999999999999875  344 4566677888889999999999999998


Q ss_pred             HhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHH
Q 005966          442 RYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTF  520 (667)
Q Consensus       442 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  520 (667)
                      +.. +.+...+..+...+.+.|++++|...|+++....|+ ...|..+...+...|++++|+..+++..+.. +.+..++
T Consensus       163 ~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~  240 (388)
T 1w3b_A          163 ETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVH  240 (388)
T ss_dssp             HHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHH
T ss_pred             HhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHH
Confidence            875 556788999999999999999999999998876664 5788899999999999999999999999864 2356788


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhc
Q 005966          521 TSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIH  598 (667)
Q Consensus       521 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~  598 (667)
                      ..+..++...|++++|...++++.+  ..+.+...|..++.++.+.|++++|.+.++++ . .+++..++..++..+...
T Consensus       241 ~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~  318 (388)
T 1w3b_A          241 GNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHc
Confidence            9999999999999999999999998  33445678999999999999999999999998 3 445788999999999999


Q ss_pred             CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          599 GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       599 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      |++++|+..++++++..|+++.++..++.+|.+.|++++|.+.++++.+..
T Consensus       319 g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  369 (388)
T 1w3b_A          319 GNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS  369 (388)
T ss_dssp             TCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTC
T ss_pred             CCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            999999999999999999999999999999999999999999999998754

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=8.1e-28  Score=245.40  Aligned_cols=183  Identities=15%  Similarity=0.156  Sum_probs=162.9

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCC---------HHHHHHHHHHHHHhCCCCCchHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILAD---------LQQAMNIHCYLIRYGFLSVVEVS  452 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~~~  452 (667)
                      ++.+|.+|++.|++++|+++|++|.+.|+.||..||+++|.+|++.+.         ++.|.++|++|.+.|+.||..+|
T Consensus        29 l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~ty  108 (501)
T 4g26_A           29 LKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEATF  108 (501)
T ss_dssp             HHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHHHH
Confidence            677788888888899999999999999999999999999999876543         68889999999999999999999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCC--CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005966          453 TGLIDIYSKCGSLESAHKIFSEIPIKD--KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG  530 (667)
Q Consensus       453 ~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  530 (667)
                      ++|+.+|++.|++++|.++|++|...+  ||..+|+++|.+|++.|++++|.++|++|.+.|+.||..||++|+.+|++.
T Consensus       109 n~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~  188 (501)
T 4g26_A          109 TNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDT  188 (501)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhC
Confidence            999999999999999999999988776  899999999999999999999999999999999999999999999999999


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh
Q 005966          531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR  565 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  565 (667)
                      |++++|.+++++|.+ .+..|+..||+.++..++.
T Consensus       189 g~~d~A~~ll~~Mr~-~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          189 KNADKVYKTLQRLRD-LVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             TCHHHHHHHHHHHHH-HTSSBCHHHHHHHHHHHHS
T ss_pred             CCHHHHHHHHHHHHH-hCCCcCHHHHHHHHHHHhc
Confidence            999999999999988 7888999999998888775

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.95  E-value=2.6e-28  Score=249.08  Aligned_cols=212  Identities=10%  Similarity=0.029  Sum_probs=177.2

Q ss_pred             HHHHHHHHhHHcCCCCCC-cccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcc
Q 005966           93 DSLKMFLGMLRLGEYNPD-NYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDA  171 (667)
Q Consensus        93 ~a~~~~~~~~~~~~~~~~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  171 (667)
                      .+..+.+.+.+. +..+. ...++.+|.+|++.|++++|.++|++|.+.|+.||..+||.||.+|++.+...++      
T Consensus         8 ~~e~L~~~~~~k-~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~------   80 (501)
T 4g26_A            8 PSENLSRKAKKK-AIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES------   80 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS------
T ss_pred             hHHHHHHHHHHh-cccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh------
Confidence            344555666665 44444 3468888999999999999999999999999999999999999999887764432      


Q ss_pred             cCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHH
Q 005966          172 MWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWN  251 (667)
Q Consensus       172 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  251 (667)
                                      .+.+..++|.++|++|...|+.||..||+++|.+|++.|++++|.++|+.|.+.|+.||..+|+
T Consensus        81 ----------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn  144 (501)
T 4g26_A           81 ----------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYG  144 (501)
T ss_dssp             ----------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHH
T ss_pred             ----------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceeh
Confidence                            1344568899999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCC----CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhccc
Q 005966          252 ALVDMYVKCGSVNEARLVFDRMSE----RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLY  327 (667)
Q Consensus       252 ~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~  327 (667)
                      .+|.+|++.|++++|.++|++|.+    ||..+|++||.+|++.|++++|.++|++|++.|+.|+..||+.++..++..+
T Consensus       145 ~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~~  224 (501)
T 4g26_A          145 PALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSEV  224 (501)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcCc
Confidence            999999999999999999999974    8999999999999999999999999999999999999999999999887643

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.94  E-value=3.6e-24  Score=224.58  Aligned_cols=434  Identities=10%  Similarity=-0.040  Sum_probs=282.0

Q ss_pred             hhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHH
Q 005966          177 VVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDM  256 (667)
Q Consensus       177 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  256 (667)
                      ...|..+...+.+.|++++|+..|+++.+..  |+...+..+..++...|+++.|...++.+.+.+ +.+..++..+..+
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   82 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASA   82 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHH
Confidence            3456667777888888888888888887743  565555555555555555555555555555543 2234445555555


Q ss_pred             HHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHH
Q 005966          257 YVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGR  333 (667)
Q Consensus       257 ~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~  333 (667)
                      +...|++++|...|+++..   ++......++..+........+.+.+..+...+..|+...+..-...           
T Consensus        83 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~-----------  151 (514)
T 2gw1_A           83 NEGLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKER-----------  151 (514)
T ss_dssp             HHHTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------------
T ss_pred             HHHHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHH-----------
Confidence            5555555555555544432   12222222222222222222222222222222222221111110000           


Q ss_pred             HHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccC----------CCCcccHHHHHHHHHh---CCChHHHHH
Q 005966          334 SLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTS----------KKKTVPWNAILAGCVH---NGLARKAVE  400 (667)
Q Consensus       334 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----------~~~~~~~~~li~~~~~---~~~~~~A~~  400 (667)
                           .......|+                .......+....          ..+...+......+..   .|++++|+.
T Consensus       152 -----~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~  210 (514)
T 2gw1_A          152 -----KDKQENLPS----------------VTSMASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADE  210 (514)
T ss_dssp             ----------CCCC----------------HHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHH
T ss_pred             -----HhhccCCch----------------hHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHH
Confidence                 000000111                111111111111          1112224444444444   789999999


Q ss_pred             HHHHHHH-----CCCCC--------CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHH
Q 005966          401 LFRQMLV-----EVVEP--------NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLES  467 (667)
Q Consensus       401 ~~~~m~~-----~g~~p--------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  467 (667)
                      .|+++.+     ....|        +..++..+...+...|++++|...++.+.+....  ...+..+..++...|++++
T Consensus       211 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~  288 (514)
T 2gw1_A          211 SFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTE  288 (514)
T ss_dssp             HHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTT
T ss_pred             HHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHH
Confidence            9998887     32122        2356777788888899999999999998887643  7888888999999999999


Q ss_pred             HHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 005966          468 AHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLEN  546 (667)
Q Consensus       468 A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  546 (667)
                      |...++++....| +...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++++|...++.+.+.
T Consensus       289 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  367 (514)
T 2gw1_A          289 YYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKRK  367 (514)
T ss_dssp             GGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999998877664 56788888999999999999999999998864 335678888888999999999999999999873


Q ss_pred             cCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C---CCCC----HHHHHHHHHHHHh---cCCHHHHHHHHHHhhccC
Q 005966          547 HQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P---LKPT----HAVWGALLGACVI---HGNVELGEVAAKWLFELE  615 (667)
Q Consensus       547 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~p~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~~~~~  615 (667)
                        .+.+...+..++..+.+.|++++|...++++ .   ..|+    ...+..++..+..   .|++++|...++++++..
T Consensus       368 --~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~  445 (514)
T 2gw1_A          368 --FPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLD  445 (514)
T ss_dssp             --STTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHC
T ss_pred             --cccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhC
Confidence              3345667888999999999999999999887 2   2222    3378888888998   999999999999999999


Q ss_pred             CCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          616 PENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       616 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      |+++.++..++.+|.+.|++++|.+.++++.+...
T Consensus       446 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~  480 (514)
T 2gw1_A          446 PRSEQAKIGLAQMKLQQEDIDEAITLFEESADLAR  480 (514)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhcc
Confidence            99999999999999999999999999999887653

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.93  E-value=3.5e-24  Score=224.70  Aligned_cols=449  Identities=10%  Similarity=-0.015  Sum_probs=321.0

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHhcccC--CCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcc
Q 005966          146 TFVGNCLIAMYMNFGEVKAARKVFDAMW--EHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACG  223 (667)
Q Consensus       146 ~~~~~~li~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~  223 (667)
                      ...+..+...+.+.|++++|+..|+++.  .|+...|..+..++.+.|++++|+..++++.+.+ +.+...+..+..++.
T Consensus         6 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            6 ALALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHH
Confidence            4567778889999999999999999884  3688899999999999999999999999998853 234568889999999


Q ss_pred             cCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhHHHHHHHHHHhCCChHHHHH
Q 005966          224 YLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE----RDVVTWTSMINGYALNGDVRNALG  299 (667)
Q Consensus       224 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~li~~~~~~~~~~~a~~  299 (667)
                      ..|++++|...++.+.+.+. ++......++..+........+.+.+..+..    ++...++.-........       
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------  156 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGD-FNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQE-------  156 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSS-CCGGGTHHHHHHHHHHHHHHHHTTC----------------------------------
T ss_pred             HHhhHHHHHHHHHHHHhcCC-CccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhcc-------
Confidence            99999999999999998874 3444444555555444444443333333222    11111111111111111       


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHh---cCCHHHHHHHHhccCC
Q 005966          300 LFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAK---CNLVKLSFQVFARTSK  376 (667)
Q Consensus       300 ~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~  376 (667)
                               ..|+.......+..+........          ...+.+...+......+..   .|++++|...|+++..
T Consensus       157 ---------~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  217 (514)
T 2gw1_A          157 ---------NLPSVTSMASFFGIFKPELTFAN----------YDESNEADKELMNGLSNLYKRSPESYDKADESFTKAAR  217 (514)
T ss_dssp             ---------CCCCHHHHHHHHTTSCCCCCCSS----------CCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHH
T ss_pred             ---------CCchhHHHHHHHhhcCHHHHHHH----------hcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHH
Confidence                     12222222211111111100000          0001112222222222332   5666666666655432


Q ss_pred             -----C------------CcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHH
Q 005966          377 -----K------------KTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCY  439 (667)
Q Consensus       377 -----~------------~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  439 (667)
                           .            +...|..+...+...|++++|...|+++.+....  ...+..+...+...|++++|...++.
T Consensus       218 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~  295 (514)
T 2gw1_A          218 LFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDK  295 (514)
T ss_dssp             HHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHH
T ss_pred             HhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence                 1            1233777888899999999999999998876533  77888888999999999999999999


Q ss_pred             HHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH
Q 005966          440 LIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV  518 (667)
Q Consensus       440 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  518 (667)
                      +.+.. +.+...+..+...+...|++++|...++++....| +...+..+...+...|++++|+..++++.+.. +.+..
T Consensus       296 ~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  373 (514)
T 2gw1_A          296 ALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKELDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKF-PEAPE  373 (514)
T ss_dssp             HHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHS-TTCSH
T ss_pred             HhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHc-ccCHH
Confidence            88765 55677889999999999999999999998876654 56788899999999999999999999999864 33567


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhh---cCChHHHHHHHHhC-CCCC-CHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGR---AGRLDEAYDLIRTM-PLKP-THAVWG  589 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~---~g~~~~A~~~~~~~-~~~p-~~~~~~  589 (667)
                      .+..+...+...|++++|...++++.+.....++    ...+..++.++..   .|++++|.+.++++ ...| +..++.
T Consensus       374 ~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~  453 (514)
T 2gw1_A          374 VPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPRSEQAKI  453 (514)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcccHHHHH
Confidence            8888999999999999999999999874433333    3478899999999   99999999999987 3334 677889


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      .+...+...|++++|...+++++++.|+++..+..+.
T Consensus       454 ~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~  490 (514)
T 2gw1_A          454 GLAQMKLQQEDIDEAITLFEESADLARTMEEKLQAIT  490 (514)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            9999999999999999999999999999888777664

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.93  E-value=1.7e-22  Score=213.11  Aligned_cols=448  Identities=9%  Similarity=-0.009  Sum_probs=312.5

Q ss_pred             cchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHH
Q 005966           75 SFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIA  154 (667)
Q Consensus        75 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~  154 (667)
                      ...|..+...+.+.|++++|+..|+++++.  .+.+..++..+..++...|++++|...++++++.. +.+..++..+..
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~  101 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIEL--DPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRAS  101 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHH
Confidence            456788889999999999999999999987  45677888999999999999999999999999887 567788888888


Q ss_pred             HHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHH
Q 005966          155 MYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMI  234 (667)
Q Consensus       155 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  234 (667)
                      +|...|++++|+..|+.+ ..+....+..+..+...+....|+..++.+....  |+.                      
T Consensus       102 ~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~--~~~----------------------  156 (537)
T 3fp2_A          102 ANESLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKD--EGR----------------------  156 (537)
T ss_dssp             HHHHHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-----------------------------
T ss_pred             HHHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhC--ccc----------------------
Confidence            999999999999888644 2233333333445555566677788877775421  110                      


Q ss_pred             HHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChh---HHHHHHHHHHhC--------CChHHHHHHHHH
Q 005966          235 HELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVV---TWTSMINGYALN--------GDVRNALGLFQL  303 (667)
Q Consensus       235 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~li~~~~~~--------~~~~~a~~~~~~  303 (667)
                           .....|+    ...+..+....+.+.+...+....+.+..   ....+...+...        |++++|..++++
T Consensus       157 -----~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~  227 (537)
T 3fp2_A          157 -----GSQVLPS----NTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHS  227 (537)
T ss_dssp             -------CCCCC----HHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             -----cccccch----HhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHH
Confidence                 0001122    22333455566667776666666553332   233333332222        356677777776


Q ss_pred             HHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHH
Q 005966          304 MQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWN  383 (667)
Q Consensus       304 m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  383 (667)
                      +.+.  .|+...                                  ++..+..                        .+.
T Consensus       228 ~l~~--~p~~~~----------------------------------~~~~~~~------------------------~~~  247 (537)
T 3fp2_A          228 LLSA--NTVDDP----------------------------------LRENAAL------------------------ALC  247 (537)
T ss_dssp             HHC----CCCHH----------------------------------HHHHHHH------------------------HHH
T ss_pred             HHHH--CCCcch----------------------------------hhHHHHH------------------------HHH
Confidence            6653  222111                                  1111111                        133


Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcC
Q 005966          384 AILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCG  463 (667)
Q Consensus       384 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  463 (667)
                      .+...+...|++++|...|++..+.  .|+...+..+...+...|+++.|...++.+.+.. +.+..++..+...+...|
T Consensus       248 ~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~  324 (537)
T 3fp2_A          248 YTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENSQEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQ  324 (537)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcC
Confidence            4555677788889999999888875  4557788888888999999999999999988776 456778888899999999


Q ss_pred             CHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHH
Q 005966          464 SLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNF  542 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~  542 (667)
                      ++++|...|+++....| +...|..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...+++
T Consensus       325 ~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  403 (537)
T 3fp2_A          325 DYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDI  403 (537)
T ss_dssp             CHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            99999999988776655 46788888999999999999999999998874 33566788888889999999999999998


Q ss_pred             hHHhcCCCC----chhHHHHHHHHHhhc----------CChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005966          543 MLENHQTCS----RADHYTCIVDLLGRA----------GRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       543 ~~~~~~~~~----~~~~~~~l~~~~~~~----------g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~  606 (667)
                      +.+.....+    ....+..+..++.+.          |++++|...++++ ...| +...+..+...+...|++++|..
T Consensus       404 a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  483 (537)
T 3fp2_A          404 AKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIE  483 (537)
T ss_dssp             HHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHH
Confidence            876332112    122244455677777          8999999998887 3334 66788888888999999999999


Q ss_pred             HHHHhhccCCCCCchHH
Q 005966          607 AAKWLFELEPENPGNYV  623 (667)
Q Consensus       607 ~~~~~~~~~p~~~~~~~  623 (667)
                      .+++++++.|+++....
T Consensus       484 ~~~~al~~~~~~~~~~~  500 (537)
T 3fp2_A          484 LFEDSAILARTMDEKLQ  500 (537)
T ss_dssp             HHHHHHHHC--CHHHHH
T ss_pred             HHHHHHHhCCCcHHHHH
Confidence            99999999988665544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.91  E-value=2.6e-22  Score=206.58  Aligned_cols=346  Identities=10%  Similarity=0.037  Sum_probs=220.7

Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHH
Q 005966          245 KNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLS  321 (667)
Q Consensus       245 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~  321 (667)
                      .+...+..+...+.+.|++++|..+|+++.+   .+..+|..+..++...|++++|+..|+++.+.+  |+         
T Consensus        24 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~---------   92 (450)
T 2y4t_A           24 ADVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK--MD---------   92 (450)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TT---------
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CC---------
Confidence            3556667777777777777777777776653   355666777777777777777777777776542  21         


Q ss_pred             HhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCc------ccHHHHHHHHHhCCCh
Q 005966          322 ACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKT------VPWNAILAGCVHNGLA  395 (667)
Q Consensus       322 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~------~~~~~li~~~~~~~~~  395 (667)
                                               +..++..+...|.+.|++++|...|+++...++      ..|..++..+..    
T Consensus        93 -------------------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----  143 (450)
T 2y4t_A           93 -------------------------FTAARLQRGHLLLKQGKLDEAEDDFKKVLKSNPSENEEKEAQSQLIKSDEM----  143 (450)
T ss_dssp             -------------------------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHH----
T ss_pred             -------------------------cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHH----
Confidence                                     122223333333333333333333333322111      112222111000    


Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhC
Q 005966          396 RKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEI  475 (667)
Q Consensus       396 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  475 (667)
                                         ..+..+...+...|++++|...++.+.+.. +.+...+..++.+|.+.|++++|.+.|+++
T Consensus       144 -------------------~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  203 (450)
T 2y4t_A          144 -------------------QRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRELRAECFIKEGEPRKAISDLKAA  203 (450)
T ss_dssp             -------------------HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCGGGGHHHHHHH
T ss_pred             -------------------HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence                               001112223445566666666666655543 345566666777777777777777777766


Q ss_pred             CCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHHHH------------HHHHhccCCHHHHHHHHH
Q 005966          476 PIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE-VTFTSA------------LHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       476 ~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l------------l~~~~~~g~~~~A~~~~~  541 (667)
                      ....| +..+|..+...+...|++++|+..|+++.+.  .|+. ..+..+            ...|.+.|++++|...|+
T Consensus       204 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~  281 (450)
T 2y4t_A          204 SKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYE  281 (450)
T ss_dssp             HHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            55433 4567777788888888888888888888765  3333 333333            677888899999999999


Q ss_pred             HhHHhcCCCCc--hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          542 FMLENHQTCSR--ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       542 ~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ++.+.....|.  ...+..++.++.+.|++++|+..++++ ...| +..+|..++.+|...|++++|...+++++++.|+
T Consensus       282 ~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~  361 (450)
T 2y4t_A          282 SVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYETAQEHNEN  361 (450)
T ss_dssp             HHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS
T ss_pred             HHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcc
Confidence            98873322222  346788888999999999999999887 3444 6788899999999999999999999999999999


Q ss_pred             CCchHHHHH------------HHHhhcC-----CchHHHHHHHH-hhhCCCcc
Q 005966          618 NPGNYVLLS------------KLYSAVR-----RWKDAENVRDV-MDEKGLRK  652 (667)
Q Consensus       618 ~~~~~~~l~------------~~~~~~g-----~~~~A~~~~~~-~~~~~~~~  652 (667)
                      ++.++..++            ..|...|     +.+++.+.+++ ..+..+.+
T Consensus       362 ~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd~  414 (450)
T 2y4t_A          362 DQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPDN  414 (450)
T ss_dssp             CHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGGG
T ss_pred             hHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCCC
Confidence            999988888            4566666     56677777776 44444433

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.89  E-value=1.7e-21  Score=200.50  Aligned_cols=298  Identities=12%  Similarity=0.034  Sum_probs=229.9

Q ss_pred             CchHHhHHHHHHHhcCCHHHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHH
Q 005966          347 EVIVETALIDMYAKCNLVKLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPA  423 (667)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~  423 (667)
                      +...+..+...|.+.|++++|...|+++.   +.+...|..+..++...|++++|+..|+++.+.+ +.+...+..+...
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHH
Confidence            34455556666666666666666666543   2344446666666677777777777777666543 2235566666666


Q ss_pred             HhCcCCHHHHHHHHHHHHHhCCCCCc---hHHHHH------------HHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHH
Q 005966          424 YAILADLQQAMNIHCYLIRYGFLSVV---EVSTGL------------IDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSV  487 (667)
Q Consensus       424 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~  487 (667)
                      +...|++++|...++.+.+.. +.+.   ..+..+            ...+.+.|++++|...|+++....| +...+..
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  182 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELREL  182 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            777777777777777666543 2222   333333            5558899999999999999876655 5678999


Q ss_pred             HHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHH--------
Q 005966          488 IIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCI--------  559 (667)
Q Consensus       488 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l--------  559 (667)
                      +..+|.+.|++++|+..|+++.+.. +.+..++..+...|...|++++|...|+++.+.  .+.+...+..+        
T Consensus       183 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~  259 (450)
T 2y4t_A          183 RAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNK  259 (450)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHH
Confidence            9999999999999999999999864 446788999999999999999999999999873  33344445444        


Q ss_pred             ----HHHHhhcCChHHHHHHHHhC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          560 ----VDLLGRAGRLDEAYDLIRTM-PLKPT-----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       560 ----~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                          +..+.+.|++++|++.++++ ...|+     ...+..++..+.+.|++++|+..++++++..|+++.++..++.+|
T Consensus       260 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~  339 (450)
T 2y4t_A          260 LIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAY  339 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence                88999999999999999998 44554     347888889999999999999999999999999999999999999


Q ss_pred             hhcCCchHHHHHHHHhhhCC
Q 005966          630 SAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ...|++++|...++++.+..
T Consensus       340 ~~~~~~~~A~~~~~~al~~~  359 (450)
T 2y4t_A          340 LIEEMYDEAIQDYETAQEHN  359 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTTS
T ss_pred             HHhcCHHHHHHHHHHHHHhC
Confidence            99999999999999998764

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.86  E-value=2.4e-19  Score=188.91  Aligned_cols=430  Identities=10%  Similarity=-0.011  Sum_probs=224.2

Q ss_pred             hhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh--hHhhhcCChhhHHHhhcccC---CCCcchHHHHHHHHH
Q 005966           13 THLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS--SLVRAYGHVSNVRILFDEMS---ERSSFLYNTVMKMYA   86 (667)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~~   86 (667)
                      ...+..++..+...|+++.|...+.++++..|.+ ....+  .+|...|++++|+..|+++.   ..+..+|..+..++.
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  104 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANE  104 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            3556777777777888888888888888877776 22222  77777778888877777753   235567777777777


Q ss_pred             hCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCC--CCchHHHHHHHHHHHhcCCHHH
Q 005966           87 QNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGF--DMDTFVGNCLIAMYMNFGEVKA  164 (667)
Q Consensus        87 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~  164 (667)
                      ..|++++|+..|+.+ ..   .|+...  ..+..+...+....|...++.+.....  .+........+..+....+.+.
T Consensus       105 ~~g~~~~A~~~~~~~-~~---~~~~~~--~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (537)
T 3fp2_A          105 SLGNFTDAMFDLSVL-SL---NGDFDG--ASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHL  178 (537)
T ss_dssp             HHTCHHHHHHHHHHH-C----------------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHH
T ss_pred             HcCCHHHHHHHHHHH-hc---CCCCCh--HHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHH
Confidence            777888887777533 22   222111  112233344455667777766654310  0011111223344555666666


Q ss_pred             HHHHhcccCCCChh---hHHHHHHHHHH--------cCChhHHHHHHHHHHHCCCCCChH-HHHHHHHHcccCcchHHHH
Q 005966          165 ARKVFDAMWEHSVV---SWNTLISGYFK--------NAYAKEALVVFDWMLKSGVEPDCA-SVVSVLPACGYLKEIEMGR  232 (667)
Q Consensus       165 A~~~~~~~~~~~~~---~~~~li~~~~~--------~~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~~~~~a~  232 (667)
                      +...+......+..   ....+...+..        .|++++|+.+|+++.+.  .|+.. .+..+              
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~--------------  242 (537)
T 3fp2_A          179 EVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENA--------------  242 (537)
T ss_dssp             HHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHH--------------
T ss_pred             HHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHH--------------
Confidence            66666665444332   22222222221        13556666666666542  23311 00000              


Q ss_pred             HHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCC
Q 005966          233 MIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVR  310 (667)
Q Consensus       233 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  310 (667)
                                    ..++..+...+...|++++|...|++..+  |+...|..+...+...|++++|.+.++++.+... 
T Consensus       243 --------------~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~-  307 (537)
T 3fp2_A          243 --------------ALALCYTGIFHFLKNNLLDAQVLLQESINLHPTPNSYIFLALTLADKENSQEFFKFFQKAVDLNP-  307 (537)
T ss_dssp             --------------HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCT-
T ss_pred             --------------HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCC-
Confidence                          22344555566666666666666666553  4455666666666666777777777766655321 


Q ss_pred             CChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHH
Q 005966          311 PNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCV  390 (667)
Q Consensus       311 p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~  390 (667)
                      .+..++..+...+...|+++.|...+..+.+.. +.+..+                               |..+...+.
T Consensus       308 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~-------------------------------~~~la~~~~  355 (537)
T 3fp2_A          308 EYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYP-------------------------------YIQLACLLY  355 (537)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHH-------------------------------HHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHH-------------------------------HHHHHHHHH
Confidence            123333333333444444444444443333322 112223                               444444444


Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC-----CCCCchHHHHHHHHHHhc---
Q 005966          391 HNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYG-----FLSVVEVSTGLIDIYSKC---  462 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~---  462 (667)
                      ..|++++|...++++.+.. +.+...+..+...+...|++++|...++.+.+..     .......+..+...+.+.   
T Consensus       356 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  434 (537)
T 3fp2_A          356 KQGKFTESEAFFNETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQ  434 (537)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC
T ss_pred             HcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhc
Confidence            4555555555555544431 2223344444555555555555555555543321     011122233444555555   


Q ss_pred             -------CCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcC
Q 005966          463 -------GSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSG  512 (667)
Q Consensus       463 -------g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  512 (667)
                             |++++|...|+++....| +..+|..+...+.+.|++++|.+.|++..+..
T Consensus       435 ~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  492 (537)
T 3fp2_A          435 DPTQLDEEKFNAAIKLLTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILA  492 (537)
T ss_dssp             ----CCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cchhhhHhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence                   677777777766655444 34567777777777777777777777777753

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.86  E-value=3.1e-17  Score=176.96  Aligned_cols=468  Identities=11%  Similarity=0.045  Sum_probs=335.2

Q ss_pred             HHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhccc------------CCCChh---
Q 005966          114 YPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAM------------WEHSVV---  178 (667)
Q Consensus       114 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~------------~~~~~~---  178 (667)
                      -..++..+-+.+++..-..+++.-+..| ..++.++|+|...|...++-.+.  ++.+-            .++|+.   
T Consensus       842 ~~~lv~~~ekrnrLkll~p~LE~~~~~g-~~~~~~hnalakiyid~n~npe~--fL~~n~~yd~~~vgkyce~rDp~la~  918 (1630)
T 1xi4_A          842 TDELVAEVEKRNRLKLLLPWLEARIHEG-CEEPATHNALAKIYIDSNNNPER--FLRENPYYDSRVVGKYCEKRDPHLAC  918 (1630)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhccCCCHHH--HhhccCcccHHHHHHHHHhcCcchHH
Confidence            5566666777778887888888888888 78999999999999976543332  22111            111211   


Q ss_pred             -------hHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCC--cchhH
Q 005966          179 -------SWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLG--KNIAA  249 (667)
Q Consensus       179 -------~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~  249 (667)
                             .-..||....+++-++.--+.+   .+   +-|...|..++.--     -+.=+++.+......++  .++.-
T Consensus       919 iay~~g~~d~eli~vt~~n~l~k~~aryl---v~---r~d~~lW~~vl~~~-----n~~RR~Lidqv~a~aL~e~~~Pee  987 (1630)
T 1xi4_A          919 VAYERGQCDLELINVCNENSLFKSLSRYL---VR---RKDPELWGSVLLES-----NPYRRPLIDQVVQTALSETQDPEE  987 (1630)
T ss_pred             HHhcccCCcHHHHHHHhcchhHHHHHHHH---HH---hcCHHHHHHHhcCC-----cHHHHHHHHHHHHhhcccccCHHH
Confidence                   1223444444444443322221   11   13555666655321     12222344433332222  23444


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC-C-----ChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHh
Q 005966          250 WNALVDMYVKCGSVNEARLVFDRMSE-R-----DVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSAC  323 (667)
Q Consensus       250 ~~~l~~~~~~~g~~~~A~~~~~~~~~-~-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~  323 (667)
                      ....+..|...|.+.+|+++++++.- +     +...-+.++.+..+. +..+..+...+....       ....+-..+
T Consensus       988 Vs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~-------d~~eIA~Ia 1059 (1630)
T 1xi4_A          988 VSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNY-------DAPDIANIA 1059 (1630)
T ss_pred             hHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhc-------cHHHHHHHH
Confidence            56778888899999999999999873 2     224456677766666 556666666665421       133356677


Q ss_pred             hcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHH
Q 005966          324 SSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFR  403 (667)
Q Consensus       324 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  403 (667)
                      ...|.+++|..+++...     ......+.+   +-..+++++|.++.++..  ++.+|..+..++...|++++|++.|.
T Consensus      1060 i~lglyEEAf~IYkKa~-----~~~~A~~VL---ie~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYi 1129 (1630)
T 1xi4_A         1060 ISNELFEEAFAIFRKFD-----VNTSAVQVL---IEHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYI 1129 (1630)
T ss_pred             HhCCCHHHHHHHHHHcC-----CHHHHHHHH---HHHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHH
Confidence            88999999999998852     111111222   337889999999999773  36679999999999999999999996


Q ss_pred             HHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcc
Q 005966          404 QMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIV  483 (667)
Q Consensus       404 ~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~  483 (667)
                      +.      -|...|..++.+|.+.|++++|.+.+....+..  +++...+.++.+|++.+++++...+.+     +++..
T Consensus      1130 KA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI~-----~~n~a 1196 (1630)
T 1xi4_A         1130 KA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFIN-----GPNNA 1196 (1630)
T ss_pred             hc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHHh-----CCCHH
Confidence            63      467788889999999999999999999887765  444445569999999999997555542     26777


Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL  563 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  563 (667)
                      .|..+...|...|++++|..+|...         ..|..+..++.+.|++++|.+.+++..       +..+|..+..+|
T Consensus      1197 d~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~-------n~~aWkev~~ac 1260 (1630)
T 1xi4_A         1197 HIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFAC 1260 (1630)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC-------CHHHHHHHHHHH
Confidence            7888999999999999999999995         378999999999999999999999873       447799999999


Q ss_pred             hhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc--CCchHHHHH
Q 005966          564 GRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV--RRWKDAENV  641 (667)
Q Consensus       564 ~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~--g~~~~A~~~  641 (667)
                      ...|++..|......  +..++..+..++..|.+.|.+++|+..+++++.++|.+...+..|+.+|.+-  ++..++.++
T Consensus      1261 ve~~Ef~LA~~cgl~--Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~ 1338 (1630)
T 1xi4_A         1261 VDGKEFRLAQMCGLH--IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLEL 1338 (1630)
T ss_pred             hhhhHHHHHHHHHHh--hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHH
Confidence            999999999998765  3445666778999999999999999999999999999999998888887764  456666666


Q ss_pred             HHH
Q 005966          642 RDV  644 (667)
Q Consensus       642 ~~~  644 (667)
                      |..
T Consensus      1339 f~~ 1341 (1630)
T 1xi4_A         1339 FWS 1341 (1630)
T ss_pred             HHH
Confidence            553

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=2.1e-19  Score=178.57  Aligned_cols=311  Identities=12%  Similarity=0.031  Sum_probs=164.4

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccC---CCCcccHHHHHHHHH
Q 005966          314 LTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTS---KKKTVPWNAILAGCV  390 (667)
Q Consensus       314 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~  390 (667)
                      ..+..+...+...|+++.|...+..+.+.. +.+..++..+...+...|++++|...|++..   +.+...|..+...+.
T Consensus         4 ~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            4 EKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            345555666677777777777777776654 3445666667777777777777777776654   233344666677777


Q ss_pred             hCCChHHHHHHHHHHHHCCCCC---C-HHHHHHH------------HHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHH
Q 005966          391 HNGLARKAVELFRQMLVEVVEP---N-DATLNSL------------LPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTG  454 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~p---~-~~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  454 (667)
                      ..|++++|...|++..+.  .|   + ...+..+            ...+...|++++|...++.+.+.. +.+...+..
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~  159 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELREL  159 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHH
Confidence            777777777777776653  33   2 2222222            244455555555555555555543 334455555


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH-----------
Q 005966          455 LIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTS-----------  522 (667)
Q Consensus       455 l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-----------  522 (667)
                      +...+...|++++|...++++....| +...|..+...+...|++++|...+++..+.. +.+...+..           
T Consensus       160 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~~~~~~  238 (359)
T 3ieg_A          160 RAECFIKEGEPRKAISDLKAASKLKSDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKKLNKLI  238 (359)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHHHHH
Confidence            55555555555555555555544432 34455555555555555555555555555532 111222211           


Q ss_pred             -HHHHHhccCCHHHHHHHHHHhHHhcCCCCch--hHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh
Q 005966          523 -ALHACSHGGLLDEGLDLFNFMLENHQTCSRA--DHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVI  597 (667)
Q Consensus       523 -ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  597 (667)
                       +...+.+.|++++|...++++.+.....+..  ..+..++.++...|++++|++.+++. ...| +..++..++..+..
T Consensus       239 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (359)
T 3ieg_A          239 ESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLI  318 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence             1333445555555555555554422111110  12333444555555555555555544 2222 44455555555555


Q ss_pred             cCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          598 HGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                      .|++++|...+++++++.|+++.++..+..++
T Consensus       319 ~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~  350 (359)
T 3ieg_A          319 EEMYDEAIQDYEAAQEHNENDQQIREGLEKAQ  350 (359)
T ss_dssp             TTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCCChHHHHHHHHHH
Confidence            55555555555555555555555544444443

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.85  E-value=1.1e-18  Score=173.35  Aligned_cols=299  Identities=12%  Similarity=0.020  Sum_probs=238.6

Q ss_pred             chHHhHHHHHHHhcCCHHHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHH
Q 005966          348 VIVETALIDMYAKCNLVKLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAY  424 (667)
Q Consensus       348 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~  424 (667)
                      +..+..+...+...|++++|...|+++.   +.++..|..+...+...|++++|+..++++.+.. +.+...+..+...+
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHH
Confidence            3456677888899999999999998775   3445568888899999999999999999988753 33557788888899


Q ss_pred             hCcCCHHHHHHHHHHHHHhCCC--CCchHHHHH------------HHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHH
Q 005966          425 AILADLQQAMNIHCYLIRYGFL--SVVEVSTGL------------IDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVII  489 (667)
Q Consensus       425 ~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l------------~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~  489 (667)
                      ...|++++|...++.+.+....  .+...+..+            ...+...|++++|.+.++++....| +...+..+.
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  161 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRA  161 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHH
Confidence            9999999999999988876420  344444444            5788899999999999998776654 567788888


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHH------------
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYT------------  557 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~------------  557 (667)
                      ..+...|++++|+..++++.+.. +.+..++..+...+...|++++|...++.+.+...  .+...+.            
T Consensus       162 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~--~~~~~~~~~~~~~~~~~~~  238 (359)
T 3ieg_A          162 ECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ--DHKRCFAHYKQVKKLNKLI  238 (359)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc--cchHHHHHHHHHHHHHHHH
Confidence            99999999999999999998864 34667888888899999999999999999987332  3333332            


Q ss_pred             HHHHHHhhcCChHHHHHHHHhC-CCCCC-HH----HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          558 CIVDLLGRAGRLDEAYDLIRTM-PLKPT-HA----VWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       558 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      .++..+.+.|++++|.+.++++ ...|+ ..    .+..+...+...|++++|...++++++..|+++.++..++.+|..
T Consensus       239 ~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~  318 (359)
T 3ieg_A          239 ESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQMEPDNVNALKDRAEAYLI  318 (359)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            2366788999999999999887 33443 32    345577788899999999999999999999999999999999999


Q ss_pred             cCCchHHHHHHHHhhhCCC
Q 005966          632 VRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       632 ~g~~~~A~~~~~~~~~~~~  650 (667)
                      .|++++|.+.++++.+..+
T Consensus       319 ~g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          319 EEMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             TTCHHHHHHHHHHHHTTCT
T ss_pred             cCCHHHHHHHHHHHHhcCC
Confidence            9999999999999887653

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.84  E-value=1.1e-18  Score=171.20  Aligned_cols=288  Identities=11%  Similarity=0.023  Sum_probs=209.5

Q ss_pred             CCCchHHhHHHHHHHhcCCHHHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHH
Q 005966          345 ECEVIVETALIDMYAKCNLVKLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLL  421 (667)
Q Consensus       345 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll  421 (667)
                      +.+..++..+...+...|++++|..+|+++.   +.+...+..++..+...|++++|..+++++.+.. +.+...+..+.
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~   97 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVG   97 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHH
Confidence            4455566667777777777777777777664   3334446667777777888888888888877642 33456666777


Q ss_pred             HHHhCcC-CHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChH
Q 005966          422 PAYAILA-DLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGE  499 (667)
Q Consensus       422 ~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~  499 (667)
                      ..+...| ++++|...++...+.. +.+...+..+...+...|++++|...++++....|+ ...+..+...+...|+++
T Consensus        98 ~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~  176 (330)
T 3hym_B           98 CYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSK  176 (330)
T ss_dssp             HHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHH
Confidence            7777777 7888888888777654 445667777888888888888888888877665543 566777788888888888


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC-------CCCchhHHHHHHHHHhhcCChHHH
Q 005966          500 TAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQ-------TCSRADHYTCIVDLLGRAGRLDEA  572 (667)
Q Consensus       500 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A  572 (667)
                      +|...+++..+.. +.+...+..+...+...|++++|...++++.+...       .+.....+..++.++...|++++|
T Consensus       177 ~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  255 (330)
T 3hym_B          177 LAERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEA  255 (330)
T ss_dssp             HHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHH
Confidence            8888888887754 33556777788888888888888888888776321       133456777888888888888888


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH-hhcCCc
Q 005966          573 YDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY-SAVRRW  635 (667)
Q Consensus       573 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~-~~~g~~  635 (667)
                      ++.++++ ...| +...+..+...+...|++++|...+++++++.|+++.++..++.++ ...|+.
T Consensus       256 ~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          256 LDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCchHHHHHHHHHHHHHhCch
Confidence            8888876 2333 5667788888888888888888888888888888888888888877 455553

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.83  E-value=4.1e-15  Score=160.72  Aligned_cols=557  Identities=11%  Similarity=0.059  Sum_probs=327.3

Q ss_pred             hhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc---hhhhh-----hHhhhcCChhhHHHhhcccCCCCcchHHHHHHH
Q 005966           13 THLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF---THLRS-----SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKM   84 (667)
Q Consensus        13 ~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~-----~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~   84 (667)
                      |.-.....+++...|.+.++..++++++..+..+   ..+.+     .+....++..+....++...      ...+...
T Consensus       985 PeeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIkaD~~Rv~eyI~kLd~~d------~~eIA~I 1058 (1630)
T 1xi4_A          985 PEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKADRTRVMEYINRLDNYD------APDIANI 1058 (1630)
T ss_pred             HHHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHhChhhHHHHHHHhhhcc------HHHHHHH
Confidence            4455667777888888888888888888332211   22222     44444455555544444221      3446777


Q ss_pred             HHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHH
Q 005966           85 YAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKA  164 (667)
Q Consensus        85 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  164 (667)
                      +...|.+++|..+|++...      .....+.++.   ..+++++|.++.++.      .++.+|..+..++...|++++
T Consensus      1059 ai~lglyEEAf~IYkKa~~------~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kE 1123 (1630)
T 1xi4_A         1059 AISNELFEEAFAIFRKFDV------NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKE 1123 (1630)
T ss_pred             HHhCCCHHHHHHHHHHcCC------HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHH
Confidence            7888888888888887621      1111222222   557788888877654      346677788888888888888


Q ss_pred             HHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCC
Q 005966          165 ARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLG  244 (667)
Q Consensus       165 A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  244 (667)
                      |+..|...  .|...|..++..+.+.|++++|++.|...++..  ++....+.+..+|++.++++....+.    +   .
T Consensus      1124 AIdsYiKA--dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~ 1192 (1630)
T 1xi4_A         1124 AIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---G 1192 (1630)
T ss_pred             HHHHHHhc--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---C
Confidence            88888553  577778888888888888888888888776643  33333334777777877777544332    1   3


Q ss_pred             cchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhh
Q 005966          245 KNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACS  324 (667)
Q Consensus       245 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~  324 (667)
                      ++...+..+...|...|++++|..+|...     ..|..+...+.+.|++++|.+.+++.      -+..+|..+-.+|.
T Consensus      1193 ~n~ad~~~iGd~le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA------~n~~aWkev~~acv 1261 (1630)
T 1xi4_A         1193 PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACV 1261 (1630)
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHh------CCHHHHHHHHHHHh
Confidence            35566667888888888888888888875     47888888888888888888888876      44577777777787


Q ss_pred             cccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCccc---HHHHHHHHHhC--CChHHHH
Q 005966          325 SLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVP---WNAILAGCVHN--GLARKAV  399 (667)
Q Consensus       325 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~li~~~~~~--~~~~~A~  399 (667)
                      ..|++..|......     +..++..+..++..|.+.|.+++|+.+++.....+...   |.-+...+++.  ++..+++
T Consensus      1262 e~~Ef~LA~~cgl~-----Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhl 1336 (1630)
T 1xi4_A         1262 DGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHL 1336 (1630)
T ss_pred             hhhHHHHHHHHHHh-----hhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHH
Confidence            77777777665432     33455566678888888888888888887765444332   65566666654  3344444


Q ss_pred             HHHHHHHHCCCCC------CHHHHHHHHHHHhCcCCHHHHHHHHHHHH----------H-hCCCCCchHHHHHHHHHHhc
Q 005966          400 ELFRQMLVEVVEP------NDATLNSLLPAYAILADLQQAMNIHCYLI----------R-YGFLSVVEVSTGLIDIYSKC  462 (667)
Q Consensus       400 ~~~~~m~~~g~~p------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~----------~-~~~~~~~~~~~~l~~~~~~~  462 (667)
                      +.|..-.  +++|      +...|..+...|.+.|+++.|....-.-.          + ..-..++..|...+..|...
T Consensus      1337 k~f~~ri--ni~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm~~h~~~a~~~~~Fk~~i~kv~n~elyykai~Fyl~~ 1414 (1630)
T 1xi4_A         1337 ELFWSRV--NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF 1414 (1630)
T ss_pred             HHHHHhc--ccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHHHhccHhhhhhHHHHHHhcccccHHHHHHHHHHHHhh
Confidence            4444322  2222      34557777777777888877763211110          0 01133556666666666532


Q ss_pred             CCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH----
Q 005966          463 GSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLD----  538 (667)
Q Consensus       463 g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~----  538 (667)
                      +  ..+..-+.....  | ..-+...+..+.+.++..-+..+++.....+.   ...-..+...+....+++.-..    
T Consensus      1415 ~--P~~lndLl~~l~--~-rlD~~R~V~l~~~~~~l~lik~yl~~vq~~n~---~~Vneal~el~ieeed~~~Lr~si~~ 1486 (1630)
T 1xi4_A         1415 K--PLLLNDLLMVLS--P-RLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNN---KSVNESLNNLFITEEDYQALRTSIDA 1486 (1630)
T ss_pred             C--hHHHHHHHHHhh--h-cCChHHHHHHHHHcCChHHhHHHHHHHHHhcc---hhhhHHHHHHhcCccchHHHHHHHhh
Confidence            2  111111111111  0 11123334444455555555555544443221   1111222233333333321111    


Q ss_pred             --------HHHHhHHhcCCCCchhHHHHHH-HHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 005966          539 --------LFNFMLENHQTCSRADHYTCIV-DLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAK  609 (667)
Q Consensus       539 --------~~~~~~~~~~~~~~~~~~~~l~-~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~  609 (667)
                              +-.++.+ +    +..-+..+. ..|.+.|+|..|.+++++.+.      |...+.+..++|+.+.+++++.
T Consensus      1487 ~~nfd~~~La~~lek-h----eLl~frrIAa~ly~~n~~~~~ai~l~k~d~l------~~dAm~~a~~S~d~e~~e~ll~ 1555 (1630)
T 1xi4_A         1487 YDNFDNISLAQRLEK-H----ELIEFRRIAAYLFKGNNRWKQSVELCKKDSL------YKDAMQYASESKDTELAEELLQ 1555 (1630)
T ss_pred             ccCcCHHHHHHHhhh-h----hHHHHHHHHHHHHHhcCcHHHHHHHHHhccC------HHHHHHHHHHcCCHHHHHHHHH
Confidence                    1111111 1    111122233 345566899999999888753      3446667778888888877777


Q ss_pred             HhhccCCCCCchHHHHHHHHhhcCCchHHHH
Q 005966          610 WLFELEPENPGNYVLLSKLYSAVRRWKDAEN  640 (667)
Q Consensus       610 ~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~  640 (667)
                      -..+.  .+..+|......|+..-+.+-+++
T Consensus      1556 ~F~~~--~~~E~f~a~Ly~cy~l~~pd~vle 1584 (1630)
T 1xi4_A         1556 WFLQE--EKRECFGACLFTCYDLLRPDVVLE 1584 (1630)
T ss_pred             HHHhc--CChhHHHHHHHHHhccCCchHHHH
Confidence            66665  334455555555555444444444

>3hym_B Cell division cycle protein 16 homolog; APC, anaphase promoting complex, cell cycle, mitosis, cyclosome, TPR, ubiquitin, ubiquitin ligase, twinning; 2.80A {Homo sapiens}

Probab=99.83  E-value=2.4e-18  Score=168.78  Aligned_cols=269  Identities=10%  Similarity=-0.015  Sum_probs=233.7

Q ss_pred             CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHH
Q 005966          376 KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGL  455 (667)
Q Consensus       376 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  455 (667)
                      ..++..+..+...+...|++++|+++|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            3455668888899999999999999999998763 3344556667788889999999999999998876 5677889999


Q ss_pred             HHHHHhcC-CHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCH
Q 005966          456 IDIYSKCG-SLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLL  533 (667)
Q Consensus       456 ~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~  533 (667)
                      ...+...| ++++|...|+++....| +...|..+...+...|++++|+..++++.+.. +.+...+..+...+...|++
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhH
Confidence            99999999 99999999999887765 46789999999999999999999999999874 33456777789999999999


Q ss_pred             HHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC-C----------CCCHHHHHHHHHHHHhcCCHH
Q 005966          534 DEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP-L----------KPTHAVWGALLGACVIHGNVE  602 (667)
Q Consensus       534 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~----------~p~~~~~~~l~~~~~~~g~~~  602 (667)
                      ++|...++++.+  ..+.+...+..++..+...|++++|...++++- .          +....++..++..+...|+++
T Consensus       176 ~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          176 KLAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            999999999988  445567889999999999999999999998871 1          334578999999999999999


Q ss_pred             HHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          603 LGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       603 ~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +|+..++++++..|+++.++..++.+|...|++++|.+.++++.+..
T Consensus       254 ~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  300 (330)
T 3hym_B          254 EALDYHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR  300 (330)
T ss_dssp             HHHHHHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC
T ss_pred             HHHHHHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC
Confidence            99999999999999999999999999999999999999999987754

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.83  E-value=3.1e-17  Score=170.00  Aligned_cols=380  Identities=10%  Similarity=-0.016  Sum_probs=263.5

Q ss_pred             chhHHHHHHHHHHh----cCCHHHHHHHHhhcCC-CChhHHHHHHHHHHh----CCChHHHHHHHHHHHhcCCCCChhhH
Q 005966          246 NIAAWNALVDMYVK----CGSVNEARLVFDRMSE-RDVVTWTSMINGYAL----NGDVRNALGLFQLMQFEGVRPNSLTI  316 (667)
Q Consensus       246 ~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~  316 (667)
                      +...+..+...|..    .+++++|...|++..+ .+...+..+...|..    .+++++|++.|++..+.|   +...+
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  114 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQ  114 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            34444444445544    4555555555554433 344445555555555    555555555555555443   23333


Q ss_pred             HHHHHHhhc----ccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHh----cCCHHHHHHHHhccC-CCCcccHHHHHH
Q 005966          317 GSLLSACSS----LYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAK----CNLVKLSFQVFARTS-KKKTVPWNAILA  387 (667)
Q Consensus       317 ~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~-~~~~~~~~~li~  387 (667)
                      ..+-..+..    .++.+.|...++...+.+   +...+..+...|..    .++.++|...|++.. ..++..+..+..
T Consensus       115 ~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~  191 (490)
T 2xm6_A          115 QNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGNVWSCNQLGY  191 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            333333433    455555655555555543   34445556666665    667778887777654 334455777777


Q ss_pred             HHHh----CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC----cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 005966          388 GCVH----NGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAI----LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIY  459 (667)
Q Consensus       388 ~~~~----~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  459 (667)
                      .|..    .++.++|+++|++..+.|   +...+..+...+..    .+++++|...++...+.+   +...+..+..+|
T Consensus       192 ~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y  265 (490)
T 2xm6_A          192 MYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYIL  265 (490)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHH
T ss_pred             HHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHH
Confidence            7777    788999999999888765   45566666666664    788999999998887754   345666777778


Q ss_pred             Hh----cCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHc-----CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005966          460 SK----CGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMH-----GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG  530 (667)
Q Consensus       460 ~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  530 (667)
                      ..    .++.++|.+.|++..+. .+...+..+...|...     +++++|+..|++..+.|   +...+..+...|...
T Consensus       266 ~~g~~~~~d~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~  341 (490)
T 2xm6_A          266 EQGLAGAKEPLKALEWYRKSAEQ-GNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRL  341 (490)
T ss_dssp             HHTTTSSCCHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHS
T ss_pred             HCCCCCCCCHHHHHHHHHHHHHc-CCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Confidence            77    89999999999988765 4566777788888887     89999999999999875   455677777777765


Q ss_pred             C---CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cC
Q 005966          531 G---LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR----AGRLDEAYDLIRTMPLKPTHAVWGALLGACVI----HG  599 (667)
Q Consensus       531 g---~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g  599 (667)
                      |   ++++|.++|++..+.    .+...+..+..+|..    .+++++|++.+++.....++..+..+...|..    .+
T Consensus       342 g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y~~g~g~~~  417 (490)
T 2xm6_A          342 GSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIYYYGLGVER  417 (490)
T ss_dssp             CCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCC
T ss_pred             CCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHcCCCCCC
Confidence            6   789999999999882    356678889999988    89999999999987444567888889998888    89


Q ss_pred             CHHHHHHHHHHhhccCC---CCCchHHHHHHHHhhcCCchH--HHHHHHHh
Q 005966          600 NVELGEVAAKWLFELEP---ENPGNYVLLSKLYSAVRRWKD--AENVRDVM  645 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~p---~~~~~~~~l~~~~~~~g~~~~--A~~~~~~~  645 (667)
                      |.++|...++++.+.+|   +++.+...++.++....+..+  |.+++++.
T Consensus       418 d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~~~~~a~~~a~~~~~~~  468 (490)
T 2xm6_A          418 DYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAKQLQQAELLSQQYIEKY  468 (490)
T ss_dssp             CHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHhHHHHHHHHHHHHHHHH
Confidence            99999999999999984   478888888887765332222  44555543

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.82  E-value=1.5e-18  Score=173.21  Aligned_cols=285  Identities=11%  Similarity=-0.041  Sum_probs=229.6

Q ss_pred             HHhcCCHHHHHH-HHhccC---CC----CcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCC
Q 005966          358 YAKCNLVKLSFQ-VFARTS---KK----KTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILAD  429 (667)
Q Consensus       358 ~~~~g~~~~a~~-~~~~~~---~~----~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  429 (667)
                      +...|++++|.. .+++..   +.    +...+..+...+...|++++|+..|+++.+.. +.+..++..+...+...|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            344578888888 777554   22    23448889999999999999999999999763 4466788889999999999


Q ss_pred             HHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc-chHHH---------------HHHHHH
Q 005966          430 LQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI-VVWSV---------------IIAGYG  493 (667)
Q Consensus       430 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-~~~~~---------------l~~~~~  493 (667)
                      +++|...++.+.+.. +.+...+..+..+|...|++++|.+.++++....|+. ..+..               .+..+.
T Consensus       114 ~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          114 ELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            999999999998876 5678889999999999999999999999887765532 22211               233344


Q ss_pred             HcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHH
Q 005966          494 MHGHGETAVSLFKEMVQSGVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEA  572 (667)
Q Consensus       494 ~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  572 (667)
                      ..|++++|+..++++.+..... +..++..+...+...|++++|...++++.+.  .+.+...+..++.++.+.|++++|
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~g~~~~A  270 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEA  270 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHcCCHHHH
Confidence            8999999999999999864321 4778999999999999999999999999883  345677899999999999999999


Q ss_pred             HHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC-----------CchHHHHHHHHhhcCCchHHH
Q 005966          573 YDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPEN-----------PGNYVLLSKLYSAVRRWKDAE  639 (667)
Q Consensus       573 ~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~  639 (667)
                      +..++++ ...| +...+..++..+...|++++|...+++++++.|++           +.++..++.+|...|++++|.
T Consensus       271 ~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  350 (368)
T 1fch_A          271 VAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  350 (368)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHH
Confidence            9999997 3444 67789999999999999999999999999999887           788999999999999999999


Q ss_pred             HHHHHhh
Q 005966          640 NVRDVMD  646 (667)
Q Consensus       640 ~~~~~~~  646 (667)
                      .++++..
T Consensus       351 ~~~~~~l  357 (368)
T 1fch_A          351 AADARDL  357 (368)
T ss_dssp             HHHTTCH
T ss_pred             HhHHHHH
Confidence            9987543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.81  E-value=2.6e-16  Score=164.87  Aligned_cols=414  Identities=9%  Similarity=0.012  Sum_probs=269.6

Q ss_pred             ChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC--CChhHHHHHHHH-
Q 005966          211 DCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE--RDVVTWTSMING-  287 (667)
Q Consensus       211 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~-  287 (667)
                      +...|..++.. .+.|+++.|..+++.+.+.. +.+...|..++..+.+.|++++|..+|++...  |+...|...+.. 
T Consensus        12 ~~~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~   89 (530)
T 2ooe_A           12 DLDAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYV   89 (530)
T ss_dssp             CHHHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHH
Confidence            45567777764 56778888888888877753 44666777888888888888888888887765  666666655532 


Q ss_pred             HHhCCChHHHHH----HHHHHHhc-CCCCC-hhhHHHHHHHhhc---------ccchHHHHHHHHHHHHhcCCCCchHHh
Q 005966          288 YALNGDVRNALG----LFQLMQFE-GVRPN-SLTIGSLLSACSS---------LYYLKRGRSLHAWTIKQNLECEVIVET  352 (667)
Q Consensus       288 ~~~~~~~~~a~~----~~~~m~~~-~~~p~-~~t~~~ll~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~  352 (667)
                      ....|+.+.|.+    +|++.... |..|+ ...|...+.....         .|+++.+..+++..++........+|.
T Consensus        90 ~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~  169 (530)
T 2ooe_A           90 RETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWR  169 (530)
T ss_dssp             HHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHH
T ss_pred             HHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHH
Confidence            234566665554    55555432 44443 2333333333222         455666666666655521000011222


Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHH------HCC---CCCCH--------H
Q 005966          353 ALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQML------VEV---VEPND--------A  415 (667)
Q Consensus       353 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~------~~g---~~p~~--------~  415 (667)
                      .........|. ..+..++.                 ...+++..|..+++++.      +..   +.|+.        .
T Consensus       170 ~~~~~e~~~~~-~~~~~~l~-----------------~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~  231 (530)
T 2ooe_A          170 DYNKYEEGINI-HLAKKMIE-----------------DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVD  231 (530)
T ss_dssp             HHHHHHHHHCH-HHHHHHHH-----------------TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHH
T ss_pred             HHHHHHHhhch-hHHHHHHH-----------------HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHH
Confidence            11111000000 00111110                 02345566666666532      111   23431        2


Q ss_pred             HHHHHHHHHhC----cCCH----HHHHHHHHHHHHhCCCCCchHHHHHHHHHHh-------cCCHH-------HHHHHHh
Q 005966          416 TLNSLLPAYAI----LADL----QQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK-------CGSLE-------SAHKIFS  473 (667)
Q Consensus       416 ~~~~ll~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~g~~~-------~A~~~~~  473 (667)
                      .|...+.....    .++.    ..+..+|+...... +.++..+..++..+.+       .|+++       +|..+|+
T Consensus       232 ~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~  310 (530)
T 2ooe_A          232 MWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYE  310 (530)
T ss_dssp             HHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHH
Confidence            34433332221    1232    46777888887764 5677888888888875       68887       8999999


Q ss_pred             hCCC-CCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCC
Q 005966          474 EIPI-KDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE--VTFTSALHACSHGGLLDEGLDLFNFMLENHQT  549 (667)
Q Consensus       474 ~~~~-~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~  549 (667)
                      +... ..| +...|..++..+.+.|++++|..+|+++++.  .|+.  ..|..++..+.+.|++++|..+|+++.+..  
T Consensus       311 ~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~--  386 (530)
T 2ooe_A          311 RAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA--  386 (530)
T ss_dssp             HHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT--
T ss_pred             HHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc--
Confidence            9886 445 4678999999999999999999999999985  4543  478888888888999999999999998732  


Q ss_pred             CCchhHHHHHHHH-HhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc----hH
Q 005966          550 CSRADHYTCIVDL-LGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG----NY  622 (667)
Q Consensus       550 ~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~----~~  622 (667)
                      +.+...|...+.. +...|++++|..+|++. ...| ++..|..++..+.+.|+.++|..++++++...|.+|.    .|
T Consensus       387 ~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw  466 (530)
T 2ooe_A          387 RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIW  466 (530)
T ss_dssp             TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHH
T ss_pred             CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHH
Confidence            2233333333322 33689999999999987 4445 6788999999999999999999999999998887766    77


Q ss_pred             HHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          623 VLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ...+......|+.+.+..+.+++.+.-
T Consensus       467 ~~~~~~e~~~G~~~~~~~~~~r~~~~~  493 (530)
T 2ooe_A          467 ARFLAFESNIGDLASILKVEKRRFTAF  493 (530)
T ss_dssp             HHHHHHHHHSSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            777888888999999999999987654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.79  E-value=4.9e-18  Score=169.15  Aligned_cols=264  Identities=11%  Similarity=-0.029  Sum_probs=218.6

Q ss_pred             CcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHH
Q 005966          378 KTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLID  457 (667)
Q Consensus       378 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  457 (667)
                      +...|..+...+.+.|++++|+..|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHH
Confidence            34448888999999999999999999998763 4467788899999999999999999999998876 556888999999


Q ss_pred             HHHhcCCHHHHHHHHhhCCCCCCC-----------cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCHHHHHHHHH
Q 005966          458 IYSKCGSLESAHKIFSEIPIKDKD-----------IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQ-PNEVTFTSALH  525 (667)
Q Consensus       458 ~~~~~g~~~~A~~~~~~~~~~~~~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~  525 (667)
                      +|.+.|++++|...|+++....|+           ...+..+...+...|++++|+..++++.+.... ++..++..+..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQNPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGV  221 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCHHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhCccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHH
Confidence            999999999999999988765532           123344578899999999999999999997432 15788999999


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHH
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~  603 (667)
                      .+...|++++|...++++.+.  .+.+..+|..++.+|...|++++|++.++++ ...| +..++..+..++...|++++
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  299 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTV--RPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYRE  299 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            999999999999999999983  4456788999999999999999999999987 4445 57889999999999999999


Q ss_pred             HHHHHHHhhccCCC------------CCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          604 GEVAAKWLFELEPE------------NPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       604 A~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      |...+++++++.|+            +..++..++.++...|+.+.|.+..++-
T Consensus       300 A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  353 (365)
T 4eqf_A          300 AVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLGD  353 (365)
T ss_dssp             HHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTTC
T ss_pred             HHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHhh
Confidence            99999999998887            3678999999999999999999887663

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.79  E-value=1.2e-15  Score=158.08  Aligned_cols=353  Identities=13%  Similarity=0.011  Sum_probs=294.0

Q ss_pred             CChhHHHHHHHHHHh----CCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhc----ccchHHHHHHHHHHHHhcCCCC
Q 005966          276 RDVVTWTSMINGYAL----NGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSS----LYYLKRGRSLHAWTIKQNLECE  347 (667)
Q Consensus       276 ~~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~  347 (667)
                      .+..++..+...|..    .+++++|+..|++..+.|   +...+..+-..+..    .++.+.|...+....+.+   +
T Consensus        37 g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~  110 (490)
T 2xm6_A           37 GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQG---YTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---L  110 (490)
T ss_dssp             TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---C
T ss_pred             CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---C
Confidence            567777778888887    899999999999998764   45566666666776    889999999999998865   5


Q ss_pred             chHHhHHHHHHHh----cCCHHHHHHHHhccCCC-CcccHHHHHHHHHh----CCChHHHHHHHHHHHHCCCCCCHHHHH
Q 005966          348 VIVETALIDMYAK----CNLVKLSFQVFARTSKK-KTVPWNAILAGCVH----NGLARKAVELFRQMLVEVVEPNDATLN  418 (667)
Q Consensus       348 ~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~li~~~~~----~~~~~~A~~~~~~m~~~g~~p~~~~~~  418 (667)
                      ...+..|...|..    .+++++|...|++.... ++..+..+...|..    .++.++|++.|++..+.|   +...+.
T Consensus       111 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~  187 (490)
T 2xm6_A          111 PQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCN  187 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            6677778888888    88999999999987643 45557888888887    789999999999998875   567777


Q ss_pred             HHHHHHhC----cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh----cCCHHHHHHHHhhCCCCCCCcchHHHHHH
Q 005966          419 SLLPAYAI----LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK----CGSLESAHKIFSEIPIKDKDIVVWSVIIA  490 (667)
Q Consensus       419 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~  490 (667)
                      .+...|..    .++.++|...++...+.+   ++..+..+...|..    .+++++|..+|++..+. .+...+..+..
T Consensus       188 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~  263 (490)
T 2xm6_A          188 QLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQ-GNSIAQFRLGY  263 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTT-TCHHHHHHHHH
T ss_pred             HHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-CCHHHHHHHHH
Confidence            77777776    899999999999998865   45677788888886    88999999999988775 45667777888


Q ss_pred             HHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc-----CCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          491 GYGM----HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG-----GLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       491 ~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-----g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      .+..    .++.++|+..|++..+.|   +...+..+...|...     +++++|...+++..+ .+   +...+..+..
T Consensus       264 ~y~~g~~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~  336 (490)
T 2xm6_A          264 ILEQGLAGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE-QG---DATAQANLGA  336 (490)
T ss_dssp             HHHHTTTSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH-TT---CHHHHHHHHH
T ss_pred             HHHCCCCCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh-cC---CHHHHHHHHH
Confidence            8887    899999999999998865   455677777777776     899999999999988 32   3456777888


Q ss_pred             HHhhcC---ChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh---
Q 005966          562 LLGRAG---RLDEAYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA---  631 (667)
Q Consensus       562 ~~~~~g---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~---  631 (667)
                      +|...|   ++++|++.+++.....++..+..+...|..    .+++++|...++++.+.+  ++.++..|+.+|..   
T Consensus       337 ~y~~~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~--~~~a~~~Lg~~y~~g~g  414 (490)
T 2xm6_A          337 IYFRLGSEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG--LSAAQVQLGEIYYYGLG  414 (490)
T ss_dssp             HHHHSCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSS
T ss_pred             HHHhCCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC--CHHHHHHHHHHHHcCCC
Confidence            888766   889999999988444678899999999988    899999999999998864  57899999999998   


Q ss_pred             -cCCchHHHHHHHHhhhCCC
Q 005966          632 -VRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       632 -~g~~~~A~~~~~~~~~~~~  650 (667)
                       .+++++|...+++..+.+.
T Consensus       415 ~~~d~~~A~~~~~~A~~~~~  434 (490)
T 2xm6_A          415 VERDYVQAWAWFDTASTNDM  434 (490)
T ss_dssp             SCCCHHHHHHHHHHHHHHHC
T ss_pred             CCCCHHHHHHHHHHHHHCCC
Confidence             8999999999999988763

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.79  E-value=5.5e-17  Score=154.62  Aligned_cols=271  Identities=8%  Similarity=-0.043  Sum_probs=216.8

Q ss_pred             HHHHhcCCHHHHHHHHhccCCCCccc----HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHH
Q 005966          356 DMYAKCNLVKLSFQVFARTSKKKTVP----WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQ  431 (667)
Q Consensus       356 ~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  431 (667)
                      +-....|+++.|+..++.....++..    ...+..+|...|++++|+..++.    .-.|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCCcHH
Confidence            34456789999999988776555433    35567899999999999986654    24567778888899999999999


Q ss_pred             HHHHHHHHHHHhCC-CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHH
Q 005966          432 QAMNIHCYLIRYGF-LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQ  510 (667)
Q Consensus       432 ~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  510 (667)
                      +|.+.++.+...+. +.+...+..+..++.+.|++++|.+.+++    ..+...+..++..+.+.|++++|.+.++++.+
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~----~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~  158 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ----GDSLECMAMTVQILLKLDRLDLARKELKKMQD  158 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT----CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC----CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            99999999988774 44566777788999999999999999998    26778899999999999999999999999998


Q ss_pred             cCCCCCHHHH---HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CH
Q 005966          511 SGVQPNEVTF---TSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-TH  585 (667)
Q Consensus       511 ~~~~p~~~~~---~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~  585 (667)
                      ..  |+....   ..++..+...|++++|..+|+++.+.  .+.+...++.++.++.+.|++++|.+.++++ ...| ++
T Consensus       159 ~~--p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~--~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~  234 (291)
T 3mkr_A          159 QD--EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADK--CSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHP  234 (291)
T ss_dssp             HC--TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             hC--cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCH
Confidence            74  554321   22334445668999999999999984  5567888999999999999999999999997 4455 77


Q ss_pred             HHHHHHHHHHHhcCCHHH-HHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHH
Q 005966          586 AVWGALLGACVIHGNVEL-GEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVR  642 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  642 (667)
                      .++..++..+...|+.++ +.+.++++++++|+++.+..    ...+.+.++++..-|
T Consensus       235 ~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~~~~d----~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          235 ETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHPFIKE----YRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHH----HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCChHHHH----HHHHHHHHHHHHHHc
Confidence            789999999999999865 67899999999999877654    455566666665544

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.79  E-value=3.8e-16  Score=163.58  Aligned_cols=408  Identities=12%  Similarity=0.090  Sum_probs=262.7

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCC-ChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHH
Q 005966          176 SVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEP-DCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALV  254 (667)
Q Consensus       176 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  254 (667)
                      +...|..++. +.+.|++++|..+|+++.+.  .| +...|...+..+.+.|+++.|..+|+.++...  |+...|...+
T Consensus        12 ~~~~w~~l~~-~~~~~~~~~a~~~~e~al~~--~P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~   86 (530)
T 2ooe_A           12 DLDAWSILIR-EAQNQPIDKARKTYERLVAQ--FPSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYL   86 (530)
T ss_dssp             CHHHHHHHHH-HHHSSCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHH
T ss_pred             CHHHHHHHHH-HHHhCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHH
Confidence            4445555554 24455555555555555542  23 23345555555555555555555555555543  4566777777


Q ss_pred             HHH-HhcCCHHHHHH----HHhhcCC------CChhHHHHHHHHHHh---------CCChHHHHHHHHHHHhcCCCCCh-
Q 005966          255 DMY-VKCGSVNEARL----VFDRMSE------RDVVTWTSMINGYAL---------NGDVRNALGLFQLMQFEGVRPNS-  313 (667)
Q Consensus       255 ~~~-~~~g~~~~A~~----~~~~~~~------~~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~p~~-  313 (667)
                      ... ...|+.++|.+    +|+....      .+...|...+....+         .|+++.|..+|++..+.   |.. 
T Consensus        87 ~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~---P~~~  163 (530)
T 2ooe_A           87 SYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVN---PMIN  163 (530)
T ss_dssp             HHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTS---CCTT
T ss_pred             HHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhc---hhhh
Confidence            533 35677777665    6665421      356678777776554         68899999999999872   432 


Q ss_pred             --hhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhc-------cC------CCC
Q 005966          314 --LTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFAR-------TS------KKK  378 (667)
Q Consensus       314 --~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-------~~------~~~  378 (667)
                        ..|..........+. ..+..                   ++.  .+.+++..|..++..       +.      .++
T Consensus       164 ~~~~~~~~~~~e~~~~~-~~~~~-------------------~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~  221 (530)
T 2ooe_A          164 IEQLWRDYNKYEEGINI-HLAKK-------------------MIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQ  221 (530)
T ss_dssp             HHHHHHHHHHHHHHHCH-HHHHH-------------------HHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC
T ss_pred             HHHHHHHHHHHHHhhch-hHHHH-------------------HHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCC
Confidence              222221111000000 00111                   110  012334444433332       11      111


Q ss_pred             --------cccHHHHHHHHHhC----CCh----HHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC-------cCCHH----
Q 005966          379 --------TVPWNAILAGCVHN----GLA----RKAVELFRQMLVEVVEPNDATLNSLLPAYAI-------LADLQ----  431 (667)
Q Consensus       379 --------~~~~~~li~~~~~~----~~~----~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-------~~~~~----  431 (667)
                              ...|...+......    ++.    .++..+|++.... .+-+...|......+..       .|+++    
T Consensus       222 ~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~-~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~  300 (530)
T 2ooe_A          222 NTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKL  300 (530)
T ss_dssp             --CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHH
T ss_pred             CChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhchhhhhccchhhhhh
Confidence                    12244444333222    222    4778888888765 23355666666666654       68876    


Q ss_pred             ---HHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc--chHHHHHHHHHHcCChHHHHHHHH
Q 005966          432 ---QAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI--VVWSVIIAGYGMHGHGETAVSLFK  506 (667)
Q Consensus       432 ---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~  506 (667)
                         +|..+++...+.-.+.+...+..++..+.+.|++++|..+|+++....|+.  ..|..++..+.+.|+.++|..+|+
T Consensus       301 ~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          301 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence               899999988863335578889999999999999999999999988776653  479999999999999999999999


Q ss_pred             HHHHcCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C---C
Q 005966          507 EMVQSGVQPNEVTFTSALHA-CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P---L  581 (667)
Q Consensus       507 ~m~~~~~~p~~~~~~~ll~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~  581 (667)
                      +..+.. +.+...|...... +...|++++|..+|+...+..  +.+...|..++..+.+.|+.++|..+|++. .   .
T Consensus       381 ~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~  457 (530)
T 2ooe_A          381 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  457 (530)
T ss_dssp             HHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCS
T ss_pred             HHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCC
Confidence            999863 2233333332222 346899999999999998843  345788999999999999999999999987 2   2


Q ss_pred             CCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          582 KPT--HAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       582 ~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .|+  ...|...+......|+.+.+..+.+++.+..|+
T Consensus       458 ~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          458 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             CGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            332  347888888888899999999999999999985

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.78  E-value=1.1e-17  Score=163.75  Aligned_cols=262  Identities=11%  Similarity=-0.040  Sum_probs=213.0

Q ss_pred             cHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 005966          381 PWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYS  460 (667)
Q Consensus       381 ~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  460 (667)
                      .|..+...+...|++++|..+|+++.+.. +.+...+..+...+...|++++|...++.+.+.. +.+...+..+...|.
T Consensus        23 ~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~  100 (327)
T 3cv0_A           23 NPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHT  100 (327)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHH
Confidence            36677777888888888888888887653 3355677777788888888888888888887765 456777888888888


Q ss_pred             hcCCHHHHHHHHhhCCCCCCCc-chHHHH--------------HH-HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 005966          461 KCGSLESAHKIFSEIPIKDKDI-VVWSVI--------------IA-GYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSAL  524 (667)
Q Consensus       461 ~~g~~~~A~~~~~~~~~~~~~~-~~~~~l--------------~~-~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  524 (667)
                      ..|++++|.+.++++....|+. ..+..+              .. .+...|++++|...++++.+.. +.+...+..+.
T Consensus       101 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la  179 (327)
T 3cv0_A          101 NEHNANAALASLRAWLLSQPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASLG  179 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHTSTTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHHH
Confidence            8888888888888776655432 333332              22 3777889999999999999875 34678899999


Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHH
Q 005966          525 HACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVE  602 (667)
Q Consensus       525 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~  602 (667)
                      ..+...|++++|...++++.+.  .+.+...+..++..+...|++++|...++++ ...| +...+..+...+...|+++
T Consensus       180 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          180 VLYNLSNNYDSAAANLRRAVEL--RPDDAQLWNKLGATLANGNRPQEALDAYNRALDINPGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhccHH
Confidence            9999999999999999999883  3456778999999999999999999999987 3344 6788999999999999999


Q ss_pred             HHHHHHHHhhccCCC------------CCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          603 LGEVAAKWLFELEPE------------NPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       603 ~A~~~~~~~~~~~p~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      +|...++++++..|+            ++.++..++.+|...|++++|...+++..+
T Consensus       258 ~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          258 LAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             HHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             HHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            999999999999999            788999999999999999999999887554

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.78  E-value=8.5e-17  Score=155.91  Aligned_cols=349  Identities=11%  Similarity=0.116  Sum_probs=143.0

Q ss_pred             hHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHH
Q 005966           52 SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGI  131 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  131 (667)
                      .+....|+.++|...++++..|  .+|..|+.++.+.|++++|++.|.+.       +|..+|..++.++...|++++|.
T Consensus        11 ~ll~~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika-------~D~~~y~~V~~~ae~~g~~EeAi   81 (449)
T 1b89_A           11 VLIEHIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA-------DDPSSYMEVVQAANTSGNWEELV   81 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHHHHccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC-------CCHHHHHHHHHHHHhCCCHHHHH
Confidence            4566789999999999999665  49999999999999999999999643       46779999999999999999999


Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCC
Q 005966          132 ALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPD  211 (667)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~  211 (667)
                      ..++..++.  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|..+|..+        
T Consensus        82 ~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a--------  148 (449)
T 1b89_A           82 KYLQMARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV--------  148 (449)
T ss_dssp             -----------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT--------
T ss_pred             HHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh--------
Confidence            988887774  45688899999999999999999988864   67789999999999999999999999976        


Q ss_pred             hHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhC
Q 005966          212 CASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALN  291 (667)
Q Consensus       212 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~  291 (667)
                       ..|..+..++.+.|+++.|.+.+..+      .++.+|..++.+|...|+++.|......+. ..+.-...++..|.+.
T Consensus       149 -~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~  220 (449)
T 1b89_A          149 -SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDR  220 (449)
T ss_dssp             -TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHT
T ss_pred             -hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHC
Confidence             36778888888888888888888776      257788888888888888888877666654 3333344577778888


Q ss_pred             CChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHh--cCCHHHHHH
Q 005966          292 GDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAK--CNLVKLSFQ  369 (667)
Q Consensus       292 ~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~a~~  369 (667)
                      |++++|+.+++...... +.-.                                   ..|+.+.-.|++  .+++.+.++
T Consensus       221 G~~eEai~lLe~aL~le-~ah~-----------------------------------~~ftel~il~~ky~p~k~~ehl~  264 (449)
T 1b89_A          221 GYFEELITMLEAALGLE-RAHM-----------------------------------GMFTELAILYSKFKPQKMREHLE  264 (449)
T ss_dssp             TCHHHHHHHHHHHTTST-TCCH-----------------------------------HHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHhCCc-HHHH-----------------------------------HHHHHHHHHHHhcCHHHHHHHHH
Confidence            88888888887765432 1111                                   222223333332  234444444


Q ss_pred             HHhccC---C-----CCcccHHHHHHHHHhCCChHHHHHHHHHHHHC-CCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHH
Q 005966          370 VFARTS---K-----KKTVPWNAILAGCVHNGLARKAVELFRQMLVE-VVEPNDATLNSLLPAYAILADLQQAMNIHCYL  440 (667)
Q Consensus       370 ~~~~~~---~-----~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~-g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  440 (667)
                      .|..-.   +     .+...|..+...|...++++.|...   |.+. ...-+...|.-++.--.+..-+-+|..++   
T Consensus       265 ~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~t---m~~h~~~a~~~~~f~~~~~kv~n~elyYkai~fy---  338 (449)
T 1b89_A          265 LFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNHPTDAWKEGQFKDIITKVANVELYYRAIQFY---  338 (449)
T ss_dssp             HHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHH---HHHSTTTTCCHHHHHHHHHHCSSTHHHHHHHHHH---
T ss_pred             HHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHH---HHhCChhhhhhHHHHHHHhchhHHHHHHHHHHHH---
Confidence            444322   1     2345588899999999999988774   3332 22233444444443322222222232222   


Q ss_pred             HHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005966          441 IRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIP  476 (667)
Q Consensus       441 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  476 (667)
                      .+.    .+...+.|+.++...=+...+..+|+..-
T Consensus       339 l~~----~p~~l~~ll~~l~~~ld~~r~v~~~~~~~  370 (449)
T 1b89_A          339 LEF----KPLLLNDLLMVLSPRLDHTRAVNYFSKVK  370 (449)
T ss_dssp             HHH----CGGGHHHHHHHHGGGCCHHHHHHHHHHTT
T ss_pred             Hhc----CHHHHHHHHHHHHhccCcHHHHHHHHHcC
Confidence            211    12335556666655556666666665543

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.78  E-value=4.1e-16  Score=151.15  Aligned_cols=281  Identities=14%  Similarity=0.132  Sum_probs=89.4

Q ss_pred             hcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHH
Q 005966          158 NFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHEL  237 (667)
Q Consensus       158 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  237 (667)
                      +.|++++|.++++++..|  .+|..|+.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|..+++.
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            567788888888888554  37888888888888888888888542      5666788888888888888888887776


Q ss_pred             HHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHH
Q 005966          238 VAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIG  317 (667)
Q Consensus       238 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~  317 (667)
                      ..+.  .+++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|.
T Consensus        87 ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~  152 (449)
T 1b89_A           87 ARKK--ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFG  152 (449)
T ss_dssp             ------------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHH
T ss_pred             HHHh--CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHH
Confidence            6663  34467778888888888888887777653   66667888888888888888888888765         2344


Q ss_pred             HHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHH
Q 005966          318 SLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARK  397 (667)
Q Consensus       318 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  397 (667)
                      .                                   ++.++.+.|+++.|.+.+.++  .++.+|..++.+|...|+++.
T Consensus       153 ~-----------------------------------LA~~L~~Lg~yq~AVea~~KA--~~~~~Wk~v~~aCv~~~ef~l  195 (449)
T 1b89_A          153 R-----------------------------------LASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRL  195 (449)
T ss_dssp             H-----------------------------------HHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHH
T ss_pred             H-----------------------------------HHHHHHHhccHHHHHHHHHHc--CCchhHHHHHHHHHHcCcHHH
Confidence            4                                   444444444444444444444  244445555555555555555


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh--cCCHHHHHHHHhhC
Q 005966          398 AVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK--CGSLESAHKIFSEI  475 (667)
Q Consensus       398 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~~A~~~~~~~  475 (667)
                      |......+.   +.|+.  ...++..|.+.|.+++|..+++...... +--..+|+-|.-+|++  -+++.+..++|..-
T Consensus       196 A~~~~l~L~---~~ad~--l~~lv~~Yek~G~~eEai~lLe~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~~~  269 (449)
T 1b89_A          196 AQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFWSR  269 (449)
T ss_dssp             HHHTTTTTT---TCHHH--HHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHH---hCHhh--HHHHHHHHHHCCCHHHHHHHHHHHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            533322211   22222  2344555555555555555555544333 3334444544444444  33444555555433


Q ss_pred             CCCCC------CcchHHHHHHHHHHcCChHHHHH
Q 005966          476 PIKDK------DIVVWSVIIAGYGMHGHGETAVS  503 (667)
Q Consensus       476 ~~~~~------~~~~~~~l~~~~~~~~~~~~a~~  503 (667)
                      ....|      +...|..+...|...++++.|..
T Consensus       270 ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          270 VNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  303 (449)
T ss_dssp             SCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             hcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH
Confidence            33211      45667777777777888877765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.78  E-value=5.2e-17  Score=167.95  Aligned_cols=372  Identities=12%  Similarity=-0.028  Sum_probs=202.8

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCC------------CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcC-----
Q 005966          246 NIAAWNALVDMYVKCGSVNEARLVFDRMSE------------RDVVTWTSMINGYALNGDVRNALGLFQLMQFEG-----  308 (667)
Q Consensus       246 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------------~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----  308 (667)
                      ....|+.|...+...|++++|++.|++..+            ....+|+.+...|...|++++|...+++..+..     
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            456788888888888888888888876432            234578888888888888888888888765420     


Q ss_pred             -CCCC-hhhHHHHHHHhhc--ccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHH
Q 005966          309 -VRPN-SLTIGSLLSACSS--LYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNA  384 (667)
Q Consensus       309 -~~p~-~~t~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  384 (667)
                       ..++ ..++.....++..  .+++++|...|+.+.+.. +.++..+..+...+.                         
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~-p~~~~~~~~~~~~~~-------------------------  183 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKK-PKNPEFTSGLAIASY-------------------------  183 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHH-------------------------
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-------------------------
Confidence             0111 1223222222222  234555555555554443 112222222222211                         


Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHh----CcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 005966          385 ILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYA----ILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYS  460 (667)
Q Consensus       385 li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  460 (667)
                         .+...++.++|++.+++..+.. +.+...+..+...+.    ..+++++|.+.++...... +.....+..+...|.
T Consensus       184 ---~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~  258 (472)
T 4g1t_A          184 ---RLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYR  258 (472)
T ss_dssp             ---HHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHH
T ss_pred             ---HhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHH
Confidence               1223344455555555544321 112222222222221    2344555555555555443 334445555555566


Q ss_pred             hcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHH-------------------cCChHHHHHHHHHHHHcCCCCCHHHH
Q 005966          461 KCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGM-------------------HGHGETAVSLFKEMVQSGVQPNEVTF  520 (667)
Q Consensus       461 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~-------------------~~~~~~a~~~~~~m~~~~~~p~~~~~  520 (667)
                      +.|++++|...+++..+..|+ ..++..+..+|..                   .+..++|...+++..+.. +.+..++
T Consensus       259 ~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~  337 (472)
T 4g1t_A          259 RKDEPDKAIELLKKALEYIPNNAYLHCQIGCCYRAKVFQVMNLRENGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVC  337 (472)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHC------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCH
T ss_pred             HcCchHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhHHHHHHHHHHHhhcC-Cchhhhh
Confidence            666666666665555444443 2333333333321                   234677888888888764 3345678


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCch--hHHHHHHHH-HhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHH
Q 005966          521 TSALHACSHGGLLDEGLDLFNFMLENHQTCSRA--DHYTCIVDL-LGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACV  596 (667)
Q Consensus       521 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~--~~~~~l~~~-~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~  596 (667)
                      ..+...+...|++++|...|+++++. ...+..  ..+..+... +...|++++|+..+++. .+.|+.....       
T Consensus       338 ~~lg~~~~~~~~~~~A~~~~~kaL~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~-------  409 (472)
T 4g1t_A          338 SILASLHALADQYEEAEYYFQKEFSK-ELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKE-------  409 (472)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHH-------
T ss_pred             hhHHHHHHHhccHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHH-------
Confidence            88889999999999999999999872 222211  123333333 34689999999999886 5666643322       


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCccCCCeeEE
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPAHSLI  659 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~  659 (667)
                        +..+.+..+++++++.+|+++.++..||.+|...|++++|++.+++..+.+.....+.+|+
T Consensus       410 --~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          410 --KMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             --HHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             --HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence              2334567788899999999999999999999999999999999999999887666666664

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.77  E-value=2.2e-17  Score=157.32  Aligned_cols=250  Identities=11%  Similarity=0.079  Sum_probs=205.6

Q ss_pred             HHHHHhCCChHHHHHHHHHHHHCCCCCCH--HHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcC
Q 005966          386 LAGCVHNGLARKAVELFRQMLVEVVEPND--ATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCG  463 (667)
Q Consensus       386 i~~~~~~~~~~~A~~~~~~m~~~g~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  463 (667)
                      ++-....|++.+|+..+++...  ..|+.  .....+..+|...|+++.|...++.    .-+|+...+..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~--~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~----~~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKP--SSPERDVERDVFLYRAYLAQRKYGVVLDEIKP----SSAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCC--CSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT----TSCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhccc--CCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc----cCChhHHHHHHHHHHHcCCC
Confidence            3455678999999999987653  34443  3456678899999999999986654    23667788889999999999


Q ss_pred             CHHHHHHHHhhCCCC--CC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 005966          464 SLESAHKIFSEIPIK--DK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLF  540 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~  540 (667)
                      +.++|.+.++++...  .| +...+..+...+...|++++|++.+++      ..+...+..+...+.+.|++++|.+.+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            999999999987543  25 456677778999999999999999988      457778999999999999999999999


Q ss_pred             HHhHHhcCCCCchh---HHHHHHHHHhhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC
Q 005966          541 NFMLENHQTCSRAD---HYTCIVDLLGRAGRLDEAYDLIRTM--PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELE  615 (667)
Q Consensus       541 ~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  615 (667)
                      +++.+..   |+..   ....++..+...|++++|..+|+++  ..+++...++.++.++.+.|++++|+..++++++.+
T Consensus       154 ~~~~~~~---p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQD---EDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHHC---TTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhhC---cCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9998842   4432   1223445556679999999999998  245578899999999999999999999999999999


Q ss_pred             CCCCchHHHHHHHHhhcCCchH-HHHHHHHhhhCCC
Q 005966          616 PENPGNYVLLSKLYSAVRRWKD-AENVRDVMDEKGL  650 (667)
Q Consensus       616 p~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~~~~~  650 (667)
                      |+++.++..++.++...|++++ +.++++++.+..+
T Consensus       231 p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P  266 (291)
T 3mkr_A          231 SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHR  266 (291)
T ss_dssp             TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCT
T ss_pred             CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCC
Confidence            9999999999999999999976 5689999887653

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.76  E-value=1.5e-17  Score=165.80  Aligned_cols=259  Identities=12%  Similarity=0.008  Sum_probs=207.3

Q ss_pred             HHhCCChHHHHH-HHHHHHHCCC-CC--CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCC
Q 005966          389 CVHNGLARKAVE-LFRQMLVEVV-EP--NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGS  464 (667)
Q Consensus       389 ~~~~~~~~~A~~-~~~~m~~~g~-~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  464 (667)
                      +...|++++|++ .|++...... .|  +...+..+...+...|++++|...++.+.+.. +.+...+..+..++.+.|+
T Consensus        35 ~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~  113 (368)
T 1fch_A           35 HPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQ  113 (368)
T ss_dssp             -----------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcC
Confidence            344588899998 8876554321 11  34567788889999999999999999999875 5677889999999999999


Q ss_pred             HHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHH---------------HHHHHh
Q 005966          465 LESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTS---------------ALHACS  528 (667)
Q Consensus       465 ~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~---------------ll~~~~  528 (667)
                      +++|.+.|+++....| +..++..+...+...|++++|+..++++.+.... +...+..               .+..+.
T Consensus       114 ~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~  192 (368)
T 1fch_A          114 ELLAISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLL  192 (368)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHH
T ss_pred             HHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHh
Confidence            9999999998877665 5678999999999999999999999999986422 2222211               233444


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005966          529 HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~  606 (667)
                      ..|++++|...++++.+.....++..++..++.++.+.|++++|+..++++ ...| +...+..++..+...|++++|+.
T Consensus       193 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~  272 (368)
T 1fch_A          193 SDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVA  272 (368)
T ss_dssp             HHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            889999999999999985433336788999999999999999999999987 3444 67899999999999999999999


Q ss_pred             HHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          607 AAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       607 ~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .++++++..|+++.++..++.+|.+.|++++|...++++.+..
T Consensus       273 ~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~  315 (368)
T 1fch_A          273 AYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQ  315 (368)
T ss_dssp             HHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            9999999999999999999999999999999999999988654

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.75  E-value=3.2e-17  Score=163.20  Aligned_cols=234  Identities=12%  Similarity=0.018  Sum_probs=198.7

Q ss_pred             CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHH
Q 005966          413 NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAG  491 (667)
Q Consensus       413 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~  491 (667)
                      +...+..+...+...|++++|...++.+.+.. +.+...+..+..+|.+.|++++|...|+++....| +..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            34457788889999999999999999999876 56788999999999999999999999999877665 47889999999


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCH-----------HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHH
Q 005966          492 YGMHGHGETAVSLFKEMVQSGVQPNE-----------VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIV  560 (667)
Q Consensus       492 ~~~~~~~~~a~~~~~~m~~~~~~p~~-----------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  560 (667)
                      |...|++++|+..++++.+..  |+.           ..+..+...+...|++++|...++++.+.....++...+..++
T Consensus       143 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~  220 (365)
T 4eqf_A          143 YTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLG  220 (365)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHH
T ss_pred             HHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHH
Confidence            999999999999999999853  332           2233457788999999999999999998543333688899999


Q ss_pred             HHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHH
Q 005966          561 DLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDA  638 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  638 (667)
                      ..|...|++++|++.++++ ...| +..+|..++.++...|++++|+..++++++..|+++.++..++.+|...|++++|
T Consensus       221 ~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          221 VLFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHH
Confidence            9999999999999999997 3344 6889999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhhhCC
Q 005966          639 ENVRDVMDEKG  649 (667)
Q Consensus       639 ~~~~~~~~~~~  649 (667)
                      .+.++++.+..
T Consensus       301 ~~~~~~al~~~  311 (365)
T 4eqf_A          301 VSNFLTALSLQ  311 (365)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            99999988654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.71  E-value=3.2e-16  Score=142.63  Aligned_cols=198  Identities=13%  Similarity=0.015  Sum_probs=161.4

Q ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHH
Q 005966          446 LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSAL  524 (667)
Q Consensus       446 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll  524 (667)
                      +++...+..+...+.+.|++++|...|++.....| +...|..+...+.+.|++++|+..+++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            56777888899999999999999999999887765 46788899999999999999999999999874 23566888888


Q ss_pred             HHHhcc-----------CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHH
Q 005966          525 HACSHG-----------GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALL  592 (667)
Q Consensus       525 ~~~~~~-----------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~  592 (667)
                      .++...           |++++|+..++++.+.  .|.+...+..+..++...|++++|+..|+++ ....++..+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            899999           9999999999999983  3445778899999999999999999999987 2227888999999


Q ss_pred             HHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          593 GACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       593 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      .++...|++++|+..++++++..|+++.++..++.++...|++++|++.+++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            999999999999999999999999999999999999999999999999998753

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.69  E-value=8.3e-16  Score=144.59  Aligned_cols=219  Identities=9%  Similarity=0.003  Sum_probs=149.3

Q ss_pred             HHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC--------cchHHHHH
Q 005966          418 NSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD--------IVVWSVII  489 (667)
Q Consensus       418 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--------~~~~~~l~  489 (667)
                      ..+...+...|++++|...++...+..  .+...+..+..++...|++++|.+.+++.....|+        ..+|..+.
T Consensus         9 ~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~   86 (258)
T 3uq3_A            9 KAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIG   86 (258)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHH
Confidence            333444444444444444444444444  44444555555555555555555555544332221        35667777


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCCh
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL  569 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  569 (667)
                      ..+...|++++|+..|++..+.  .|+.       ..+...|++++|...++.+.+  ..+.+...+..++..+...|++
T Consensus        87 ~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~  155 (258)
T 3uq3_A           87 NAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAY--VNPEKAEEARLEGKEYFTKSDW  155 (258)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHH--CCHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHH--cCcchHHHHHHHHHHHHHhcCH
Confidence            7777888888888888887774  3443       234556778888888888776  3334456677788888888888


Q ss_pred             HHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          570 DEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       570 ~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ++|+..++++ . .+.+..++..++..+...|++++|+..++++++..|+++.++..++.+|...|++++|.+.++++.+
T Consensus       156 ~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          156 PNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            8888888876 3 3336777888888888888888888888888888888888888888888888888888888888766


Q ss_pred             CC
Q 005966          648 KG  649 (667)
Q Consensus       648 ~~  649 (667)
                      ..
T Consensus       236 ~~  237 (258)
T 3uq3_A          236 KD  237 (258)
T ss_dssp             HH
T ss_pred             hC
Confidence            43

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.69  E-value=1.1e-14  Score=150.34  Aligned_cols=390  Identities=10%  Similarity=-0.017  Sum_probs=201.8

Q ss_pred             ChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhc-CCCcchhHHHHHH
Q 005966          176 SVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGG-RLGKNIAAWNALV  254 (667)
Q Consensus       176 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~  254 (667)
                      ....||.|...+...|++++|++.|++..+.                            +...... ..+....+|+.+.
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~----------------------------~~~~~~~~~~~~~~~~~~nla  101 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEEL----------------------------IQQEHADQAEIRSLVTWGNYA  101 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH----------------------------HHHHSGGGCTTTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH----------------------------HHhcCccccchHHHHHHHHHH
Confidence            3557888888889999999999998876541                            0000000 0011234555556


Q ss_pred             HHHHhcCCHHHHHHHHhhcCC-----------CChhHHHHHHHHHHh--CCChHHHHHHHHHHHhcCCCCChh-hHHHHH
Q 005966          255 DMYVKCGSVNEARLVFDRMSE-----------RDVVTWTSMINGYAL--NGDVRNALGLFQLMQFEGVRPNSL-TIGSLL  320 (667)
Q Consensus       255 ~~~~~~g~~~~A~~~~~~~~~-----------~~~~~~~~li~~~~~--~~~~~~a~~~~~~m~~~~~~p~~~-t~~~ll  320 (667)
                      .+|...|++++|...+++..+           ....++..+..++..  .+++++|++.|++..+.  .|+.. .+..+.
T Consensus       102 ~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~  179 (472)
T 4g1t_A          102 WVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLA  179 (472)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHH
T ss_pred             HHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            666666666666555554421           112334443333333  34566677776666553  34332 222222


Q ss_pred             HH---hhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHH----hcCCHHHHHHHHhccC---CCCcccHHHHHHHHH
Q 005966          321 SA---CSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYA----KCNLVKLSFQVFARTS---KKKTVPWNAILAGCV  390 (667)
Q Consensus       321 ~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~  390 (667)
                      .+   +...++.+.+...+....+.. +.+..++..+...+.    ..+++++|.+.+++..   +.+...+..+...|.
T Consensus       180 ~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~  258 (472)
T 4g1t_A          180 IASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYR  258 (472)
T ss_dssp             HHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHH
T ss_pred             HHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            22   233344455555555555443 223333333333333    3455666777766543   334444777778888


Q ss_pred             hCCChHHHHHHHHHHHHCCCCCC-HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHH
Q 005966          391 HNGLARKAVELFRQMLVEVVEPN-DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAH  469 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  469 (667)
                      ..|++++|+..+++..+.  .|+ ..++..+...|...+....+         .. .      ..........+..+.|.
T Consensus       259 ~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~y~~~~~~~~~---------~~-~------~~~~~~~~~~~~~~~A~  320 (472)
T 4g1t_A          259 RKDEPDKAIELLKKALEY--IPNNAYLHCQIGCCYRAKVFQVMN---------LR-E------NGMYGKRKLLELIGHAV  320 (472)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHH---------C-------------CHHHHHHHHHHHH
T ss_pred             HcCchHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHhhh---------HH-H------HHHHHHHHHHhhHHHHH
Confidence            888888888888887764  333 34444444333211110000         00 0      00001111123456777


Q ss_pred             HHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHH--HHHHHHH-HHhccCCHHHHHHHHHHhHH
Q 005966          470 KIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEV--TFTSALH-ACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       470 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~-~~~~~g~~~~A~~~~~~~~~  545 (667)
                      ..++......| +..++..+...+...|++++|+..|++.++....|...  .+..+.. .....|++++|+..|++..+
T Consensus       321 ~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~  400 (472)
T 4g1t_A          321 AHLKKADEANDNLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK  400 (472)
T ss_dssp             HHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcCCchhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77777665544 56788999999999999999999999999865433321  2233332 24578999999999999987


Q ss_pred             hcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          546 NHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL-KPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       546 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                         +.|+.......         ...+.+++++. .. +.+..+|..++..+...|++++|++.++++++++|.+|.+..
T Consensus       401 ---i~~~~~~~~~~---------~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~  468 (472)
T 4g1t_A          401 ---INQKSREKEKM---------KDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASS  468 (472)
T ss_dssp             ---SCCCCHHHHHH---------HHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC---------------------
T ss_pred             ---cCcccHHHHHH---------HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhh
Confidence               23443222221         22333444433 22 336778999999999999999999999999999999998877


Q ss_pred             HHH
Q 005966          624 LLS  626 (667)
Q Consensus       624 ~l~  626 (667)
                      .+|
T Consensus       469 ~~G  471 (472)
T 4g1t_A          469 WNG  471 (472)
T ss_dssp             ---
T ss_pred             cCC
Confidence            665

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.69  E-value=8.1e-15  Score=143.25  Aligned_cols=258  Identities=9%  Similarity=-0.000  Sum_probs=195.6

Q ss_pred             ChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh--hHhhhcCChhhHHHhhcccC---CCCcchHHHHHHHH
Q 005966           12 TTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS--SLVRAYGHVSNVRILFDEMS---ERSSFLYNTVMKMY   85 (667)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~~   85 (667)
                      +...+..++..+...|++++|...++++++..|.. .....  ..+...|++++|...|+++.   ..+..+|..+...+
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   99 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSH   99 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHH
Confidence            34567888999999999999999999999999988 22222  88899999999999999864   34677899999999


Q ss_pred             HhCCCchHHHHHHHHhHHcCCCCCCcccHHHH--------------HH-HhccccchHHHHHHHHHHHHhCCCCchHHHH
Q 005966           86 AQNGASHDSLKMFLGMLRLGEYNPDNYTYPIV--------------IK-ACTDLAWRKLGIALHGRVLITGFDMDTFVGN  150 (667)
Q Consensus        86 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  150 (667)
                      ...|++++|++.|+++.+.  .+.+...+..+              .. .+...|++++|...++++.+.. +.+...+.
T Consensus       100 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  176 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLS--QPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHA  176 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHT--STTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHH
Confidence            9999999999999999986  33344444444              33 4778899999999999999887 55788889


Q ss_pred             HHHHHHHhcCCHHHHHHHhcccC---CCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcc
Q 005966          151 CLIAMYMNFGEVKAARKVFDAMW---EHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKE  227 (667)
Q Consensus       151 ~li~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  227 (667)
                      .+...|...|++++|.+.++...   ..+...|..+...+...|++++|+..|+++.+.. +.+...+..+...+...|+
T Consensus       177 ~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~  255 (327)
T 3cv0_A          177 SLGVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQ  255 (327)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcc
Confidence            99999999999999999998763   3466788889999999999999999999887742 2234556666666666677


Q ss_pred             hHHHHHHHHHHHhcCCCc-----------chhHHHHHHHHHHhcCCHHHHHHHHhhc
Q 005966          228 IEMGRMIHELVAGGRLGK-----------NIAAWNALVDMYVKCGSVNEARLVFDRM  273 (667)
Q Consensus       228 ~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~~  273 (667)
                      +++|...++.+.+.....           +..++..+..++.+.|++++|..++++.
T Consensus       256 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          256 YDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            777777666666543221           3555666666666666666666666544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.67  E-value=2.4e-15  Score=141.38  Aligned_cols=235  Identities=10%  Similarity=-0.034  Sum_probs=194.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCC--CC----chHHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFL--SV----VEVSTGL  455 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~--~~----~~~~~~l  455 (667)
                      |..+...+...|++++|+..|++..+..  .+...+..+...+...|++++|...++...+....  ++    ...+..+
T Consensus         8 ~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l   85 (258)
T 3uq3_A            8 EKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARI   85 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHH
Confidence            6667778888899999999999888776  77788888888899999999999999888764321  12    5788889


Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      ...|.+.|++++|...|+++....|+.       ..+...|++++|...++++.... +.+...+..+...+...|++++
T Consensus        86 ~~~~~~~~~~~~A~~~~~~a~~~~~~~-------~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~  157 (258)
T 3uq3_A           86 GNAYHKLGDLKKTIEYYQKSLTEHRTA-------DILTKLRNAEKELKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPN  157 (258)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCCH-------HHHHHHHHHHHHHHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHhcCchh-------HHHHHHhHHHHHHHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHH
Confidence            999999999999999999887765652       45667788999999999998853 2244678888889999999999


Q ss_pred             HHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          536 GLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       536 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      |...++++.+.  .+.+...+..++.++.+.|++++|+..++++ ...| +...+..+...+...|++++|...++++++
T Consensus       158 A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  235 (258)
T 3uq3_A          158 AVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAVKEYASALETLDAART  235 (258)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc--CcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            99999999883  3456778999999999999999999999987 3344 578899999999999999999999999999


Q ss_pred             cC------CCCCchHHHHHHH
Q 005966          614 LE------PENPGNYVLLSKL  628 (667)
Q Consensus       614 ~~------p~~~~~~~~l~~~  628 (667)
                      +.      |++..++..+..+
T Consensus       236 ~~~~~~~~p~~~~~~~~l~~~  256 (258)
T 3uq3_A          236 KDAEVNNGSSAREIDQLYYKA  256 (258)
T ss_dssp             HHHHHHTTTTHHHHHHHHHHT
T ss_pred             hChhhcCCCchHHHHHHHHHh
Confidence            99      8777777666654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.65  E-value=1.4e-16  Score=166.83  Aligned_cols=150  Identities=15%  Similarity=0.073  Sum_probs=123.3

Q ss_pred             CCchHHHHHHHHHHHhcCCHHHHHHHhccc-------CCCChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHH
Q 005966          143 DMDTFVGNCLIAMYMNFGEVKAARKVFDAM-------WEHSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASV  215 (667)
Q Consensus       143 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~-------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~  215 (667)
                      ..-..+||+||++|++.|++++|.++|++|       ..||+++||+||.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       124 ~~~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTY  203 (1134)
T 3spa_A          124 SGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSY  203 (1134)
T ss_dssp             CHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHH
T ss_pred             HhHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHH
Confidence            344568999999999999999999999775       3689999999999999999999999999999999999999999


Q ss_pred             HHHHHHcccCcch-HHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC-----CChhHHHHHHHHHH
Q 005966          216 VSVLPACGYLKEI-EMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE-----RDVVTWTSMINGYA  289 (667)
Q Consensus       216 ~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~  289 (667)
                      +++|.++++.|+. +.|.++|+.|.+.|+.||..+|+.++....+.+-++...+++..+..     +.+.+...|...|.
T Consensus       204 ntLI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s  283 (1134)
T 3spa_A          204 AAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYA  283 (1134)
T ss_dssp             HHHHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHC
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHc
Confidence            9999999999975 78999999999999999999999999877765444444444333322     12344455666666


Q ss_pred             hCC
Q 005966          290 LNG  292 (667)
Q Consensus       290 ~~~  292 (667)
                      +.+
T Consensus       284 ~d~  286 (1134)
T 3spa_A          284 KDG  286 (1134)
T ss_dssp             CCS
T ss_pred             cCC
Confidence            655

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.63  E-value=1e-14  Score=138.54  Aligned_cols=243  Identities=11%  Similarity=-0.045  Sum_probs=191.8

Q ss_pred             hCCChHHHHHHHHHHHHCCCC---CCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHH
Q 005966          391 HNGLARKAVELFRQMLVEVVE---PNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLES  467 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~---p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  467 (667)
                      ..|++++|+..|+++.+....   .+..++..+...+...|++++|...++.+.+.. +.+...+..+..+|...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            347788888888888875321   134567778888888999999999999888875 4567888889999999999999


Q ss_pred             HHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 005966          468 AHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLEN  546 (667)
Q Consensus       468 A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  546 (667)
                      |...|+++....| +..+|..+...+...|++++|...++++.+.  .|+.......+..+...|++++|...++.....
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~  173 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  173 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            9999998877665 5778999999999999999999999999986  455555555555667779999999999888873


Q ss_pred             cCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          547 HQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       547 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                        .+++...+. ++..+...++.++|++.+++. ...|+     ...+..++..+...|++++|...++++++..|++..
T Consensus       174 --~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~  250 (275)
T 1xnf_A          174 --SDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNFV  250 (275)
T ss_dssp             --SCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTCH
T ss_pred             --CCcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhHH
Confidence              334444444 777788888999999999886 33332     467888999999999999999999999999998644


Q ss_pred             hHHHHHHHHhhcCCchHHHHHH
Q 005966          621 NYVLLSKLYSAVRRWKDAENVR  642 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~  642 (667)
                         ..+.++...|++++|++.+
T Consensus       251 ---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          251 ---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHHhhHHHH
Confidence               4467788899999998876

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.62  E-value=1.1e-16  Score=167.41  Aligned_cols=146  Identities=10%  Similarity=0.132  Sum_probs=85.4

Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHH---HhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC--CCcchHHHHHH
Q 005966          416 TLNSLLPAYAILADLQQAMNIHCYLI---RYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD--KDIVVWSVIIA  490 (667)
Q Consensus       416 ~~~~ll~~~~~~~~~~~a~~~~~~~~---~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~l~~  490 (667)
                      ||+++|.+||+.|++++|.++|+.|.   +.|+.||..+|++||++|++.|++++|.++|++|.+.|  ||.++||++|.
T Consensus       129 TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntLI~  208 (1134)
T 3spa_A          129 RLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQ  208 (1134)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHHHH
Confidence            44444444444444444444443332   23444444444444555555555555555555554444  67777777777


Q ss_pred             HHHHcCCh-HHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc------hhHHHHHHHHH
Q 005966          491 GYGMHGHG-ETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR------ADHYTCIVDLL  563 (667)
Q Consensus       491 ~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~------~~~~~~l~~~~  563 (667)
                      ++++.|+. ++|.++|++|.+.|+.||..+|+.++.++.+.    ..++..+++..  ++.|+      ..+...|.+.|
T Consensus       209 glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv~P--~f~p~~~~~~~~~t~~LL~dl~  282 (1134)
T 3spa_A          209 CMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKVKP--TFSLPPQLPPPVNTSKLLRDVY  282 (1134)
T ss_dssp             HHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGGCC--CCCCCCCCCCCCCCCTTTHHHH
T ss_pred             HHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHhCc--ccCCCCCCcccccchHHHHHHH
Confidence            78887774 67888999999999999999999888766553    34444444433  33332      33444566777


Q ss_pred             hhcC
Q 005966          564 GRAG  567 (667)
Q Consensus       564 ~~~g  567 (667)
                      .+.+
T Consensus       283 s~d~  286 (1134)
T 3spa_A          283 AKDG  286 (1134)
T ss_dssp             CCCS
T ss_pred             ccCC
Confidence            7655

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.62  E-value=1.5e-14  Score=137.26  Aligned_cols=246  Identities=11%  Similarity=-0.035  Sum_probs=124.5

Q ss_pred             HhHHHHHHHhcCCHHHHHHHHhccC---CCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCC--HHHHHHHHHHHh
Q 005966          351 ETALIDMYAKCNLVKLSFQVFARTS---KKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPN--DATLNSLLPAYA  425 (667)
Q Consensus       351 ~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~--~~~~~~ll~~~~  425 (667)
                      .......+...|++++|...|++..   +.+...|..+...+...|++++|++.+++..+.+..|+  ...+..+...+.
T Consensus         6 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            6 EFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHH
Confidence            3344555555666666666655543   22333455555556666666666666665554221111  122444455555


Q ss_pred             CcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHH
Q 005966          426 ILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLF  505 (667)
Q Consensus       426 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  505 (667)
                      ..|++++|...++...+.. +.+...+..+...|...|++++|...|++.....|+                        
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~------------------------  140 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTT------------------------  140 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCC------------------------
T ss_pred             HcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCC------------------------
Confidence            5555555555555554443 223344444444555555555555555444443322                        


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC---hHHHHHHHHhC---
Q 005966          506 KEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR---LDEAYDLIRTM---  579 (667)
Q Consensus       506 ~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~---  579 (667)
                                +...+..+...+...+++++|...++++.+.  .+.+...+..+..++...|+   +++|...++++   
T Consensus       141 ----------~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~  208 (272)
T 3u4t_A          141 ----------DPKVFYELGQAYYYNKEYVKADSSFVKVLEL--KPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEV  208 (272)
T ss_dssp             ----------CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHH
T ss_pred             ----------cHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHH
Confidence                      2223333331222223555555555554441  12223334444444444444   44444444443   


Q ss_pred             -CCCCC------HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          580 -PLKPT------HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       580 -~~~p~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                       ...|+      ...+..+...+...|++++|...++++++++|+++.+...+..+....+
T Consensus       209 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~~  269 (272)
T 3u4t_A          209 CAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILALDPTNKKAIDGLKMKLEHHH  269 (272)
T ss_dssp             HGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHC-------
T ss_pred             HhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCccHHHHHHHhhhhhcccc
Confidence             11122      2356677888888999999999999999999999888888877766554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.61  E-value=8.6e-14  Score=141.68  Aligned_cols=367  Identities=8%  Similarity=-0.038  Sum_probs=181.1

Q ss_pred             ccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCH---HHHHHHHhhcCCCChhHHHHHHHHHHhCC-----Ch
Q 005966          223 GYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSV---NEARLVFDRMSERDVVTWTSMINGYALNG-----DV  294 (667)
Q Consensus       223 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~~-----~~  294 (667)
                      .+.|++++|..++....+.|   +...+..|...|...|+.   ++|...|++..+.+...+..+...+...+     ++
T Consensus        14 ~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~~~~~~~~   90 (452)
T 3e4b_A           14 LKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKPGATEAEH   90 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC--CCHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCCCCCCcCH
Confidence            33455555555555554443   223334445555556666   78888887776666666666666444444     67


Q ss_pred             HHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHH---HHHHHHHHHHhcCCCCchHHhHHHHHHHhcCC----HHHH
Q 005966          295 RNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKR---GRSLHAWTIKQNLECEVIVETALIDMYAKCNL----VKLS  367 (667)
Q Consensus       295 ~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----~~~a  367 (667)
                      ++|+..|++..+.|...   .+..+-..+...+..+.   +...+......|   +......+...|...+.    .+.+
T Consensus        91 ~~A~~~~~~Aa~~g~~~---A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g---~~~a~~~Lg~~y~~~~~~~~~~~~a  164 (452)
T 3e4b_A           91 HEAESLLKKAFANGEGN---TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAG---YPEAGLAQVLLYRTQGTYDQHLDDV  164 (452)
T ss_dssp             HHHHHHHHHHHHTTCSS---CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHT---CTTHHHHHHHHHHHHTCGGGGHHHH
T ss_pred             HHHHHHHHHHHHCCCHH---HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcccCHHHH
Confidence            78888888877755322   34444444444333222   222222222222   23344444555554442    2333


Q ss_pred             HHHHhccCCCCcccHHHHHHHHHhCC---ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC
Q 005966          368 FQVFARTSKKKTVPWNAILAGCVHNG---LARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYG  444 (667)
Q Consensus       368 ~~~~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  444 (667)
                      ..++......++..+..+...|...|   +.++|++.|++..+                                   .+
T Consensus       165 ~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~-----------------------------------~g  209 (452)
T 3e4b_A          165 ERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVS-----------------------------------RG  209 (452)
T ss_dssp             HHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH-----------------------------------TT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHH-----------------------------------CC
Confidence            33344444444444444444454444   44455555554444                                   44


Q ss_pred             CCCCchHHHHHHHHHHhc----CCHHHHHHHHhhCCCCCCCcchHHHHHHH-H--HHcCChHHHHHHHHHHHHcCCCCCH
Q 005966          445 FLSVVEVSTGLIDIYSKC----GSLESAHKIFSEIPIKDKDIVVWSVIIAG-Y--GMHGHGETAVSLFKEMVQSGVQPNE  517 (667)
Q Consensus       445 ~~~~~~~~~~l~~~~~~~----g~~~~A~~~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~m~~~~~~p~~  517 (667)
                       +++...+..|..+|...    +++++|...|++..  ..++..+..+... +  ...+++++|+..|++..+.|   +.
T Consensus       210 -~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa--~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~  283 (452)
T 3e4b_A          210 -TVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA--PGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QP  283 (452)
T ss_dssp             -CSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG--GGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CH
T ss_pred             -CHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc--CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CH
Confidence             22333223344444333    45666666666554  2344455555554 3  34667777777777777665   45


Q ss_pred             HHHHHHHHHHhccC-----CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh----cCChHHHHHHHHhCCCCCCHHHH
Q 005966          518 VTFTSALHACSHGG-----LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR----AGRLDEAYDLIRTMPLKPTHAVW  588 (667)
Q Consensus       518 ~~~~~ll~~~~~~g-----~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~  588 (667)
                      ..+..|...|. .|     ++++|...|++..     +-+...+..|..+|..    ..++++|...|++.-...++...
T Consensus       284 ~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~  357 (452)
T 3e4b_A          284 RAELLLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSAD  357 (452)
T ss_dssp             HHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHH
T ss_pred             HHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHH
Confidence            55555555555 34     7777777777765     2345556666666665    33777788877776333344555


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHhhccCCCCCchHHHHHHHH--hhcCCchHHHHHHHHhhh
Q 005966          589 GALLGACVI----HGNVELGEVAAKWLFELEPENPGNYVLLSKLY--SAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       589 ~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~  647 (667)
                      ..+...|..    ..|.++|...++++.+.++.+  +...+..+.  ...++..+|....++..+
T Consensus       358 ~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~~g~~~--a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          358 FAIAQLFSQGKGTKPDPLNAYVFSQLAKAQDTPE--ANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHHHHSCTTBCCCHHHHHHHHHHHHTTCCHH--HHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCCCCCHHHHHHHHHHHHHCCCHH--HHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            566666553    347788888888887766543  333344333  334466667777666543

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.61  E-value=2.1e-13  Score=129.27  Aligned_cols=221  Identities=13%  Similarity=-0.038  Sum_probs=143.4

Q ss_pred             HHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh----cCCHHHHHHHHhhCCCCCCCcchHHHHHHHH
Q 005966          417 LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK----CGSLESAHKIFSEIPIKDKDIVVWSVIIAGY  492 (667)
Q Consensus       417 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~  492 (667)
                      +..+...+...|++++|...++...+   +.+...+..+...|..    .+++++|...|++..+. .+...+..+...|
T Consensus         9 ~~~lg~~~~~~~~~~~A~~~~~~a~~---~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~   84 (273)
T 1ouv_A            9 LVGLGAKSYKEKDFTQAKKYFEKACD---LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDL-NYSNGCHLLGNLY   84 (273)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCCHHHHHHHHHHHHH---CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHH
Confidence            33333444444444444444444444   1223344445555555    66666666666655443 2455666666666


Q ss_pred             HH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc----cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHh
Q 005966          493 GM----HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH----GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLG  564 (667)
Q Consensus       493 ~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  564 (667)
                      ..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...+++..+ .+   +...+..+...|.
T Consensus        85 ~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~~~~  157 (273)
T 1ouv_A           85 YSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD-LN---DGDGCTILGSLYD  157 (273)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH
T ss_pred             hCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHh-cC---cHHHHHHHHHHHH
Confidence            66    777777777777777654   55666667777776    7777777777777776 22   3445666777777


Q ss_pred             h----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh----c
Q 005966          565 R----AGRLDEAYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA----V  632 (667)
Q Consensus       565 ~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~  632 (667)
                      .    .+++++|+..+++.-...++..+..+...+..    .+++++|+..++++.+.+|  +.++..++.+|..    .
T Consensus       158 ~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~--~~a~~~l~~~~~~g~~~~  235 (273)
T 1ouv_A          158 AGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN--GGGCFNLGAMQYNGEGVT  235 (273)
T ss_dssp             HTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHTTSSSS
T ss_pred             cCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC--HHHHHHHHHHHHcCCCcc
Confidence            6    77778887777776322355667777777777    7888888888888877765  5677778888887    7


Q ss_pred             CCchHHHHHHHHhhhCCC
Q 005966          633 RRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       633 g~~~~A~~~~~~~~~~~~  650 (667)
                      |++++|.+.+++..+.+.
T Consensus       236 ~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          236 RNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             CCSTTHHHHHHHHHHHTC
T ss_pred             cCHHHHHHHHHHHHHcCC
Confidence            888888888888776653

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.61  E-value=1.3e-14  Score=134.92  Aligned_cols=199  Identities=12%  Similarity=0.091  Sum_probs=127.1

Q ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005966          448 VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHA  526 (667)
Q Consensus       448 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  526 (667)
                      ....+..+...+...|++++|...|+++....| +...+..+...+...|++++|+..++++.+.. +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            344555566666777777777777776655544 45666677777777777777777777777653 2355666777777


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHH
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL-KPTHAVWGALLGACVIHGNVELG  604 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~A  604 (667)
                      +...|++++|...++++.+.  .+.+...+..++..+.+.|++++|...++++ .. +.+...+..++..+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            77777777777777777762  2345556777777777777777777777776 22 33566777777777777777888


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          605 EVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       605 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +..++++++..|+++.++..++.+|...|++++|.+.++++.+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  223 (243)
T 2q7f_A          179 LSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ  223 (243)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC
Confidence            888877777777777777777777777788888887777776654

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.60  E-value=6.1e-14  Score=132.96  Aligned_cols=229  Identities=10%  Similarity=-0.035  Sum_probs=181.3

Q ss_pred             HHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcc----hHHHHHHHHH
Q 005966          418 NSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIV----VWSVIIAGYG  493 (667)
Q Consensus       418 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~l~~~~~  493 (667)
                      ......+...|++++|...++...+.. +.+...+..+..+|...|++++|.+.++++....++..    +|..+...+.
T Consensus         7 ~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~   85 (272)
T 3u4t_A            7 FRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILM   85 (272)
T ss_dssp             HHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHH
Confidence            344455666777777777777776654 34555777788888889999999998888766433332    3888999999


Q ss_pred             HcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHH
Q 005966          494 MHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAY  573 (667)
Q Consensus       494 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  573 (667)
                      ..|++++|+..|++..+.. +.+...+..+...|...|++++|...++++.+  ..+.+...+..++..+...+++++|.
T Consensus        86 ~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~  162 (272)
T 3u4t_A           86 KKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR--PTTTDPKVFYELGQAYYYNKEYVKAD  162 (272)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC--SSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhh--cCCCcHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999874 33567899999999999999999999999987  34456677888883444456999999


Q ss_pred             HHHHhC-CCCC-CHHHHHHHHHHHHhcCC---HHHHHHHHHHhhccC---CCC-----CchHHHHHHHHhhcCCchHHHH
Q 005966          574 DLIRTM-PLKP-THAVWGALLGACVIHGN---VELGEVAAKWLFELE---PEN-----PGNYVLLSKLYSAVRRWKDAEN  640 (667)
Q Consensus       574 ~~~~~~-~~~p-~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~---p~~-----~~~~~~l~~~~~~~g~~~~A~~  640 (667)
                      +.++++ ...| +...+..+...+...|+   +++|...++++++..   |+.     ..++..++.+|...|++++|.+
T Consensus       163 ~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  242 (272)
T 3u4t_A          163 SSFVKVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADA  242 (272)
T ss_dssp             HHHHHHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999987 4445 56788888888888888   888999999998876   442     2578889999999999999999


Q ss_pred             HHHHhhhCCC
Q 005966          641 VRDVMDEKGL  650 (667)
Q Consensus       641 ~~~~~~~~~~  650 (667)
                      .++++.+..+
T Consensus       243 ~~~~al~~~p  252 (272)
T 3u4t_A          243 AWKNILALDP  252 (272)
T ss_dssp             HHHHHHHHCT
T ss_pred             HHHHHHhcCc
Confidence            9999987654

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.60  E-value=4.2e-14  Score=132.41  Aligned_cols=199  Identities=9%  Similarity=-0.041  Sum_probs=149.5

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC  527 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  527 (667)
                      ...+..+...+...|++++|.+.|+++....| +...+..+...+...|++++|.+.++++.+.. +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            34555666667777777777777776655443 45677777778888888888888888887764 23566777777888


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCC-chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCS-RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELG  604 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A  604 (667)
                      ...|++++|..+++++.+ .+..| +...+..++.++...|++++|.+.++++ ...| +...+..++..+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            888888888888888776 32333 4566777888888888888888888876 3333 567778888888888888888


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          605 EVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       605 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ...++++++..|+++..+..++.+|...|++++|.++++++.+..
T Consensus       195 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          195 RQYYDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            888888888888888888888888888888888888888887754

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.59  E-value=6.5e-14  Score=128.43  Aligned_cols=200  Identities=13%  Similarity=0.052  Sum_probs=153.2

Q ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005966          448 VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHA  526 (667)
Q Consensus       448 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  526 (667)
                      +...+..+...+...|++++|.+.|+++....| +...|..+...+...|++++|...++++.+.. +.+..++..+...
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~   85 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWF   85 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHH
Confidence            345566667777777777777777776655444 35677778888888888888888888888764 3356677778888


Q ss_pred             Hhcc-CCHHHHHHHHHHhHHhcCCCC-chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHH
Q 005966          527 CSHG-GLLDEGLDLFNFMLENHQTCS-RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVE  602 (667)
Q Consensus       527 ~~~~-g~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~  602 (667)
                      +... |++++|...++++.+ .+..| +...+..++.++...|++++|++.++++ ...| +...+..++..+...|+++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~  164 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLG  164 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHhcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHH
Confidence            8888 888888888888877 33323 3567778888888888888888888876 3334 5777888888888888999


Q ss_pred             HHHHHHHHhhccCC-CCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          603 LGEVAAKWLFELEP-ENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       603 ~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +|...++++++..| +++..+..++.++...|+.++|..+++.+.+..
T Consensus       165 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          165 DADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            99999988888888 888888888888888888888888888877544

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.59  E-value=1.4e-14  Score=134.72  Aligned_cols=213  Identities=12%  Similarity=0.010  Sum_probs=149.4

Q ss_pred             HHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHc
Q 005966          417 LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMH  495 (667)
Q Consensus       417 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  495 (667)
                      +..+...+...|++++|...++.+.+.. +.+...+..+...+.+.|++++|...++++....| +...+..+...+...
T Consensus        26 ~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~  104 (243)
T 2q7f_A           26 GGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDSSAATAYYGAGNVYVVK  104 (243)
T ss_dssp             ----------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHh
Confidence            3333444444445555555444444432 33455555666666666777777776666554443 456778888888899


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHH
Q 005966          496 GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDL  575 (667)
Q Consensus       496 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  575 (667)
                      |++++|...++++.+.. +.+...+..+...+...|++++|...++++.+.  .+.+...+..++..+.+.|++++|.+.
T Consensus       105 ~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~  181 (243)
T 2q7f_A          105 EMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGMLDEALSQ  181 (243)
T ss_dssp             TCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            99999999999988864 346677888888899999999999999999873  335677788899999999999999999


Q ss_pred             HHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          576 IRTM-PL-KPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       576 ~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      ++++ .. +.+..++..+...+...|++++|...++++++..|+++.++..++.+....|
T Consensus       182 ~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~l~~~~~  241 (243)
T 2q7f_A          182 FAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHMLALHAKKLLGHHHH  241 (243)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHHHHHHHTC------
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHHHHHHHHHHHhhcc
Confidence            9887 33 3467789999999999999999999999999999999988888776655444

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.57  E-value=3.6e-14  Score=139.66  Aligned_cols=228  Identities=13%  Similarity=0.108  Sum_probs=169.0

Q ss_pred             HHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCC-HHHHHHHHhhCCCCCC-CcchHHHHHHHHHH
Q 005966          417 LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGS-LESAHKIFSEIPIKDK-DIVVWSVIIAGYGM  494 (667)
Q Consensus       417 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  494 (667)
                      +..+...+...|++++|+..++.+++.. +.+...+..+..++.+.|+ +++|+..|+++....| +...|+.+..++..
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~~~  178 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLVEW  178 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHH
Confidence            3334444444555555555555555544 3445566666777777775 7777777777766555 45788888888888


Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh-cCChHHH-
Q 005966          495 HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR-AGRLDEA-  572 (667)
Q Consensus       495 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A-  572 (667)
                      .|++++|+..|+++++.. +-+...|..+..++...|++++|+..++++++  ..+.+...|+.+..++.+ .|..++| 
T Consensus       179 ~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~--l~P~~~~a~~~lg~~l~~l~~~~~eA~  255 (382)
T 2h6f_A          179 LRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK--EDVRNNSVWNQRYFVISNTTGYNDRAV  255 (382)
T ss_dssp             HTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             ccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCcchHHH
Confidence            899999999999988864 23567888888888889999999999999888  334567778888888888 6665777 


Q ss_pred             ----HHHHHhC-CCCC-CHHHHHHHHHHHHhcC--CHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC--------C-c
Q 005966          573 ----YDLIRTM-PLKP-THAVWGALLGACVIHG--NVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR--------R-W  635 (667)
Q Consensus       573 ----~~~~~~~-~~~p-~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g--------~-~  635 (667)
                          ++.+++. ...| +...|..+...+...|  ++++|+..++++ +.+|+++.++..++++|.+.|        + +
T Consensus       256 ~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~  334 (382)
T 2h6f_A          256 LEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHSSPYLIAFLVDIYEDMLENQCDNKEDIL  334 (382)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCCCHHHHHHHHHHHHHHhcccccchHHHH
Confidence                4667665 4555 5678888888888877  688999999888 888998889999999998874        2 5


Q ss_pred             hHHHHHHHHh-hhCC
Q 005966          636 KDAENVRDVM-DEKG  649 (667)
Q Consensus       636 ~~A~~~~~~~-~~~~  649 (667)
                      ++|+++++++ .+..
T Consensus       335 ~~A~~~~~~l~~~~D  349 (382)
T 2h6f_A          335 NKALELCEILAKEKD  349 (382)
T ss_dssp             HHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC
Confidence            8899999988 5543

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.57  E-value=1.5e-13  Score=121.44  Aligned_cols=167  Identities=13%  Similarity=0.073  Sum_probs=145.3

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHH
Q 005966          480 KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCI  559 (667)
Q Consensus       480 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  559 (667)
                      .+..+|..+...+...|++++|++.|++.++.. +-+..++..+..+|.+.|++++|...+..+...  .+.+...+..+
T Consensus         3 e~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~   79 (184)
T 3vtx_A            3 ETTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYIL   79 (184)
T ss_dssp             -CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHH
Confidence            356788889999999999999999999999874 235678888999999999999999999999873  33456677888


Q ss_pred             HHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchH
Q 005966          560 VDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKD  637 (667)
Q Consensus       560 ~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  637 (667)
                      ...+...++++.|.+.+.+. ...| +...+..+...+...|++++|+..++++++.+|+++.++..++.+|.+.|++++
T Consensus        80 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           80 GSANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHH
Confidence            88999999999999999887 3344 677889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhhCC
Q 005966          638 AENVRDVMDEKG  649 (667)
Q Consensus       638 A~~~~~~~~~~~  649 (667)
                      |++.+++..+..
T Consensus       160 A~~~~~~al~~~  171 (184)
T 3vtx_A          160 AVKYFKKALEKE  171 (184)
T ss_dssp             HHHHHHHHHHTT
T ss_pred             HHHHHHHHHhCC
Confidence            999999988765

>2h6f_A Protein farnesyltransferase/geranylgeranyltransferase type I alpha subunit; ftase, farnesyltransferase, farnesyl transferase, prenyltransferase, CAAX, RAS, lipid modification, prenylation; HET: SUC FAR; 1.50A {Homo sapiens} SCOP: a.118.6.1 PDB: 1jcq_A* 1ld7_A* 1mzc_A* 1s63_A* 1sa4_A* 1tn6_A* 1ld8_A* 2h6g_A* 2h6h_A* 2h6i_A* 2iej_A* 3e37_A* 2f0y_A* 3ksl_A* 2zir_A* 2zis_A* 1o5m_A* 3ksq_A* 1o1t_A* 1o1s_A* ...

Probab=99.57  E-value=1.4e-13  Score=135.38  Aligned_cols=246  Identities=10%  Similarity=0.057  Sum_probs=206.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCC-HHHHHHHHHHHHHhCCCCCchHHHHHHHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILAD-LQQAMNIHCYLIRYGFLSVVEVSTGLIDIYS  460 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  460 (667)
                      |..+...+...|++++|+..+++..... +-+...|..+..++...|+ +++|+..++.+++.. +.+...+..+..++.
T Consensus       100 ~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~  177 (382)
T 2h6f_A          100 YDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVE  177 (382)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHH
Confidence            7778888888999999999999988752 2345677888888888996 999999999999877 567888999999999


Q ss_pred             hcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-cCCHHHH--
Q 005966          461 KCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH-GGLLDEG--  536 (667)
Q Consensus       461 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~g~~~~A--  536 (667)
                      +.|++++|+..|+++....| +...|..+..++.+.|++++|+..|+++++... -+...|+.+..++.. .|..++|  
T Consensus       178 ~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~P-~~~~a~~~lg~~l~~l~~~~~eA~~  256 (382)
T 2h6f_A          178 WLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAVL  256 (382)
T ss_dssp             HHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHHH
T ss_pred             HccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcCcchHHHH
Confidence            99999999999999888765 568899999999999999999999999999753 366789999999888 6665777  


Q ss_pred             ---HHHHHHhHHhcCCCCchhHHHHHHHHHhhcC--ChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcC--------C-H
Q 005966          537 ---LDLFNFMLENHQTCSRADHYTCIVDLLGRAG--RLDEAYDLIRTMPLKP-THAVWGALLGACVIHG--------N-V  601 (667)
Q Consensus       537 ---~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g--------~-~  601 (667)
                         +..++++++  ..+-+...|..+..++...|  ++++|++.+.++...| +...+..++..+.+.|        + .
T Consensus       257 ~~el~~~~~Al~--l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~~~  334 (382)
T 2h6f_A          257 EREVQYTLEMIK--LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKEDIL  334 (382)
T ss_dssp             HHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHHHH
T ss_pred             HHHHHHHHHHHH--HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHHHH
Confidence               588888887  33446778999999999988  6999999998885555 5667888888888764        3 5


Q ss_pred             HHHHHHHHHh-hccCCCCCchHHHHHHHHhhc
Q 005966          602 ELGEVAAKWL-FELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       602 ~~A~~~~~~~-~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      ++|+.+++++ .+++|.....|..++..+...
T Consensus       335 ~~A~~~~~~l~~~~DP~r~~~w~~~~~~l~~~  366 (382)
T 2h6f_A          335 NKALELCEILAKEKDTIRKEYWRYIGRSLQSK  366 (382)
T ss_dssp             HHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCchhHHHHHHHHHHHHHH
Confidence            9999999999 999999999999888877654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.57  E-value=3.4e-13  Score=137.25  Aligned_cols=346  Identities=10%  Similarity=-0.049  Sum_probs=233.9

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccch---HHHHHHHHHHHHhcCCCCchHHhHHHHHHHh
Q 005966          284 MINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYL---KRGRSLHAWTIKQNLECEVIVETALIDMYAK  360 (667)
Q Consensus       284 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  360 (667)
                      +...+.+.|++++|+++|++..+.|-   ...+..+-..+...|+.   ++|...+....+.    ++..+..+...+..
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g~---~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~   81 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELGY---SEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAA   81 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHTC---CTGGGTCC--------------------------------CHHHHHHHHHT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCCC---HHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHh
Confidence            56677889999999999999988763   23333344444556766   8888888887755    44555666664544


Q ss_pred             cC-----CHHHHHHHHhccCCC-CcccHHHHHHHHHhCCChH---HHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHH
Q 005966          361 CN-----LVKLSFQVFARTSKK-KTVPWNAILAGCVHNGLAR---KAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQ  431 (667)
Q Consensus       361 ~g-----~~~~a~~~~~~~~~~-~~~~~~~li~~~~~~~~~~---~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~  431 (667)
                      .+     ++++|...|++...+ ++..+..+...|...+...   ++.+.+......|.   ......+...|...+.++
T Consensus        82 ~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~---~~a~~~Lg~~y~~~~~~~  158 (452)
T 3e4b_A           82 KPGATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGY---PEAGLAQVLLYRTQGTYD  158 (452)
T ss_dssp             C--CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTC---TTHHHHHHHHHHHHTCGG
T ss_pred             CCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCC---HHHHHHHHHHHHcCCCcc
Confidence            44     778999999877643 4456888888888766543   45566666655553   334445555666666555


Q ss_pred             HHHHHHHHHHHhCCCCCchHHHHHHHHHHhcC---CHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHc----CChHHHHH
Q 005966          432 QAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCG---SLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMH----GHGETAVS  503 (667)
Q Consensus       432 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~----~~~~~a~~  503 (667)
                      ++......+.+.-...++..+..|..+|.+.|   +.++|.+.|++....++ +...+..+...|...    +++++|+.
T Consensus       159 ~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~  238 (452)
T 3e4b_A          159 QHLDDVERICKAALNTTDICYVELATVYQKKQQPEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQA  238 (452)
T ss_dssp             GGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHH
Confidence            54444443433333444558888999999999   99999999998877764 444446677777554    68999999


Q ss_pred             HHHHHHHcCCCCCHHHHHHHHHH-H--hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcC-----ChHHHHHH
Q 005966          504 LFKEMVQSGVQPNEVTFTSALHA-C--SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG-----RLDEAYDL  575 (667)
Q Consensus       504 ~~~~m~~~~~~p~~~~~~~ll~~-~--~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~  575 (667)
                      +|++.. .|   +...+..+... +  ...+++++|...|++..+ .+   +...+..|..+|. .|     ++++|++.
T Consensus       239 ~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~-~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~  309 (452)
T 3e4b_A          239 LLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRA-AD---QPRAELLLGKLYY-EGKWVPADAKAAEAH  309 (452)
T ss_dssp             HHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHH
T ss_pred             HHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHH-CC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHH
Confidence            999987 43   44556666665 3  568999999999999987 33   5566777888887 55     99999999


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh----cCCchHHHHHHHHhhh
Q 005966          576 IRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA----VRRWKDAENVRDVMDE  647 (667)
Q Consensus       576 ~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~  647 (667)
                      |++.- ..++.....+...|..    ..|.++|...++++.+.  .++.+...|+.+|..    ..+.++|...+++..+
T Consensus       310 ~~~Aa-~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~--g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          310 FEKAV-GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARN--GQNSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             HHTTT-TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTT--TCTTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHHHh-CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhh--ChHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            99988 6688888888877776    34999999999998874  567899999999985    4589999999999988


Q ss_pred             CCCc
Q 005966          648 KGLR  651 (667)
Q Consensus       648 ~~~~  651 (667)
                      .|..
T Consensus       387 ~g~~  390 (452)
T 3e4b_A          387 QDTP  390 (452)
T ss_dssp             TCCH
T ss_pred             CCCH
Confidence            8753

>2ho1_A Type 4 fimbrial biogenesis protein PILF; type IV pilus biogenesis, TPR, superhelix, protein binding; HET: MSE; 2.00A {Pseudomonas aeruginosa} PDB: 2fi7_A

Probab=99.56  E-value=2.3e-13  Score=127.28  Aligned_cols=201  Identities=11%  Similarity=-0.027  Sum_probs=134.4

Q ss_pred             HHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChH
Q 005966          421 LPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGE  499 (667)
Q Consensus       421 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  499 (667)
                      ...+...|++++|...++.+.+.. +.+...+..+...|...|++++|.+.++++....| +...+..+...+...|+++
T Consensus        44 a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~  122 (252)
T 2ho1_A           44 GLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQKRYE  122 (252)
T ss_dssp             HHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHhHHH
Confidence            333334444444444444443332 23344455555555566666666666655544333 4456666777777777777


Q ss_pred             HHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHh
Q 005966          500 TAVSLFKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRT  578 (667)
Q Consensus       500 ~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  578 (667)
                      +|.++++++.+.+..|+ ...+..+...+...|++++|...++++.+.  .+.+...+..++..+...|++++|...+++
T Consensus       123 ~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  200 (252)
T 2ho1_A          123 EAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQYYDL  200 (252)
T ss_dssp             HHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            77777777776323443 456677777788888888888888888773  234566777888888888888888888887


Q ss_pred             C-CCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHH
Q 005966          579 M-PLK-PTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVL  624 (667)
Q Consensus       579 ~-~~~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  624 (667)
                      + ... .+...+..+...+...|+.++|...++++++..|+++.....
T Consensus       201 ~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  248 (252)
T 2ho1_A          201 FAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGSLEYQEF  248 (252)
T ss_dssp             HHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSHHHHHH
T ss_pred             HHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCCHHHHHH
Confidence            6 333 366677888888889999999999999999999987765543

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.55  E-value=2.2e-14  Score=146.99  Aligned_cols=210  Identities=7%  Similarity=-0.014  Sum_probs=170.3

Q ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCH-HHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHH
Q 005966          431 QQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSL-ESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEM  508 (667)
Q Consensus       431 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m  508 (667)
                      +++...++...... +.+...+..+...|...|++ ++|++.|++..+..|+ ...|..+..+|...|++++|+..|++.
T Consensus        85 ~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~a  163 (474)
T 4abn_A           85 EKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSGA  163 (474)
T ss_dssp             HHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33444444333222 34566667777777777777 7777777776655554 678888889999999999999999999


Q ss_pred             HHcCCCCCHHHHHHHHHHHhcc---------CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc--------CChHH
Q 005966          509 VQSGVQPNEVTFTSALHACSHG---------GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA--------GRLDE  571 (667)
Q Consensus       509 ~~~~~~p~~~~~~~ll~~~~~~---------g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~  571 (667)
                      .+.  .|+...+..+...+...         |++++|...++++.+.  .+.+...|..++.+|...        |++++
T Consensus       164 l~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~  239 (474)
T 4abn_A          164 LTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQ  239 (474)
T ss_dssp             HTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH
T ss_pred             Hhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHH
Confidence            885  46778888888889998         9999999999999883  345677888999999888        99999


Q ss_pred             HHHHHHhC-CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          572 AYDLIRTM-PLKP----THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       572 A~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      |++.|++. ...|    +...|..+..++...|++++|+..++++++++|+++.++..++.++...|++++|++.++++
T Consensus       240 A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~~  318 (474)
T 4abn_A          240 ALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGKT  318 (474)
T ss_dssp             HHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence            99999987 4455    78899999999999999999999999999999999999999999999999999999765443

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.54  E-value=4.8e-13  Score=122.60  Aligned_cols=207  Identities=11%  Similarity=-0.047  Sum_probs=147.2

Q ss_pred             HHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHH
Q 005966          416 TLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGM  494 (667)
Q Consensus       416 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  494 (667)
                      .+..+...+...|++++|...++.+.+.. +.+...+..+...|...|++++|.+.++++....| +..++..+...+..
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~   88 (225)
T 2vq2_A           10 IKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKPDSAEINNNYGWFLCG   88 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHH
Confidence            34444455555555555555555555443 33455566666666677777777777666554443 45667777788888


Q ss_pred             c-CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHH
Q 005966          495 H-GHGETAVSLFKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEA  572 (667)
Q Consensus       495 ~-~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  572 (667)
                      . |++++|+..++++.+.+..|+ ...+..+..++...|++++|...++++.+.  .+.+...+..++.++.+.|++++|
T Consensus        89 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  166 (225)
T 2vq2_A           89 RLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQLGDA  166 (225)
T ss_dssp             TTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             hcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCHHHH
Confidence            8 888888888888887323343 456777888888889999999888888773  334567788888888899999999


Q ss_pred             HHHHHhC-CC-C-CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHH
Q 005966          573 YDLIRTM-PL-K-PTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLL  625 (667)
Q Consensus       573 ~~~~~~~-~~-~-p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  625 (667)
                      .+.++++ .. + .+...+..+...+...|+.+.|...++.+.+..|+++.+...+
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l  222 (225)
T 2vq2_A          167 DYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANFPYSEELQTVL  222 (225)
T ss_dssp             HHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHh
Confidence            9888886 22 3 4566777777778889999999999999999999987766554

>1ouv_A Conserved hypothetical secreted protein; TPR repeat, HCP repeat, cysteine rich protein, loop-helix-TU repeat protein, hydrolase; 2.00A {Helicobacter pylori} SCOP: a.118.18.1

Probab=99.54  E-value=1.2e-12  Score=123.90  Aligned_cols=226  Identities=11%  Similarity=-0.064  Sum_probs=182.8

Q ss_pred             cccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC----cCCHHHHHHHHHHHHHhCCCCCchHHHH
Q 005966          379 TVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAI----LADLQQAMNIHCYLIRYGFLSVVEVSTG  454 (667)
Q Consensus       379 ~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  454 (667)
                      +..+..+...+...|++++|++.|++..+.   -+...+..+...+..    .+++++|...++...+.+   +...+..
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~   79 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHL   79 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHH
Confidence            344566677777788888888888887762   244566667777777    888888888888887765   5677778


Q ss_pred             HHHHHHh----cCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005966          455 LIDIYSK----CGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGM----HGHGETAVSLFKEMVQSGVQPNEVTFTSALHA  526 (667)
Q Consensus       455 l~~~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  526 (667)
                      +...|..    .+++++|...|++.... .+...+..+...|..    .+++++|+..|++..+.+   +...+..+...
T Consensus        80 lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           80 LGNLYYSGQGVSQNTNKALQYYSKACDL-KYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHhCCCCcccCHHHHHHHHHHHHHc-CCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            8888888    89999999999887765 367788888888988    999999999999999875   56677777778


Q ss_pred             Hhc----cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh-
Q 005966          527 CSH----GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR----AGRLDEAYDLIRTMPLKPTHAVWGALLGACVI-  597 (667)
Q Consensus       527 ~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~-  597 (667)
                      |..    .+++++|...+++..+.    .+...+..+..+|..    .+++++|++.+++.-...+...+..+...+.. 
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~~----~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACDL----KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNG  231 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcC
Confidence            877    89999999999999873    245667888999999    99999999999987322347788888889988 


Q ss_pred             ---cCCHHHHHHHHHHhhccCCCC
Q 005966          598 ---HGNVELGEVAAKWLFELEPEN  618 (667)
Q Consensus       598 ---~g~~~~A~~~~~~~~~~~p~~  618 (667)
                         .+++++|...++++.+.+|++
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~~~~  255 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLGAKG  255 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHTCHH
T ss_pred             CCcccCHHHHHHHHHHHHHcCCHH
Confidence               999999999999999999874

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.54  E-value=3.4e-14  Score=143.83  Aligned_cols=265  Identities=13%  Similarity=0.031  Sum_probs=184.9

Q ss_pred             HHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH----HHHHHHHHHHhCcCCHHHHHHHHHHHHHh----C-CCCCchHHH
Q 005966          383 NAILAGCVHNGLARKAVELFRQMLVEVVEPND----ATLNSLLPAYAILADLQQAMNIHCYLIRY----G-FLSVVEVST  453 (667)
Q Consensus       383 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~  453 (667)
                      ..+...+...|++++|+..|++..+.... +.    ..+..+...+...|++++|...++...+.    + .+.....+.
T Consensus        52 ~~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  130 (411)
T 4a1s_A           52 ALEGERLCNAGDCRAGVAFFQAAIQAGTE-DLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSG  130 (411)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhCcHHHHHHHHHHHHHhccc-ChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHH
Confidence            34555666677777777777777664211 22    35666666777777777777777766542    1 122345666


Q ss_pred             HHHHHHHhcCCHHHHHHHHhhCCCCC------C-CcchHHHHHHHHHHcCC-----------------hHHHHHHHHHHH
Q 005966          454 GLIDIYSKCGSLESAHKIFSEIPIKD------K-DIVVWSVIIAGYGMHGH-----------------GETAVSLFKEMV  509 (667)
Q Consensus       454 ~l~~~~~~~g~~~~A~~~~~~~~~~~------~-~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~~m~  509 (667)
                      .+...|...|++++|...+++.....      + ...++..+...+...|+                 +++|+..+++..
T Consensus       131 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al  210 (411)
T 4a1s_A          131 NLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENL  210 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHH
Confidence            77777888888888887777654431      1 23467777788888888                 888888887765


Q ss_pred             Hc----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHHHHhCC
Q 005966          510 QS----GVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDLIRTMP  580 (667)
Q Consensus       510 ~~----~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~  580 (667)
                      +.    +-.|. ..++..+...+...|++++|...+++..+.....++    ...+..++.+|...|++++|.+.+++.-
T Consensus       211 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  290 (411)
T 4a1s_A          211 KLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTL  290 (411)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            42    11111 246777888888999999999999888763221112    2267788888999999999999888761


Q ss_pred             ----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC------CchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          581 ----LKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPEN------PGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       581 ----~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                          ...+    ..++..+...+...|++++|...++++++..++.      ..++..++.+|...|++++|.+++++..
T Consensus       291 ~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  370 (411)
T 4a1s_A          291 ALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHL  370 (411)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHH
Confidence                1111    4567788888999999999999999998875543      3378889999999999999999999876


Q ss_pred             hC
Q 005966          647 EK  648 (667)
Q Consensus       647 ~~  648 (667)
                      +.
T Consensus       371 ~~  372 (411)
T 4a1s_A          371 QL  372 (411)
T ss_dssp             HH
T ss_pred             HH
Confidence            43

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.54  E-value=3.2e-13  Score=122.66  Aligned_cols=201  Identities=17%  Similarity=0.074  Sum_probs=84.1

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      +..+...+.+.|++++|+..|++..+.. +.+...+..+...+...|++++|...++...+.. +.+...+..+..++.+
T Consensus         8 ~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~   85 (217)
T 2pl2_A            8 PLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSEAYVA   85 (217)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            4444455555555555555555554321 1223344444444444555555555554444443 2233344444444444


Q ss_pred             cCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~  541 (667)
                      .+.         .  .  ..         .....|++++|+..+++..+.. +-+...+..+..++...|++++|+..|+
T Consensus        86 ~~~---------~--~--~~---------~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~A~~~~~  142 (217)
T 2pl2_A           86 LYR---------Q--A--ED---------RERGKGYLEQALSVLKDAERVN-PRYAPLHLQRGLVYALLGERDKAEASLK  142 (217)
T ss_dssp             HHH---------T--C--SS---------HHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hhh---------h--h--hh---------hcccccCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            400         0  0  00         0000155555555555555432 1123344444555555555555555555


Q ss_pred             HhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005966          542 FMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKW  610 (667)
Q Consensus       542 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  610 (667)
                      ++.+..   .+...+..+..+|...|++++|+..+++. ...| +...+..+...+...|++++|+..+++
T Consensus       143 ~al~~~---~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          143 QALALE---DTPEIRSALAELYLSMGRLDEALAQYAKALEQAPKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHC---CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTC-------------
T ss_pred             HHHhcc---cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            555422   34444555555555555555555555554 2222 344445555555555555555555544

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.51  E-value=1.9e-13  Score=138.03  Aligned_cols=297  Identities=12%  Similarity=-0.001  Sum_probs=182.5

Q ss_pred             CchHHhHHHHHHHhcCCHHHHHHHHhccC---CCCc----ccHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCCC-H
Q 005966          347 EVIVETALIDMYAKCNLVKLSFQVFARTS---KKKT----VPWNAILAGCVHNGLARKAVELFRQMLVE----VVEPN-D  414 (667)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p~-~  414 (667)
                      ....+......+...|++++|...|++..   +.+.    ..|..+...+...|++++|...+++....    +..|. .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            34455666777788888888888887654   2221    23667777778888888888888776432    21222 3


Q ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHHHHhC----CC-CCchHHHHHHHHHHhcCC--------------------HHHHH
Q 005966          415 ATLNSLLPAYAILADLQQAMNIHCYLIRYG----FL-SVVEVSTGLIDIYSKCGS--------------------LESAH  469 (667)
Q Consensus       415 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~g~--------------------~~~A~  469 (667)
                      .++..+...+...|++++|...++...+..    .+ .....+..+...|...|+                    +++|.
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            456666677777788888888777665421    11 113466667777777777                    77777


Q ss_pred             HHHhhCCCCC---C----CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCCHHHHH
Q 005966          470 KIFSEIPIKD---K----DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV-QPN----EVTFTSALHACSHGGLLDEGL  537 (667)
Q Consensus       470 ~~~~~~~~~~---~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~ll~~~~~~g~~~~A~  537 (667)
                      +.+++.....   +    ...++..+...+...|++++|+..+++..+... .++    ..++..+...+...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            7666543221   1    124566667777777777777777777665311 112    125666667777777777777


Q ss_pred             HHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHH
Q 005966          538 DLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDLIRTMP----LKPT----HAVWGALLGACVIHGNVELGE  605 (667)
Q Consensus       538 ~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~l~~~~~~~g~~~~A~  605 (667)
                      ..+++..+.....++    ..++..++..|...|++++|.+.+++.-    ..++    ..++..+...+...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            777776542211111    3456667777777777777777776651    1112    345666667777777777777


Q ss_pred             HHHHHhhccCCCCC------chHHHHHHHHhhcCCchHHHHHHH
Q 005966          606 VAAKWLFELEPENP------GNYVLLSKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       606 ~~~~~~~~~~p~~~------~~~~~l~~~~~~~g~~~~A~~~~~  643 (667)
                      ..+++++++.+...      .++..++.+|...|+...+...+.
T Consensus       328 ~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~  371 (406)
T 3sf4_A          328 HFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYSTNNSIM  371 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSCC-----
T ss_pred             HHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHHHHHHHH
Confidence            77777777777753      245566666766666665544443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.51  E-value=1.6e-13  Score=130.26  Aligned_cols=222  Identities=9%  Similarity=-0.025  Sum_probs=182.9

Q ss_pred             HhCcCCHHHHHHHHHHHHHhCC---CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChH
Q 005966          424 YAILADLQQAMNIHCYLIRYGF---LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGE  499 (667)
Q Consensus       424 ~~~~~~~~~a~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  499 (667)
                      ....|++++|...++.+.+...   +.+...+..+...+...|++++|...|+++....| +..+|..+...+...|+++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHccCHH
Confidence            3456899999999999987632   22567888899999999999999999999877665 4788999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          500 TAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       500 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      +|+..|+++.+.. +.+...+..+..++...|++++|...++++.+..   |+..........+...|++++|...+++.
T Consensus        95 ~A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~---~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  170 (275)
T 1xnf_A           95 AAYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD---PNDPFRSLWLYLAEQKLDEKQAKEVLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---TTCHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCChHHHHHHHHHHHhcCHHHHHHHHHHH
Confidence            9999999999974 3357789999999999999999999999998832   44334444555667789999999999776


Q ss_pred             -C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC----CCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          580 -P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE----NPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       580 -~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                       . .+++...+ .++..+...++.++|...++++++..|.    ++.++..++.+|...|++++|...++++.+...
T Consensus       171 ~~~~~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p  246 (275)
T 1xnf_A          171 FEKSDKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  246 (275)
T ss_dssp             HHHSCCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             HhcCCcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCc
Confidence             2 33343344 4777788889999999999999988774    367899999999999999999999999988653

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.51  E-value=2.4e-13  Score=133.27  Aligned_cols=265  Identities=15%  Similarity=0.073  Sum_probs=190.0

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhCcCCHHHHHHHHHHHHHh----CCC-CCchHHHH
Q 005966          384 AILAGCVHNGLARKAVELFRQMLVEVVEPN----DATLNSLLPAYAILADLQQAMNIHCYLIRY----GFL-SVVEVSTG  454 (667)
Q Consensus       384 ~li~~~~~~~~~~~A~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~~-~~~~~~~~  454 (667)
                      .....+...|++++|+..|++..+.... +    ...+..+...+...|++++|...++...+.    +.. .....+..
T Consensus        10 ~~g~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~   88 (338)
T 3ro2_A           10 LEGERLCKSGDCRAGVSFFEAAVQVGTE-DLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGN   88 (338)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCS-CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHhhCcc-cHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHH
Confidence            3455666677777777777777665211 2    245666667777777777777777765432    211 22456677


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCC---CC----cchHHHHHHHHHHcCC--------------------hHHHHHHHHH
Q 005966          455 LIDIYSKCGSLESAHKIFSEIPIKD---KD----IVVWSVIIAGYGMHGH--------------------GETAVSLFKE  507 (667)
Q Consensus       455 l~~~~~~~g~~~~A~~~~~~~~~~~---~~----~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~  507 (667)
                      +...|...|++++|...+++.....   ++    ..++..+...+...|+                    +++|...+++
T Consensus        89 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~  168 (338)
T 3ro2_A           89 LGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEE  168 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            7788888888888888877654432   12    2367778888888888                    8888888887


Q ss_pred             HHHc----CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHHHHh
Q 005966          508 MVQS----GVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDLIRT  578 (667)
Q Consensus       508 m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~  578 (667)
                      ..+.    +..|. ..++..+...+...|++++|...++++.+.....++    ...+..++..+...|++++|.+.+++
T Consensus       169 a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  248 (338)
T 3ro2_A          169 NLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKK  248 (338)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6542    21111 246777888899999999999999988763211122    23677888999999999999999987


Q ss_pred             CC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC------CchHHHHHHHHhhcCCchHHHHHHHH
Q 005966          579 MP----LKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPEN------PGNYVLLSKLYSAVRRWKDAENVRDV  644 (667)
Q Consensus       579 ~~----~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~  644 (667)
                      ..    ..++    ..++..+...+...|++++|...++++++..|..      ..++..++.+|.+.|++++|...+++
T Consensus       249 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  328 (338)
T 3ro2_A          249 TLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEK  328 (338)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            61    1122    4467788888999999999999999998876553      33788999999999999999999999


Q ss_pred             hhhCC
Q 005966          645 MDEKG  649 (667)
Q Consensus       645 ~~~~~  649 (667)
                      ..+..
T Consensus       329 a~~~~  333 (338)
T 3ro2_A          329 HLEIS  333 (338)
T ss_dssp             HHHC-
T ss_pred             HHHHH
Confidence            87754

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.48  E-value=2.8e-13  Score=119.79  Aligned_cols=169  Identities=14%  Similarity=0.084  Sum_probs=143.8

Q ss_pred             CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Q 005966          448 VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHA  526 (667)
Q Consensus       448 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  526 (667)
                      +..+|..+...|.+.|++++|++.|++..+..| +..+|..+..++.+.|++++|+..+.+..... +.+...+..+...
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~   82 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSA   82 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHH
Confidence            456778888888888999999988888777665 46788889999999999999999999998864 3355677777888


Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELG  604 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A  604 (667)
                      +...++++.|...+.+..+  ..+.+...+..++.+|.+.|++++|++.|++. ...| +..+|..++.++...|++++|
T Consensus        83 ~~~~~~~~~a~~~~~~a~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A  160 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIA--LNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEA  160 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHH
Confidence            8999999999999999987  34456778889999999999999999999987 4445 677899999999999999999


Q ss_pred             HHHHHHhhccCCCCC
Q 005966          605 EVAAKWLFELEPENP  619 (667)
Q Consensus       605 ~~~~~~~~~~~p~~~  619 (667)
                      +..++++++++|+++
T Consensus       161 ~~~~~~al~~~p~~a  175 (184)
T 3vtx_A          161 VKYFKKALEKEEKKA  175 (184)
T ss_dssp             HHHHHHHHHTTHHHH
T ss_pred             HHHHHHHHhCCccCH
Confidence            999999999999864

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.46  E-value=1.7e-13  Score=138.28  Aligned_cols=266  Identities=13%  Similarity=0.007  Sum_probs=155.0

Q ss_pred             hhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCC---chHHhHHHHHHHhcCCHHHHHHHHhccCC-----CC----ccc
Q 005966          314 LTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECE---VIVETALIDMYAKCNLVKLSFQVFARTSK-----KK----TVP  381 (667)
Q Consensus       314 ~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~~----~~~  381 (667)
                      ..+...-..+...|+++.|...++.+.+......   ..++..+...|...|++++|...+++...     .+    ...
T Consensus        10 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   89 (406)
T 3sf4_A           10 LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   89 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHH
Confidence            3344445556667777777777777766532211   24566666777777777777776665421     11    122


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhCcCC--------------------HHHHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVV-EPN----DATLNSLLPAYAILAD--------------------LQQAMNI  436 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~--------------------~~~a~~~  436 (667)
                      +..+...+...|++++|+..+++..+... .++    ..++..+...+...|+                    +++|...
T Consensus        90 ~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~  169 (406)
T 3sf4_A           90 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDF  169 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            56666677777777777777776554210 011    2355566666667777                    7777777


Q ss_pred             HHHHHHh----CC-CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CC----cchHHHHHHHHHHcCChHHHHHH
Q 005966          437 HCYLIRY----GF-LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KD----IVVWSVIIAGYGMHGHGETAVSL  504 (667)
Q Consensus       437 ~~~~~~~----~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~----~~~~~~l~~~~~~~~~~~~a~~~  504 (667)
                      ++...+.    +. +.....+..+...|...|++++|...+++.....   ++    ..++..+...+...|++++|...
T Consensus       170 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  249 (406)
T 3sf4_A          170 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEY  249 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHH
Confidence            6665432    11 1123456666677777777777777776654332   11    12566666677777777777777


Q ss_pred             HHHHHHcCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHH
Q 005966          505 FKEMVQSGVQ-PN----EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDL  575 (667)
Q Consensus       505 ~~~m~~~~~~-p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~  575 (667)
                      +++..+.... ++    ..++..+...|...|++++|...++++.+.....++    ...+..+..+|...|++++|.+.
T Consensus       250 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  329 (406)
T 3sf4_A          250 YKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHF  329 (406)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            7766542110 11    235566666677777777777777766552211111    34556666777777777777776


Q ss_pred             HHhC
Q 005966          576 IRTM  579 (667)
Q Consensus       576 ~~~~  579 (667)
                      +++.
T Consensus       330 ~~~a  333 (406)
T 3sf4_A          330 AEKH  333 (406)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            6664

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.45  E-value=3e-10  Score=119.33  Aligned_cols=419  Identities=9%  Similarity=-0.009  Sum_probs=269.9

Q ss_pred             CChhhHHHHHHHHHHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcc---hHHHHHHHHHHHhcCC-CcchhHH
Q 005966          175 HSVVSWNTLISGYFKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKE---IEMGRMIHELVAGGRL-GKNIAAW  250 (667)
Q Consensus       175 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~-~~~~~~~  250 (667)
                      .|..+|..++..+.+.+.++.+..+|+.+... .+.....|..-+..-.+.++   .+.+..+|+..+.... +|++..|
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            48889999999999999999999999999875 34455667777777777777   9999999999888752 4677788


Q ss_pred             HHHHHHHHhcCCH--------HHHHHHHhhcC------CC-ChhHHHHHHHHHHh---------CCChHHHHHHHHHHHh
Q 005966          251 NALVDMYVKCGSV--------NEARLVFDRMS------ER-DVVTWTSMINGYAL---------NGDVRNALGLFQLMQF  306 (667)
Q Consensus       251 ~~l~~~~~~~g~~--------~~A~~~~~~~~------~~-~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~  306 (667)
                      ...+....+.++.        +...++|+...      .+ +...|...+.-...         .++++.+..+|++...
T Consensus       143 ~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          143 LSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHh
Confidence            8887766665543        33446666532      22 34567776654432         2346677788888764


Q ss_pred             cCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhc-------cCC---
Q 005966          307 EGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFAR-------TSK---  376 (667)
Q Consensus       307 ~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-------~~~---  376 (667)
                      .....-..+|..... +.+.-+...+..++.+.                     ..+++.|...+..       +..   
T Consensus       223 iP~~~~~~~w~~Y~~-fe~~~~~~~a~~~~~e~---------------------~~~y~~Ar~~~~e~~~~~~~l~r~~p  280 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQ-WEQDVNQLTARRHIGEL---------------------SAQYMNARSLYQDWLNITKGLKRNLP  280 (679)
T ss_dssp             SCCSSHHHHHHHHHH-HHHHHCTTTHHHHHHHH---------------------HHHHHHHHHHHHHHHHHTTTCCCCCC
T ss_pred             CccHHHHHHHHHHHH-HHHhcCcchHHHHHHHh---------------------hHHHHHHHHHHHHHHHHHHhHhhccc
Confidence            211111122211111 11100001111111110                     0112222222211       110   


Q ss_pred             C-------------C------cccHHHHHHHHHhCC-------ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCH
Q 005966          377 K-------------K------TVPWNAILAGCVHNG-------LARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADL  430 (667)
Q Consensus       377 ~-------------~------~~~~~~li~~~~~~~-------~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~  430 (667)
                      .             +      ...|...+.---..+       ..+.+..+|++.... ++-+...|.....-+...|+.
T Consensus       281 ~~~~~~~~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~  359 (679)
T 4e6h_A          281 ITLNQATESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTD  359 (679)
T ss_dssp             SSSTTCCTTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCC
T ss_pred             cccccchhccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcH
Confidence            0             0      011444444333222       123456677777664 334556666666667777888


Q ss_pred             HHHH-HHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC-----------CC------------cchHH
Q 005966          431 QQAM-NIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD-----------KD------------IVVWS  486 (667)
Q Consensus       431 ~~a~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----------~~------------~~~~~  486 (667)
                      +.|. .+++...... +.+...+...+....+.|++++|.++|+.+....           |+            ..+|.
T Consensus       360 ~~a~r~il~rAi~~~-P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi  438 (679)
T 4e6h_A          360 STVITKYLKLGQQCI-PNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYC  438 (679)
T ss_dssp             TTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHH
Confidence            8886 9999988654 5667777788888999999999999999876531           31            23688


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc-cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH-GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR  565 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  565 (667)
                      ..+....+.|+.+.|..+|.+.++....+....|...+..-.+ .++.+.|..+|+..++.  ++.+...|...++....
T Consensus       439 ~y~~~erR~~~l~~AR~vf~~A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~  516 (679)
T 4e6h_A          439 VYMNTMKRIQGLAASRKIFGKCRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIY  516 (679)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHh
Confidence            8888888899999999999999886112223344333332223 35689999999999984  44456678888898889


Q ss_pred             cCChHHHHHHHHhC-CCCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          566 AGRLDEAYDLIRTM-PLKP----THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       566 ~g~~~~A~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      .|+.+.|..+|++. ...|    ....|...+..-...|+.+.+..+.+++.+..|+++.
T Consensus       517 ~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~~  576 (679)
T 4e6h_A          517 VNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVNK  576 (679)
T ss_dssp             HTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCCH
T ss_pred             CCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCcH
Confidence            99999999999997 3333    2357888888888999999999999999999999653

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.45  E-value=1.3e-12  Score=138.97  Aligned_cols=163  Identities=16%  Similarity=0.181  Sum_probs=144.9

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      ..+|+.+...+.+.|++++|++.|++.++.. +-+..++..+..+|.+.|++++|+..|+++++.  .+.+...|..++.
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg~   85 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHH
Confidence            5678889999999999999999999999864 224578899999999999999999999999883  3345778999999


Q ss_pred             HHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHH
Q 005966          562 LLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAE  639 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  639 (667)
                      +|.+.|++++|++.|++. ...| +...+..+..++...|++++|+..++++++++|+++.++..|+.+|...|++++|.
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~  165 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYD  165 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHH
Confidence            999999999999999987 5556 67789999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhh
Q 005966          640 NVRDVMDE  647 (667)
Q Consensus       640 ~~~~~~~~  647 (667)
                      +.++++.+
T Consensus       166 ~~~~kal~  173 (723)
T 4gyw_A          166 ERMKKLVS  173 (723)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.43  E-value=2.9e-11  Score=116.53  Aligned_cols=223  Identities=13%  Similarity=0.081  Sum_probs=161.2

Q ss_pred             HHHHHHHHHHHHCCCCCCHHHHHHHHHHHh-------CcCCH-------HHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          396 RKAVELFRQMLVEVVEPNDATLNSLLPAYA-------ILADL-------QQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       396 ~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~-------~~~~~-------~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      ++|..+|++..... +-+...|..+...+.       ..|++       ++|..++++..+.-.+.+...+..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            56777777777642 334445555555443       34664       7888888888773224456678888888888


Q ss_pred             cCCHHHHHHHHhhCCCCCCC-cc-hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hccCCHHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKDKD-IV-VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC-SHGGLLDEGLD  538 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~-~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~g~~~~A~~  538 (667)
                      .|++++|.++|+++....|+ .. .|..++..+.+.|++++|..+|++.++.. +++...|....... ...|++++|..
T Consensus       112 ~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p~~~~~~~~~a~~~~~~~~~~~~A~~  190 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHcCCHHHHHH
Confidence            88888888888888776664 33 78888888888889999999999888764 23444454333332 23688999999


Q ss_pred             HHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC----CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          539 LFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP----LKP--THAVWGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       539 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                      +|+++.+..  +.+...|..++..+.+.|++++|..+|++.-    ..|  ....|..++....+.|+.+.|..++++++
T Consensus       191 ~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a~  268 (308)
T 2ond_A          191 IFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             HHHHHHHHH--TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             HHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            998888733  3456778888888888899999998888872    244  35678888888888899999999999999


Q ss_pred             ccCCCCCchH
Q 005966          613 ELEPENPGNY  622 (667)
Q Consensus       613 ~~~p~~~~~~  622 (667)
                      +..|+++...
T Consensus       269 ~~~p~~~~~~  278 (308)
T 2ond_A          269 TAFREEYEGK  278 (308)
T ss_dssp             HHTTTTTSSC
T ss_pred             HHcccccccc
Confidence            8888865443

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.42  E-value=1.5e-11  Score=118.55  Aligned_cols=216  Identities=9%  Similarity=-0.013  Sum_probs=176.3

Q ss_pred             HHHHHHHHHHHHhCCCCCchHHHHHHHHHH-------hcCCH-------HHHHHHHhhCCC-CCCC-cchHHHHHHHHHH
Q 005966          431 QQAMNIHCYLIRYGFLSVVEVSTGLIDIYS-------KCGSL-------ESAHKIFSEIPI-KDKD-IVVWSVIIAGYGM  494 (667)
Q Consensus       431 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-------~~g~~-------~~A~~~~~~~~~-~~~~-~~~~~~l~~~~~~  494 (667)
                      ++|..+|+..++.. +.++..+..++..+.       +.|++       ++|..+|++... ..|+ ...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            67788888887764 567778888887775       35886       899999999888 4665 4689999999999


Q ss_pred             cCChHHHHHHHHHHHHcCCCCC-HH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHh-hcCChHH
Q 005966          495 HGHGETAVSLFKEMVQSGVQPN-EV-TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLG-RAGRLDE  571 (667)
Q Consensus       495 ~~~~~~a~~~~~~m~~~~~~p~-~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~  571 (667)
                      .|++++|..+|++.++.  .|+ .. .|..+...+.+.|++++|..+|+++.+.  .+++...|...+.... ..|++++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHH
Confidence            99999999999999984  454 33 7888999999999999999999999882  3345555654444432 3799999


Q ss_pred             HHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhcc---CCC-CCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          572 AYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFEL---EPE-NPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       572 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      |..+|++. ...| +...|..++..+.+.|+.++|+.+|+++++.   .|+ ....+..++..+.+.|+.++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            99999987 3334 6788999999999999999999999999996   453 5668889999999999999999999999


Q ss_pred             hhCCCc
Q 005966          646 DEKGLR  651 (667)
Q Consensus       646 ~~~~~~  651 (667)
                      .+....
T Consensus       268 ~~~~p~  273 (308)
T 2ond_A          268 FTAFRE  273 (308)
T ss_dssp             HHHTTT
T ss_pred             HHHccc
Confidence            876643

>4e6h_A MRNA 3'-END-processing protein RNA14; HAT domain, heat repeat, CLP1, PCF11, structural protein; 2.30A {Kluyveromyces lactis} PDB: 4e85_A 4eba_A

Probab=99.42  E-value=1.6e-09  Score=113.80  Aligned_cols=86  Identities=12%  Similarity=0.026  Sum_probs=59.3

Q ss_pred             CcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccc---hHHHHHHHHHHHHhCC-CCchHHH
Q 005966           74 SSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAW---RKLGIALHGRVLITGF-DMDTFVG  149 (667)
Q Consensus        74 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~---~~~a~~~~~~~~~~~~-~~~~~~~  149 (667)
                      |..+|..++..+.+.+.++.+..+|+++...  .|.....|..-+..-.+.++   ++.+..+|++.+...+ +|++..|
T Consensus        65 d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~--fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           65 DIFLYVKLLKHHVSLKQWKQVYETFDKLHDR--FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            6667888888777777888888888888776  56666667777776667777   7778888877776541 3666677


Q ss_pred             HHHHHHHHhcCC
Q 005966          150 NCLIAMYMNFGE  161 (667)
Q Consensus       150 ~~li~~~~~~g~  161 (667)
                      ...+....+.++
T Consensus       143 ~~Yl~f~~~~~~  154 (679)
T 4e6h_A          143 LSYITYVRKKND  154 (679)
T ss_dssp             HHHHHHHHHHSC
T ss_pred             HHHHHHHHHhcc
Confidence            766665555444

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.42  E-value=1.7e-12  Score=114.67  Aligned_cols=130  Identities=16%  Similarity=0.026  Sum_probs=77.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGAC  595 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~  595 (667)
                      ..+..+...+...|++++|...++++.+.  .+.+...+..++..+...|++++|.+.++++ . .+.+...+..++..+
T Consensus        43 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~  120 (186)
T 3as5_A           43 DVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLTYVQVQKYDLAVPLLIKVAEANPINFNVRFRLGVAL  120 (186)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHH
Confidence            33444444444444444454444444441  1223344444555555555555555555544 1 223455666666677


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ...|++++|...++++++..|+++.++..++.+|...|++++|.+.++++.+..
T Consensus       121 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  174 (186)
T 3as5_A          121 DNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEALPHFKKANELD  174 (186)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            777777777777777777777777777777777777777777777777766544

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.41  E-value=3.9e-11  Score=119.87  Aligned_cols=234  Identities=10%  Similarity=0.026  Sum_probs=125.3

Q ss_pred             HHHHHHhCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 005966          385 ILAGCVHNGLARKAVELFRQMLVEVV-EPN----DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIY  459 (667)
Q Consensus       385 li~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  459 (667)
                      ....+...|++++|+..|++..+.-. .++    ..++..+...+...|+++.|...++...+..               
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---------------  173 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIY---------------  173 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---------------
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH---------------
Confidence            44556677888888888887765310 122    2355556666666666666666665544321               


Q ss_pred             HhcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCCH----HHHHHHHHHHhccCCH
Q 005966          460 SKCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV-QPNE----VTFTSALHACSHGGLL  533 (667)
Q Consensus       460 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~----~~~~~ll~~~~~~g~~  533 (667)
                                   ....... ....+++.+...|...|++++|+..+++..+... .++.    .++..+..+|...|++
T Consensus       174 -------------~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~  240 (383)
T 3ulq_A          174 -------------KEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQY  240 (383)
T ss_dssp             -------------HTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             -------------HhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCH
Confidence                         1100000 0112344455555555555555555555443210 0111    2455566666666666


Q ss_pred             HHHHHHHHHhHHh---cCC-CCchhHHHHHHHHHhhcCChHHHHHHHHhCC----C--CCC-HHHHHHHHHHHHhcCC--
Q 005966          534 DEGLDLFNFMLEN---HQT-CSRADHYTCIVDLLGRAGRLDEAYDLIRTMP----L--KPT-HAVWGALLGACVIHGN--  600 (667)
Q Consensus       534 ~~A~~~~~~~~~~---~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~--~p~-~~~~~~l~~~~~~~g~--  600 (667)
                      ++|...+++..+.   .+. +....++..++.+|.+.|++++|.+.+++.-    .  .|. ...+..+...+...|+  
T Consensus       241 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  320 (383)
T 3ulq_A          241 EDAIPYFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEE  320 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHH
T ss_pred             HHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHH
Confidence            6666666665541   122 2234455566666666666666666666541    1  111 1123445555666666  


Q ss_pred             -HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          601 -VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       601 -~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                       .++|+..+++. ...|....++..++.+|...|++++|.+++++..+
T Consensus       321 ~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          321 AIQGFFDFLESK-MLYADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC-cCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             66666666655 22333345666777777777777777777777653

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.40  E-value=2.5e-13  Score=131.55  Aligned_cols=239  Identities=15%  Similarity=0.097  Sum_probs=127.3

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHC-------CCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVE-------VVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTG  454 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~-------g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  454 (667)
                      +..+...+...|++++|+.+++++.+.       ........+..+...+...|++++|...++...+..          
T Consensus        30 ~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~----------   99 (311)
T 3nf1_A           30 LHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIR----------   99 (311)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHH----------
Confidence            666777777778888888777776652       112223345555555556666666666655554320          


Q ss_pred             HHHHHHhcCCHHHHHHHHhhCC-CCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHH
Q 005966          455 LIDIYSKCGSLESAHKIFSEIP-IKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQS------GVQPN-EVTFTSALH  525 (667)
Q Consensus       455 l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------~~~p~-~~~~~~ll~  525 (667)
                                        .... ... ....++..+...+...|++++|...++++.+.      +-.|+ ...+..+..
T Consensus       100 ------------------~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~  161 (311)
T 3nf1_A          100 ------------------EKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLAL  161 (311)
T ss_dssp             ------------------HHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             ------------------HHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHH
Confidence                              0000 000 11234455555555556666666555555542      11122 234556666


Q ss_pred             HHhccCCHHHHHHHHHHhHHhc-----C-CCCchhHHHHHHHHHhhcCChHHHHHHHHhCC----------CCCCH----
Q 005966          526 ACSHGGLLDEGLDLFNFMLENH-----Q-TCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP----------LKPTH----  585 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~-----~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----------~~p~~----  585 (667)
                      .+...|++++|..+++++.+..     + .+.....+..++.+|...|++++|.+.++++.          ..|..    
T Consensus       162 ~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~  241 (311)
T 3nf1_A          162 LCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIW  241 (311)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHH
Confidence            6667777777777776665521     1 11223456666667777777777776666541          11111    


Q ss_pred             ---HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          586 ---AVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       586 ---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                         ..+......+...+.+.++...++++....|.++.++..++.+|.+.|++++|.+++++..+.
T Consensus       242 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          242 MHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             HHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence               112222333344556666777777777778888888888899999999999999988887653

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.40  E-value=8.2e-12  Score=114.59  Aligned_cols=167  Identities=12%  Similarity=-0.017  Sum_probs=96.6

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      +..|......+...|++++|+..|++..+....++...+..+..++...|++++|+..+++..+  ..+.+...+..++.
T Consensus         7 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~   84 (228)
T 4i17_A            7 PNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIK--KNYNLANAYIGKSA   84 (228)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TTCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHH--hCcchHHHHHHHHH
Confidence            3445555555555566666666666555544324455554455555566666666666665555  22233445555555


Q ss_pred             HHhhcCChHHHHHHHHhC-CCCC-CH-------HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC--CCchHHHHHHHHh
Q 005966          562 LLGRAGRLDEAYDLIRTM-PLKP-TH-------AVWGALLGACVIHGNVELGEVAAKWLFELEPE--NPGNYVLLSKLYS  630 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~-~~~p-~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~~~~  630 (667)
                      +|...|++++|++.+++. ...| +.       ..+..+...+...|++++|+..++++++.+|+  ++.++..++.+|.
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~  164 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLGVLFY  164 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHHHHHH
Confidence            666666666666655554 2223 23       23455555555666666666666666666666  5566666666666


Q ss_pred             hcCCc---------------------------hHHHHHHHHhhhCCC
Q 005966          631 AVRRW---------------------------KDAENVRDVMDEKGL  650 (667)
Q Consensus       631 ~~g~~---------------------------~~A~~~~~~~~~~~~  650 (667)
                      ..|+.                           ++|+..+++..+..+
T Consensus       165 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~l~p  211 (228)
T 4i17_A          165 NNGADVLRKATPLASSNKEKYASEKAKADAAFKKAVDYLGEAVTLSP  211 (228)
T ss_dssp             HHHHHHHHHHGGGTTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Confidence            55555                           999999999887653

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.39  E-value=1.3e-12  Score=130.72  Aligned_cols=191  Identities=8%  Similarity=-0.037  Sum_probs=148.4

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCC---CC----cchHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC-----HHHHH
Q 005966          455 LIDIYSKCGSLESAHKIFSEIPIKD---KD----IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV-QPN-----EVTFT  521 (667)
Q Consensus       455 l~~~~~~~g~~~~A~~~~~~~~~~~---~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~-----~~~~~  521 (667)
                      ....+...|++++|...|++.....   ++    ..++..+...+...|++++|+..+++..+.-. .++     ..++.
T Consensus       109 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  188 (383)
T 3ulq_A          109 RGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHS  188 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHH
Confidence            5666778888888888888765531   22    35788888999999999999999998876311 112     24688


Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHHHHhC-C-----CC-C-CHHHHH
Q 005966          522 SALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDLIRTM-P-----LK-P-THAVWG  589 (667)
Q Consensus       522 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-----~~-p-~~~~~~  589 (667)
                      .+...|...|++++|...++++.+.....++    ..++..++.+|...|++++|++.+++. .     .. | ...++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            8889999999999999999998763221122    247888999999999999999999886 1     22 4 345788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCC-----CCCchHHHHHHHHhhcCC---chHHHHHHHHh
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEP-----ENPGNYVLLSKLYSAVRR---WKDAENVRDVM  645 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p-----~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~  645 (667)
                      .++..+...|++++|...+++++++.+     .....+..++.+|...|+   +++|+.++++.
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~  332 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK  332 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC
Confidence            899999999999999999999998743     333346679999999999   88888888775

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.39  E-value=1e-11  Score=114.01  Aligned_cols=209  Identities=8%  Similarity=0.017  Sum_probs=154.7

Q ss_pred             CCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHH
Q 005966          412 PNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIA  490 (667)
Q Consensus       412 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~  490 (667)
                      .|...+......+...|++++|...|+...+...+++...+..+..++.+.|++++|.+.|++.....|+ ...|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            3556777788888889999999999999888774467777777888899999999999999888776654 567888888


Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCH-------HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC--chhHHHHHHH
Q 005966          491 GYGMHGHGETAVSLFKEMVQSGVQPNE-------VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCS--RADHYTCIVD  561 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~~l~~  561 (667)
                      .+...|++++|+..+++..+... .+.       ..|..+...+...|++++|+..|+++.+  ..+.  +...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAVP-GNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD--VTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SSCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh--cCCCcccHHHHHHHHH
Confidence            88999999999999999888642 233       3467777778888999999999998876  2223  3566777777


Q ss_pred             HHhhcCChHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          562 LLGRAGRLDEAYDLIRTMP--LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      +|...|+.     .++++.  ...+...+...  .....+.+++|+..+++++++.|+++.+...++.+..
T Consensus       162 ~~~~~~~~-----~~~~a~~~~~~~~~~~~~~--~~~~~~~~~~A~~~~~~a~~l~p~~~~~~~~l~~i~~  225 (228)
T 4i17_A          162 LFYNNGAD-----VLRKATPLASSNKEKYASE--KAKADAAFKKAVDYLGEAVTLSPNRTEIKQMQDQVKA  225 (228)
T ss_dssp             HHHHHHHH-----HHHHHGGGTTTCHHHHHHH--HHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHH-----HHHHHHhcccCCHHHHHHH--HHHHHHHHHHHHHHHHHHhhcCCCCHHHHHHHHHHHH
Confidence            77665543     223321  11233333322  2344567899999999999999999988888877654

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.37  E-value=2.1e-12  Score=130.62  Aligned_cols=263  Identities=11%  Similarity=0.032  Sum_probs=171.3

Q ss_pred             HHHHHhcCCHHHHHHHHhccC---CCCc----ccHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHH
Q 005966          355 IDMYAKCNLVKLSFQVFARTS---KKKT----VPWNAILAGCVHNGLARKAVELFRQMLVE----VVEP-NDATLNSLLP  422 (667)
Q Consensus       355 ~~~~~~~g~~~~a~~~~~~~~---~~~~----~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~  422 (667)
                      ...+...|++++|...|++..   ..+.    ..|..+...+...|++++|+..+++..+.    +..| ....+..+..
T Consensus        55 g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~  134 (411)
T 4a1s_A           55 GERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGN  134 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHH
Confidence            334444555555555554433   1111    12455555566666666666666655432    1111 2234555666


Q ss_pred             HHhCcCCHHHHHHHHHHHHHh----C-CCCCchHHHHHHHHHHhcCC-----------------HHHHHHHHhhCCCCC-
Q 005966          423 AYAILADLQQAMNIHCYLIRY----G-FLSVVEVSTGLIDIYSKCGS-----------------LESAHKIFSEIPIKD-  479 (667)
Q Consensus       423 ~~~~~~~~~~a~~~~~~~~~~----~-~~~~~~~~~~l~~~~~~~g~-----------------~~~A~~~~~~~~~~~-  479 (667)
                      .+...|++++|...++...+.    + .+.....+..+...|...|+                 +++|.+.+++..... 
T Consensus       135 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~  214 (411)
T 4a1s_A          135 TLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMR  214 (411)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHH
Confidence            666677777777766665432    1 12234466667777777777                 777777766543321 


Q ss_pred             ------CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC
Q 005966          480 ------KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQ-PN----EVTFTSALHACSHGGLLDEGLDLFNFMLENHQ  548 (667)
Q Consensus       480 ------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  548 (667)
                            ....++..+...+...|++++|+..+++..+.... ++    ..++..+...|...|++++|...++++.+...
T Consensus       215 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  294 (411)
T 4a1s_A          215 DLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAV  294 (411)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence                  12346778888899999999999999888763211 12    13678888899999999999999998876322


Q ss_pred             CCC----chhHHHHHHHHHhhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCC
Q 005966          549 TCS----RADHYTCIVDLLGRAGRLDEAYDLIRTMP----LKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEP  616 (667)
Q Consensus       549 ~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p  616 (667)
                      ...    ....+..++.+|...|++++|.+.+++..    ..++    ..++..+...+...|++++|...+++++++.+
T Consensus       295 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~  374 (411)
T 4a1s_A          295 ELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAX  374 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC
T ss_pred             HcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHh
Confidence            111    14567788999999999999999998861    1112    34677888889999999999999999998876


Q ss_pred             C
Q 005966          617 E  617 (667)
Q Consensus       617 ~  617 (667)
                      .
T Consensus       375 ~  375 (411)
T 4a1s_A          375 X  375 (411)
T ss_dssp             H
T ss_pred             h
Confidence            6

>3as5_A MAMA; tetratricopeptide repeats (TPR) containing protein, TPR PROT protein-protein interactions, protein binding; 2.00A {Magnetospirillum magnetotacticum} PDB: 3as4_A 3asd_A 3asg_A 3ash_A 3as8_A 3asf_A

Probab=99.36  E-value=4.1e-11  Score=105.68  Aligned_cols=171  Identities=16%  Similarity=0.018  Sum_probs=147.5

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC  527 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  527 (667)
                      ...+..+...+...|++++|...++++....| +...+..+...+...|++++|...++++.+.. +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            34566778889999999999999999988765 56788889999999999999999999999874 34667888899999


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGE  605 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~  605 (667)
                      ...|++++|.+.++++.+.  .+.+...+..++..+...|++++|.+.++++ . .+.+...+..++..+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999999999883  4456778889999999999999999999987 3 3346788999999999999999999


Q ss_pred             HHHHHhhccCCCCCchH
Q 005966          606 VAAKWLFELEPENPGNY  622 (667)
Q Consensus       606 ~~~~~~~~~~p~~~~~~  622 (667)
                      ..++++++..|+++...
T Consensus       165 ~~~~~~~~~~~~~~~~~  181 (186)
T 3as5_A          165 PHFKKANELDEGASVEL  181 (186)
T ss_dssp             HHHHHHHHHHHCCCGGG
T ss_pred             HHHHHHHHcCCCchhhH
Confidence            99999999999876544

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.35  E-value=2.6e-10  Score=113.43  Aligned_cols=57  Identities=26%  Similarity=0.227  Sum_probs=25.5

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhccCCCC------CchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          589 GALLGACVIHGNVELGEVAAKWLFELEPEN------PGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       589 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      ..+...+...|++++|...++++++..+..      ..++..++.+|...|++++|...+++.
T Consensus       257 ~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~a  319 (373)
T 1hz4_A          257 RNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDA  319 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHH
Confidence            334444444555555555555444332211      113344444555555555555554443

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.33  E-value=6.4e-12  Score=122.95  Aligned_cols=236  Identities=12%  Similarity=0.018  Sum_probs=153.7

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHC----CCCC-CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCC-C----CchH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVE----VVEP-NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFL-S----VVEV  451 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~----~~~~  451 (667)
                      +..+...+...|++++|.+.+++....    +..| ...++..+...+...|++++|...++...+.... +    ...+
T Consensus        46 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  125 (338)
T 3ro2_A           46 YSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARA  125 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHH
Confidence            444555555566666666665554322    1111 1234555556666667777776666665432110 1    1235


Q ss_pred             HHHHHHHHHhcCC--------------------HHHHHHHHhhCCCCC---C----CcchHHHHHHHHHHcCChHHHHHH
Q 005966          452 STGLIDIYSKCGS--------------------LESAHKIFSEIPIKD---K----DIVVWSVIIAGYGMHGHGETAVSL  504 (667)
Q Consensus       452 ~~~l~~~~~~~g~--------------------~~~A~~~~~~~~~~~---~----~~~~~~~l~~~~~~~~~~~~a~~~  504 (667)
                      +..+...|...|+                    +++|.+.+++.....   +    ...++..+...+...|++++|...
T Consensus       126 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  205 (338)
T 3ro2_A          126 LYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIA  205 (338)
T ss_dssp             HHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHH
Confidence            6666677777777                    777777666543221   1    234677788888899999999999


Q ss_pred             HHHHHHcCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHH
Q 005966          505 FKEMVQSGV-QPN----EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDL  575 (667)
Q Consensus       505 ~~~m~~~~~-~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~  575 (667)
                      +++..+... .++    ..++..+...+...|++++|...+++..+.....++    ...+..++..+...|++++|...
T Consensus       206 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (338)
T 3ro2_A          206 HEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDY  285 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHH
Confidence            988775311 111    236777888899999999999999988763221112    45677888999999999999999


Q ss_pred             HHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          576 IRTMP----LKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       576 ~~~~~----~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ++++-    ..++    ..++..+...+...|++++|...+++++++.++
T Consensus       286 ~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          286 HLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            88761    1112    346778888899999999999999999988765

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.33  E-value=2.3e-11  Score=124.62  Aligned_cols=211  Identities=16%  Similarity=0.032  Sum_probs=169.4

Q ss_pred             hHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCH-HHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHh
Q 005966          395 ARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADL-QQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFS  473 (667)
Q Consensus       395 ~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  473 (667)
                      .++++..+++.... .+.+...+..+...+...|++ ++|...++...+.. +.+...+..+..+|.+.|++++|.+.|+
T Consensus        84 ~~~al~~l~~~~~~-~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGS-AQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTT-CCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcc-CchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            56666777665543 234667777888888888888 99999888888775 4567788889999999999999999999


Q ss_pred             hCCCCCCCcchHHHHHHHHHHc---------CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc--------CCHHHH
Q 005966          474 EIPIKDKDIVVWSVIIAGYGMH---------GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG--------GLLDEG  536 (667)
Q Consensus       474 ~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~--------g~~~~A  536 (667)
                      +.....|+...+..+...+...         |++++|+..|++..+.. +.+...|..+..+|...        |++++|
T Consensus       162 ~al~~~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          162 GALTHCKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             HHHTTCCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHhhCCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            8888778878888888888888         99999999999998864 33567788888888888        889999


Q ss_pred             HHHHHHhHHhcCCC---CchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHH
Q 005966          537 LDLFNFMLENHQTC---SRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKW  610 (667)
Q Consensus       537 ~~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~  610 (667)
                      ...|+++.+.  .+   .+...|..+..+|...|++++|++.|++. ...| +...+..+...+...|++++|+..+++
T Consensus       241 ~~~~~~al~~--~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          241 LSAYAQAEKV--DRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHH--CGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHh--CCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            9999999873  22   36778888999999999999999999887 4445 566788888888888888888876544

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.32  E-value=5.3e-12  Score=122.12  Aligned_cols=243  Identities=12%  Similarity=0.064  Sum_probs=151.5

Q ss_pred             CchHHhHHHHHHHhcCCHHHHHHHHhccCC--------CCc---ccHHHHHHHHHhCCChHHHHHHHHHHHHC------C
Q 005966          347 EVIVETALIDMYAKCNLVKLSFQVFARTSK--------KKT---VPWNAILAGCVHNGLARKAVELFRQMLVE------V  409 (667)
Q Consensus       347 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~~~------g  409 (667)
                      ...++..+...|...|++++|...|++...        .++   ..+..+...+...|++++|...+++....      +
T Consensus        26 ~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~  105 (311)
T 3nf1_A           26 RLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGK  105 (311)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCC
Confidence            356788899999999999999999987753        222   23788899999999999999999998764      2


Q ss_pred             CCC-CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCC-CCC-CCcchHH
Q 005966          410 VEP-NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIP-IKD-KDIVVWS  486 (667)
Q Consensus       410 ~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~-~~~~~~~  486 (667)
                      -.| ...++..+...+...|++++|...++...+..                            .... ... .....+.
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~----------------------------~~~~~~~~~~~~~~~~  157 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIR----------------------------EKVLGKDHPDVAKQLN  157 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHH----------------------------HHHHCTTCHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHH----------------------------HHhcCCCChHHHHHHH
Confidence            222 23456666667777777777777776655421                            0000 000 1223455


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc------CCCC-c
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQS------GVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENH------QTCS-R  552 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~------~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~------~~~~-~  552 (667)
                      .+...+...|++++|+.+++++.+.      +..|+ ..++..+...+...|++++|...++++.+..      ...+ .
T Consensus       158 ~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  237 (311)
T 3nf1_A          158 NLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDEN  237 (311)
T ss_dssp             HHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcch
Confidence            5666666777777777777766653      11222 2456777777888888888888888776521      1111 1


Q ss_pred             hh------HHHHHHHHHhhcCChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          553 AD------HYTCIVDLLGRAGRLDEAYDLIRTMP-LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       553 ~~------~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ..      .+..+...+...+.+.+|...++... ..| +..++..+...|...|++++|...+++++++.|+
T Consensus       238 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          238 KPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             CCHHHHHHHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            11      12223333445556666666666663 334 4557888999999999999999999999998775

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.28  E-value=2.4e-11  Score=121.06  Aligned_cols=224  Identities=9%  Similarity=-0.035  Sum_probs=147.4

Q ss_pred             HHhCcCCHHHHHHHHHHHHHhCC--C---CCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCC---CC-----cchHHHHH
Q 005966          423 AYAILADLQQAMNIHCYLIRYGF--L---SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKD---KD-----IVVWSVII  489 (667)
Q Consensus       423 ~~~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~-----~~~~~~l~  489 (667)
                      .+...|++++|...++...+...  +   ....++..+...|...|+++.|...+++.....   ++     ..+++.+.
T Consensus       110 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg  189 (378)
T 3q15_A          110 YEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIA  189 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHH
T ss_pred             HHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHH
Confidence            34556677777776666654211  1   123456666777777777777776666543321   11     34667777


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCC-CCC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCCchhHHHHHHH
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGV-QPN----EVTFTSALHACSHGGLLDEGLDLFNFMLENH---QTCSRADHYTCIVD  561 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~~~~~~l~~  561 (667)
                      ..|...|++++|++.+++..+... .++    ..++..+..+|...|++++|...+++..+..   +.+....++..++.
T Consensus       190 ~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~  269 (378)
T 3q15_A          190 GNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSW  269 (378)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHH
Confidence            888888888888888887765210 111    2357777888888889998888888876511   22233566777888


Q ss_pred             HHhhcCChHHHHHHHHhC----CC--CCC-HHHHHHHHHHHHhcCC---HHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          562 LLGRAGRLDEAYDLIRTM----PL--KPT-HAVWGALLGACVIHGN---VELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~----~~--~p~-~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ++.+.|++++|...+++.    ..  .|. ...+..+...+...|+   .++|+..+++. ...|+....+..++.+|..
T Consensus       270 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~-~~~~~~~~~~~~la~~y~~  348 (378)
T 3q15_A          270 TLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK-NLHAYIEACARSAAAVFES  348 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC-CChhHHHHHHHHHHHHHHH
Confidence            888899999998888876    11  222 2344555555667777   77777777762 2233345567788999999


Q ss_pred             cCCchHHHHHHHHhhh
Q 005966          632 VRRWKDAENVRDVMDE  647 (667)
Q Consensus       632 ~g~~~~A~~~~~~~~~  647 (667)
                      .|++++|.+++++..+
T Consensus       349 ~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          349 SCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999888764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.25  E-value=5.4e-10  Score=103.84  Aligned_cols=176  Identities=8%  Similarity=0.018  Sum_probs=80.4

Q ss_pred             HHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          468 AHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       468 A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      |+..|++....+ ++..++..+..++...|++++|++++.+.+..+..+ +...+..++..+.+.|+.+.|.+.+++|.+
T Consensus        85 a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~  164 (310)
T 3mv2_B           85 NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTN  164 (310)
T ss_dssp             CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            344444444332 333333444555555555555555555554433211 223444455555555555555555555544


Q ss_pred             hcCCCC-----chhHHHHHHHH--Hh--hcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhcc-
Q 005966          546 NHQTCS-----RADHYTCIVDL--LG--RAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFEL-  614 (667)
Q Consensus       546 ~~~~~~-----~~~~~~~l~~~--~~--~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-  614 (667)
                      .   .|     +..+...++.+  ..  ..+++.+|..+|+++ ...|+...-..++.++.+.|++++|+..++.+.+. 
T Consensus       165 ~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          165 A---IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             H---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             c---CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence            1   23     12222223222  11  122555555555555 23333222222223455555555555555554443 


Q ss_pred             ---------CCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          615 ---------EPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       615 ---------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                               +|+|+.++..++.+....|+  +|.++++++.+.
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~  282 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKL  282 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHT
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHh
Confidence                     25555555555555555554  555555555544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.22  E-value=5.7e-10  Score=101.82  Aligned_cols=188  Identities=9%  Similarity=-0.030  Sum_probs=114.5

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc----chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH--HHHHHH
Q 005966          450 EVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI----VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE--VTFTSA  523 (667)
Q Consensus       450 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~l  523 (667)
                      ..+..+...+.+.|++++|...|+++....|+.    ..+..+..++.+.|++++|+..|+++.+..+....  ..+..+
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~~   84 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYMR   84 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHHH
Confidence            344555666677777777777777666544432    35566666777777777777777777664322111  133333


Q ss_pred             HHHHhc------------------cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCH
Q 005966          524 LHACSH------------------GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTH  585 (667)
Q Consensus       524 l~~~~~------------------~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~  585 (667)
                      ..++..                  .|++++|...|+++++..  |-+...+.......    .....+           .
T Consensus        85 g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--P~~~~a~~a~~~l~----~~~~~~-----------~  147 (225)
T 2yhc_A           85 GLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRGY--PNSQYTTDATKRLV----FLKDRL-----------A  147 (225)
T ss_dssp             HHHHHHHHC--------------CCHHHHHHHHHHHHHHTTC--TTCTTHHHHHHHHH----HHHHHH-----------H
T ss_pred             HHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHHC--cCChhHHHHHHHHH----HHHHHH-----------H
Confidence            344332                  345555555555555422  11111111111000    000000           0


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC---chHHHHHHHHhhcCCchHHHHHHHHhhhCCCccCC
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFELEPENP---GNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAP  654 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~  654 (667)
                      .....+...+.+.|+++.|+..++++++..|+++   .++..++.+|.+.|++++|++.++++...+.....
T Consensus       148 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~  219 (225)
T 2yhc_A          148 KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLE  219 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCC
T ss_pred             HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchh
Confidence            0113456678899999999999999999999976   57999999999999999999999999887765443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.21  E-value=1.3e-10  Score=110.85  Aligned_cols=190  Identities=11%  Similarity=-0.023  Sum_probs=123.7

Q ss_pred             HHHhcCCHHHHHHHHhhCCCCC-----C--CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CCC--HHHHHHHHH
Q 005966          458 IYSKCGSLESAHKIFSEIPIKD-----K--DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV---QPN--EVTFTSALH  525 (667)
Q Consensus       458 ~~~~~g~~~~A~~~~~~~~~~~-----~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~~ll~  525 (667)
                      .|...|++++|.+.|.+.....     +  ...+|+.+..+|...|++++|+..+++..+...   .+.  ..++..+..
T Consensus        46 ~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~  125 (292)
T 1qqe_A           46 IYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGE  125 (292)
T ss_dssp             HHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3455566666555555443221     1  134667777777778888888887777765311   111  246777888


Q ss_pred             HHhcc-CCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC---H-----HHHHHH
Q 005966          526 ACSHG-GLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT---H-----AVWGAL  591 (667)
Q Consensus       526 ~~~~~-g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~-----~~~~~l  591 (667)
                      .|... |++++|+..|++..+......+    ..++..++..+.+.|++++|+..+++. ...|+   .     ..+..+
T Consensus       126 ~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~l  205 (292)
T 1qqe_A          126 ILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKK  205 (292)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHH
Confidence            88885 9999999999888763211111    346778888999999999999998886 22332   1     156777


Q ss_pred             HHHHHhcCCHHHHHHHHHHhhccCCCCCch-----HHHHHHHHh--hcCCchHHHHHHHHhhh
Q 005966          592 LGACVIHGNVELGEVAAKWLFELEPENPGN-----YVLLSKLYS--AVRRWKDAENVRDVMDE  647 (667)
Q Consensus       592 ~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----~~~l~~~~~--~~g~~~~A~~~~~~~~~  647 (667)
                      +.++...|++++|+..+++++++.|+.+..     +..++..|.  ..+++++|+..++++.+
T Consensus       206 g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          206 GLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            778888999999999999999999886553     344555554  45678888888876654

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.21  E-value=9.4e-10  Score=109.48  Aligned_cols=231  Identities=8%  Similarity=0.012  Sum_probs=173.1

Q ss_pred             HHHHHHHhCCChHHHHHHHHHHHHCCC-CCC----HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhC--C---C-CCchHH
Q 005966          384 AILAGCVHNGLARKAVELFRQMLVEVV-EPN----DATLNSLLPAYAILADLQQAMNIHCYLIRYG--F---L-SVVEVS  452 (667)
Q Consensus       384 ~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~---~-~~~~~~  452 (667)
                      .....+...|++++|+..|++..+... .++    ..++..+...+...|+++.|...++...+..  .   . ....++
T Consensus       106 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  185 (378)
T 3q15_A          106 FRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSL  185 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHH
T ss_pred             HHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHH
Confidence            344556778889999998888765411 122    3466777788888999999998888776421  1   1 124567


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCC---CC----cchHHHHHHHHHHcCChHHHHHHHHHHHH-----cCCCCCHHHH
Q 005966          453 TGLIDIYSKCGSLESAHKIFSEIPIKD---KD----IVVWSVIIAGYGMHGHGETAVSLFKEMVQ-----SGVQPNEVTF  520 (667)
Q Consensus       453 ~~l~~~~~~~g~~~~A~~~~~~~~~~~---~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~  520 (667)
                      ..+..+|...|++++|.+.|++.....   ++    ..++..+...|...|++++|+..+++..+     .. +....++
T Consensus       186 ~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~  264 (378)
T 3q15_A          186 FVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVL  264 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHH
Confidence            788889999999999999887765421   12    34678888999999999999999999887     32 2235678


Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCC---CCchhHHHHHHHHHhhcCC---hHHHHHHHHhCCCCCCH-HHHHHHHH
Q 005966          521 TSALHACSHGGLLDEGLDLFNFMLENHQT---CSRADHYTCIVDLLGRAGR---LDEAYDLIRTMPLKPTH-AVWGALLG  593 (667)
Q Consensus       521 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~~-~~~~~l~~  593 (667)
                      ..+...+.+.|++++|...+++..+....   +.....+..+...+...|+   +++|+..+++....|+. ..+..+..
T Consensus       265 ~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~  344 (378)
T 3q15_A          265 FGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAA  344 (378)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            88999999999999999999999874332   2223456667777888888   99999999997654433 35677888


Q ss_pred             HHHhcCCHHHHHHHHHHhhccC
Q 005966          594 ACVIHGNVELGEVAAKWLFELE  615 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~  615 (667)
                      .|...|++++|...++++++..
T Consensus       345 ~y~~~g~~~~A~~~~~~al~~~  366 (378)
T 3q15_A          345 VFESSCHFEQAAAFYRKVLKAQ  366 (378)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHH
Confidence            8999999999999999987643

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.20  E-value=9.9e-11  Score=111.24  Aligned_cols=224  Identities=13%  Similarity=0.099  Sum_probs=155.4

Q ss_pred             hCcCCHHHHHHHHHHHHHh-------CCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCC--------CC-CcchHHHH
Q 005966          425 AILADLQQAMNIHCYLIRY-------GFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIK--------DK-DIVVWSVI  488 (667)
Q Consensus       425 ~~~~~~~~a~~~~~~~~~~-------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------~~-~~~~~~~l  488 (667)
                      ...|++++|...+++..+.       ..+....++..+...|...|++++|...++++...        .| ...++..+
T Consensus        12 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l   91 (283)
T 3edt_B           12 SGLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNL   91 (283)
T ss_dssp             -CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHH
Confidence            4567777777777766541       22335677888999999999999999998876543        12 34578888


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc-----C-CCCchhH
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQS------GVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENH-----Q-TCSRADH  555 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~------~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-----~-~~~~~~~  555 (667)
                      ...+...|++++|+..+++..+.      .-.|+ ..++..+...+...|++++|...++++.+..     . .+.....
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            89999999999999999998764      11232 3567888888999999999999999988731     1 2223567


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhCC----------CCC-CHHHHHHHHHHHHhcC------CHHHHHHHHHHhhccCCCC
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTMP----------LKP-THAVWGALLGACVIHG------NVELGEVAAKWLFELEPEN  618 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~~----------~~p-~~~~~~~l~~~~~~~g------~~~~A~~~~~~~~~~~p~~  618 (667)
                      +..++.+|...|++++|.+.++++-          ..+ ....+..+.......+      .+..+...++......|..
T Consensus       172 ~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  251 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTV  251 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHH
Confidence            8888999999999999999888761          122 2223443433333322      2344444444444455666


Q ss_pred             CchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          619 PGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       619 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      +.++..++.+|...|++++|.+++++..+.
T Consensus       252 ~~~~~~la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          252 NTTLRSLGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            778999999999999999999999998763

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.19  E-value=8.3e-10  Score=109.76  Aligned_cols=262  Identities=8%  Similarity=-0.099  Sum_probs=170.7

Q ss_pred             HHHHhcCCHHHHHHHHhccC----CCCcc----cHHHHHHHHHhCCChHHHHHHHHHHHHCCC-CCCH----HHHHHHHH
Q 005966          356 DMYAKCNLVKLSFQVFARTS----KKKTV----PWNAILAGCVHNGLARKAVELFRQMLVEVV-EPND----ATLNSLLP  422 (667)
Q Consensus       356 ~~~~~~g~~~~a~~~~~~~~----~~~~~----~~~~li~~~~~~~~~~~A~~~~~~m~~~g~-~p~~----~~~~~ll~  422 (667)
                      ..+...|++++|...+++..    ..+..    .++.+...+...|++++|...+++...... .++.    .++..+..
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            34455666666666655432    11111    244555667777888888888777654211 1111    23455666


Q ss_pred             HHhCcCCHHHHHHHHHHHHHh----CCC--C-CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC------CcchHHHHH
Q 005966          423 AYAILADLQQAMNIHCYLIRY----GFL--S-VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK------DIVVWSVII  489 (667)
Q Consensus       423 ~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~------~~~~~~~l~  489 (667)
                      .+...|++++|...++...+.    +.+  | ....+..+...+...|++++|...+++.....+      ...++..+.
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  181 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLI  181 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHH
Confidence            777888888888888876542    222  2 234556677888889999999988876543221      124567778


Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCH-HHHH-----HHHHHHhccCCHHHHHHHHHHhHHhcCCCCc--hhHHHHHHH
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNE-VTFT-----SALHACSHGGLLDEGLDLFNFMLENHQTCSR--ADHYTCIVD  561 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~-----~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~  561 (667)
                      ..+...|++++|...+++.......++. ..+.     ..+..+...|++++|...++.........+.  ...+..+..
T Consensus       182 ~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~  261 (373)
T 1hz4_A          182 QCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIAR  261 (373)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHH
Confidence            8889999999999999988764222221 1121     2334477899999999999988762211111  224667888


Q ss_pred             HHhhcCChHHHHHHHHhCC-------CCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          562 LLGRAGRLDEAYDLIRTMP-------LKPTH-AVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~~-------~~p~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+...|++++|...+++..       ..++. ..+..+..++...|+.++|...+++++.+.+.
T Consensus       262 ~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~~~~~  325 (373)
T 1hz4_A          262 AQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANR  325 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcc
Confidence            8999999999999888761       11122 25566677788999999999999999876654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.19  E-value=2.7e-10  Score=106.88  Aligned_cols=193  Identities=10%  Similarity=0.048  Sum_probs=133.4

Q ss_pred             CCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC----cchHHHHHHHHHHcCChHHHHHHHHHHHHcCC-CCC-HHHH
Q 005966          447 SVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD----IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV-QPN-EVTF  520 (667)
Q Consensus       447 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~-~~~~  520 (667)
                      .+...+..+...+.+.|++++|...|+++....|+    ...+..+..++.+.|++++|+..|++..+..+ .|. ...+
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            34555666677777888888888888877766554    35667777788888888888888888887532 122 2456


Q ss_pred             HHHHHHHhc--------cCCHHHHHHHHHHhHHhcCCCCchh-H--------------HHHHHHHHhhcCChHHHHHHHH
Q 005966          521 TSALHACSH--------GGLLDEGLDLFNFMLENHQTCSRAD-H--------------YTCIVDLLGRAGRLDEAYDLIR  577 (667)
Q Consensus       521 ~~ll~~~~~--------~g~~~~A~~~~~~~~~~~~~~~~~~-~--------------~~~l~~~~~~~g~~~~A~~~~~  577 (667)
                      ..+..++..        .|++++|...|+++++.....+... .              +..++..|.+.|++++|+..|+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  172 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTYE  172 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHH
Confidence            666667777        8888888888888877433222221 1              1456788888999999998888


Q ss_pred             hC-CCCCC----HHHHHHHHHHHHhc----------CCHHHHHHHHHHhhccCCCCCc---hHHHHHHHHhhcCCchHHH
Q 005966          578 TM-PLKPT----HAVWGALLGACVIH----------GNVELGEVAAKWLFELEPENPG---NYVLLSKLYSAVRRWKDAE  639 (667)
Q Consensus       578 ~~-~~~p~----~~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~p~~~~---~~~~l~~~~~~~g~~~~A~  639 (667)
                      ++ ...|+    ...+..++.++...          |++++|+..++++++..|+++.   +...+..++...|+++++.
T Consensus       173 ~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~l~~~~~~~~~~~~~~  252 (261)
T 3qky_A          173 AVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPLLRTAEELYTRARQRLTELEGDA  252 (261)
T ss_dssp             HHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHHHHHHHHHTCT
T ss_pred             HHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHHHHhhhhh
Confidence            86 33333    34677777777755          8889999999999999998764   4445566666655554443

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.18  E-value=1.6e-11  Score=103.81  Aligned_cols=140  Identities=11%  Similarity=-0.009  Sum_probs=102.4

Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCCh
Q 005966          491 GYGMHGHGETAVSLFKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL  569 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  569 (667)
                      .+...|++++|+..+++....  .|+ ...+..+...|.+.|++++|++.|+++++  ..|.+...|..++.+|.+.|++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~~   81 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN--VQERDPKAHRFLGLLYELEENT   81 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCch
Confidence            344556677777777766543  232 23455677777888888888888888777  2334566778888888888888


Q ss_pred             HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH-HHHHhhccCCCCCchHHHHHHHHhhcCC
Q 005966          570 DEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEV-AAKWLFELEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       570 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      ++|+..|++. ...| ++..+..+...+.+.|++++|.. .++++++++|+++.++...+.++...|+
T Consensus        82 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           82 DKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCc
Confidence            8888888776 4555 56788888888888888766554 4688999999999999888888888875

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.16  E-value=3.6e-10  Score=107.73  Aligned_cols=225  Identities=9%  Similarity=-0.050  Sum_probs=136.7

Q ss_pred             CHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHC----CCCCC-HHHHHHHHHHHhCcCCHHHHHHHH
Q 005966          363 LVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVE----VVEPN-DATLNSLLPAYAILADLQQAMNIH  437 (667)
Q Consensus       363 ~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~----g~~p~-~~~~~~ll~~~~~~~~~~~a~~~~  437 (667)
                      ++++|...|.+           ....|...|++++|++.|.+..+.    |-.++ ..+|..+...|...|++++|...+
T Consensus        32 ~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~  100 (292)
T 1qqe_A           32 KFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSL  100 (292)
T ss_dssp             HHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            36666665443           355566667777776666655432    11111 234444444444455555554444


Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHc-CChHHHHHHHHHHHHcCCCC-
Q 005966          438 CYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMH-GHGETAVSLFKEMVQSGVQP-  515 (667)
Q Consensus       438 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~~~~p-  515 (667)
                      +...+.               +...|+...+             ..+++.+...|... |++++|+..|++..+..... 
T Consensus       101 ~~Al~l---------------~~~~g~~~~~-------------a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~  152 (292)
T 1qqe_A          101 ENAIQI---------------FTHRGQFRRG-------------ANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQ  152 (292)
T ss_dssp             HHHHHH---------------HHHTTCHHHH-------------HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHH---------------HHHcCCHHHH-------------HHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCC
Confidence            443321               1111111111             23567777888885 99999999998887642111 


Q ss_pred             C----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCch-----hHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCH
Q 005966          516 N----EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRA-----DHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTH  585 (667)
Q Consensus       516 ~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~  585 (667)
                      +    ..++..+...+...|++++|+..|+++.+.....+..     ..|..++.++...|++++|+..+++. ...|+.
T Consensus       153 ~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~  232 (292)
T 1qqe_A          153 SVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNF  232 (292)
T ss_dssp             CHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC----
T ss_pred             ChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCC
Confidence            1    2467788888999999999999999998743222222     15677888899999999999999987 455543


Q ss_pred             H------HHHHHHHHHH--hcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          586 A------VWGALLGACV--IHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       586 ~------~~~~l~~~~~--~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      .      .+..++.++.  ..+++++|+..++++..++|.+...+..+-
T Consensus       233 ~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l~~~~~~~~~~~k  281 (292)
T 1qqe_A          233 ADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRLDKWKITILNKIK  281 (292)
T ss_dssp             -----HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCCCHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCccHHHHHHHHHHHH
Confidence            2      2444555554  356799999999998888887544444433

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.15  E-value=4e-09  Score=98.01  Aligned_cols=244  Identities=9%  Similarity=-0.016  Sum_probs=167.5

Q ss_pred             HHhcCCHHHHHHHHhccCCCCccc-HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHH
Q 005966          358 YAKCNLVKLSFQVFARTSKKKTVP-WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNI  436 (667)
Q Consensus       358 ~~~~g~~~~a~~~~~~~~~~~~~~-~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~  436 (667)
                      ..-.|.+..++.-...+.+.+... -.-+.+++...|++...         ..-.|....+..+...+ ..+    +...
T Consensus        23 ~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~~   88 (310)
T 3mv2_B           23 NYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIEE   88 (310)
T ss_dssp             HHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCHH
T ss_pred             HHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHHH
Confidence            344677777777555554433333 22234667777766531         12234443444443333 322    5666


Q ss_pred             HHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC---CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCC
Q 005966          437 HCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK---DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV  513 (667)
Q Consensus       437 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~  513 (667)
                      +++..+.+ +++......+..++...|++++|++++.+....+|   +...+..++..+.+.|+.+.|.+.+++|.+.  
T Consensus        89 l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~--  165 (310)
T 3mv2_B           89 LENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA--  165 (310)
T ss_dssp             HHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--
T ss_pred             HHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--
Confidence            77666555 45556666888999999999999999998866554   4567788899999999999999999999885  


Q ss_pred             CC-----CHHHHHHHHHHH--hc--cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC--
Q 005966          514 QP-----NEVTFTSALHAC--SH--GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL--  581 (667)
Q Consensus       514 ~p-----~~~~~~~ll~~~--~~--~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~--  581 (667)
                      .|     +..+...+..++  ..  .+++++|..+|+++.+.   .|+......+..++.+.|++++|.+.++.+ ..  
T Consensus       166 ~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p  242 (310)
T 3mv2_B          166 IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYY  242 (310)
T ss_dssp             SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHH
T ss_pred             CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhcc
Confidence            56     355666666553  33  34999999999998762   254223334445899999999999999865 21  


Q ss_pred             --------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          582 --------KP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       582 --------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                              .| ++.++..++......|+  .|.+.++++.+..|++|.+..
T Consensus       243 ~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp~i~d  291 (310)
T 3mv2_B          243 SVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHAFIKH  291 (310)
T ss_dssp             HTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCHHHHH
T ss_pred             cccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCChHHHH
Confidence                    24 56677667666666787  889999999999999876655

>4gyw_A UDP-N-acetylglucosamine--peptide N- acetylglucosaminyltransferase 110 kDa subunit...; GT-B, glycosyltransferase, glcnacylation, transferase-peptid; HET: UDP NAG; 1.70A {Homo sapiens} PDB: 3pe3_A* 3pe4_A* 4ay5_A* 4ay6_A* 3tax_A* 4gyy_A* 4gz3_A* 4gz5_A* 4gz6_A*

Probab=99.15  E-value=3e-10  Score=120.92  Aligned_cols=161  Identities=10%  Similarity=0.007  Sum_probs=128.0

Q ss_pred             CCCChhHHHHHHHHhhccCChhhHhHHHHHHHHhCCCc-hhhhh--hHhhhcCChhhHHHhhcccC---CCCcchHHHHH
Q 005966            9 LPKTTHLVIKLVQQYAATKSIAGTKQLHAFIITSGPLF-THLRS--SLVRAYGHVSNVRILFDEMS---ERSSFLYNTVM   82 (667)
Q Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~--~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~l~   82 (667)
                      -|.+..++.++...+...|++++|...|+++++..|.+ ....+  .+|.+.|++++|+..|++..   ..+..+|..+.
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~~~~a~~nLg   84 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTFADAYSNMG   84 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHH
Confidence            37888999999999999999999999999999999988 33333  78888888888888888753   23566888888


Q ss_pred             HHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCH
Q 005966           83 KMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEV  162 (667)
Q Consensus        83 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  162 (667)
                      .++.+.|++++|++.|++.++.  .+-+..+|..+..++...|++++|+..|+++++.. +-+...+..+..+|...|++
T Consensus        85 ~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~-P~~~~a~~~L~~~l~~~g~~  161 (723)
T 4gyw_A           85 NTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIASYRTALKLK-PDFPDAYCNLAHCLQIVCDW  161 (723)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCC
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHhhhhhHHHhcccH
Confidence            8888888888888888888876  34456778888888888888888888888888876 45667777788888888888


Q ss_pred             HHHHHHhccc
Q 005966          163 KAARKVFDAM  172 (667)
Q Consensus       163 ~~A~~~~~~~  172 (667)
                      ++|.+.+++.
T Consensus       162 ~~A~~~~~ka  171 (723)
T 4gyw_A          162 TDYDERMKKL  171 (723)
T ss_dssp             TTHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8777766543

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=99.14  E-value=2e-10  Score=123.08  Aligned_cols=148  Identities=11%  Similarity=-0.072  Sum_probs=76.1

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      ...|..+..++...|++++|+..|++..+.. +-+...|..+..++...|++++|...|+++.+.  .+.+...+..+..
T Consensus       433 ~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~  509 (681)
T 2pzi_A          433 VELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGDYDSATKHFTEVLDT--FPGELAPKLALAA  509 (681)
T ss_dssp             SHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCSHHHHHHHH
T ss_pred             hhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHH
Confidence            3445555555555555555555555555532 113344555555555555555555555555542  2223444555555


Q ss_pred             HHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          562 LLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      +|.+.|++++ ++.|+++ ...| +...+..+..++...|++++|+..++++++++|+++.++..++.+|...|
T Consensus       510 ~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          510 TAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTLDEVPPTSRHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHTSCTTSTTHHHHHHHHHHHTC---
T ss_pred             HHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHHHhhcccCcccHHHHHHHHHHHHccC
Confidence            5555555555 5555554 2233 34455555555555555555555555555555555555555555554433

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.14  E-value=7.6e-10  Score=91.53  Aligned_cols=128  Identities=17%  Similarity=0.182  Sum_probs=80.2

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHh
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVI  597 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~  597 (667)
                      +..+...+...|++++|..+++++.+.  .+.+...+..++..+...|++++|...++++ . .+.+...+..++..+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            334444455555555555555555441  1223444555555555555555555555554 1 22245566666777777


Q ss_pred             cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          598 HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .|++++|...++++++..|+++..+..++.+|...|++++|...++++.+..
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~  133 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD  133 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHS
T ss_pred             hcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccC
Confidence            7788888888888877777777777788888888888888888887776543

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.12  E-value=8.6e-10  Score=103.37  Aligned_cols=169  Identities=12%  Similarity=0.014  Sum_probs=138.9

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC---HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhH
Q 005966          480 KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPN---EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADH  555 (667)
Q Consensus       480 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~  555 (667)
                      .+...+..+...+.+.|++++|+..|+++.+.... +   ...+..+..+|...|++++|...|+++.+.....|. ...
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            34567777888899999999999999999986422 2   467888889999999999999999999985443333 456


Q ss_pred             HHHHHHHHhh--------cCChHHHHHHHHhC-CCCCC-HHHH-----------------HHHHHHHHhcCCHHHHHHHH
Q 005966          556 YTCIVDLLGR--------AGRLDEAYDLIRTM-PLKPT-HAVW-----------------GALLGACVIHGNVELGEVAA  608 (667)
Q Consensus       556 ~~~l~~~~~~--------~g~~~~A~~~~~~~-~~~p~-~~~~-----------------~~l~~~~~~~g~~~~A~~~~  608 (667)
                      +..++.++..        .|++++|+..|+++ ...|+ ....                 ..++..+...|++++|+..+
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~  171 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRYPNHELVDDATQKIRELRAKLARKQYEAARLYERRELYEAAAVTY  171 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHCTTCTTHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHCcCchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHH
Confidence            7778888988        99999999999987 33343 2233                 56678899999999999999


Q ss_pred             HHhhccCCCCC---chHHHHHHHHhhc----------CCchHHHHHHHHhhhCC
Q 005966          609 KWLFELEPENP---GNYVLLSKLYSAV----------RRWKDAENVRDVMDEKG  649 (667)
Q Consensus       609 ~~~~~~~p~~~---~~~~~l~~~~~~~----------g~~~~A~~~~~~~~~~~  649 (667)
                      +++++..|+++   .++..++.+|...          |++++|+..++++.+..
T Consensus       172 ~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          172 EAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            99999999854   4888999999977          89999999999998765

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.09  E-value=8.8e-11  Score=99.19  Aligned_cols=125  Identities=10%  Similarity=-0.063  Sum_probs=104.1

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC
Q 005966          523 ALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGN  600 (667)
Q Consensus       523 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  600 (667)
                      |...+...|++++|+..++....  ..+.+...+..+..+|.+.|++++|++.|++. ...| +..+|..+..++...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCc
Confidence            44556778899999999998865  22223445667899999999999999999997 4555 77899999999999999


Q ss_pred             HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHH-HHHhhhCC
Q 005966          601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENV-RDVMDEKG  649 (667)
Q Consensus       601 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~-~~~~~~~~  649 (667)
                      +++|+..++++++++|+++.++..++.+|.+.|++++|.+. +++..+..
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~  130 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLF  130 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHS
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999887765 58887754

>3edt_B KLC 2, kinesin light chain 2; superhelical, structural genomics, structural genomics conso SGC, microtubule, motor protein, phosphoprotein; 2.70A {Homo sapiens} PDB: 3ceq_A

Probab=99.08  E-value=1.7e-09  Score=102.60  Aligned_cols=202  Identities=12%  Similarity=0.066  Sum_probs=126.6

Q ss_pred             HHHHHHHHHHHhCcCCHHHHHHHHHHHHHh------CC-CCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCC--------
Q 005966          414 DATLNSLLPAYAILADLQQAMNIHCYLIRY------GF-LSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIK--------  478 (667)
Q Consensus       414 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--------  478 (667)
                      ..++..+...+...|++++|...++...+.      +- +.....+..+...|...|++++|.+.+++....        
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  122 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKF  122 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCCC
Confidence            345555666666666666666666665543      11 223456666777777777777777777665443        


Q ss_pred             CC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHc------CCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---
Q 005966          479 DK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQS------GVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENH---  547 (667)
Q Consensus       479 ~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---  547 (667)
                      .| ...++..+...+...|++++|...+++..+.      +-.|+ ..++..+...|...|++++|...++++.+..   
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~  202 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHEK  202 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHh
Confidence            12 2456777888888888888888888888764      11232 3567888888999999999999999887631   


Q ss_pred             ---C-CCCchhHHHHHHHHHhhcC------ChHHHHHHHHhCC-CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC
Q 005966          548 ---Q-TCSRADHYTCIVDLLGRAG------RLDEAYDLIRTMP-LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELE  615 (667)
Q Consensus       548 ---~-~~~~~~~~~~l~~~~~~~g------~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  615 (667)
                         . .+.....+..+...+...+      .+.++...++... ..| ...++..+...+...|++++|...++++++..
T Consensus       203 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  282 (283)
T 3edt_B          203 EFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRSLGALYRRQGKLEAAHTLEDCASRNR  282 (283)
T ss_dssp             HSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence               1 1122334444444444333      3444555555553 223 34478888999999999999999999998753

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=99.07  E-value=8.9e-10  Score=96.09  Aligned_cols=160  Identities=9%  Similarity=-0.037  Sum_probs=114.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHH-
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDL-  562 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-  562 (667)
                      .+..+...+...|++++|+..|++..+.. +.+...+..+...+...|++++|...++++.+...   +...+..+... 
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~p---~~~~~~~~~~~~   83 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEYQ---DNSYKSLIAKLE   83 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGGC---CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhccC---ChHHHHHHHHHH
Confidence            44555666777777777777777766643 22455677777777778888888888877765322   33323222212 


Q ss_pred             HhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC--CchHHHHHHHHhhcCCchHH
Q 005966          563 LGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPEN--PGNYVLLSKLYSAVRRWKDA  638 (667)
Q Consensus       563 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~~~~g~~~~A  638 (667)
                      +...+...+|+..+++. ...| +...+..+...+...|++++|+..++++++.+|+.  +.++..++.+|...|+.++|
T Consensus        84 ~~~~~~~~~a~~~~~~al~~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           84 LHQQAAESPELKRLEQELAANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             HHhhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            12222333467777765 4455 57888999999999999999999999999999875  55899999999999999999


Q ss_pred             HHHHHHhhh
Q 005966          639 ENVRDVMDE  647 (667)
Q Consensus       639 ~~~~~~~~~  647 (667)
                      ...+++...
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999988754

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.07  E-value=6.8e-09  Score=93.45  Aligned_cols=173  Identities=9%  Similarity=-0.049  Sum_probs=140.0

Q ss_pred             HHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC----CHHHHHHHHHHh
Q 005966          468 AHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGG----LLDEGLDLFNFM  543 (667)
Q Consensus       468 A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g----~~~~A~~~~~~~  543 (667)
                      |.+.|++..+. .++..+..+...|...+++++|+..|++..+.|   +...+..|...|.. +    ++++|..+|++.
T Consensus         5 A~~~~~~aa~~-g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A   79 (212)
T 3rjv_A            5 PGSQYQQQAEA-GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKA   79 (212)
T ss_dssp             TTHHHHHHHHT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHC-CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHH
Confidence            34444444433 466777788888888899999999999998865   56677777777877 6    899999999999


Q ss_pred             HHhcCCCCchhHHHHHHHHHhh----cCChHHHHHHHHhCC-CCCC---HHHHHHHHHHHHh----cCCHHHHHHHHHHh
Q 005966          544 LENHQTCSRADHYTCIVDLLGR----AGRLDEAYDLIRTMP-LKPT---HAVWGALLGACVI----HGNVELGEVAAKWL  611 (667)
Q Consensus       544 ~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~-~~p~---~~~~~~l~~~~~~----~g~~~~A~~~~~~~  611 (667)
                      .+ .   -+...+..|..+|..    .+++++|++.|++.- ..|.   +..+..|...|..    .++.++|+..++++
T Consensus        80 ~~-~---g~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A  155 (212)
T 3rjv_A           80 VE-A---GSKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGS  155 (212)
T ss_dssp             HH-T---TCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHH
T ss_pred             HH-C---CCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHH
Confidence            77 2   245567788888887    889999999999874 4443   7888899999888    78999999999999


Q ss_pred             hccCCCCCchHHHHHHHHhhc-C-----CchHHHHHHHHhhhCCC
Q 005966          612 FELEPENPGNYVLLSKLYSAV-R-----RWKDAENVRDVMDEKGL  650 (667)
Q Consensus       612 ~~~~p~~~~~~~~l~~~~~~~-g-----~~~~A~~~~~~~~~~~~  650 (667)
                      .+. |.++.++..|+.+|... |     ++++|...+++..+.|.
T Consensus       156 ~~~-~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~  199 (212)
T 3rjv_A          156 SSL-SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGF  199 (212)
T ss_dssp             HHT-SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTC
T ss_pred             HHc-CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCC
Confidence            998 67788999999999764 3     89999999999988774

>2fo7_A Synthetic consensus TPR protein; tetratricopeptide repeat, consensus protein, superhelix, de novo protein; 2.30A {Synthetic} SCOP: k.38.1.1 PDB: 2hyz_A

Probab=99.06  E-value=5.5e-09  Score=86.21  Aligned_cols=131  Identities=17%  Similarity=0.236  Sum_probs=107.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL  563 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  563 (667)
                      .|..+...+...|++++|..+++++.+.+ +.+...+..+...+...|++++|..+++++.+.  .+.+...+..++..+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHH--CCCchHHHHHHHHHH
Confidence            56777888888899999999999988764 335667788888888899999999999998873  334566788888899


Q ss_pred             hhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          564 GRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       564 ~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ...|++++|.+.++++ . .+.+...+..++..+...|++++|...++++++..|+
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            9999999999999887 3 3336778888888999999999999999999988886

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.06  E-value=2.8e-09  Score=101.09  Aligned_cols=176  Identities=7%  Similarity=-0.096  Sum_probs=140.6

Q ss_pred             HHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          466 ESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       466 ~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      +.....+.....  .+...+..+...+.+.|++++|...|++..+.. +-+...+..+...+...|++++|...++++..
T Consensus       103 ~~l~~~l~~~lp--~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~  179 (287)
T 3qou_A          103 EAIRALLDXVLP--REEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPL  179 (287)
T ss_dssp             HHHHHHHHHHSC--CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCG
T ss_pred             HHHHHHHHHHcC--CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCch
Confidence            344444544432  345567778888899999999999999999864 23566888899999999999999999999876


Q ss_pred             hcCCCCchhHHH-HHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC--Cc
Q 005966          546 NHQTCSRADHYT-CIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPEN--PG  620 (667)
Q Consensus       546 ~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~--~~  620 (667)
                      ..   |+..... .....+...++.++|+..+++. ...| +...+..+...+...|++++|+..++++++.+|++  +.
T Consensus       180 ~~---p~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~  256 (287)
T 3qou_A          180 QD---QDTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQ  256 (287)
T ss_dssp             GG---CSHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGH
T ss_pred             hh---cchHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccch
Confidence            32   4443322 2333466788888899888886 4445 67889999999999999999999999999999998  88


Q ss_pred             hHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          621 NYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ++..++.+|...|+.++|...+++...
T Consensus       257 a~~~l~~~~~~~g~~~~a~~~~r~al~  283 (287)
T 3qou_A          257 TRXTFQEILAALGTGDALASXYRRQLY  283 (287)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCcHHHHHHHHHH
Confidence            999999999999999999999988653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.05  E-value=2.1e-09  Score=96.55  Aligned_cols=127  Identities=10%  Similarity=0.051  Sum_probs=98.4

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA  566 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  566 (667)
                      .+..++.+.|++++|+..|++.++.. +-+...+..+..++...|++++|...|+++++.  .|.+...+..++.+|...
T Consensus        59 ~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           59 ELALAYKKNRNYDKAYLFYKELLQKA-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHH
Confidence            38888999999999999999999874 235678888999999999999999999999883  345677788888888665


Q ss_pred             CC--hHHHHHHHHhCCCCCCH--HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          567 GR--LDEAYDLIRTMPLKPTH--AVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       567 g~--~~~A~~~~~~~~~~p~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      |.  .+.+...+++.. .|++  ..+.....++...|++++|+..+++++++.|+
T Consensus       136 ~~~~~~~~~~~~~~~~-~~~~~~~a~~~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          136 AEQEKKKLETDYKKLS-SPTKMQYARYRDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             hHHHHHHHHHHHHHHh-CCCchhHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            54  445566666653 3443  34555666777889999999999999999997

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=99.03  E-value=1.9e-09  Score=113.62  Aligned_cols=162  Identities=9%  Similarity=-0.024  Sum_probs=124.6

Q ss_pred             cCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLF  540 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~  540 (667)
                      .|++++|.+.|++..+..|+ ...|..+...+...|++++|.+.+++..+.. +.+...+..+..+|...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHRPQDFVAWLMLADAELGMGDTTAGEMAVQRGLALH-PGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             -------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTS-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            47889999999998887654 6788999999999999999999999999864 235678888999999999999999999


Q ss_pred             HHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---CCHHHHHHHHHHhhccC
Q 005966          541 NFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIH---GNVELGEVAAKWLFELE  615 (667)
Q Consensus       541 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~~~~A~~~~~~~~~~~  615 (667)
                      ++..+.  .+.+...+..+..+|.+.|++++|.+.+++. ...| +...+..+...+...   |+.++|...++++++.+
T Consensus        81 ~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASDA--APEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            999883  3455778899999999999999999999987 4444 677888999999999   99999999999999999


Q ss_pred             CCCCchHHHHH
Q 005966          616 PENPGNYVLLS  626 (667)
Q Consensus       616 p~~~~~~~~l~  626 (667)
                      |++...+..++
T Consensus       159 p~~~~~~~~l~  169 (568)
T 2vsy_A          159 VGAVEPFAFLS  169 (568)
T ss_dssp             CCCSCHHHHTT
T ss_pred             CcccChHHHhC
Confidence            99888888777

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.03  E-value=6.5e-10  Score=93.17  Aligned_cols=98  Identities=11%  Similarity=0.005  Sum_probs=84.9

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                      +...+..+...+.+.|++++|+..|+++ ...| ++..|..+..++...|++++|+..++++++++|+++.++..++.+|
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            3556777888888899999999998887 4455 6778889999999999999999999999999999999999999999


Q ss_pred             hhcCCchHHHHHHHHhhhCC
Q 005966          630 SAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ...|++++|++.|++..+..
T Consensus       115 ~~lg~~~eA~~~~~~al~l~  134 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHS  134 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHcCCHHHHHHHHHHHHHhC
Confidence            99999999999999988765

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.01  E-value=1.9e-09  Score=96.86  Aligned_cols=159  Identities=13%  Similarity=0.018  Sum_probs=120.9

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCC-HHHHHH----------------HHHHHhccCCHHHHHHHHHHhHHhcCC
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPN-EVTFTS----------------ALHACSHGGLLDEGLDLFNFMLENHQT  549 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~----------------ll~~~~~~g~~~~A~~~~~~~~~~~~~  549 (667)
                      .....+...|++++|+..|++..+.  .|+ ...|..                +..++.+.|++++|+..|+++++.  .
T Consensus         9 ~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~   84 (208)
T 3urz_A            9 QKVSAAIEAGQNGQAVSYFRQTIAL--NIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK--A   84 (208)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--C
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--C
Confidence            3445566778888888888877775  343 334555                888899999999999999999983  4


Q ss_pred             CCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC--HHHHHHHHHHhhccCCCCCchHHHH
Q 005966          550 CSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGN--VELGEVAAKWLFELEPENPGNYVLL  625 (667)
Q Consensus       550 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~~~~p~~~~~~~~l  625 (667)
                      |.+...+..++.++...|++++|+..|+++ ...| +...+..+...+...|+  .+.+...++++....|. ...++.+
T Consensus        85 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~a~~~~  163 (208)
T 3urz_A           85 PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKM-QYARYRD  163 (208)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHH-HHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCch-hHHHHHH
Confidence            456788999999999999999999999997 4555 67788888888766554  55667777776654333 2356778


Q ss_pred             HHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          626 SKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      +.++...|++++|+..|++..+..+
T Consensus       164 g~~~~~~~~~~~A~~~~~~al~l~P  188 (208)
T 3urz_A          164 GLSKLFTTRYEKARNSLQKVILRFP  188 (208)
T ss_dssp             HHHHHHHHTHHHHHHHHHHHTTTSC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHhCC
Confidence            8889999999999999999987654

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.99  E-value=4e-08  Score=92.48  Aligned_cols=181  Identities=14%  Similarity=0.220  Sum_probs=112.0

Q ss_pred             CHHHHHHHHhhCCCCCC-CcchHHHHHHHH----HHc---CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH-
Q 005966          464 SLESAHKIFSEIPIKDK-DIVVWSVIIAGY----GMH---GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLD-  534 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~----~~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~-  534 (667)
                      ++++++++++.+....| +..+|+.-...+    ...   +++++++.+++++.+... -|..+|..-...+.+.|.++ 
T Consensus        84 ~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~~~~~EL~~~~~~l~~~p-kny~aW~~R~~vl~~l~~~~~  162 (306)
T 3dra_A           84 NLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDFDPYREFDILEAMLSSDP-KNHHVWSYRKWLVDTFDLHND  162 (306)
T ss_dssp             CHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCCCTHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTC
T ss_pred             cHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhcccCh
Confidence            55555555555444333 334454433333    333   567777777777777542 25566666555566666666 


Q ss_pred             -HHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC------hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCC-HHHH
Q 005966          535 -EGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR------LDEAYDLIRTM-PLKP-THAVWGALLGACVIHGN-VELG  604 (667)
Q Consensus       535 -~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~-~~~A  604 (667)
                       ++++.++++++  ..+.|...|+....++.+.|+      ++++++.++++ ...| |...|+.+...+.+.|+ .+..
T Consensus       163 ~~EL~~~~~~i~--~d~~N~sAW~~R~~ll~~l~~~~~~~~~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~  240 (306)
T 3dra_A          163 AKELSFVDKVID--TDLKNNSAWSHRFFLLFSKKHLATDNTIDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQL  240 (306)
T ss_dssp             HHHHHHHHHHHH--HCTTCHHHHHHHHHHHHSSGGGCCHHHHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGG
T ss_pred             HHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccccchhhhHHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHH
Confidence             77777777776  233455566666666666555      67777777665 3334 66677777777666665 4445


Q ss_pred             HHHHHHhhccC---CCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          605 EVAAKWLFELE---PENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       605 ~~~~~~~~~~~---p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ..+.+++++++   |.++.++..++.+|.+.|+.++|++.++.+.+
T Consensus       241 ~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~~l~~  286 (306)
T 3dra_A          241 EEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHHHHh
Confidence            56666666665   66677777777777777777777777777765

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.97  E-value=4.3e-09  Score=85.48  Aligned_cols=108  Identities=12%  Similarity=0.005  Sum_probs=66.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACV  596 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  596 (667)
                      .+......|.+.|++++|+..|+++++  ..+.+...|..++.+|.+.|++++|++.+++. ...| +...|..++.++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVK--RDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            455555566666666666666666665  22334555666666666666666666666655 3333 4556666666666


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHHHH
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKL  628 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  628 (667)
                      ..|++++|+..++++++++|+++.++..|+.+
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~~~~a~~~l~~~  124 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPSNEEAREGVRNC  124 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcCCHHHHHHHHHh
Confidence            66666667777777666666666666665554

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.95  E-value=7.7e-09  Score=99.31  Aligned_cols=220  Identities=12%  Similarity=0.025  Sum_probs=145.4

Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHH
Q 005966          392 NGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAI-LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHK  470 (667)
Q Consensus       392 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  470 (667)
                      .|++++|.+++++..+... ..          +.. .++++.|...|...               ...|...|++++|.+
T Consensus         4 ~~~~~eA~~~~~~a~k~~~-~~----------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~   57 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLK-TS----------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKD   57 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHC-CC----------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcc-cc----------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHH
Confidence            4566777777776554211 10          111 45666666665543               345666677777777


Q ss_pred             HHhhCCCCC---CC----cchHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CCC--HHHHHHHHHHHhccCCHHHHHH
Q 005966          471 IFSEIPIKD---KD----IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV---QPN--EVTFTSALHACSHGGLLDEGLD  538 (667)
Q Consensus       471 ~~~~~~~~~---~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~~ll~~~~~~g~~~~A~~  538 (667)
                      .|.+.....   .+    ..+|+.+...|...|++++|+..|++..+.-.   .|.  ..++..+...|.. |++++|+.
T Consensus        58 ~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           58 AYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            666543321   11    34677788888888999999998888765311   122  2467778888888 99999999


Q ss_pred             HHHHhHHhcCCCC----chhHHHHHHHHHhhcCChHHHHHHHHhCC-C---CCC----HHHHHHHHHHHHhcCCHHHHHH
Q 005966          539 LFNFMLENHQTCS----RADHYTCIVDLLGRAGRLDEAYDLIRTMP-L---KPT----HAVWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       539 ~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~---~p~----~~~~~~l~~~~~~~g~~~~A~~  606 (667)
                      .|++..+......    ...++..+..+|.+.|++++|++.+++.- .   .++    ...+..++.++...|++++|..
T Consensus       137 ~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~  216 (307)
T 2ifu_A          137 LYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQK  216 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            9998876321111    14567788999999999999999998861 1   122    2256666677778899999999


Q ss_pred             HHHHhhccCCCCCch-----HHHHHHHHhhcCCchHHHH
Q 005966          607 AAKWLFELEPENPGN-----YVLLSKLYSAVRRWKDAEN  640 (667)
Q Consensus       607 ~~~~~~~~~p~~~~~-----~~~l~~~~~~~g~~~~A~~  640 (667)
                      .+++++ +.|+....     ...++..+ ..|+.+++.+
T Consensus       217 ~~~~al-~~p~~~~~~e~~~l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          217 CVRESY-SIPGFSGSEDCAALEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHT-TSTTSTTSHHHHHHHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHh-CCCCCCCCHHHHHHHHHHHHH-HhcCHHHHHH
Confidence            999999 98876543     33455555 5677666655

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.95  E-value=3.5e-09  Score=86.05  Aligned_cols=101  Identities=10%  Similarity=0.039  Sum_probs=91.1

Q ss_pred             CCc-hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          550 CSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       550 ~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      .|+ ...+...+..|.+.|++++|++.|++. ...| +...|..+..++...|++++|+..++++++++|+++.+|..++
T Consensus         9 nP~~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg   88 (126)
T 4gco_A            9 NPELAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKA   88 (126)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHH
Confidence            344 456788899999999999999999987 4455 7889999999999999999999999999999999999999999


Q ss_pred             HHHhhcCCchHHHHHHHHhhhCCC
Q 005966          627 KLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .+|...|++++|++.|++..+..+
T Consensus        89 ~~~~~~~~~~~A~~~~~~al~l~P  112 (126)
T 4gco_A           89 ACLVAMREWSKAQRAYEDALQVDP  112 (126)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHCCCHHHHHHHHHHHHHHCc
Confidence            999999999999999999987653

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.95  E-value=1.4e-08  Score=92.47  Aligned_cols=187  Identities=14%  Similarity=0.008  Sum_probs=135.7

Q ss_pred             HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCC--CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcc----hHHH
Q 005966          414 DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLS--VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIV----VWSV  487 (667)
Q Consensus       414 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~----~~~~  487 (667)
                      ...+..+...+...|++++|...|+.+.+.....  ....+..+..+|.+.|++++|+..|+++....|+..    .+..
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~~   83 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMYM   83 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHHH
Confidence            3455566777889999999999999998865322  235778889999999999999999999887666543    4555


Q ss_pred             HHHHHHH------------------cCChHHHHHHHHHHHHcCCCCCHH-HHHHHHHHHhccCCHHHHHHHHHHhHHhcC
Q 005966          488 IIAGYGM------------------HGHGETAVSLFKEMVQSGVQPNEV-TFTSALHACSHGGLLDEGLDLFNFMLENHQ  548 (667)
Q Consensus       488 l~~~~~~------------------~~~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  548 (667)
                      +..++..                  .|++++|+..|+++++.  .|+.. .+.....          ...+.....    
T Consensus        84 ~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----------l~~~~~~~~----  147 (225)
T 2yhc_A           84 RGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----------LVFLKDRLA----  147 (225)
T ss_dssp             HHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----------HHHHHHHHH----
T ss_pred             HHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----------HHHHHHHHH----
Confidence            5555554                  57899999999999986  45542 2221111          001111111    


Q ss_pred             CCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCch
Q 005966          549 TCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGN  621 (667)
Q Consensus       549 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  621 (667)
                           .....++..|.+.|++++|+..|+++ ...|+    ...+..+..++.+.|+.++|+..++++....|++...
T Consensus       148 -----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~~~~  220 (225)
T 2yhc_A          148 -----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNTLEH  220 (225)
T ss_dssp             -----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCCCCC
T ss_pred             -----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCchhh
Confidence                 12235678889999999999999987 34443    2468888999999999999999999999999986554

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.95  E-value=1e-08  Score=92.54  Aligned_cols=128  Identities=10%  Similarity=-0.091  Sum_probs=88.4

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL  563 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  563 (667)
                      .+..+...+...|++++|+..|++.    +.|+...+..+..++...|++++|...++++.+.  .+.+...+..++.+|
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a----~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHH----cCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHH
Confidence            3445566677777788777777766    2456677777777777777788887777777762  234556677777777


Q ss_pred             hhcCChHHHHHHHHhC-CCCC-C----------------HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          564 GRAGRLDEAYDLIRTM-PLKP-T----------------HAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       564 ~~~g~~~~A~~~~~~~-~~~p-~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ...|++++|++.++++ ...| +                ...+..+..++...|++++|...++++++..|+
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            7777777777777765 2222 1                256667777777777777777777777777776

>2pzi_A Probable serine/threonine-protein kinase PKNG; ATP-recognition, kinase-INH complex, rubredoxin fold, TPR domain, transferase; HET: AXX; 2.40A {Mycobacterium tuberculosis}

Probab=98.94  E-value=1.8e-08  Score=108.06  Aligned_cols=171  Identities=9%  Similarity=-0.004  Sum_probs=99.6

Q ss_pred             hCcCCHHHHHHHHHHHH--------HhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHc
Q 005966          425 AILADLQQAMNIHCYLI--------RYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMH  495 (667)
Q Consensus       425 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~  495 (667)
                      ...|++++|.+.++...        +.. +.+...+..+...|.+.|++++|.+.|+++.+..| +...|..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            44555555555555554        221 33455566666666666666666666666555444 345666666666667


Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHH
Q 005966          496 GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDL  575 (667)
Q Consensus       496 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  575 (667)
                      |++++|+..|++..+.. +-+...+..+..++.+.|++++ ++.|+++.+  ..+.+...|..+..++.+.|++++|++.
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWS--TNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHH--hCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777777766653 1234556666666666677776 666666665  2223455566666677777777777777


Q ss_pred             HHhC-CCCCC-HHHHHHHHHHHHhcCC
Q 005966          576 IRTM-PLKPT-HAVWGALLGACVIHGN  600 (667)
Q Consensus       576 ~~~~-~~~p~-~~~~~~l~~~~~~~g~  600 (667)
                      |+++ ...|+ ...+..+..++...|+
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC----
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccCC
Confidence            7666 35554 3355555555544443

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.94  E-value=5.3e-09  Score=100.43  Aligned_cols=196  Identities=10%  Similarity=-0.017  Sum_probs=150.3

Q ss_pred             CcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh-cCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHH
Q 005966          426 ILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK-CGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSL  504 (667)
Q Consensus       426 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  504 (667)
                      ..|++++|.+++++..+... ..          +.+ .+++++|...|..             ....|...|++++|...
T Consensus         3 ~~~~~~eA~~~~~~a~k~~~-~~----------~~~~~~~~~~A~~~~~~-------------a~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYLK-TS----------FMKWKPDYDSAASEYAK-------------AAVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHHC-CC----------SSSCSCCHHHHHHHHHH-------------HHHHHHHTTCHHHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHcc-cc----------ccCCCCCHHHHHHHHHH-------------HHHHHHHcCCHHHHHHH
Confidence            45778889998888765431 11          122 5788888887765             35678899999999999


Q ss_pred             HHHHHHcCC---CCC--HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc---CCCC-chhHHHHHHHHHhhcCChHHHHHH
Q 005966          505 FKEMVQSGV---QPN--EVTFTSALHACSHGGLLDEGLDLFNFMLENH---QTCS-RADHYTCIVDLLGRAGRLDEAYDL  575 (667)
Q Consensus       505 ~~~m~~~~~---~p~--~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~  575 (667)
                      |.+..+...   .+.  ..+|..+...|...|++++|+..+++..+..   +.+. ...++..+..+|.. |++++|++.
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~  137 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHL  137 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHH
Confidence            998876321   111  2478888899999999999999999887632   1111 24567888999988 999999999


Q ss_pred             HHhC-CCC---CC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc------hHHHHHHHHhhcCCchHHHHH
Q 005966          576 IRTM-PLK---PT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG------NYVLLSKLYSAVRRWKDAENV  641 (667)
Q Consensus       576 ~~~~-~~~---p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~------~~~~l~~~~~~~g~~~~A~~~  641 (667)
                      +++. ...   .+    ..++..+...+...|++++|+..+++++++.|++..      .+..++.++...|++++|...
T Consensus       138 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~  217 (307)
T 2ifu_A          138 YQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKC  217 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            9886 111   11    357888899999999999999999999998776543      667788889999999999999


Q ss_pred             HHHhh
Q 005966          642 RDVMD  646 (667)
Q Consensus       642 ~~~~~  646 (667)
                      +++..
T Consensus       218 ~~~al  222 (307)
T 2ifu_A          218 VRESY  222 (307)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            99987

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.93  E-value=1.3e-08  Score=107.37  Aligned_cols=149  Identities=10%  Similarity=-0.070  Sum_probs=92.5

Q ss_pred             cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHH
Q 005966          427 LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLF  505 (667)
Q Consensus       427 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~  505 (667)
                      .|++++|...+++..+.. +.+...+..+...|.+.|++++|.+.|++..+..| +...|..+...+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            366777777777766543 34566777777777777888888877777766554 3566777777777778888888877


Q ss_pred             HHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc---CChHHHHHHHHhC
Q 005966          506 KEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA---GRLDEAYDLIRTM  579 (667)
Q Consensus       506 ~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  579 (667)
                      ++..+.. +.+...+..+..++...|++++|.+.++++.+.  .+.+...+..+..++...   |++++|.+.+++.
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            7777753 224566777777777778888888777777762  233456677777777777   7777777777765

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.93  E-value=2.3e-09  Score=90.11  Aligned_cols=94  Identities=11%  Similarity=0.063  Sum_probs=50.1

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          554 DHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       554 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ..+..++..+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|..
T Consensus        22 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           22 EQLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHH
Confidence            33444455555555555555555544 2222 444555555555555555555555555555555555555555555555


Q ss_pred             cCCchHHHHHHHHhhh
Q 005966          632 VRRWKDAENVRDVMDE  647 (667)
Q Consensus       632 ~g~~~~A~~~~~~~~~  647 (667)
                      .|++++|++.|++..+
T Consensus       102 ~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          102 XGELAEAESGLFLAQE  117 (148)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555544

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.90  E-value=9.3e-08  Score=91.07  Aligned_cols=160  Identities=9%  Similarity=-0.050  Sum_probs=121.1

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCC-CCCHH----HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHH
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGV-QPNEV----TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYT  557 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~----~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~  557 (667)
                      ..+..+...|++++|..++++..+... .|+..    .+..+...+...|++++|...++++.+.....++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346677888999999999999887422 22221    2334666677788999999999998873222233    23688


Q ss_pred             HHHHHHhhcCChHHHHHHHHhCC-----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC------CchH
Q 005966          558 CIVDLLGRAGRLDEAYDLIRTMP-----LKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPEN------PGNY  622 (667)
Q Consensus       558 ~l~~~~~~~g~~~~A~~~~~~~~-----~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~  622 (667)
                      .++.+|...|++++|+..++++-     .+.+    ..++..++..|.+.|++++|+..+++++++.+..      +.++
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            89999999999999999888762     1112    2367888999999999999999999999866443      4578


Q ss_pred             HHHHHHHhhcCC-chHHHHHHHHhh
Q 005966          623 VLLSKLYSAVRR-WKDAENVRDVMD  646 (667)
Q Consensus       623 ~~l~~~~~~~g~-~~~A~~~~~~~~  646 (667)
                      ..+|.+|.+.|+ +++|.+.+++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHH
Confidence            899999999995 599999998875

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.89  E-value=6.3e-08  Score=91.76  Aligned_cols=164  Identities=13%  Similarity=0.102  Sum_probs=117.5

Q ss_pred             CHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHH-HH
Q 005966          413 NDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVII-AG  491 (667)
Q Consensus       413 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~-~~  491 (667)
                      +...+..+...+...|++++|...++...+.. +.+...+..+..++.+.|++++|...++++....|+........ ..
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  194 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHH
Confidence            34455566667777888888888888877765 45667788888888888899999888888877666544333222 23


Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH
Q 005966          492 YGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       492 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  571 (667)
                      +...++.++|+..+++..+.. +.+...+..+...+...|++++|...+.++.+......+...+..++..+...|+.++
T Consensus       195 l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCc
Confidence            566677777888888888764 3355677778888888888888888888887743322335667777888888888777


Q ss_pred             HHHHHHh
Q 005966          572 AYDLIRT  578 (667)
Q Consensus       572 A~~~~~~  578 (667)
                      |...+++
T Consensus       274 a~~~~r~  280 (287)
T 3qou_A          274 LASXYRR  280 (287)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776665

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.88  E-value=1.3e-06  Score=89.09  Aligned_cols=370  Identities=11%  Similarity=0.034  Sum_probs=216.3

Q ss_pred             HcC-ChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCC-HHHH
Q 005966          189 KNA-YAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGS-VNEA  266 (667)
Q Consensus       189 ~~~-~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A  266 (667)
                      +.| +++.|..+|+.+..  .-|.              ++.+.+..+|+..+..  .|+...|...+....+.+. .+..
T Consensus         6 ~~~~~i~~aR~vyer~l~--~~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i   67 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARR--LYMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKL   67 (493)
T ss_dssp             ------CCHHHHHHHHHH--HHHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CT
T ss_pred             HcCcchHHHHHHHHHHHH--HCCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHH
Confidence            345 37778888888766  2343              8899999999998885  3688888888887777663 3445


Q ss_pred             HHHHhhcCC------CChhHHHHHHHHHH----hCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhc---ccchHHHH
Q 005966          267 RLVFDRMSE------RDVVTWTSMINGYA----LNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSS---LYYLKRGR  333 (667)
Q Consensus       267 ~~~~~~~~~------~~~~~~~~li~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~---~~~~~~a~  333 (667)
                      ..+|+....      .+...|...+.-+.    .+++.+.+.++|++....   |.. .+..+-..|..   ......+.
T Consensus        68 ~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~---P~~-~~~~lw~~Y~~fE~~~~~~~~~  143 (493)
T 2uy1_A           68 YEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQT---PMG-SLSELWKDFENFELELNKITGK  143 (493)
T ss_dssp             HHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTS---CCT-THHHHHHHHHHHHHHHCHHHHH
T ss_pred             HHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhC---hhh-hHHHHHHHHHHHHHHhccccHH
Confidence            556665432      35566777666543    235677888888888763   211 11222222211   11111222


Q ss_pred             HHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccC----CCCcccHHHHHHHHHhCC--C-----hHHHHHHH
Q 005966          334 SLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTS----KKKTVPWNAILAGCVHNG--L-----ARKAVELF  402 (667)
Q Consensus       334 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~li~~~~~~~--~-----~~~A~~~~  402 (667)
                      .+.....                     +.+..|..++....    ..+...|...+.--...+  -     .+.+..+|
T Consensus       144 ~~~~~~~---------------------~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~y  202 (493)
T 2uy1_A          144 KIVGDTL---------------------PIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIH  202 (493)
T ss_dssp             HHHHHHH---------------------HHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHH
T ss_pred             HHHHHHh---------------------HHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHH
Confidence            2221111                     11222222222111    112223544444322221  0     34567788


Q ss_pred             HHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCC----
Q 005966          403 RQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIK----  478 (667)
Q Consensus       403 ~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----  478 (667)
                      +++... .+-+...|...+.-+...|+.+.|..+++.....  +.+...+...... .+.++.  ...+.+.....    
T Consensus       203 e~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~--P~~~~l~~~y~~~-~e~~~~--~~~l~~~~~~~~~~~  276 (493)
T 2uy1_A          203 NYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM--SDGMFLSLYYGLV-MDEEAV--YGDLKRKYSMGEAES  276 (493)
T ss_dssp             HHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHH-TTCTHH--HHHHHHHTC------
T ss_pred             HHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCcHHHHHHHHhh-cchhHH--HHHHHHHHHhhccch
Confidence            887764 3444666666777777889999999999998887  4444333322211 111111  11222221100    


Q ss_pred             -----C-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH-hccCCHHHHHHHHHHhHHhcCCCC
Q 005966          479 -----D-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC-SHGGLLDEGLDLFNFMLENHQTCS  551 (667)
Q Consensus       479 -----~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~g~~~~A~~~~~~~~~~~~~~~  551 (667)
                           . .....|...+....+.++.+.|..+|++. +. ...+...|......- ...++.+.|..+|+...+..+  .
T Consensus       277 ~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~--~  352 (493)
T 2uy1_A          277 AEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHP--D  352 (493)
T ss_dssp             ----CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCT--T
T ss_pred             hhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCC--C
Confidence                 0 11246777777777888999999999999 32 123444444322221 223469999999999998543  3


Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      +...+...++...+.|+.+.|..+|+++.  .....|...+..-...|+.+.+..++++...
T Consensus       353 ~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          353 STLLKEEFFLFLLRIGDEENARALFKRLE--KTSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CBHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            34557778888889999999999999983  2567888888888889999999999998874

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.85  E-value=3.2e-09  Score=100.28  Aligned_cols=191  Identities=9%  Similarity=-0.012  Sum_probs=123.0

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC  527 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  527 (667)
                      ...+..+...+.+.|++++|...|++.....| +...|..+..++.+.|++++|+..+++..+.. +.+...+..+..++
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34555566667777777777777776655444 45667777777788888888888888877653 22455677777778


Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCC---chhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCS---RADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELG  604 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A  604 (667)
                      ...|++++|...|+++.+.....+   ....+..+  ...+...+..    .......++......+.. + ..|+.++|
T Consensus        83 ~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~--~~~~~~~~~~----~~~~~~~~~~~i~~~l~~-l-~~~~~~~A  154 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSAL--RIAKKKRWNS----IEERRIHQESELHSYLTR-L-IAAERERE  154 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHH--HHHHHHHHHH----HHHTCCCCCCHHHHHHHH-H-HHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHH--HHHHHHHHHH----HHHHHHhhhHHHHHHHHH-H-HHHHHHHH
Confidence            888888888888887766321111   11111111  1112222221    222233344444443322 2 36899999


Q ss_pred             HHHHHHhhccCCCCCchHHHHHHHHhhc-CCchHHHHHHHHhhhC
Q 005966          605 EVAAKWLFELEPENPGNYVLLSKLYSAV-RRWKDAENVRDVMDEK  648 (667)
Q Consensus       605 ~~~~~~~~~~~p~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~~~~  648 (667)
                      .+.++++++++|++......+..++.+. +.+++|.++|+++.+.
T Consensus       155 ~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          155 LEECQRNHEGHEDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HTTTSGGGTTTSCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHhhhccccchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            9999999999998887888888777776 7789999999988764

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.84  E-value=3.1e-08  Score=85.14  Aligned_cols=126  Identities=8%  Similarity=-0.014  Sum_probs=98.4

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACV  596 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  596 (667)
                      .+..+...+...|++++|...+++..+.  .+.+...+..++.++...|++++|++.+++. ...| +...+..++.++.
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~   92 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNM   92 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4566666777778888888888877762  3345667777888888888888888888776 3333 6678888888899


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHHH--HHhhcCCchHHHHHHHHhh
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLSK--LYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~~  646 (667)
                      ..|++++|...++++++..|+++..+..++.  .+...|++++|++.+++..
T Consensus        93 ~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~  144 (166)
T 1a17_A           93 ALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKR  144 (166)
T ss_dssp             HTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchH
Confidence            9999999999999999999998888755444  4888899999999988764

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.84  E-value=4.7e-08  Score=85.02  Aligned_cols=157  Identities=10%  Similarity=-0.039  Sum_probs=88.1

Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHH-Hhcc
Q 005966          453 TGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHA-CSHG  530 (667)
Q Consensus       453 ~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~~~~  530 (667)
                      ..+...+.+.|++++|...|++.....| +...+..+...+...|++++|+..+++..+..  |+...+..+... +...
T Consensus        10 ~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~   87 (176)
T 2r5s_A           10 LKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELHQQ   87 (176)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHHhh
Confidence            3444555666666666666666655443 34556666666666666666666666655532  233222211111 1111


Q ss_pred             CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC---HHHHHHHHHHHHhcCCHHHHHH
Q 005966          531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT---HAVWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~~g~~~~A~~  606 (667)
                      +...+|...+++..+  ..|.+...+..+..++...|++++|...++++ ...|+   ...+..+...+...|+.++|..
T Consensus        88 ~~~~~a~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~  165 (176)
T 2r5s_A           88 AAESPELKRLEQELA--ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIAS  165 (176)
T ss_dssp             HTSCHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHH
T ss_pred             cccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHH
Confidence            222345666666665  22234556666777777777777777777665 44443   3466666667777777777777


Q ss_pred             HHHHhhc
Q 005966          607 AAKWLFE  613 (667)
Q Consensus       607 ~~~~~~~  613 (667)
                      .+++++.
T Consensus       166 ~y~~al~  172 (176)
T 2r5s_A          166 KYRRQLY  172 (176)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7776653

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.83  E-value=9.7e-08  Score=86.07  Aligned_cols=152  Identities=11%  Similarity=-0.005  Sum_probs=120.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhcc
Q 005966          451 VSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHG  530 (667)
Q Consensus       451 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  530 (667)
                      .+..+...+...|++++|...|++...  |+...|..+...+...|++++|+..|++..+.. +.+...+..+..++...
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQD--PHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSSS--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHcC--CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHc
Confidence            355677888899999999999999875  788899999999999999999999999998864 34567888889999999


Q ss_pred             CCHHHHHHHHHHhHHhcCCCC--------------chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHH
Q 005966          531 GLLDEGLDLFNFMLENHQTCS--------------RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGAC  595 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~  595 (667)
                      |++++|...|+++.+.....+              ....+..++.+|.+.|++++|.+.++++ ...|+.          
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~----------  154 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP----------  154 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG----------
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc----------
Confidence            999999999999988322111              2267888999999999999999999987 566764          


Q ss_pred             HhcCCHHHHHHHHHHhhccCC
Q 005966          596 VIHGNVELGEVAAKWLFELEP  616 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p  616 (667)
                       ..+..+.|...+++.....|
T Consensus       155 -~~~~~~~a~~~~~~~~~~~~  174 (213)
T 1hh8_A          155 -RHSKIDKAMECVWKQKLYEP  174 (213)
T ss_dssp             -GGGHHHHHHHHHHTTCCCCC
T ss_pred             -ccchHHHHHHHHHhcccccc
Confidence             33556666666665544443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.82  E-value=4e-08  Score=80.74  Aligned_cols=115  Identities=9%  Similarity=0.009  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGAC  595 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  595 (667)
                      ..+..+...+...|++++|...++++.+  ..+.+...+..++.++...|++++|++.++++ ...| +...+..+...+
T Consensus        17 ~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~   94 (133)
T 2lni_A           17 LMVKNKGNECFQKGDYPQAMKHYTEAIK--RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAAL   94 (133)
T ss_dssp             HHHHHHHHHHHHTTCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHHH
Confidence            4566666666677777777777777665  23335566666777777777777777777665 2233 566788888888


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCC
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      ...|++++|+..++++++..|+++.++..++.++...|+
T Consensus        95 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           95 EAMKDYTKAMDVYQKALDLDSSCKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCGGGTHHHHHHHHHHHHHTC
T ss_pred             HHHhhHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhcC
Confidence            889999999999999999999888888888888887664

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.81  E-value=1.1e-07  Score=90.49  Aligned_cols=162  Identities=9%  Similarity=-0.075  Sum_probs=112.0

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCH-----HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCC--Cc--hhH
Q 005966          485 WSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNE-----VTFTSALHACSHGGLLDEGLDLFNFMLENHQTC--SR--ADH  555 (667)
Q Consensus       485 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~--~~--~~~  555 (667)
                      +...+..+...|++++|.+.+++..+.......     ..+..+...+...|++++|...++++.+.....  +.  ..+
T Consensus        78 l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 2qfc_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHHH
Confidence            344556667777888888887777664322111     123335555677788888888888876522111  11  346


Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhCC----CCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC------CCc
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTMP----LKPT-----HAVWGALLGACVIHGNVELGEVAAKWLFELEPE------NPG  620 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------~~~  620 (667)
                      ++.++..|...|++++|+..++++-    ..|+     ..++..++..|...|++++|+..+++++++.++      -..
T Consensus       158 ~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~~  237 (293)
T 2qfc_A          158 ENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQ  237 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHHH
Confidence            7788888888888888888887751    2222     147788888899999999999999998876532      145


Q ss_pred             hHHHHHHHHhhcCCchHH-HHHHHHhh
Q 005966          621 NYVLLSKLYSAVRRWKDA-ENVRDVMD  646 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A-~~~~~~~~  646 (667)
                      ++..++.+|.+.|++++| ...+++..
T Consensus       238 ~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          238 LYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            678899999999999999 77777754

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.81  E-value=4.4e-08  Score=80.16  Aligned_cols=118  Identities=12%  Similarity=0.032  Sum_probs=94.1

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHH
Q 005966          517 EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGA  594 (667)
Q Consensus       517 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~  594 (667)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..++.++...|++++|.+.+++. ...| +...+..++..
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIEL--NPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            345666677777788888888888887762  3345666777888888888888888888776 3333 56788888889


Q ss_pred             HHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCch
Q 005966          595 CVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWK  636 (667)
Q Consensus       595 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~  636 (667)
                      +...|++++|...++++++..|+++.++..++.++...|+++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~  131 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPDNETYKSNLKIAELKLREAP  131 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTTCC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHhcCC
Confidence            999999999999999999999999999999999999888763

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.80  E-value=1.4e-06  Score=81.92  Aligned_cols=231  Identities=9%  Similarity=0.021  Sum_probs=174.0

Q ss_pred             CChHHHHHHHHHHHHCCCCCCHH-HHHHHHHHHhCcC--CHHHHHHHHHHHHHhCCCCCchHHHHHHHHH----Hhc---
Q 005966          393 GLARKAVELFRQMLVEVVEPNDA-TLNSLLPAYAILA--DLQQAMNIHCYLIRYGFLSVVEVSTGLIDIY----SKC---  462 (667)
Q Consensus       393 ~~~~~A~~~~~~m~~~g~~p~~~-~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---  462 (667)
                      ...++|++++.++...  .|+.. .++.--..+...+  ++++++..++.+...+ +-+..+++.-..++    .+.   
T Consensus        47 e~s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~  123 (306)
T 3dra_A           47 EYSERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNND  123 (306)
T ss_dssp             CCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTC
T ss_pred             CCCHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhcccc
Confidence            4446788888888764  45443 3455445555666  8888888888887765 34444554444444    444   


Q ss_pred             CCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChH--HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC------H
Q 005966          463 GSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGE--TAVSLFKEMVQSGVQPNEVTFTSALHACSHGGL------L  533 (667)
Q Consensus       463 g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~--~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~------~  533 (667)
                      ++++++.++++.+....| +..+|+--...+.+.|.++  ++++.++++.+.++. |...|+.-...+.+.+.      +
T Consensus       124 ~~~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~~~~~~  202 (306)
T 3dra_A          124 FDPYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDLK-NNSAWSHRFFLLFSKKHLATDNTI  202 (306)
T ss_dssp             CCTHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHSSGGGCCHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHhccccchhhhH
Confidence            788999999998887664 6678888888888888888  999999999998643 77788777666777776      8


Q ss_pred             HHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH-HHHHHHhCC-C----CCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005966          534 DEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE-AYDLIRTMP-L----KPTHAVWGALLGACVIHGNVELGEVA  607 (667)
Q Consensus       534 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~~-~----~p~~~~~~~l~~~~~~~g~~~~A~~~  607 (667)
                      +++++.++.++.  ..+-|...|+-+...+.+.|+..+ +.++..+.- .    ..++..+..++..+.+.|+.++|+++
T Consensus       203 ~eEl~~~~~aI~--~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          203 DEELNYVKDKIV--KCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHH--hCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHH
Confidence            999999999988  345678889999999988888555 455677652 2    34778899999999999999999999


Q ss_pred             HHHhhc-cCCCCCchHHHHHHHH
Q 005966          608 AKWLFE-LEPENPGNYVLLSKLY  629 (667)
Q Consensus       608 ~~~~~~-~~p~~~~~~~~l~~~~  629 (667)
                      ++.+.+ .+|.....|...+..+
T Consensus       281 ~~~l~~~~Dpir~~yW~~~~~~l  303 (306)
T 3dra_A          281 YDLLKSKYNPIRSNFWDYQISKL  303 (306)
T ss_dssp             HHHHHHTTCGGGHHHHHHHHHTC
T ss_pred             HHHHHhccChHHHHHHHHHHhhc
Confidence            999996 8999888887666543

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.80  E-value=1.1e-08  Score=89.16  Aligned_cols=128  Identities=9%  Similarity=0.103  Sum_probs=87.0

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHH-HhhcCCh-
Q 005966          492 YGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDL-LGRAGRL-  569 (667)
Q Consensus       492 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~-  569 (667)
                      +...|++++|+..+++..+.. +.+...+..+...|...|++++|...|+++.+..  +.+...+..++.+ +...|++ 
T Consensus        20 ~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~la~~l~~~~~~~~   96 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR--GENAELYAALATVLYYQASQHM   96 (177)
T ss_dssp             CC-----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--CSCHHHHHHHHHHHHHHTTTCC
T ss_pred             hhhccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhcCCcc
Confidence            445677777888888877754 3355677777777888888888888888877632  2345566667777 6677777 


Q ss_pred             -HHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          570 -DEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       570 -~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                       ++|...++++ ...| +...+..+...+...|++++|...++++++..|+++...
T Consensus        97 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~  152 (177)
T 2e2e_A           97 TAQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSPRINRT  152 (177)
T ss_dssp             CHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTSCHH
T ss_pred             hHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCccHH
Confidence             8888777776 3334 456677777777778888888888888888887765544

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.80  E-value=5.3e-08  Score=78.84  Aligned_cols=115  Identities=17%  Similarity=0.166  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHH
Q 005966          517 EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGA  594 (667)
Q Consensus       517 ~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~  594 (667)
                      ...+..+...+...|++++|...++++.+.  .+.+...+..++..+.+.|++++|...++++ . .+.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            345666777777778888888888777762  2345566777777888888888888887776 2 23366778888888


Q ss_pred             HHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          595 CVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       595 ~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      +...|++++|...++++++..|+++.++..++.++...|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhcc
Confidence            999999999999999999999999888888888887654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.80  E-value=1.6e-08  Score=84.36  Aligned_cols=93  Identities=12%  Similarity=-0.011  Sum_probs=50.0

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      .+..+...+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|...
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   99 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECHLQL   99 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHc
Confidence            3344444555555555555555554 2222 4445555555555555555555555555555555555555555555555


Q ss_pred             CCchHHHHHHHHhhh
Q 005966          633 RRWKDAENVRDVMDE  647 (667)
Q Consensus       633 g~~~~A~~~~~~~~~  647 (667)
                      |++++|.+.+++..+
T Consensus       100 g~~~~A~~~~~~al~  114 (142)
T 2xcb_A          100 GDLDGAESGFYSARA  114 (142)
T ss_dssp             TCHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555555544

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.77  E-value=3.5e-08  Score=80.28  Aligned_cols=94  Identities=13%  Similarity=0.007  Sum_probs=57.7

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      .+..++..+.+.|++++|+..|++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|...
T Consensus         6 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            6 EARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHH
Confidence            4455555566666666666666554 2223 4555666666666666666666666666666666666666666666666


Q ss_pred             CCchHHHHHHHHhhhC
Q 005966          633 RRWKDAENVRDVMDEK  648 (667)
Q Consensus       633 g~~~~A~~~~~~~~~~  648 (667)
                      |++++|++.+++..+.
T Consensus        86 ~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           86 KEYASALETLDAARTK  101 (126)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHh
Confidence            6666666666665543

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.76  E-value=3.9e-08  Score=95.46  Aligned_cols=128  Identities=13%  Similarity=0.032  Sum_probs=96.0

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC-------------chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCS-------------RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-  583 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~-------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-  583 (667)
                      .+..+...+.+.|++++|...|+++++.....+             ....|..+..+|.+.|++++|+..++++ ...| 
T Consensus       149 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  228 (336)
T 1p5q_A          149 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDSN  228 (336)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            344444445555555555555555544211110             1467888888999999999999998887 3444 


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHH-HHHHHHhh
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDA-ENVRDVMD  646 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~  646 (667)
                      +...+..+..++...|++++|+..++++++++|+++.++..++.++...|++++| ...+++|.
T Consensus       229 ~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          229 NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6778999999999999999999999999999999999999999999999999999 44566553

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=98.75  E-value=1.1e-08  Score=85.86  Aligned_cols=115  Identities=10%  Similarity=-0.010  Sum_probs=91.3

Q ss_pred             HHHHHHcCCCCC-HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCC
Q 005966          505 FKEMVQSGVQPN-EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLK  582 (667)
Q Consensus       505 ~~~m~~~~~~p~-~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  582 (667)
                      |+++.+.  .|+ ...+..+...+...|++++|...|+.+.+  ..+.+...|..+..+|...|++++|+..|+++ ...
T Consensus        10 ~~~al~~--~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A           10 IAMLNEI--SSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCV--LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             HHHHTTC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHcC--CHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHH--cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            4444442  343 34566777788889999999999998887  33456777888899999999999999999887 344


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          583 P-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       583 p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                      | ++..+..+..++...|++++|+..+++++++.|+++....
T Consensus        86 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~  127 (148)
T 2vgx_A           86 IXEPRFPFHAAECLLQXGELAEAESGLFLAQELIANXPEFXE  127 (148)
T ss_dssp             TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCGGGHH
T ss_pred             CCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCCcchH
Confidence            4 6678888999999999999999999999999999877644

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.73  E-value=6.2e-08  Score=76.71  Aligned_cols=99  Identities=14%  Similarity=0.065  Sum_probs=82.6

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC--CCchHHHHHH
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PL-KPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE--NPGNYVLLSK  627 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~~~~~~l~~  627 (667)
                      +...+..++..+...|++++|...+++. .. +.+...+..+...+...|++++|+..++++++..|+  ++.++..++.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            3445666777788888888888888776 23 336677888888899999999999999999999999  9999999999


Q ss_pred             HHhhc-CCchHHHHHHHHhhhCCC
Q 005966          628 LYSAV-RRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       628 ~~~~~-g~~~~A~~~~~~~~~~~~  650 (667)
                      +|... |++++|.+.+++..+...
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p  108 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHH  108 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhccc
Confidence            99999 999999999999887764

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.72  E-value=6.2e-08  Score=88.83  Aligned_cols=195  Identities=11%  Similarity=-0.001  Sum_probs=94.5

Q ss_pred             CcCCHHHHHHHHHHHHHhCCCCCchHHHHH-------HHHHHhcCCHHHHHHHHhhCCCCCCCc----------------
Q 005966          426 ILADLQQAMNIHCYLIRYGFLSVVEVSTGL-------IDIYSKCGSLESAHKIFSEIPIKDKDI----------------  482 (667)
Q Consensus       426 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~g~~~~A~~~~~~~~~~~~~~----------------  482 (667)
                      ..++...|.+.|..+.+.. +-....+..+       ...+.+.++..++...+..-....|+.                
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            4566666666666666654 2333444444       344444444444444444444422110                


Q ss_pred             ------chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc--hh
Q 005966          483 ------VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR--AD  554 (667)
Q Consensus       483 ------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~--~~  554 (667)
                            ..+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+...+ .. .|.  ..
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-~~-d~~~~~~  172 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGK-WP-DKFLAGA  172 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-CS-CHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhc-cC-CcccHHH
Confidence                  012234445555566666666665555432  3333333344445555666666666554433 11 111  12


Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhCC---CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTMP---LKPT--HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~~---~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      .+..+..++.+.|++++|+..|++..   ..|.  ...+.....++.+.|+.++|...|++++..+|+ +.+...|.
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~-~~~~~aL~  248 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE-PKVAAALK  248 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC-HHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc-HHHHHHHh
Confidence            34445555556666666666655541   1122  224445555555556666666666666666555 44444443

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.72  E-value=4.7e-08  Score=81.81  Aligned_cols=99  Identities=10%  Similarity=-0.006  Sum_probs=74.1

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGAC  595 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  595 (667)
                      ..+..+...+.+.|++++|...|+++.+  ..|.+...|..++.+|...|++++|++.|+++ ...| ++..|..+..++
T Consensus        37 ~~~~~lg~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~lg~~~  114 (151)
T 3gyz_A           37 DDIYSYAYDFYNKGRIEEAEVFFRFLCI--YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHHHHHHH
Confidence            3566666677777888888888877776  23345667777788888888888888888776 3444 566778888888


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCC
Q 005966          596 VIHGNVELGEVAAKWLFELEPEN  618 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~  618 (667)
                      ...|++++|+..+++++++.|++
T Consensus       115 ~~lg~~~eA~~~~~~al~l~~~~  137 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHSNDE  137 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCCH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCH
Confidence            88888888888888888888874

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.72  E-value=3.7e-05  Score=78.42  Aligned_cols=100  Identities=12%  Similarity=-0.013  Sum_probs=56.9

Q ss_pred             hCC-CchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCC-HHH
Q 005966           87 QNG-ASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGE-VKA  164 (667)
Q Consensus        87 ~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~  164 (667)
                      +.| +.+.|..+|+.+...   -|.              ++++.+..+|++.+..  .|+...|...+....+.++ .+.
T Consensus         6 ~~~~~i~~aR~vyer~l~~---~P~--------------~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~   66 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRL---YMS--------------KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFK   66 (493)
T ss_dssp             ------CCHHHHHHHHHHH---HHT--------------TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----C
T ss_pred             HcCcchHHHHHHHHHHHHH---CCC--------------CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHH
Confidence            345 377777888877765   232              7788888888888774  4677788777777666553 233


Q ss_pred             HHHHhcccC------CCChhhHHHHHHHHH----HcCChhHHHHHHHHHHH
Q 005966          165 ARKVFDAMW------EHSVVSWNTLISGYF----KNAYAKEALVVFDWMLK  205 (667)
Q Consensus       165 A~~~~~~~~------~~~~~~~~~li~~~~----~~~~~~~A~~~~~~m~~  205 (667)
                      ...+|+...      ..+...|...+..+.    .+++.+.+..+|++...
T Consensus        67 i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~  117 (493)
T 2uy1_A           67 LYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQ  117 (493)
T ss_dssp             THHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHh
Confidence            444444321      124455555555432    23455666666666665

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.71  E-value=3.8e-08  Score=79.20  Aligned_cols=95  Identities=13%  Similarity=-0.027  Sum_probs=82.9

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      .+..++..+.+.|++++|+..+++. ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|...
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~~   98 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNE   98 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHc
Confidence            3556777888999999999999887 4445 7778889999999999999999999999999999999999999999999


Q ss_pred             CCchHHHHHHHHhhhCC
Q 005966          633 RRWKDAENVRDVMDEKG  649 (667)
Q Consensus       633 g~~~~A~~~~~~~~~~~  649 (667)
                      |++++|+..+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (121)
T 1hxi_A           99 HNANAALASLRAWLLSQ  115 (121)
T ss_dssp             HHHHHHHHHHHHHHC--
T ss_pred             CCHHHHHHHHHHHHHhC
Confidence            99999999999987754

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.68  E-value=4.9e-08  Score=79.39  Aligned_cols=93  Identities=6%  Similarity=-0.086  Sum_probs=60.1

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc-------hHHHH
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG-------NYVLL  625 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-------~~~~l  625 (667)
                      .+..++..+.+.|++++|++.|++. ...| +...|..+..+|...|++++|+..+++++++.|+++.       ++..+
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~l   89 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSRA   89 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHHH
Confidence            3555666666666666666666665 3333 4556666666777777777777777777776666543       45556


Q ss_pred             HHHHhhcCCchHHHHHHHHhhh
Q 005966          626 SKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      +.+|...|++++|++.+++..+
T Consensus        90 g~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           90 GNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh
Confidence            6666777777777777776654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.68  E-value=5.2e-07  Score=85.88  Aligned_cols=164  Identities=12%  Similarity=-0.026  Sum_probs=115.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCc-------chHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CCC--HH
Q 005966          451 VSTGLIDIYSKCGSLESAHKIFSEIPIKDKDI-------VVWSVIIAGYGMHGHGETAVSLFKEMVQSGV---QPN--EV  518 (667)
Q Consensus       451 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~  518 (667)
                      .+...+..+...|++++|.+.+.+.....+..       ..+..+...+...|++++|+..+++..+...   .+.  ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            34445667788888888888887554432221       2234455566778899999999998876321   111  34


Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHh---cCCCC--chhHHHHHHHHHhhcCChHHHHHHHHhC-CC------CC-CH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLEN---HQTCS--RADHYTCIVDLLGRAGRLDEAYDLIRTM-PL------KP-TH  585 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~------~p-~~  585 (667)
                      +++.+...|...|++++|...++++.+.   .+..+  ...++..++..|.+.|++++|++.+++. ..      .. -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            7888888899999999999999988732   22212  1247888889999999999999988876 11      11 15


Q ss_pred             HHHHHHHHHHHhcCCHHHH-HHHHHHhhcc
Q 005966          586 AVWGALLGACVIHGNVELG-EVAAKWLFEL  614 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A-~~~~~~~~~~  614 (667)
                      .++..++..+...|++++| ...+++++.+
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            6788888889999999999 7778887753

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.68  E-value=1.9e-07  Score=85.58  Aligned_cols=122  Identities=11%  Similarity=-0.071  Sum_probs=55.9

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcC
Q 005966          524 LHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTH----AVWGALLGACVIHG  599 (667)
Q Consensus       524 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~----~~~~~l~~~~~~~g  599 (667)
                      ...+...|++++|.++|..+..  .- |+......+...+.+.|++++|+..|+.....|++    ..+..+..++...|
T Consensus       109 A~~L~~~g~y~eA~~~l~~~~~--~~-p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~d~~~~~~a~~~LG~al~~LG  185 (282)
T 4f3v_A          109 AACEAAQGNYADAMEALEAAPV--AG-SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWPDKFLAGAAGVAHGVAAANLA  185 (282)
T ss_dssp             HHHHHHHTCHHHHHHHHTSSCC--TT-CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCSCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCCCHHHHHHHHHHHHh--cC-CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccCCcccHHHHHHHHHHHHHHCC
Confidence            3334445555555555554433  11 22213333444455555555555555544322222    13444444455555


Q ss_pred             CHHHHHHHHHHhhccC--CC-CCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          600 NVELGEVAAKWLFELE--PE-NPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~--p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ++++|+..++++....  |. .+.+.+.++.++.+.|+.++|...|+++...
T Consensus       186 ~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          186 LFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             CHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            5555555555554322  22 2234445555555555555555555555443

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.67  E-value=2e-06  Score=81.72  Aligned_cols=160  Identities=11%  Similarity=-0.036  Sum_probs=121.1

Q ss_pred             HHHHHHhcCCHHHHHHHHhhCCCCCC---Cc----chHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CC----HHHHHH
Q 005966          455 LIDIYSKCGSLESAHKIFSEIPIKDK---DI----VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQ-PN----EVTFTS  522 (667)
Q Consensus       455 l~~~~~~~g~~~~A~~~~~~~~~~~~---~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~  522 (667)
                      .+..+...|++++|..++++.....+   +.    ..+..+...+...+++++|+..+++..+.... ++    ..+++.
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~  160 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENA  160 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHH
Confidence            46678889999999999998766432   21    12334666677778999999999999984322 23    236888


Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhc----CCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhC-------CCCCC-HHHHH
Q 005966          523 ALHACSHGGLLDEGLDLFNFMLENH----QTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM-------PLKPT-HAVWG  589 (667)
Q Consensus       523 ll~~~~~~g~~~~A~~~~~~~~~~~----~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~  589 (667)
                      +...|...|++++|...++++.+..    ...+. ..++..++..|.+.|++++|++.+++.       ...+. ..++.
T Consensus       161 lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          161 IANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            9999999999999999999988421    22222 346788999999999999999998876       12222 56788


Q ss_pred             HHHHHHHhcCC-HHHHHHHHHHhhcc
Q 005966          590 ALLGACVIHGN-VELGEVAAKWLFEL  614 (667)
Q Consensus       590 ~l~~~~~~~g~-~~~A~~~~~~~~~~  614 (667)
                      .++.++...|+ +++|...+++++.+
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            89999999994 69999999998764

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.66  E-value=8.7e-08  Score=82.17  Aligned_cols=110  Identities=13%  Similarity=0.039  Sum_probs=93.9

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 005966          516 NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLG  593 (667)
Q Consensus       516 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  593 (667)
                      +...+..+...+...|++++|+..|++.++.  .+.+...|..+..+|.+.|++++|+..+++. ...| +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            3457888888899999999999999999883  3446778899999999999999999999987 4445 5778999999


Q ss_pred             HHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHH
Q 005966          594 ACVIHGNVELGEVAAKWLFELEPENPGNYVLLSK  627 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  627 (667)
                      ++...|++++|+..+++++++.|+++..+...+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l  121 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGNGGSDAMKRGL  121 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSSSCCHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            9999999999999999999999999887665553

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.66  E-value=1.6e-07  Score=77.64  Aligned_cols=93  Identities=10%  Similarity=-0.010  Sum_probs=42.8

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          554 DHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       554 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ..+..++..+...|++++|+..+++. ...| +...+..+..++...|++++|+..+++++++.|+++.++..++.+|..
T Consensus        10 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~   89 (137)
T 3q49_B           10 QELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQCQLE   89 (137)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHH
Confidence            33444444444444444444444443 1122 333444444444444555555555555555555544445555555555


Q ss_pred             cCCchHHHHHHHHhh
Q 005966          632 VRRWKDAENVRDVMD  646 (667)
Q Consensus       632 ~g~~~~A~~~~~~~~  646 (667)
                      .|++++|+..++++.
T Consensus        90 ~~~~~~A~~~~~~a~  104 (137)
T 3q49_B           90 MESYDEAIANLQRAY  104 (137)
T ss_dssp             TTCHHHHHHHHHHHH
T ss_pred             HhhHHHHHHHHHHHH
Confidence            555555555544444

>2e2e_A Formate-dependent nitrite reductase complex NRFG; TPR, cytochrome C biogenesis, O157:H7 EDL933, formate- nitrite reductase complex, lyase; 2.05A {Escherichia coli}

Probab=98.66  E-value=1.9e-07  Score=81.19  Aligned_cols=123  Identities=7%  Similarity=0.030  Sum_probs=99.7

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHH-HHhcCCH--
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGA-CVIHGNV--  601 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~-~~~~g~~--  601 (667)
                      +...|++++|...++...+.  .+.+...+..++.+|...|++++|+..++++ ...| +...+..+... +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            45678889999999988873  3456678888999999999999999999887 3334 66778888888 7788998  


Q ss_pred             HHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          602 ELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       602 ~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      ++|+..++++++..|+++.++..++.+|...|++++|...++++.+....
T Consensus        98 ~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A           98 AQTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence            99999999999999999999999999999999999999999998877643

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.66  E-value=1.5e-06  Score=77.88  Aligned_cols=159  Identities=13%  Similarity=0.017  Sum_probs=111.2

Q ss_pred             CcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcC----CHHHHHHHHHHHHHhCCCCCchHHH
Q 005966          378 KTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILA----DLQQAMNIHCYLIRYGFLSVVEVST  453 (667)
Q Consensus       378 ~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~  453 (667)
                      ++..+..+...|...+++++|+++|++..+.|   +...+..+-..|.. +    ++++|...++...+.+   ++..+.
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~~g---~~~a~~   89 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVEAG---SKSGEI   89 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            44446666666777778888888888877654   44555566666666 5    7888888888776654   455666


Q ss_pred             HHHHHHHh----cCCHHHHHHHHhhCCCCCCC---cchHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHH
Q 005966          454 GLIDIYSK----CGSLESAHKIFSEIPIKDKD---IVVWSVIIAGYGM----HGHGETAVSLFKEMVQSGVQPNEVTFTS  522 (667)
Q Consensus       454 ~l~~~~~~----~g~~~~A~~~~~~~~~~~~~---~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~  522 (667)
                      .|..+|..    .+++++|.+.|++..+.+++   +..+..|...|..    .+++++|+..|++..+.  .++...+..
T Consensus        90 ~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~--~~~~~a~~~  167 (212)
T 3rjv_A           90 VLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSL--SRTGYAEYW  167 (212)
T ss_dssp             HHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHT--SCTTHHHHH
T ss_pred             HHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHc--CCCHHHHHH
Confidence            77777766    77888888888887776653   6777777777777    77788888888888775  234445566


Q ss_pred             HHHHHhcc-C-----CHHHHHHHHHHhHH
Q 005966          523 ALHACSHG-G-----LLDEGLDLFNFMLE  545 (667)
Q Consensus       523 ll~~~~~~-g-----~~~~A~~~~~~~~~  545 (667)
                      |...|... |     ++++|..+|+...+
T Consensus       168 Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~  196 (212)
T 3rjv_A          168 AGMMFQQGEKGFIEPNKQKALHWLNVSCL  196 (212)
T ss_dssp             HHHHHHHCBTTTBCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCCCCCCCCHHHHHHHHHHHHH
Confidence            66666532 2     78888888888776

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.65  E-value=1.6e-07  Score=83.53  Aligned_cols=96  Identities=13%  Similarity=0.014  Sum_probs=74.3

Q ss_pred             hHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          554 DHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       554 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ..+..+..+|.+.|++++|+..+++. ...| +...+..+..++...|++++|+..+++++++.|+++.++..++.++..
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~  168 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNK  168 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHH
Confidence            56777888888999999999888887 3344 677888999999999999999999999999999999999999999999


Q ss_pred             cCCchHHH-HHHHHhhhCC
Q 005966          632 VRRWKDAE-NVRDVMDEKG  649 (667)
Q Consensus       632 ~g~~~~A~-~~~~~~~~~~  649 (667)
                      .|+.+++. ..+..+...+
T Consensus       169 ~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          169 LKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHhccc
Confidence            99888888 5566665544

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.64  E-value=3.8e-07  Score=72.84  Aligned_cols=108  Identities=15%  Similarity=0.095  Sum_probs=61.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACV  596 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~  596 (667)
                      .+..+...+...|++++|...++.+.+.  .+.+...+..++.++...|++++|...+++. ...| +...+..+..++.
T Consensus         6 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~   83 (118)
T 1elw_A            6 ELKEKGNKALSVGNIDDALQCYSEAIKL--DPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALE   83 (118)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            4444555555556666666666655552  2233444555555555666666666655554 2222 4555666666666


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHHHH
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKL  628 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  628 (667)
                      ..|++++|...++++++..|+++.++..++.+
T Consensus        84 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~  115 (118)
T 1elw_A           84 FLNRFEEAKRTYEEGLKHEANNPQLKEGLQNM  115 (118)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHh
Confidence            66666666666666666666666665555544

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.63  E-value=1.1e-07  Score=79.32  Aligned_cols=109  Identities=10%  Similarity=0.001  Sum_probs=83.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGAC  595 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  595 (667)
                      ..+..+...+.+.|++++|...|+.+.+  ..+.+...|..+..+|.+.|++++|+..+++. ...| ++..+..+..++
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCM--LDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            3455566677788888888888888877  23345667778888888888888888888876 3344 566788888889


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHHHHHHH
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYVLLSKL  628 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  628 (667)
                      ...|++++|+..+++++++.|+++........+
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~  129 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAAQPAHEALAARA  129 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHTCGGGHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCcchHHHHHHH
Confidence            999999999999999999999887766544433

>3upv_A Heat shock protein STI1; TPR-fold, adaptor protein for HSP70 and HSP90, C-terminal PA HSP70, peptide binding protein; 1.60A {Saccharomyces cerevisiae}

Probab=98.63  E-value=1.7e-07  Score=76.10  Aligned_cols=111  Identities=9%  Similarity=-0.081  Sum_probs=85.3

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGAC  595 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  595 (667)
                      ..+..+...+.+.|++++|...|++.++.  .+.+...|..++.++.+.|++++|+..+++. ...| +...+..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKR--APEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            35666667777888888888888887772  3345677888888888888888888888876 3444 567888888889


Q ss_pred             HhcCCHHHHHHHHHHhhccC------CCCCchHHHHHHHHh
Q 005966          596 VIHGNVELGEVAAKWLFELE------PENPGNYVLLSKLYS  630 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~  630 (667)
                      ...|++++|+..+++++++.      |+++.+...+..+..
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~~~~~~~~l~~~~~  123 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSSAREIDQLYYKASQ  123 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTTHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchhHHHHHHHHHHHHH
Confidence            99999999999999999988      777777776666544

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.62  E-value=4.6e-07  Score=80.76  Aligned_cols=59  Identities=7%  Similarity=-0.037  Sum_probs=29.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhccCCC--CC----chHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          588 WGALLGACVIHGNVELGEVAAKWLFELEPE--NP----GNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       588 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~--~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      +..+...+...|++++|...++++++..+.  ++    .++..++.+|...|++++|.+.+++..
T Consensus       110 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  174 (203)
T 3gw4_A          110 AYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRAR  174 (203)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHH
Confidence            444445555555555555555555543211  11    123455555666666666655555543

>1elw_A TPR1-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, HSP70, protein binding, chaperone; 1.60A {Homo sapiens} SCOP: a.118.8.1

Probab=98.61  E-value=2.8e-07  Score=73.61  Aligned_cols=99  Identities=13%  Similarity=0.157  Sum_probs=89.1

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                      ....+..++..+...|++++|...+++. ...| +...+..+...+...|++++|...++++++..|+++.++..++.+|
T Consensus         3 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            3 QVNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4556788899999999999999999987 3344 7788999999999999999999999999999999999999999999


Q ss_pred             hhcCCchHHHHHHHHhhhCCC
Q 005966          630 SAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ...|++++|.+.+++..+...
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~  103 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEA  103 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHhhHHHHHHHHHHHHHcCC
Confidence            999999999999999887653

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.61  E-value=2.5e-07  Score=75.83  Aligned_cols=100  Identities=12%  Similarity=0.025  Sum_probs=90.8

Q ss_pred             CCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHH
Q 005966          550 CSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSK  627 (667)
Q Consensus       550 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~  627 (667)
                      +.+...+..++..+.+.|++++|++.+++. ...| +...+..+...+...|++++|+..++++++..|+++.++..++.
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~   92 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAA   92 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHH
Confidence            345667888999999999999999999987 4555 77889999999999999999999999999999999999999999


Q ss_pred             HHhhcCCchHHHHHHHHhhhCC
Q 005966          628 LYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       628 ~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +|...|++++|.+.+++..+..
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~~  114 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDLD  114 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHhhHHHHHHHHHHHHHhC
Confidence            9999999999999999988764

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.61  E-value=1.8e-06  Score=81.96  Aligned_cols=181  Identities=17%  Similarity=0.108  Sum_probs=88.0

Q ss_pred             HHHHHHHHhhCCCCCC-CcchHHHHHHHHHHc-C-ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHH-------
Q 005966          465 LESAHKIFSEIPIKDK-DIVVWSVIIAGYGMH-G-HGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLD-------  534 (667)
Q Consensus       465 ~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~-~-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~-------  534 (667)
                      +++++++++.+....| +..+|+.-...+.+. + ++++++++++++.+... -|..+|+.-...+.+.|.++       
T Consensus       105 l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~L~~dp-kNy~AW~~R~wvl~~l~~~~~~~~~~~  183 (349)
T 3q7a_A          105 LEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSEIEYIHGSLLPDP-KNYHTWAYLHWLYSHFSTLGRISEAQW  183 (349)
T ss_dssp             HHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHHHHHHHHHTSSCT-TCHHHHHHHHHHHHHHHHTTCCCHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccccccchhhH
Confidence            4444444444443332 233444444444333 3 44555555555554331 13334433333333333333       


Q ss_pred             -HHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC-------hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH---
Q 005966          535 -EGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR-------LDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNV---  601 (667)
Q Consensus       535 -~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~---  601 (667)
                       ++++.++++++  ..+.|...|+....++.+.++       ++++++.++++ ...| |...|+.+-..+.+.|+.   
T Consensus       184 ~eELe~~~k~I~--~dp~N~SAW~~R~~lL~~l~~~~~~~~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~  261 (349)
T 3q7a_A          184 GSELDWCNEMLR--VDGRNNSAWGWRWYLRVSRPGAETSSRSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVP  261 (349)
T ss_dssp             HHHHHHHHHHHH--HCTTCHHHHHHHHHHHTTSTTCCCCHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGG
T ss_pred             HHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCccc
Confidence             55555555555  222344455555555555444       45555555554 2333 555555555554444432   


Q ss_pred             -----------------HHHHHHHHHhhccC------CCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          602 -----------------ELGEVAAKWLFELE------PENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       602 -----------------~~A~~~~~~~~~~~------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                                       .........+....      +..+.++..|+.+|...|+.++|.+.++.+.++
T Consensus       262 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~  331 (349)
T 3q7a_A          262 ILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSE  331 (349)
T ss_dssp             GHHHHGGGTC--------------CCCCC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             ccccccccccccccccchhHHHHHHHHHhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhh
Confidence                             22222222222222      445667888999999999999999999988643

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.59  E-value=3.6e-07  Score=76.58  Aligned_cols=112  Identities=12%  Similarity=-0.057  Sum_probs=71.4

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHH
Q 005966          516 NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWG  589 (667)
Q Consensus       516 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~  589 (667)
                      +...+..+...+...|++++|...|++..+.   .|+    ...+..+..+|...|++++|+..+++. ...| +...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGL---DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS---CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH---cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHH
Confidence            3455666666677777777777777777651   233    455666666677777777777766665 2333 455666


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      .+..++...|++++|...++++++..|+++.++..+..+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSLEPKNKVFQEALRNISG  144 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHh
Confidence            66666677777777777777777777776666665555543

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.59  E-value=1.2e-07  Score=78.09  Aligned_cols=61  Identities=10%  Similarity=-0.055  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhcc-------CCCCCchH----HHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFEL-------EPENPGNY----VLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~-------~p~~~~~~----~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      .|..+..++.+.|++++|+..+++++++       +|+++.+|    +..+.++...|++++|++.|++..+
T Consensus        59 a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           59 CHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            5666666666666666666666666666       77766666    7777777777777777777766654

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.57  E-value=5.8e-07  Score=76.96  Aligned_cols=94  Identities=7%  Similarity=-0.046  Sum_probs=52.2

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHH
Q 005966          483 VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDL  562 (667)
Q Consensus       483 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  562 (667)
                      ..|..+...+.+.|++++|+..|++.++.. +-+...|..+..+|...|++++|+..++++++.  .+.+...|..+..+
T Consensus        12 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~   88 (164)
T 3sz7_A           12 DKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVV--DPKYSKAWSRLGLA   88 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            345555555566666666666666655543 123445555555566666666666666665552  22334455555666


Q ss_pred             HhhcCChHHHHHHHHhC
Q 005966          563 LGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       563 ~~~~g~~~~A~~~~~~~  579 (667)
                      |...|++++|++.|++.
T Consensus        89 ~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           89 RFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHTTCHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHH
Confidence            66666666666655554

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.55  E-value=4.3e-07  Score=73.37  Aligned_cols=97  Identities=18%  Similarity=0.188  Sum_probs=88.1

Q ss_pred             hhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          553 ADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       553 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      ...+..++..+...|++++|.+.++++ . .+.+..++..++..+...|++++|...++++++..|+++..+..++.+|.
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~   88 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHH
Confidence            567888999999999999999999987 3 33467788999999999999999999999999999999999999999999


Q ss_pred             hcCCchHHHHHHHHhhhCC
Q 005966          631 AVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       631 ~~g~~~~A~~~~~~~~~~~  649 (667)
                      ..|++++|...++++.+..
T Consensus        89 ~~~~~~~A~~~~~~~~~~~  107 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALELD  107 (125)
T ss_dssp             HTTCHHHHHHHHHHHHHHC
T ss_pred             HhcCHHHHHHHHHHHHHhC
Confidence            9999999999999988765

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.52  E-value=3.7e-07  Score=74.45  Aligned_cols=99  Identities=12%  Similarity=0.077  Sum_probs=89.0

Q ss_pred             CchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHH
Q 005966          551 SRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKL  628 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~  628 (667)
                      .+...+..++..+...|++++|.+.+++. ...| +...+..+...+...|++++|+..++++++..|+++.++..++.+
T Consensus        10 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           10 AEAERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            34567788889999999999999999987 3334 778889999999999999999999999999999999999999999


Q ss_pred             HhhcCCchHHHHHHHHhhhCC
Q 005966          629 YSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       629 ~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      |...|++++|...+++..+..
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~  110 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD  110 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHhCCHHHHHHHHHHHHhcC
Confidence            999999999999999988765

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.51  E-value=1.5e-06  Score=72.76  Aligned_cols=99  Identities=12%  Similarity=-0.016  Sum_probs=74.5

Q ss_pred             CchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHH
Q 005966          551 SRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLL  625 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  625 (667)
                      .+...+..++..+...|++++|++.+++. ...|+    ...+..+...+...|++++|+..++++++..|+++.++..+
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  105 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYRR  105 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHHH
Confidence            45566777777777888888888877776 55665    45677777777778888888888888888888777777788


Q ss_pred             HHHHhhcCCchHHHHHHHHhhhCC
Q 005966          626 SKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       626 ~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +.+|...|++++|...+++..+..
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~  129 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcC
Confidence            888888888888888887776654

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.49  E-value=1.1e-06  Score=89.29  Aligned_cols=95  Identities=9%  Similarity=0.049  Sum_probs=77.0

Q ss_pred             hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          553 ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       553 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      ...|..+..+|.+.|++++|+..++++ ...| +...+..+..++...|++++|+..++++++++|+++.++..++.++.
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~  396 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQISMCQK  396 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC----CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            456888888999999999999999887 3444 67789999999999999999999999999999999999999999999


Q ss_pred             hcCCchHHHH-HHHHhhh
Q 005966          631 AVRRWKDAEN-VRDVMDE  647 (667)
Q Consensus       631 ~~g~~~~A~~-~~~~~~~  647 (667)
                      +.|++++|.+ .+++|..
T Consensus       397 ~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          397 KAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHHHHHh
Confidence            9999988875 4555543

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.49  E-value=2.6e-06  Score=72.91  Aligned_cols=128  Identities=12%  Similarity=0.011  Sum_probs=96.7

Q ss_pred             chHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHH
Q 005966          483 VVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDL  562 (667)
Q Consensus       483 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  562 (667)
                      ..|..+...+...|++++|...|++..+.. +.+...+..+..++...|++++|...+++..+.  .+.+...+..++.+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHH
Confidence            356667777888888889988888888764 335677888888888889999999999888873  34456778888888


Q ss_pred             HhhcCChHHHHHHHHhC-CCCC-CHHHHHHH--HHHHHhcCCHHHHHHHHHHhhc
Q 005966          563 LGRAGRLDEAYDLIRTM-PLKP-THAVWGAL--LGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       563 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l--~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      +...|++++|.+.++++ ...| +...+..+  +..+...|++++|+..+++...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            88999999999988887 3333 44555333  3336778899999988887654

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.48  E-value=7.5e-07  Score=73.49  Aligned_cols=113  Identities=12%  Similarity=-0.045  Sum_probs=84.5

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHH
Q 005966          515 PNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALL  592 (667)
Q Consensus       515 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  592 (667)
                      .+...+..+...+...|++++|...|+...+.  .+.+...+..++.++...|++++|+..+++. ...| +...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhh--CcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            34566777777788888888888888887772  3345667778888888888888888888776 3334 567888888


Q ss_pred             HHHHhcCCHHHHHHHHHHhhccCCC-----CCchHHHHHHHH
Q 005966          593 GACVIHGNVELGEVAAKWLFELEPE-----NPGNYVLLSKLY  629 (667)
Q Consensus       593 ~~~~~~g~~~~A~~~~~~~~~~~p~-----~~~~~~~l~~~~  629 (667)
                      .++...|++++|+..+++++++.|+     +..+...+..+.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~l~~~~  126 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAK  126 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCTTHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChhHHHHHHHHHHHHHHHHH
Confidence            8899999999999999999988887     444444444443

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.48  E-value=6.4e-05  Score=71.41  Aligned_cols=235  Identities=11%  Similarity=0.068  Sum_probs=169.0

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhc-C-
Q 005966          388 GCVHNGLARKAVELFRQMLVEVVEPND-ATLNSLLPAYAILA-DLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKC-G-  463 (667)
Q Consensus       388 ~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g-  463 (667)
                      ...+.+..++|+++++++...  .|+. ..++.--..+...+ .+++++.+++.+.... +-+..+++.-..++.+. + 
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~--nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~  139 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRM--NPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQ  139 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCS
T ss_pred             HHHhCCCCHHHHHHHHHHHHh--CchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCC
Confidence            334456667899999998875  4544 34454444555566 5899999999988766 45666677666666666 6 


Q ss_pred             CHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChH--------HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC--
Q 005966          464 SLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGE--------TAVSLFKEMVQSGVQPNEVTFTSALHACSHGGL--  532 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~--------~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~--  532 (667)
                      +++++.++++.+.+..| +..+|+--...+.+.|.++        ++++.++++.+..+ -|...|+.....+.+.+.  
T Consensus       140 ~~~~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~dp-~N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          140 DPVSEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVDG-RNNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             CCHHHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHTTSTTCC
T ss_pred             ChHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccc
Confidence            88999999999988764 5677776666666655555        89999999999863 377888888888888776  


Q ss_pred             -----HHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCCh--------------------HHHHHHHHhCC-C-----
Q 005966          533 -----LDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL--------------------DEAYDLIRTMP-L-----  581 (667)
Q Consensus       533 -----~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~--------------------~~A~~~~~~~~-~-----  581 (667)
                           ++++++.+++++.  ..+-|...|+-+-..+.+.|+.                    .+..+...++. .     
T Consensus       219 ~~~~~~~eELe~~~~aI~--~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  296 (349)
T 3q7a_A          219 TSSRSLQDELIYILKSIH--LIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPED  296 (349)
T ss_dssp             CCHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSS
T ss_pred             cchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccc
Confidence                 7899999999887  3456777888877777776654                    34444444442 2     


Q ss_pred             --CCCHHHHHHHHHHHHhcCCHHHHHHHHHHhh-ccCCCCCchHHHHHHH
Q 005966          582 --KPTHAVWGALLGACVIHGNVELGEVAAKWLF-ELEPENPGNYVLLSKL  628 (667)
Q Consensus       582 --~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~p~~~~~~~~l~~~  628 (667)
                        .+.+..+..++..|...|+.++|.++++.+. +.+|-....|...+..
T Consensus       297 ~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~dpir~~yw~~~~~~  346 (349)
T 3q7a_A          297 TPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSSEYDQMRAGYWEFRRRE  346 (349)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCGGGHHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhChHHHHHHHHHHHh
Confidence              3577889999999999999999999999986 6788766666655443

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.48  E-value=2.8e-07  Score=93.97  Aligned_cols=119  Identities=8%  Similarity=-0.018  Sum_probs=96.7

Q ss_pred             HHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCH
Q 005966          524 LHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNV  601 (667)
Q Consensus       524 l~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  601 (667)
                      ...+.+.|++++|.+.++++.+.  .+.+...|..++.+|.+.|++++|++.+++. ...| +...+..+..++...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            34566788899999999888873  3345777888889999999999999998887 4455 677889999999999999


Q ss_pred             HHHHHHHHHhhccCCCCCchHHHHHHH--HhhcCCchHHHHHHHH
Q 005966          602 ELGEVAAKWLFELEPENPGNYVLLSKL--YSAVRRWKDAENVRDV  644 (667)
Q Consensus       602 ~~A~~~~~~~~~~~p~~~~~~~~l~~~--~~~~g~~~~A~~~~~~  644 (667)
                      ++|+..+++++++.|+++.++..++.+  +.+.|++++|++.+++
T Consensus        91 ~eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~  135 (477)
T 1wao_1           91 RAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEH  135 (477)
T ss_dssp             HHHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999999999999999999999888  8889999999999883

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.48  E-value=4e-07  Score=74.24  Aligned_cols=102  Identities=14%  Similarity=0.023  Sum_probs=57.4

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC----HHHHHHHHHHH
Q 005966          522 SALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT----HAVWGALLGAC  595 (667)
Q Consensus       522 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~  595 (667)
                      .+...+...|++++|...|+.+.+.....+. ...+..++.++.+.|++++|+..++++ ...|+    ...+..+..++
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            3445566667777777777666653221111 134555666666666666666666655 22232    34555566666


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                      ...|++++|+..++++++..|+++.+..
T Consensus        87 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~  114 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQYPGSDAARV  114 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTTSHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHCCCChHHHH
Confidence            6666666666666666666666544433

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.47  E-value=5.7e-06  Score=78.27  Aligned_cols=182  Identities=12%  Similarity=0.063  Sum_probs=103.5

Q ss_pred             HHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcC--ChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC-HHHHHHHH
Q 005966          465 LESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHG--HGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGL-LDEGLDLF  540 (667)
Q Consensus       465 ~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~-~~~A~~~~  540 (667)
                      ++++..+++.+....| +..+|+--...+.+.+  .+++++.+++++.+... -|..+|+.-...+...|. ++++++.+
T Consensus        90 l~~EL~~~~~~L~~~PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dp-rNy~AW~~R~~vl~~l~~~~~eel~~~  168 (331)
T 3dss_A           90 VKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFT  168 (331)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhCcCHHHHHHHH
Confidence            3445555555444333 4455655555555555  36677777777776542 255556555555555565 46677777


Q ss_pred             HHhHHhcCCCCchhHHHHHHHHHhhc--------------CChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc------
Q 005966          541 NFMLENHQTCSRADHYTCIVDLLGRA--------------GRLDEAYDLIRTM-PLKP-THAVWGALLGACVIH------  598 (667)
Q Consensus       541 ~~~~~~~~~~~~~~~~~~l~~~~~~~--------------g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~------  598 (667)
                      +.+++  ..+.|...|+.....+.+.              +.++++++.+.+. ...| |...|+.+-..+...      
T Consensus       169 ~~~I~--~~p~N~SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~  246 (331)
T 3dss_A          169 DSLIT--RNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCEL  246 (331)
T ss_dssp             HHHHH--HCSCCHHHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGC
T ss_pred             HHHHH--HCCCCHHHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCcccc
Confidence            76666  2334555565555444443              3466677666665 3334 566666555544443      


Q ss_pred             -----CCHHHHHHHHHHhhccCCCCCchHHHHHHHH---hhcCCchHHHHHHHHhhhCC
Q 005966          599 -----GNVELGEVAAKWLFELEPENPGNYVLLSKLY---SAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       599 -----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~---~~~g~~~~A~~~~~~~~~~~  649 (667)
                           +.++++++.+++++++.|++..++..++.+.   ...|..++....++++.+..
T Consensus       247 ~~~~~~~l~~el~~~~elle~~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~D  305 (331)
T 3dss_A          247 SVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD  305 (331)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHHC
T ss_pred             chHHHHHHHHHHHHHHHHHhhCcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHhC
Confidence                 3467777777777777777644443333222   23566677777777776543

>4gcn_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; HET: PGE; 1.85A {Caenorhabditis elegans}

Probab=98.46  E-value=5.2e-07  Score=73.22  Aligned_cols=100  Identities=8%  Similarity=-0.016  Sum_probs=55.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC----CCC----HHHHHH
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL----KPT----HAVWGA  590 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~----~p~----~~~~~~  590 (667)
                      +..+...+.+.|++++|+..|+++++.  .|.+...|..++.+|.+.|++++|++.+++. .+    .++    ..++..
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            344444555555555555555555541  2233444555555555555555555555543 11    111    124566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          591 LLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       591 l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                      ++.++...|++++|++.++++++..|+ +...
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~~~~-~~~~  119 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSEFRD-PELV  119 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSCC-HHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcC-HHHH
Confidence            667777788888888888888877775 4433

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.45  E-value=4.7e-06  Score=86.43  Aligned_cols=171  Identities=11%  Similarity=0.018  Sum_probs=140.3

Q ss_pred             CHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccC-
Q 005966          464 SLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGH----------GETAVSLFKEMVQSGVQPNEVTFTSALHACSHGG-  531 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g-  531 (667)
                      ..++|.+.++.+....|+ ..+|+.--..+...|+          ++++++.++++.+...+ +..+|..-..++.+.| 
T Consensus        44 ~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~pK-~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           44 LDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             CSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTCSS
T ss_pred             CCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHccc
Confidence            446778888877776664 4677776666666666          89999999999997533 6678888778888888 


Q ss_pred             -CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcC-ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc---------
Q 005966          532 -LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG-RLDEAYDLIRTM-PLKP-THAVWGALLGACVIH---------  598 (667)
Q Consensus       532 -~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---------  598 (667)
                       +++++++.++++.+  ..+.+...|+....++.+.| .++++++.++++ ...| +...|+.....+.+.         
T Consensus       123 ~~~~~el~~~~k~l~--~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          123 PNWARELELCARFLE--ADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             ccHHHHHHHHHHHHh--hccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccc
Confidence             77999999999998  34467788988888888889 899999999988 5556 778898888876663         


Q ss_pred             -----CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchH
Q 005966          599 -----GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKD  637 (667)
Q Consensus       599 -----g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~  637 (667)
                           +.++++++.+++++..+|+|..+|..+.+++.+.|++++
T Consensus       201 ~~~~~~~~~eel~~~~~ai~~~P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHHHHHHHHhhCCCCccHHHHHHHHHhcCCCccc
Confidence                 557999999999999999999999999999999998766

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.44  E-value=7.2e-07  Score=71.62  Aligned_cols=98  Identities=13%  Similarity=0.013  Sum_probs=64.7

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHh
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVI  597 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  597 (667)
                      +..+...+.+.|++++|...++++.+  ..+.+...|..+..++...|++++|+..+++. ...| +...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQ--KEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            34445556667777777777777766  23345566677777777777777777777766 3444 56677777778888


Q ss_pred             cCCHHHHHHHHHHhhccCCCCC
Q 005966          598 HGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      .|++++|+..++++++.+|+++
T Consensus        98 ~g~~~~A~~~~~~al~~~P~~~  119 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQYE  119 (121)
T ss_dssp             HHHHHHHHHHHHHHHC------
T ss_pred             cCCHHHHHHHHHHHHHhCcCCC
Confidence            8888888888888888888754

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.44  E-value=3.4e-06  Score=74.99  Aligned_cols=134  Identities=10%  Similarity=-0.048  Sum_probs=76.2

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCC-CHHHHHHHHHHHhccCCHHHHHHHHHHhHHh---cCCCC--
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQS----GVQP-NEVTFTSALHACSHGGLLDEGLDLFNFMLEN---HQTCS--  551 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~--  551 (667)
                      ..++..+...+...|++++|...+++..+.    +..| ...++..+...+...|++++|...+++..+.   .+..|  
T Consensus        26 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~  105 (203)
T 3gw4_A           26 SGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLA  105 (203)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHH
Confidence            345555555666666666666666655541    1111 1234555666666667777777666665542   22111  


Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhCC----CCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHhhccC
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTMP----LKPTH----AVWGALLGACVIHGNVELGEVAAKWLFELE  615 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  615 (667)
                      ....+..+...+...|++++|...+++.-    ..++.    .++..+...+...|++++|...+++++++.
T Consensus       106 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  177 (203)
T 3gw4_A          106 ASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDIF  177 (203)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHH
Confidence            23445566666777777777766666541    11122    234566666777777777777777776644

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.44  E-value=2.1e-06  Score=87.01  Aligned_cols=191  Identities=10%  Similarity=-0.056  Sum_probs=132.4

Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCCCCc------------------chHHHHHHHHHHcCChHHHHHHHHHHHHcC-CCCCH
Q 005966          457 DIYSKCGSLESAHKIFSEIPIKDKDI------------------VVWSVIIAGYGMHGHGETAVSLFKEMVQSG-VQPNE  517 (667)
Q Consensus       457 ~~~~~~g~~~~A~~~~~~~~~~~~~~------------------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~  517 (667)
                      ..+.+.|++++|.+.|..+.+..|+.                  .++..+...|...|++++|.+.+.++.+.- -.++.
T Consensus        12 ~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~   91 (434)
T 4b4t_Q           12 RRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKS   91 (434)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccch
Confidence            34455666666666666554332210                  136678888999999999999988876521 11222


Q ss_pred             H----HHHHHHHHHhccCCHHHHHHHHHHhHHh---cCCCC-chhHHHHHHHHHhhcCChHHHHHHHHhC----C---CC
Q 005966          518 V----TFTSALHACSHGGLLDEGLDLFNFMLEN---HQTCS-RADHYTCIVDLLGRAGRLDEAYDLIRTM----P---LK  582 (667)
Q Consensus       518 ~----~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~---~~  582 (667)
                      .    ..+.+...+...|++++|..+++.....   .+..+ -..++..++..|...|++++|..++++.    .   .+
T Consensus        92 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~  171 (434)
T 4b4t_Q           92 KTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDK  171 (434)
T ss_dssp             HHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCS
T ss_pred             HHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccc
Confidence            1    2333444456678999999998887642   12222 3457778999999999999999998876    1   22


Q ss_pred             C-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC-------CchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          583 P-THAVWGALLGACVIHGNVELGEVAAKWLFELEPEN-------PGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       583 p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      | ...++..++..|...|++++|...+++++...+..       ...+..++.++...|++++|...+.+..+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~~  244 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESFE  244 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            2 23467888889999999999999999988754332       13566788889999999999998877653

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.43  E-value=4.4e-07  Score=77.51  Aligned_cols=112  Identities=12%  Similarity=0.010  Sum_probs=69.2

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhc------C----------CCCchhHHHHHHHHHhhcCChHHHHHHHHhC-C
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENH------Q----------TCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-P  580 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~------~----------~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  580 (667)
                      ..+......+.+.|++++|+..|.+.++..      .          .+.+...|..+..+|.+.|++++|+..+++. .
T Consensus        12 ~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~   91 (162)
T 3rkv_A           12 EALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLK   91 (162)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHh
Confidence            456677777888888888888888877620      0          1112345556666666666666666666665 3


Q ss_pred             CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC-chHHHHHHHH
Q 005966          581 LKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENP-GNYVLLSKLY  629 (667)
Q Consensus       581 ~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~~  629 (667)
                      ..| +...|..++.++...|++++|+..++++++++|+++ .+...+..+.
T Consensus        92 ~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~l~~~~  142 (162)
T 3rkv_A           92 REETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPAAASVVAREMKIVT  142 (162)
T ss_dssp             HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHH
T ss_pred             cCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            333 455666666666666666666666666666666655 3344444433

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.41  E-value=7.5e-07  Score=86.41  Aligned_cols=148  Identities=9%  Similarity=-0.056  Sum_probs=78.6

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHH
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLL  563 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  563 (667)
                      .+..+...+.+.|++++|+..|++.++.  .|+...       +...|+++++...+.           ...|..+..+|
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l~-----------~~~~~nla~~~  240 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAVK-----------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHHH-----------THHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHHH-----------HHHHHHHHHHH
Confidence            4555556666677777777777776664  343321       223334444332221           12678899999


Q ss_pred             hhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh-hcCCchHHHH
Q 005966          564 GRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS-AVRRWKDAEN  640 (667)
Q Consensus       564 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~-~~g~~~~A~~  640 (667)
                      .+.|++++|+..+++. ...| +...|..+..++...|++++|+..+++++++.|+++.++..|+.+.. ..+..+++..
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~~  320 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQKE  320 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999987 4445 67789999999999999999999999999999999999999998844 5677888899


Q ss_pred             HHHHhhhCCCc
Q 005966          641 VRDVMDEKGLR  651 (667)
Q Consensus       641 ~~~~~~~~~~~  651 (667)
                      .+++|.+....
T Consensus       321 ~~~~~l~~~p~  331 (338)
T 2if4_A          321 MYKGIFKGKDE  331 (338)
T ss_dssp             -----------
T ss_pred             HHHHhhCCCCC
Confidence            99998776543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.41  E-value=1.5e-07  Score=83.68  Aligned_cols=120  Identities=8%  Similarity=-0.067  Sum_probs=85.9

Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-C----------------HHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-T----------------HAVWG  589 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~----------------~~~~~  589 (667)
                      ...|+++++.+.|+...+.  .......+..++..+.+.|++++|++.|++. ...| +                ...+.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~   92 (198)
T 2fbn_A           15 ENLYFQGAKKSIYDYTDEE--KVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNL   92 (198)
T ss_dssp             -------CCCSGGGCCHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhccccCchhhCCHHH--HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHH
Confidence            3445555555555433221  1112334556667777777777777777765 2222 2                26788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .+..++...|++++|+..++++++..|+++.++..++.+|...|++++|++.+++..+..
T Consensus        93 ~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~  152 (198)
T 2fbn_A           93 NLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLN  152 (198)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC
Confidence            889999999999999999999999999999999999999999999999999999988764

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.40  E-value=1.6e-07  Score=75.06  Aligned_cols=93  Identities=12%  Similarity=0.035  Sum_probs=53.3

Q ss_pred             cCCHHHHHHHHHHhHHhcC-CCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 005966          530 GGLLDEGLDLFNFMLENHQ-TCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEV  606 (667)
Q Consensus       530 ~g~~~~A~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~  606 (667)
                      .|++++|+..|+++++... .+.+...+..++.+|...|++++|+..+++. ...| +...+..+..++...|++++|+.
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHHH
Confidence            4666677777777665110 1223445666666666666666666666665 2333 45566666666666666666666


Q ss_pred             HHHHhhccCCCCCchH
Q 005966          607 AAKWLFELEPENPGNY  622 (667)
Q Consensus       607 ~~~~~~~~~p~~~~~~  622 (667)
                      .++++++..|+++...
T Consensus        83 ~~~~al~~~p~~~~~~   98 (117)
T 3k9i_A           83 LLLKIIAETSDDETIQ   98 (117)
T ss_dssp             HHHHHHHHHCCCHHHH
T ss_pred             HHHHHHHhCCCcHHHH
Confidence            6666666666655443

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.40  E-value=7.4e-07  Score=72.66  Aligned_cols=110  Identities=6%  Similarity=-0.047  Sum_probs=66.5

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CC----CCC----HHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PL----KPT----HAVWG  589 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~----~p~----~~~~~  589 (667)
                      .+..+...+...|++++|...++++.+.  .+.+...+..++.++...|++++|...++++ ..    .++    ..++.
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            3444555555556666666666655552  2234445555566666666666666665554 11    122    45667


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      .++..+...|++++|...++++++..| ++.....+..++..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~  124 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEHR-TPDVLKKCQQAEKI  124 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCC-CHHHHHHHHHHHHH
Confidence            777777888888888888888888777 46666666655544

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.40  E-value=2.7e-06  Score=66.97  Aligned_cols=100  Identities=17%  Similarity=0.099  Sum_probs=68.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC---CHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP---THAVWGALLG  593 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~  593 (667)
                      ..+..+...+...|++++|...++++.+.  .+.+...+..++.++...|++++|.+.+++. ...|   +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQL--DPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            34555566666677777777777776662  2334556666777777777777777777765 2333   4667777777


Q ss_pred             HHHhc-CCHHHHHHHHHHhhccCCCCC
Q 005966          594 ACVIH-GNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       594 ~~~~~-g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      .+... |++++|++.+++++...|.++
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~~~  111 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHHHH  111 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccCCC
Confidence            78888 888888888888888887754

>1elr_A TPR2A-domain of HOP; HOP, TPR-domain, peptide-complex, helical repeat, protein binding, chaperone; 1.90A {Homo sapiens} SCOP: a.118.8.1 PDB: 3esk_A 3fwv_A

Probab=98.39  E-value=7e-07  Score=72.82  Aligned_cols=97  Identities=12%  Similarity=0.030  Sum_probs=86.3

Q ss_pred             hhHHHHHHHHHhhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC-------CchHH
Q 005966          553 ADHYTCIVDLLGRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPEN-------PGNYV  623 (667)
Q Consensus       553 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-------~~~~~  623 (667)
                      ...+..++..+...|++++|...+++. . .+.+...+..++..+...|++++|...++++++..|++       +.++.
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            456778889999999999999999987 3 33477788999999999999999999999999998876       77899


Q ss_pred             HHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          624 LLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .++.+|...|++++|.+.++++.+..
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~~  109 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAEH  109 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            99999999999999999999988764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.38  E-value=5.9e-07  Score=76.72  Aligned_cols=94  Identities=14%  Similarity=0.064  Sum_probs=59.8

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CC------------------CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PL------------------KP-THAVWGALLGACVIHGNVELGEVAAKWLFELE  615 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~------------------~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  615 (667)
                      +...+..+.+.|++++|+..|++. ..                  .| +...|..+..++.+.|++++|+..++++++++
T Consensus        14 ~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al~~~   93 (162)
T 3rkv_A           14 LRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVLKRE   93 (162)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcC
Confidence            444555666667777776666654 11                  12 12356666666666777777777777777777


Q ss_pred             CCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          616 PENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       616 p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      |+++.++..++.+|...|++++|+..+++..+..
T Consensus        94 p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~  127 (162)
T 3rkv_A           94 ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNH  127 (162)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcC
Confidence            7777777777777777777777777776665543

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.37  E-value=1.8e-06  Score=81.26  Aligned_cols=114  Identities=11%  Similarity=-0.085  Sum_probs=93.0

Q ss_pred             CHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHH
Q 005966          516 NEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLG  593 (667)
Q Consensus       516 ~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  593 (667)
                      +...+..+...+...|++++|...|+++.+.  .+.+...|..++.+|.+.|++++|+..++++ ...| +...+..++.
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITR--NPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            4567778888899999999999999999883  3346778888999999999999999999886 5555 5678888888


Q ss_pred             HHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          594 ACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ++...|++++|+..+++++++.|+++..+...++...+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~  118 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALR  118 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHH
Confidence            99999999999999999999999887666655555443

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.37  E-value=3.2e-06  Score=68.74  Aligned_cols=92  Identities=16%  Similarity=0.109  Sum_probs=61.8

Q ss_pred             HHHHHHhhcCChHHHHHHHHhC-CCCCC-H---HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC---CchHHHHHHHH
Q 005966          558 CIVDLLGRAGRLDEAYDLIRTM-PLKPT-H---AVWGALLGACVIHGNVELGEVAAKWLFELEPEN---PGNYVLLSKLY  629 (667)
Q Consensus       558 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---~~~~~~l~~~~  629 (667)
                      .++..+...|++++|.+.++++ ...|+ .   ..+..++.++...|++++|+..++++++..|++   +.++..++.+|
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~~~   86 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGLSQ   86 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHH
Confidence            4556666777777777777765 22232 2   356666666777777777777777777777776   55577777777


Q ss_pred             hhcCCchHHHHHHHHhhhCC
Q 005966          630 SAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ...|++++|...++++.+..
T Consensus        87 ~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           87 YGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS
T ss_pred             HHcCCHHHHHHHHHHHHHHC
Confidence            77777777777777766543

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.36  E-value=1.5e-06  Score=85.23  Aligned_cols=90  Identities=14%  Similarity=0.013  Sum_probs=79.9

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                      +...|..+..+|.+.|++++|++.++++ ...| +...+..+..++...|++++|+..+++++++.|+++.++..++.++
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~~~~~~~~l~~~~  351 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  351 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            4567888999999999999999999987 5556 6778999999999999999999999999999999999999999999


Q ss_pred             hhcCCchHHHHH
Q 005966          630 SAVRRWKDAENV  641 (667)
Q Consensus       630 ~~~g~~~~A~~~  641 (667)
                      ...++.+++.+.
T Consensus       352 ~~~~~~~~a~k~  363 (370)
T 1ihg_A          352 QKIKAQKDKEKA  363 (370)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHH
Confidence            999988887654

>3dss_A Geranylgeranyl transferase type-2 subunit alpha; protein prenylation, metal-binding, prenyltransferase, zinc, phosphoprotein; 1.80A {Rattus norvegicus} PDB: 3dst_A* 3dsu_A* 3dsv_A* 3dsw_A* 3dsx_A* 3hxb_A* 3hxc_A* 3hxd_A* 3hxe_A* 3hxf_A* 3pz1_A* 3pz2_A* 3pz3_A* 3c72_A* 4gtv_A* 4gts_A* 4ehm_A* 4gtt_A*

Probab=98.36  E-value=1.1e-05  Score=76.21  Aligned_cols=186  Identities=12%  Similarity=0.048  Sum_probs=143.0

Q ss_pred             hcCCH-HHHHHHHhhCCCCCCCc-chHHHHHHHHHHcCC----------hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 005966          461 KCGSL-ESAHKIFSEIPIKDKDI-VVWSVIIAGYGMHGH----------GETAVSLFKEMVQSGVQPNEVTFTSALHACS  528 (667)
Q Consensus       461 ~~g~~-~~A~~~~~~~~~~~~~~-~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  528 (667)
                      +.|.+ ++|.++++.+....|+. .+|+.--..+...+.          +++++.+++.+....+ -+..+|+.-...+.
T Consensus        41 ~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~P-Kny~aW~hR~wlL~  119 (331)
T 3dss_A           41 QAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNP-KSYGTWHHRCWLLS  119 (331)
T ss_dssp             HTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHh
Confidence            34444 47888888888776653 556654444433333          6789999999998753 36677777766677


Q ss_pred             ccC--CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC-hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc-----
Q 005966          529 HGG--LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR-LDEAYDLIRTM-PLKP-THAVWGALLGACVIH-----  598 (667)
Q Consensus       529 ~~g--~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~-----  598 (667)
                      +.|  .+++++.+++.+.+  ..+.+...|+.-..++...|. ++++++.+.++ ...| |...|+.........     
T Consensus       120 ~l~~~~~~~EL~~~~k~l~--~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          120 RLPEPNWARELELCARFLE--ADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HCSSCCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC-
T ss_pred             ccCcccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccc
Confidence            777  58999999999998  445677788888888888888 59999999887 4444 788898887776655     


Q ss_pred             ---------CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc-----------CCchHHHHHHHHhhhCC
Q 005966          599 ---------GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV-----------RRWKDAENVRDVMDEKG  649 (667)
Q Consensus       599 ---------g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-----------g~~~~A~~~~~~~~~~~  649 (667)
                               +.++++++.+++++..+|+|.++|..+..++...           +.++++++.++++.+..
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~  268 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTDPNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE  268 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC
T ss_pred             cccccccchHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC
Confidence                     4588999999999999999999999888787776           45789999999998764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.34  E-value=2.2e-06  Score=72.94  Aligned_cols=129  Identities=11%  Similarity=-0.010  Sum_probs=73.0

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hhHHHHHHHHHhhcCChHHHHHHHHhCC----CCCC----HHH
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----ADHYTCIVDLLGRAGRLDEAYDLIRTMP----LKPT----HAV  587 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~----~~~  587 (667)
                      +..+...+...|++++|...+++..+.....++    ...+..+...+...|++++|.+.+++..    ..++    ...
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            334444444445555555544444331110011    1234445555555555555555555431    1111    234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhccCCC------CCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          588 WGALLGACVIHGNVELGEVAAKWLFELEPE------NPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       588 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~------~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      +..+...+...|++++|...++++++..+.      .+.++..++.+|...|++++|.+.+++..+.
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  158 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  158 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            566666777778888888888777765322      1346778888888899999999888887643

>1p5q_A FKBP52, FK506-binding protein 4; isomerase; 2.80A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 PDB: 1qz2_A

Probab=98.33  E-value=5.4e-06  Score=80.31  Aligned_cols=130  Identities=12%  Similarity=-0.040  Sum_probs=98.3

Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCC--------------HHHHHHHHHHHhccCCHHHHHHHHHHhHHhc
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPN--------------EVTFTSALHACSHGGLLDEGLDLFNFMLENH  547 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--------------~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~  547 (667)
                      ...|..+...+.+.|++++|+..|++.++......              ...|..+..+|.+.|++++|+..++++++. 
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  225 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL-  225 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-
Confidence            45667777778888888888888888877532211              367888888888889999999999888873 


Q ss_pred             CCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHH-HHHHHHhhc
Q 005966          548 QTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELG-EVAAKWLFE  613 (667)
Q Consensus       548 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A-~~~~~~~~~  613 (667)
                       .+.+...|..+..+|...|++++|+..|+++ ...| +...+..+..++...|+.++| ...+++++.
T Consensus       226 -~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          226 -DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence             3456777888888899999999999888887 4445 566788888888888888888 446666553

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.32  E-value=2.6e-06  Score=70.25  Aligned_cols=107  Identities=16%  Similarity=0.044  Sum_probs=73.2

Q ss_pred             HHHHHhccCCHHHHHHHHHHhHHhcCCCC-----c-----hhHHHHHHHHHhhcCChHHHHHHHHhC-CC-------CCC
Q 005966          523 ALHACSHGGLLDEGLDLFNFMLENHQTCS-----R-----ADHYTCIVDLLGRAGRLDEAYDLIRTM-PL-------KPT  584 (667)
Q Consensus       523 ll~~~~~~g~~~~A~~~~~~~~~~~~~~~-----~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-------~p~  584 (667)
                      ....+.+.|++++|+..|++.++.....|     +     ...|..+..++.+.|++++|+..+++. ..       .|+
T Consensus        17 ~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd   96 (159)
T 2hr2_A           17 DAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD   96 (159)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc
Confidence            33444455555555555555554221100     1     226677777777777777777776665 34       775


Q ss_pred             H-HHH----HHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          585 H-AVW----GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       585 ~-~~~----~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                      . ..|    .....++...|++++|+..|++++++.|+|..+...+..+-
T Consensus        97 ~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~d~~~~~~~~~~~  146 (159)
T 2hr2_A           97 EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGETPGKERMM  146 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSCCTTHHHHH
T ss_pred             hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            4 477    89999999999999999999999999999988877665443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.32  E-value=3.1e-07  Score=72.56  Aligned_cols=95  Identities=13%  Similarity=-0.020  Sum_probs=80.4

Q ss_pred             CchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC------CchH
Q 005966          551 SRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPEN------PGNY  622 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~------~~~~  622 (667)
                      ++...+..++..+.+.|++++|++.+++. ...| +...+..+..++...|++++|+..+++++++.|++      +.++
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~   81 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTAEHVAIRSKLQ   81 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSSTTSHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCccHHHHHHHHH
Confidence            34566777888888899999999888886 3344 67788899999999999999999999999999998      7788


Q ss_pred             HHHHHHHhhcCCchHHHHHHHHh
Q 005966          623 VLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       623 ~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      ..++.++...|++++|.+.++++
T Consensus        82 ~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHhHhhhHhHHHHh
Confidence            89999999999998888777654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.29  E-value=6.7e-07  Score=71.40  Aligned_cols=85  Identities=9%  Similarity=-0.004  Sum_probs=62.9

Q ss_pred             hcCChHHHHHHHHhC-CC---CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHH
Q 005966          565 RAGRLDEAYDLIRTM-PL---KP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAE  639 (667)
Q Consensus       565 ~~g~~~~A~~~~~~~-~~---~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~  639 (667)
                      ..|++++|+..|++. ..   .| +...+..+...+...|++++|+..++++++..|+++.++..++.+|...|++++|+
T Consensus         2 ~~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            2 VLGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             -----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            357778888888776 34   24 34567777788888888888888888888888888888888888888888888888


Q ss_pred             HHHHHhhhCC
Q 005966          640 NVRDVMDEKG  649 (667)
Q Consensus       640 ~~~~~~~~~~  649 (667)
                      +.+++..+..
T Consensus        82 ~~~~~al~~~   91 (117)
T 3k9i_A           82 ELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhC
Confidence            8888876653

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.21  E-value=4.4e-06  Score=64.23  Aligned_cols=65  Identities=26%  Similarity=0.211  Sum_probs=56.4

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      +...+..+...+...|++++|+..++++++++|+++.++..++.+|...|++++|++.+++..+.
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l   70 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPDYVGTYYHLGKLYERLDRTDDAIDTYAQGIEV   70 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            56778888888888999999999999999999998889999999999999999999988887654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.20  E-value=3.7e-06  Score=84.97  Aligned_cols=123  Identities=16%  Similarity=0.106  Sum_probs=88.9

Q ss_pred             HhccCCHHHHHHHHHHhHHhcC--C---CCc-hhHHHHHHHHHhhcCChHHHHHHHHhC---------CCCCCH-HHHHH
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQ--T---CSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM---------PLKPTH-AVWGA  590 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~--~---~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~-~~~~~  590 (667)
                      +...|++++|+.++++.++...  +   .|+ ..+++.|+.+|...|++++|..++++.         +..|+. .+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            4466777777777766654211  1   122 346777777788888888887777765         134433 36788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhc-----cCCCCCchH---HHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          591 LLGACVIHGNVELGEVAAKWLFE-----LEPENPGNY---VLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       591 l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~~~---~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      |+..|..+|++++|+.+++++++     ++|++|.+-   ..|..++.+.|++++|...+.++++.-
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            88889999999999999998875     678877654   577888889999999999999988644

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.17  E-value=5.3e-06  Score=80.37  Aligned_cols=153  Identities=14%  Similarity=0.037  Sum_probs=85.2

Q ss_pred             chHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHh
Q 005966          449 VEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACS  528 (667)
Q Consensus       449 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  528 (667)
                      ...+..+...+.+.|++++|...|++.....|+...       +...++..++...+.          ...|..+..+|.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYMGDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHSCHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHHHH
Confidence            356778888999999999999999987664444221       122333333332221          236788888999


Q ss_pred             ccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHH-HHhcCCHHHHH
Q 005966          529 HGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGA-CVIHGNVELGE  605 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~-~~~~g~~~~A~  605 (667)
                      +.|++++|+..++++++.  .+.+...|..+..+|...|++++|+..|+++ ...|+ ...+..+... ....+..+.+.
T Consensus       242 ~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC---------------------------
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999883  3456778899999999999999999999998 56664 4455555555 33457788899


Q ss_pred             HHHHHhhccCCCCCc
Q 005966          606 VAAKWLFELEPENPG  620 (667)
Q Consensus       606 ~~~~~~~~~~p~~~~  620 (667)
                      ..++++++..|+++.
T Consensus       320 ~~~~~~l~~~p~~~~  334 (338)
T 2if4_A          320 EMYKGIFKGKDEGGA  334 (338)
T ss_dssp             ---------------
T ss_pred             HHHHHhhCCCCCCCC
Confidence            999999999998653

>1wao_1 Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, super-helix,; 2.9A {Homo sapiens} SCOP: a.118.8.1 d.159.1.3

Probab=98.17  E-value=4.7e-06  Score=84.92  Aligned_cols=125  Identities=14%  Similarity=0.058  Sum_probs=74.1

Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChH
Q 005966          491 GYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLD  570 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  570 (667)
                      .+.+.|++++|++.|++..+.. +.+...+..+..+|.+.|++++|+..++++.+  ..+.+...+..+..+|.+.|+++
T Consensus        15 ~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--l~p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           15 DYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             STTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--SCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHH
Confidence            3445667777777777766653 22355666666777777777777777777766  23344556666777777777777


Q ss_pred             HHHHHHHhC-CCCC-CHHHHHHHHHH--HHhcCCHHHHHHHHH-----------HhhccCCCC
Q 005966          571 EAYDLIRTM-PLKP-THAVWGALLGA--CVIHGNVELGEVAAK-----------WLFELEPEN  618 (667)
Q Consensus       571 ~A~~~~~~~-~~~p-~~~~~~~l~~~--~~~~g~~~~A~~~~~-----------~~~~~~p~~  618 (667)
                      +|++.++++ ...| +...+..+..+  +.+.|++++|+..++           ++++..|+.
T Consensus        92 eA~~~~~~al~~~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~al~~~~~~  154 (477)
T 1wao_1           92 AALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRSVVDSLDIESMTIEDEY  154 (477)
T ss_dssp             HHHHHHHHHHHHSTTCTTHHHHHHHHHHHHHHHHHCCC------CCSTTTCCTTSSCCCCTTC
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHhccccccchhHhhhhhhhccccccc
Confidence            777777665 2233 23344444444  666677777777777           666666553

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.16  E-value=3.8e-06  Score=66.71  Aligned_cols=62  Identities=10%  Similarity=0.007  Sum_probs=29.0

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          585 HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       585 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      ...+..+...+...|++++|+..++++++.+|+++.++..++.+|...|++++|...+++..
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33444444444444444444444444444444444444444444444444444444444443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.15  E-value=2.7e-05  Score=78.73  Aligned_cols=159  Identities=11%  Similarity=-0.011  Sum_probs=121.1

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCH----------------HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSGVQPNE----------------VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR  552 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----------------~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~  552 (667)
                      ...+.+.|++++|++.|.++.+.......                ..+..+...|...|++++|.+++..+.+.....++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            45567889999999999999985422111                24777889999999999999999998774433333


Q ss_pred             h----hHHHHHHHHHhhcCChHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccC-----
Q 005966          553 A----DHYTCIVDLLGRAGRLDEAYDLIRTM-------PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELE-----  615 (667)
Q Consensus       553 ~----~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----  615 (667)
                      .    .+.+.+...+...|++++|.+++++.       ...+. ..++..++..+...|++++|...++++....     
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            3    23444555666789999999888775       23333 4577888999999999999999999887532     


Q ss_pred             -CCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          616 -PENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       616 -p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                       |....++..++.+|...|++++|...+++...
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~  203 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAART  203 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence             22345788999999999999999999998764

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.14  E-value=8.1e-07  Score=73.05  Aligned_cols=49  Identities=6%  Similarity=0.083  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC-----------CchHHHHHHHHhhhCC
Q 005966          601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAVR-----------RWKDAENVRDVMDEKG  649 (667)
Q Consensus       601 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~~~~~~  649 (667)
                      +++|+..|+++++++|+++.+|+.++.+|...|           ++++|++.|++..+..
T Consensus        62 ~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~  121 (158)
T 1zu2_A           62 IQEAITKFEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  121 (158)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhC
Confidence            457777777777777777777777777777664           6777777777776654

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.14  E-value=9e-06  Score=68.99  Aligned_cols=134  Identities=12%  Similarity=0.030  Sum_probs=90.5

Q ss_pred             hHHHHHHHHHHcCChHHHHHHHHHHHHcCCC-CCH----HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc----hh
Q 005966          484 VWSVIIAGYGMHGHGETAVSLFKEMVQSGVQ-PNE----VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR----AD  554 (667)
Q Consensus       484 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~~----~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~----~~  554 (667)
                      ++..+...+...|++++|+..+++..+.... ++.    .++..+...+...|++++|...+++..+.....++    ..
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   90 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQ   90 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            4566666777777777777777776653111 111    35667777788888888888888877653211111    34


Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTMP----LKPT----HAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+..+...+...|++++|.+.+++.-    ..++    ...+..+...+...|++++|...+++++++...
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  161 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  161 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHH
Confidence            56677788888888888888877751    1112    335677788888999999999999998876443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=98.09  E-value=1.3e-05  Score=60.15  Aligned_cols=73  Identities=12%  Similarity=0.021  Sum_probs=63.0

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCccCCC
Q 005966          582 KPTHAVWGALLGACVIHGN---VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLRKAPA  655 (667)
Q Consensus       582 ~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~  655 (667)
                      ++++..+..+..++...++   .++|...++++++.+|+++.++..++..+.+.|++++|+.+|+++.+.... +|.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~-~~~   78 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP-NLD   78 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT-TCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-Ccc
Confidence            3577788888888765444   799999999999999999999999999999999999999999999988765 443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.09  E-value=1.1e-05  Score=60.57  Aligned_cols=81  Identities=20%  Similarity=0.234  Sum_probs=63.1

Q ss_pred             hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          553 ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       553 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      ...+..+...+...|++++|+..+++. ...| +...+..+...+...|++++|+..++++++..|+++.++..++.++.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~~   88 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAKQNLGNAKQ   88 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            445666777777788888888777776 3333 56677888888888899999999999999999988888888888887


Q ss_pred             hcC
Q 005966          631 AVR  633 (667)
Q Consensus       631 ~~g  633 (667)
                      +.|
T Consensus        89 ~~g   91 (91)
T 1na3_A           89 KQG   91 (91)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            654

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.07  E-value=7.5e-06  Score=80.23  Aligned_cols=113  Identities=8%  Similarity=0.026  Sum_probs=85.4

Q ss_pred             HHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHH
Q 005966          518 VTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKP-THAVWGALLGACV  596 (667)
Q Consensus       518 ~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~  596 (667)
                      ..+..+...+.+.|++++|+..|+++++..   +..          ......+++.      ...| +...|..+..++.
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~---~~~----------~~~~~~~~~~------~~~~~~~~~~~nla~~~~  284 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYV---EGS----------RAAAEDADGA------KLQPVALSCVLNIGACKL  284 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH---HHH----------HHHSCHHHHG------GGHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHh---hcC----------ccccChHHHH------HHHHHHHHHHHHHHHHHH
Confidence            456667777777888888888887776611   000          0001111111      1223 4567888999999


Q ss_pred             hcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          597 IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +.|++++|+..++++++++|+++.++..++.+|...|++++|++.++++.+..
T Consensus       285 ~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~  337 (370)
T 1ihg_A          285 KMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  337 (370)
T ss_dssp             HTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             hccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999988764

>1kt0_A FKBP51, 51 kDa FK506-binding protein; FKBP-like ppiase, TPR repeats, isomerase; 2.70A {Homo sapiens} SCOP: a.118.8.1 d.26.1.1 d.26.1.1 PDB: 1kt1_A 3o5d_A

Probab=98.06  E-value=6.8e-06  Score=83.37  Aligned_cols=66  Identities=9%  Similarity=-0.040  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          585 HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       585 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ...|..+..++.+.|++++|+..++++++++|+++.+++.++.+|...|++++|+..|+++.+...
T Consensus       317 ~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P  382 (457)
T 1kt0_A          317 LAAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  382 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC
Confidence            467888999999999999999999999999999999999999999999999999999999988653

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.03  E-value=4.8e-05  Score=78.87  Aligned_cols=151  Identities=10%  Similarity=0.029  Sum_probs=125.7

Q ss_pred             CChHHHHHHHHHHHHcCCCCC-HHHHHHHHHHHhccCC----------HHHHHHHHHHhHHhcCCCCchhHHHHHHHHHh
Q 005966          496 GHGETAVSLFKEMVQSGVQPN-EVTFTSALHACSHGGL----------LDEGLDLFNFMLENHQTCSRADHYTCIVDLLG  564 (667)
Q Consensus       496 ~~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~g~----------~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  564 (667)
                      ...++|++.++++.+.+  |+ ...|+.--.++...|+          +++++..++.+.+  ..+.+...|..-..++.
T Consensus        43 ~~~eeal~~~~~~l~~n--P~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~--~~pK~y~aW~hR~w~l~  118 (567)
T 1dce_A           43 ELDESVLELTSQILGAN--PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR--VNPKSYGTWHHRCWLLS  118 (567)
T ss_dssp             CCSHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHC--chhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHH
Confidence            34578899999999964  44 4557666666666666          9999999999998  44567778988888899


Q ss_pred             hcC--ChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC-CHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc-------
Q 005966          565 RAG--RLDEAYDLIRTM-PLKP-THAVWGALLGACVIHG-NVELGEVAAKWLFELEPENPGNYVLLSKLYSAV-------  632 (667)
Q Consensus       565 ~~g--~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~-------  632 (667)
                      +.|  +++++++.++++ ...| +...|+.-.....+.| .++++++.++++++.+|.|.++|...+.++.+.       
T Consensus       119 ~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~  198 (567)
T 1dce_A          119 RLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSG  198 (567)
T ss_dssp             TCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSS
T ss_pred             HcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccc
Confidence            999  779999999998 4445 7889999999988989 899999999999999999999999999998874       


Q ss_pred             -------CCchHHHHHHHHhhhCCC
Q 005966          633 -------RRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       633 -------g~~~~A~~~~~~~~~~~~  650 (667)
                             +.+++|++.++++.+..+
T Consensus       199 ~~~~~~~~~~~eel~~~~~ai~~~P  223 (567)
T 1dce_A          199 PQGRLPENVLLKELELVQNAFFTDP  223 (567)
T ss_dssp             SCCSSCHHHHHHHHHHHHHHHHHCS
T ss_pred             ccccccHHHHHHHHHHHHHHHhhCC
Confidence                   567899999998877553

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.99  E-value=4.7e-05  Score=62.48  Aligned_cols=111  Identities=9%  Similarity=-0.061  Sum_probs=65.6

Q ss_pred             CHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHH
Q 005966          532 LLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVA  607 (667)
Q Consensus       532 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~  607 (667)
                      ++++|.+.|++..+ .+. |...    |...|...+..++|++.|++.-...++.....+...|..    .+|.++|...
T Consensus        10 d~~~A~~~~~~aa~-~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACE-LNE-MFGC----LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHH-TTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHc-CCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            44555555555554 221 2221    445555555555555555555323455555666666655    5677777777


Q ss_pred             HHHhhccCCCCCchHHHHHHHHhh----cCCchHHHHHHHHhhhCCC
Q 005966          608 AKWLFELEPENPGNYVLLSKLYSA----VRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       608 ~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~~  650 (667)
                      ++++.+.  .++.++..|+.+|..    .+++++|.+++++..+.|.
T Consensus        84 ~~~Aa~~--g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGL--NDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHT--TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcC--CCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            7777665  456677777777777    6777777777777766653

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=97.94  E-value=5e-06  Score=68.35  Aligned_cols=89  Identities=15%  Similarity=0.067  Sum_probs=55.0

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC----------hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhc
Q 005966          531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR----------LDEAYDLIRTM-PLKP-THAVWGALLGACVIH  598 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~  598 (667)
                      +.+++|.+.++...+  ..+.+...|..+..++...++          +++|+..|++. .+.| +..+|..+..+|...
T Consensus        16 ~~feeA~~~~~~Ai~--l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            345555555555554  222344445555555554443          34666666665 3444 445666666666655


Q ss_pred             -----------CCHHHHHHHHHHhhccCCCCCch
Q 005966          599 -----------GNVELGEVAAKWLFELEPENPGN  621 (667)
Q Consensus       599 -----------g~~~~A~~~~~~~~~~~p~~~~~  621 (667)
                                 |++++|+..|+++++++|+++..
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~P~~~~y  127 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQPDNTHY  127 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCTTCHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhCCCCHHH
Confidence                       58999999999999999997533

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.91  E-value=2.5e-05  Score=61.27  Aligned_cols=68  Identities=10%  Similarity=-0.021  Sum_probs=62.7

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          583 PTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       583 p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ++...+..+...+...|++++|+..++++++..|+++.++..++.+|...|++++|++.+++..+...
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   69 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTS   69 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCS
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC
Confidence            34567888999999999999999999999999999999999999999999999999999999987654

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.76  E-value=5.9e-05  Score=56.42  Aligned_cols=66  Identities=18%  Similarity=0.194  Sum_probs=60.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +...+..+...+...|++++|+..++++++..|+++.++..++.+|...|++++|.+.+++..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~   73 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD   73 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            345778888899999999999999999999999999999999999999999999999999988764

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.66  E-value=0.00046  Score=56.46  Aligned_cols=112  Identities=7%  Similarity=-0.116  Sum_probs=91.9

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh----cCChHH
Q 005966          496 GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR----AGRLDE  571 (667)
Q Consensus       496 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  571 (667)
                      +++++|+++|++..+.| .|+..    +...|...+.+++|.++|++..+ .   -+...+..|..+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~-~---g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACE-L---NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHc-C---CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788999999999987 44433    66777788889999999999987 3   355667788888888    889999


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCC
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEP  616 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p  616 (667)
                      |++.|++.-...++.....|...|..    .+|.++|...++++.+.+.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999998544678888889988888    8999999999999988753

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.65  E-value=0.00014  Score=57.32  Aligned_cols=81  Identities=14%  Similarity=0.054  Sum_probs=54.2

Q ss_pred             HHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhh
Q 005966          535 EGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLF  612 (667)
Q Consensus       535 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  612 (667)
                      +|+..++++.+  ..+.+...+..++..|...|++++|+..+++. ...| +...|..+..++...|++++|+..+++++
T Consensus         3 ~a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34555565555  23344556666777777777777777777665 2333 45677777777888888888888888888


Q ss_pred             ccCCC
Q 005966          613 ELEPE  617 (667)
Q Consensus       613 ~~~p~  617 (667)
                      ++.|+
T Consensus        81 ~~~~~   85 (115)
T 2kat_A           81 AAAQS   85 (115)
T ss_dssp             HHHHH
T ss_pred             Hhccc
Confidence            77765

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.63  E-value=0.0003  Score=71.03  Aligned_cols=123  Identities=12%  Similarity=-0.006  Sum_probs=84.0

Q ss_pred             HHHHcCChHHHHHHHHHHHHc---CCC---CCH-HHHHHHHHHHhccCCHHHHHHHHHHhHHhc-----CCCCc-hhHHH
Q 005966          491 GYGMHGHGETAVSLFKEMVQS---GVQ---PNE-VTFTSALHACSHGGLLDEGLDLFNFMLENH-----QTCSR-ADHYT  557 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~---~~~---p~~-~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~-~~~~~  557 (667)
                      .+...|++++|+.++++.++.   -+-   |+. .+++.|..+|...|++++|..+++++++..     ...|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            345667778887777776652   112   222 467788888888888888888888776421     12233 45677


Q ss_pred             HHHHHHhhcCChHHHHHHHHhC---------CCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          558 CIVDLLGRAGRLDEAYDLIRTM---------PLKPTHA-VWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       558 ~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      .|+..|...|++++|..++++.         +..|+.. +...+..++...+.+++|+..+.++.+
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            8888888889988888888776         1334333 345555667788889999999988865

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.54  E-value=0.00014  Score=70.08  Aligned_cols=423  Identities=11%  Similarity=0.051  Sum_probs=255.7

Q ss_pred             hHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHH
Q 005966           52 SLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGI  131 (667)
Q Consensus        52 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~  131 (667)
                      ..+...|++.+|+..|-  ...|+..|..+|.+..+.|.+++-+..+...++.   .-++..=+.++-+|++.+++.+-.
T Consensus        62 kAqL~~~~v~eAIdsyI--kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~---~ke~~IDteLi~ayAk~~rL~elE  136 (624)
T 3lvg_A           62 KAQLQKGMVKEAIDSYI--KADDPSSYMEVVQAANTSGNWEELVKYLQMARKK---ARESYVETELIFALAKTNRLAELE  136 (624)
T ss_dssp             HHTTTSSSCTTTTTSSC--CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT---CCSTTTTHHHHHHHHTSCSSSTTT
T ss_pred             HHHHccCchHHHHHHHH--hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH---hcccccHHHHHHHHHhhCcHHHHH
Confidence            56666678888877663  3456677889999999999999999988877765   334455567888999988877655


Q ss_pred             HHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCC------------------------CChhhHHHHHHHH
Q 005966          132 ALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWE------------------------HSVVSWNTLISGY  187 (667)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~------------------------~~~~~~~~li~~~  187 (667)
                      +++.       .|+..-...+.+-|...|.++.|.-+|..+..                        .++.+|..+-.+|
T Consensus       137 efl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~AC  209 (624)
T 3lvg_A          137 EFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFAC  209 (624)
T ss_dssp             STTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHH
T ss_pred             HHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHH
Confidence            5431       46666667778888888888888888876621                        3778999999999


Q ss_pred             HHcCChhHHHHHHHHHHHCCCCCChHHHHHHHHHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHH
Q 005966          188 FKNAYAKEALVVFDWMLKSGVEPDCASVVSVLPACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEAR  267 (667)
Q Consensus       188 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  267 (667)
                      ...+.+.-|.-+--.+.-   .||  ....++..|-..|.+++-..+++..... -......++-|.-.|++- ++++..
T Consensus       210 vd~~EfrLAqicGLniIv---had--eL~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeKlm  282 (624)
T 3lvg_A          210 VDGKEFRLAQMCGLHIVV---HAD--ELEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQKMR  282 (624)
T ss_dssp             HHSCTTTTTTHHHHHHHC---CSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTHHH
T ss_pred             hCchHHHHHHHhcchhcc---cHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHHHH
Confidence            999999887766444432   222  3345677788999999999888887732 234677888888888876 555555


Q ss_pred             HHHhhcCC----C-------ChhHHHHHHHHHHhCCChHHHHHHHHHHHhc--------------CCCCChhhHHHHHHH
Q 005966          268 LVFDRMSE----R-------DVVTWTSMINGYALNGDVRNALGLFQLMQFE--------------GVRPNSLTIGSLLSA  322 (667)
Q Consensus       268 ~~~~~~~~----~-------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------------~~~p~~~t~~~ll~~  322 (667)
                      +.++..-.    |       ....|.-++-.|.+-.+++.|...   |.++              .-..+...|-..|.-
T Consensus       283 EHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~lt---Mi~h~~~Aw~h~~Fkdii~KVaN~EiyYKAi~F  359 (624)
T 3lvg_A          283 EHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIIT---MMNHPTDAWKEGQFKDIITKVANVELYYRAIQF  359 (624)
T ss_dssp             HHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHT---TTSCHHHHCCGGGGTTTGGGCSCSHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHH---HHhCChhhccHHHHHHHHHHcchHHHHHHHHHH
Confidence            55554332    2       344577777777777777765432   2111              012333344444443


Q ss_pred             hhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHH-HHHHHHHhCCChHHHHHH
Q 005966          323 CSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWN-AILAGCVHNGLARKAVEL  401 (667)
Q Consensus       323 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~li~~~~~~~~~~~A~~~  401 (667)
                      |....- .....++..+ ...+.+     +.+++.+.+.|++......+......|...-| ++-..|....+++.    
T Consensus       360 YL~e~P-~lL~DLL~vL-~prlDh-----~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~----  428 (624)
T 3lvg_A          360 YLEFKP-LLLNDLLMVL-SPRLDH-----TRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQA----  428 (624)
T ss_dssp             HTTSCC-TTSHHHHHHH-CTTCCS-----TTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHH----
T ss_pred             HHHhCh-HHHHHHHHhc-cccCCh-----HHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHH----
Confidence            332211 0001111110 001111     12344455556655555555555555544433 33344555555432    


Q ss_pred             HHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC
Q 005966          402 FRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD  481 (667)
Q Consensus       402 ~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  481 (667)
                                     +..-+..|-+-....-|.++    .+   .+-...-..-...|.+.++++++.++.++=      
T Consensus       429 ---------------LR~SId~ydNFD~i~LA~rL----Ek---HeL~eFRrIAA~LYkkn~rw~qsi~l~KkD------  480 (624)
T 3lvg_A          429 ---------------LRTSIDAYDNFDNISLAQRL----EK---HELIEFRRIAAYLFKGNNRWKQSVELCKKD------  480 (624)
T ss_dssp             ---------------HHHTTSSCCCSCTTHHHHHH----HT---CSSHHHHHHHHHHHHTTCHHHHHSSCSSTT------
T ss_pred             ---------------HHHHHHHhccccHHHHHHHH----hh---CchHHHHHHHHHHHHhcccHHHHHHHHHhc------
Confidence                           22222222222233322222    11   122333444556788888898887765431      


Q ss_pred             cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHH
Q 005966          482 IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDL  539 (667)
Q Consensus       482 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~  539 (667)
                       ..|.-.|......|+.+-|.++++-.++.|   +...|...+-.|...=++|-++++
T Consensus       481 -klykDAietAa~S~~~elaeeLL~yFv~~g---~~EcF~a~LytCYdLlrpDvVlEl  534 (624)
T 3lvg_A          481 -SLYKDAMQYASESKDTELAEELLQWFLQEE---KRECFGACLFTCYDLLRPDVVLET  534 (624)
T ss_dssp             -CCTTGGGTTTTTCCCTTHHHHHHHHHHHHC---STHHHHHHHHHTSSSSSCHHHHHH
T ss_pred             -ccHHHHHHHHHHcCCHHHHHHHHHHHHHcC---chHHHHHHHHHHhhccChHHHHHH
Confidence             122233444566788888888888888876   556788888888777777766654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.52  E-value=0.00016  Score=55.09  Aligned_cols=81  Identities=15%  Similarity=0.123  Sum_probs=64.0

Q ss_pred             HHHHHhhcCChHHHHHHHHhC-CCCC-CHH-HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCc
Q 005966          559 IVDLLGRAGRLDEAYDLIRTM-PLKP-THA-VWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRW  635 (667)
Q Consensus       559 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~  635 (667)
                      .+..+.+.|++++|++.++++ ...| +.. .+..+..++...|++++|+..++++++++|+++.++..        +.+
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            566788899999999999887 3445 566 88888889999999999999999999999998877633        456


Q ss_pred             hHHHHHHHHhhh
Q 005966          636 KDAENVRDVMDE  647 (667)
Q Consensus       636 ~~A~~~~~~~~~  647 (667)
                      .++...+++..+
T Consensus        78 ~~a~~~~~~~~~   89 (99)
T 2kc7_A           78 MDILNFYNKDMY   89 (99)
T ss_dssp             HHHHHHHCCTTH
T ss_pred             HHHHHHHHHHhc
Confidence            666666665443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.51  E-value=9.3e-05  Score=56.50  Aligned_cols=84  Identities=14%  Similarity=0.075  Sum_probs=41.4

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCchh-HHHHHHHHHhhcCChHHHHHHHHhC-CCCCCH-HHHHHHHHHHHhcCCH
Q 005966          525 HACSHGGLLDEGLDLFNFMLENHQTCSRAD-HYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTH-AVWGALLGACVIHGNV  601 (667)
Q Consensus       525 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~  601 (667)
                      ..+...|++++|...++++.+.  .+.+.. .+..++.+|...|++++|++.|++. ...|+. ..+..        +.+
T Consensus         8 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~--------~~~   77 (99)
T 2kc7_A            8 KELINQGDIENALQALEEFLQT--EPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPALQAR--------KMV   77 (99)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHH--CSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHH--------HHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHH--------HHH
Confidence            3445556666666666655552  222334 4555555566666666666655554 233322 12111        344


Q ss_pred             HHHHHHHHHhhccCCCC
Q 005966          602 ELGEVAAKWLFELEPEN  618 (667)
Q Consensus       602 ~~A~~~~~~~~~~~p~~  618 (667)
                      +++...++++....|++
T Consensus        78 ~~a~~~~~~~~~~~p~~   94 (99)
T 2kc7_A           78 MDILNFYNKDMYNQLEH   94 (99)
T ss_dssp             HHHHHHHCCTTHHHHCC
T ss_pred             HHHHHHHHHHhccCccc
Confidence            55555555555555543

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.48  E-value=0.00021  Score=70.93  Aligned_cols=60  Identities=12%  Similarity=0.114  Sum_probs=30.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhc-----cCCCCCc---hHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFE-----LEPENPG---NYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      +++.++.+|..+|++++|+.+++++++     ++|++|.   .+..|+.+|..+|++++|..++++..
T Consensus       342 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          342 MMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            344455555555555555555555443     3344333   34455555666666666666555543

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.41  E-value=0.0043  Score=58.85  Aligned_cols=135  Identities=18%  Similarity=0.065  Sum_probs=59.4

Q ss_pred             CcchHHHHHHHHH--HcC---ChHHHHHHHHHHHHcCCCCCH-HHHHHHHHHHhc----cC-C---HHHHHHHHHHhHHh
Q 005966          481 DIVVWSVIIAGYG--MHG---HGETAVSLFKEMVQSGVQPNE-VTFTSALHACSH----GG-L---LDEGLDLFNFMLEN  546 (667)
Q Consensus       481 ~~~~~~~l~~~~~--~~~---~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~----~g-~---~~~A~~~~~~~~~~  546 (667)
                      +...|...+.+..  ..+   +..+|+.+|++.++.  .|+. ..+..+..+|..    .+ .   .......+......
T Consensus       193 ~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~  270 (372)
T 3ly7_A          193 RGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTL  270 (372)
T ss_dssp             SGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhc
Confidence            5566666665532  223   347788888888885  4553 344444444330    00 0   00000111111110


Q ss_pred             cCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          547 HQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       547 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ...+.+...|..+...+...|++++|...++++ ...|+...|..+...+.-.|+.++|.+.+++++.++|.
T Consensus       271 ~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~  342 (372)
T 3ly7_A          271 PELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPG  342 (372)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCS
T ss_pred             ccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            111233334444444444445555555544444 22344444444444444445555555555555555544

>3qww_A SET and MYND domain-containing protein 2; methyltransferase, HSP90, transferase-transferase inhibitor; HET: SFG; 1.80A {Mus musculus} PDB: 3qwv_A* 3s7d_A* 3s7b_A* 3s7f_A* 3s7j_A* 3tg4_A* 3tg5_A* 3rib_A*

Probab=97.37  E-value=0.00053  Score=67.99  Aligned_cols=95  Identities=15%  Similarity=-0.014  Sum_probs=66.6

Q ss_pred             ccCCHHHHHHHHHHhHHhc--CCC---Cc-hhHHHHHHHHHhhcCChHHHHHHHHhC---------CCCCCHH-HHHHHH
Q 005966          529 HGGLLDEGLDLFNFMLENH--QTC---SR-ADHYTCIVDLLGRAGRLDEAYDLIRTM---------PLKPTHA-VWGALL  592 (667)
Q Consensus       529 ~~g~~~~A~~~~~~~~~~~--~~~---~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~~-~~~~l~  592 (667)
                      ..|++++|+.++++.++..  .+.   |+ ..+++.|+.+|...|++++|+.+++++         +..|+.. +++.|.
T Consensus       310 ~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa  389 (433)
T 3qww_A          310 HYKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLG  389 (433)
T ss_dssp             TTSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHH
T ss_pred             hccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHH
Confidence            3467777777777765521  111   22 356777888888888888888877765         1344433 688888


Q ss_pred             HHHHhcCCHHHHHHHHHHhhc-----cCCCCCchHH
Q 005966          593 GACVIHGNVELGEVAAKWLFE-----LEPENPGNYV  623 (667)
Q Consensus       593 ~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~~~~  623 (667)
                      ..|..+|++++|+.+++++++     ++|++|.+-.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~  425 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAIMEVAHGKDHPYISE  425 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHHHHHHcCCCChHHHH
Confidence            999999999999999998876     5677765544

>3ly7_A Transcriptional activator CADC; alpha/beta domain, alpha domain, DNA-binding, transcription regulation, transmembrane; 1.80A {Escherichia coli} PDB: 3lya_A 3ly8_A 3ly9_A

Probab=97.36  E-value=0.0013  Score=62.45  Aligned_cols=134  Identities=16%  Similarity=0.105  Sum_probs=93.8

Q ss_pred             CCCCHHHHHHHHHHHh--cc---CCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhh---cC-C-------hHHHHHH
Q 005966          513 VQPNEVTFTSALHACS--HG---GLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGR---AG-R-------LDEAYDL  575 (667)
Q Consensus       513 ~~p~~~~~~~ll~~~~--~~---g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~---~g-~-------~~~A~~~  575 (667)
                      .+.+...|...+++..  ..   ....+|..+|+++++.  . |+ ...|..+..+|.-   .+ .       ...|.+.
T Consensus       190 ~p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--D-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a  266 (372)
T 3ly7_A          190 LPHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--S-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDN  266 (372)
T ss_dssp             SCSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--C-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--C-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHH
Confidence            3556677777776643  22   3457899999999882  2 43 4445544433321   11 1       1123332


Q ss_pred             HHhCC-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          576 IRTMP-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       576 ~~~~~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ...+. .+.++.++..+...+...|++++|+..++++++++|+ ...|..+++++.-.|++++|.+.+++....++
T Consensus       267 ~~a~~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s-~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P  341 (372)
T 3ly7_A          267 IVTLPELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMS-WLNYVLLGKVYEMKGMNREAADAYLTAFNLRP  341 (372)
T ss_dssp             HHTCGGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSC
T ss_pred             HHhcccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-HHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            22333 3447778888887788889999999999999999976 66778999999999999999999999887654

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.29  E-value=0.00059  Score=67.81  Aligned_cols=60  Identities=17%  Similarity=0.137  Sum_probs=29.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhc-----cCCCCCc---hHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFE-----LEPENPG---NYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~---~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      +++.++.+|...|++++|+.+++++++     +.|++|.   .+..|+.+|..+|++++|+.++++..
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            344444445555555555555554443     2333333   34445555555555555555555543

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.28  E-value=0.00096  Score=50.83  Aligned_cols=64  Identities=17%  Similarity=0.178  Sum_probs=41.3

Q ss_pred             CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          481 DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       481 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      +...|..+...+...|++++|+..|++.++.. +.+...|..+..+|...|++++|...+++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            34556666666777777777777777766653 22345666666667777777777777766655

>3qwp_A SET and MYND domain-containing protein 3; SMYD3,SET and MYND domain, zinc finger MYND domain-containin 1, structural genomics; HET: SAM; 1.53A {Homo sapiens} PDB: 3mek_A* 3oxg_A* 3oxf_A* 3pdn_A* 3oxl_A* 3ru0_A*

Probab=97.22  E-value=0.0012  Score=65.62  Aligned_cols=99  Identities=12%  Similarity=0.024  Sum_probs=67.3

Q ss_pred             HHhccCCHHHHHHHHHHhHHhc--CCCC----chhHHHHHHHHHhhcCChHHHHHHHHhC---------CCCCCH-HHHH
Q 005966          526 ACSHGGLLDEGLDLFNFMLENH--QTCS----RADHYTCIVDLLGRAGRLDEAYDLIRTM---------PLKPTH-AVWG  589 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~-~~~~  589 (667)
                      .+.+.|++++|+.++++.++..  .+.|    ...+++.++.+|...|++++|+.+++++         +..|+. .+++
T Consensus       296 ~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~  375 (429)
T 3qwp_A          296 ELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVM  375 (429)
T ss_dssp             HHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHH
T ss_pred             HHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHH
Confidence            3445667777777777766421  1122    2345667777777788888887777765         133433 3678


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhc-----cCCCCCchHHH
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFE-----LEPENPGNYVL  624 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~-----~~p~~~~~~~~  624 (667)
                      .|...|..+|++++|+..++++++     ++|++|.+...
T Consensus       376 nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~Hp~~~~~  415 (429)
T 3qwp_A          376 KVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGREHSLIEDL  415 (429)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSHHHHHH
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCCChHHHHH
Confidence            888889999999999999998875     67887765543

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.14  E-value=0.00071  Score=54.91  Aligned_cols=91  Identities=13%  Similarity=-0.065  Sum_probs=67.1

Q ss_pred             CCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcC---ChHHHHHHHHhC-CCC-C--CHHHHHHHHHHHHhcCCHHH
Q 005966          531 GLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAG---RLDEAYDLIRTM-PLK-P--THAVWGALLGACVIHGNVEL  603 (667)
Q Consensus       531 g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~-p--~~~~~~~l~~~~~~~g~~~~  603 (667)
                      +....+.+.|.+..+ .+ +++..+...+..++++.+   +.++++.++++. ... |  ....+..+.-++.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~-~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKA-AG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHH-TT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHc-cC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            345666777776665 23 367777778888888887   666888888876 333 5  34567778888889999999


Q ss_pred             HHHHHHHhhccCCCCCchHH
Q 005966          604 GEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       604 A~~~~~~~~~~~p~~~~~~~  623 (667)
                      |.+.++++++.+|+|..+..
T Consensus        90 A~~y~~~lL~ieP~n~QA~~  109 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQNNQAKE  109 (152)
T ss_dssp             HHHHHHHHHHHCTTCHHHHH
T ss_pred             HHHHHHHHHhcCCCCHHHHH
Confidence            99999999999998765554

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=97.14  E-value=0.0013  Score=59.53  Aligned_cols=88  Identities=16%  Similarity=0.188  Sum_probs=66.9

Q ss_pred             hHHHHHHHHhC-CCCCC---HHHHHHHHHHHHh-----cCCHHHHHHHHHHhhccCCCC-CchHHHHHHHHhhc-CCchH
Q 005966          569 LDEAYDLIRTM-PLKPT---HAVWGALLGACVI-----HGNVELGEVAAKWLFELEPEN-PGNYVLLSKLYSAV-RRWKD  637 (667)
Q Consensus       569 ~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~-----~g~~~~A~~~~~~~~~~~p~~-~~~~~~l~~~~~~~-g~~~~  637 (667)
                      ..+|...+++. .+.|+   ...|..++..|..     -|+.++|++.|+++++++|+. ..+++.+++.|... |++++
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~  258 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAG  258 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHH
Confidence            44555556554 46666   4466777766766     489999999999999999974 88999999988884 88999


Q ss_pred             HHHHHHHhhhCCCccCCCe
Q 005966          638 AENVRDVMDEKGLRKAPAH  656 (667)
Q Consensus       638 A~~~~~~~~~~~~~~~~~~  656 (667)
                      |.+++++.........|+.
T Consensus       259 a~~~L~kAL~a~p~~~P~~  277 (301)
T 3u64_A          259 FDEALDRALAIDPESVPHN  277 (301)
T ss_dssp             HHHHHHHHHHCCGGGCSSC
T ss_pred             HHHHHHHHHcCCCCCCCCh
Confidence            9999999888777655653

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=97.12  E-value=5.4e-05  Score=72.89  Aligned_cols=240  Identities=14%  Similarity=0.149  Sum_probs=163.3

Q ss_pred             chhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhc
Q 005966          246 NIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSS  325 (667)
Q Consensus       246 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~  325 (667)
                      .+.+|..|..+..+.+++.+|++.|-+.  .|+..|..+|.+..+.|.+++-+..+...++..-.|.  .=+.|+-+|++
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyIkA--~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~--IDteLi~ayAk  128 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESY--VETELIFALAK  128 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSCCC--SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTT--TTHHHHHHHHT
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHHhC--CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccc--cHHHHHHHHHh
Confidence            3556888888888888888877665433  4666788888888888999888888877766533343  33467888888


Q ss_pred             ccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccC------------------------CCCccc
Q 005966          326 LYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTS------------------------KKKTVP  381 (667)
Q Consensus       326 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~------------------------~~~~~~  381 (667)
                      .++..+.+.++.       .|+..-...+.+-|...|.++.|.-+|..+.                        ..++.+
T Consensus       129 ~~rL~elEefl~-------~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~kt  201 (624)
T 3lvg_A          129 TNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRT  201 (624)
T ss_dssp             SCSSSTTTSTTS-------CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCS
T ss_pred             hCcHHHHHHHHc-------CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhH
Confidence            777665443332       4566666677777778888887777776554                        235667


Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      |-.+-.+|...+.+.-|.-.--.+.   +.||.  ...++..|-..|-+++-+.+++.-.... .....+|+-|.-.|++
T Consensus       202 WKeV~~ACvd~~EfrLAqicGLniI---vhade--L~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsK  275 (624)
T 3lvg_A          202 WKEVCFACVDGKEFRLAQMCGLHIV---VHADE--LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSK  275 (624)
T ss_dssp             HHHHTHHHHHSCTTTTTTHHHHHHH---CCSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHS
T ss_pred             HHHHHHHHhCchHHHHHHHhcchhc---ccHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHh
Confidence            9999999999888876654443333   22221  2345566777888888888777665322 4467788888888887


Q ss_pred             cCCHHHHHHHHhhCCCCC--C-------CcchHHHHHHHHHHcCChHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKD--K-------DIVVWSVIIAGYGMHGHGETAVS  503 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~--~-------~~~~~~~l~~~~~~~~~~~~a~~  503 (667)
                      - ++++..+.++....+-  |       ....|.-++-.|.+-.+++.|..
T Consensus       276 Y-~PeKlmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          276 F-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             S-CTTHHHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             c-CHHHHHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            5 4666666655443321  3       44578888888888888887653

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.92  E-value=0.0033  Score=51.04  Aligned_cols=68  Identities=10%  Similarity=-0.022  Sum_probs=48.3

Q ss_pred             CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHhhccC-C-CCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          582 KPTHAVWGALLGACVIHG---NVELGEVAAKWLFELE-P-ENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       582 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      .++..+...+.+++++.+   +.++++.+++.+++.+ | ++..+++.|+-.|++.|++++|+++++++.+..
T Consensus        29 ~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ie  101 (152)
T 1pc2_A           29 SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTE  101 (152)
T ss_dssp             CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            356677777777777766   5567777777777776 5 446677777777777777777777777776654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.77  E-value=0.0087  Score=44.48  Aligned_cols=71  Identities=15%  Similarity=0.082  Sum_probs=53.7

Q ss_pred             CCchhHHHHHHHHHhhcCC---hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          550 CSRADHYTCIVDLLGRAGR---LDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       550 ~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      +++...+..+..++...++   .++|..++++. ...| ++..+..+...+...|++++|+..++++++.+|+++.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~~~~   78 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDPNLD   78 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCTTCC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCcc
Confidence            3566677777777754444   68888888887 4555 5667778888888999999999999999999888433

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.73  E-value=0.0074  Score=46.18  Aligned_cols=71  Identities=15%  Similarity=0.046  Sum_probs=50.0

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhCC---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTMP---------LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~~---------~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      ...++..+.+.|+++.|...++.+-         ..+...++..+..++.+.|+++.|...+++++++.|+++.+...+.
T Consensus         8 c~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~n~~   87 (104)
T 2v5f_A            8 CFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (104)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHhhHH
Confidence            3345555555555555555554430         1234567888999999999999999999999999999877765554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.49  E-value=0.0068  Score=46.39  Aligned_cols=66  Identities=11%  Similarity=-0.140  Sum_probs=56.1

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccC-------CCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          584 THAVWGALLGACVIHGNVELGEVAAKWLFELE-------PENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       584 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-------p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +......++..+...|+++.|...++++++..       +..+.++..|+.+|.+.|++++|..+++++.+..
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~   76 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD   76 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC
Confidence            44556678889999999999999999998753       3345689999999999999999999999988754

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.37  E-value=0.092  Score=57.56  Aligned_cols=154  Identities=15%  Similarity=0.113  Sum_probs=88.9

Q ss_pred             HHHhCCChHHHHH-HHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHH
Q 005966          388 GCVHNGLARKAVE-LFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLE  466 (667)
Q Consensus       388 ~~~~~~~~~~A~~-~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  466 (667)
                      .....+++++|.+ ++..     + |+......++..+.+.|..+.|.++.+.-         .   .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~~---------~---~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPDQ---------D---QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCCH---------H---HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCCc---------c---hheehhhhcCCHH
Confidence            3345677777766 4421     1 11222255666666777777777654211         1   1133456778999


Q ss_pred             HHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHh
Q 005966          467 SAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLEN  546 (667)
Q Consensus       467 ~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~  546 (667)
                      +|.++.+.+    .+...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...++-+.... 
T Consensus       670 ~A~~~~~~~----~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~-  735 (814)
T 3mkq_A          670 LARDLLTDE----SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAET-  735 (814)
T ss_dssp             HHHHHHTTC----CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHH-
T ss_pred             HHHHHHHhh----CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHH-
Confidence            998887765    4567888999999999999999988887643         22333334445555554444444333 


Q ss_pred             cCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          547 HQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       547 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      .+.      ++.-..+|.+.|++++|++++.++
T Consensus       736 ~~~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          736 TGK------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             TTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             cCc------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            121      223333455556666665555544

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=96.32  E-value=1.2  Score=46.21  Aligned_cols=114  Identities=11%  Similarity=0.024  Sum_probs=72.8

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHH----HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH
Q 005966          496 GHGETAVSLFKEMVQSGVQPNEVT----FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       496 ~~~~~a~~~~~~m~~~~~~p~~~~----~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  571 (667)
                      .+.+.|...+....+.. ..+...    ...+.......+...++...+.....  .. ++.....-.+....+.|+++.
T Consensus       228 ~d~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~--~~-~~~~~~e~~~r~Alr~~d~~~  303 (618)
T 1qsa_A          228 QDAENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM--RS-QSTSLIERRVRMALGTGDRRG  303 (618)
T ss_dssp             HCHHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH--TC-CCHHHHHHHHHHHHHHTCHHH
T ss_pred             cCHHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc--cC-CChHHHHHHHHHHHHCCCHHH
Confidence            37889999998887643 223322    22333334445535566666666544  12 333334444455567899999


Q ss_pred             HHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          572 AYDLIRTMPLKP--THAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       572 A~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      |...|+.|...+  ...-..-+.++....|+.++|...++++.+
T Consensus       304 a~~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            999999996433  344445566677888999999999999875

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.30  E-value=0.27  Score=38.25  Aligned_cols=141  Identities=12%  Similarity=0.057  Sum_probs=97.9

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH
Q 005966          492 YGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       492 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  571 (667)
                      +.-.|..++..++..+.....   +..-++-++--....-+-+-..++++.+-+.    -|          ...+|++..
T Consensus        17 ~ildG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGki----FD----------is~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSY----FD----------LDKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG----SC----------GGGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhh----cC----------cHhhhcHHH
Confidence            455688888888888877642   3333444443333334444445555554331    12          235677777


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      ....+-.+..  +...+...+.....+|..++-.+++..++...|-+|..+.-++.+|.+.|+..+|.+++.++=++|++
T Consensus        80 Vi~C~~~~n~--~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           80 VVECGVINNT--LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHTTC--CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhcc--hHHHHHHHHHHHHHhccHhHHHHHHHHHhccCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            7777766642  34455667778889999999999999977777767999999999999999999999999999999976

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=96.18  E-value=0.2  Score=54.85  Aligned_cols=102  Identities=15%  Similarity=0.158  Sum_probs=62.3

Q ss_pred             HHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHH
Q 005966          358 YAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIH  437 (667)
Q Consensus       358 ~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~  437 (667)
                      ....|+++.|.++.+.+.  +...|..+...+.+.++++.|.+.|.++.+         |..+...+...++.+....+-
T Consensus       662 ~l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~  730 (814)
T 3mkq_A          662 ALKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLA  730 (814)
T ss_dssp             HHHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHH
T ss_pred             hhhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHH
Confidence            445677777777766553  335588888888888888888888887653         333444444466666555554


Q ss_pred             HHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCC
Q 005966          438 CYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIP  476 (667)
Q Consensus       438 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  476 (667)
                      +.....|.      ++.-..+|.+.|++++|.+++.++.
T Consensus       731 ~~a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~~  763 (814)
T 3mkq_A          731 KDAETTGK------FNLAFNAYWIAGDIQGAKDLLIKSQ  763 (814)
T ss_dssp             HHHHHTTC------HHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHcCc------hHHHHHHHHHcCCHHHHHHHHHHcC
Confidence            44444331      2333444566677777766665543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.76  E-value=0.71  Score=38.44  Aligned_cols=127  Identities=11%  Similarity=0.102  Sum_probs=63.6

Q ss_pred             HHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHH
Q 005966          459 YSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLD  538 (667)
Q Consensus       459 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~  538 (667)
                      ....|+++.|.++.+.+    .+...|..|.......|+++-|.+.|.+...         +..+.-.|...|+.+.-.+
T Consensus        15 AL~lg~l~~A~e~a~~l----~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           15 ALEYGNLDAALDEAKKL----NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHTTCHHHHHHHHHHH----CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHhcCCHHHHHHHHHHh----CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            34456666666655543    2345566666666666666666666665432         1222223334455544444


Q ss_pred             HHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHh
Q 005966          539 LFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWL  611 (667)
Q Consensus       539 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~  611 (667)
                      +-+.... .+.      ++.-...+.-.|+++++.+++.+.+.-|...      ......|..+.|.++.+.+
T Consensus        82 la~iA~~-~g~------~n~af~~~l~lGdv~~~i~lL~~~~r~~eA~------~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           82 MQNIAQT-RED------FGSMLLNTFYNNSTKERSSIFAEGGSLPLAY------AVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHH-TTC------HHHHHHHHHHHTCHHHHHHHHHHTTCHHHHH------HHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHH-Ccc------HHHHHHHHHHcCCHHHHHHHHHHCCChHHHH------HHHHHcCcHHHHHHHHHHh
Confidence            4333333 121      3333444555666666666666665432211      1122356666666666554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.71  E-value=0.075  Score=41.36  Aligned_cols=90  Identities=16%  Similarity=-0.033  Sum_probs=58.3

Q ss_pred             HHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH---HHHHHHhC-CCC-C--CHHHHHHHHHHHHhcCCHHHHH
Q 005966          533 LDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE---AYDLIRTM-PLK-P--THAVWGALLGACVIHGNVELGE  605 (667)
Q Consensus       533 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~-~~~-p--~~~~~~~l~~~~~~~g~~~~A~  605 (667)
                      ...+.+-|..... .+. ++..+-..+..++.+..+..+   ++.++++. ... |  ....+..+.-++.+.|++++|.
T Consensus        17 l~~~~~~y~~e~~-~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~   94 (126)
T 1nzn_A           17 LLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKAL   94 (126)
T ss_dssp             HHHHHHHHHHHHH-HSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHH
Confidence            3444444544444 222 555555666777777666555   67777765 222 3  2335566777788899999999


Q ss_pred             HHHHHhhccCCCCCchHHH
Q 005966          606 VAAKWLFELEPENPGNYVL  624 (667)
Q Consensus       606 ~~~~~~~~~~p~~~~~~~~  624 (667)
                      +.++.+++..|+|..+...
T Consensus        95 ~~~~~lL~~eP~n~QA~~L  113 (126)
T 1nzn_A           95 KYVRGLLQTEPQNNQAKEL  113 (126)
T ss_dssp             HHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHHHHHhCCCCHHHHHH
Confidence            9999999999987766554

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.68  E-value=0.019  Score=44.69  Aligned_cols=82  Identities=10%  Similarity=-0.092  Sum_probs=64.5

Q ss_pred             hHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHhhccC-C-CCCchHHHHHHHHhhcCCchHHHHH
Q 005966          569 LDEAYDLIRTM--PLKPTHAVWGALLGACVIHGNVEL---GEVAAKWLFELE-P-ENPGNYVLLSKLYSAVRRWKDAENV  641 (667)
Q Consensus       569 ~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~---A~~~~~~~~~~~-p-~~~~~~~~l~~~~~~~g~~~~A~~~  641 (667)
                      +..+.+-+.+.  .-.|+..+-..+.+++.+..+...   ++.+++.++..+ | .....++.|+-.+++.|+|++|+++
T Consensus        17 l~~~~~~y~~e~~~~~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~   96 (126)
T 1nzn_A           17 LLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKY   96 (126)
T ss_dssp             HHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhccCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            33444444433  134788888999999999886655   999999998877 5 4567899999999999999999999


Q ss_pred             HHHhhhCCC
Q 005966          642 RDVMDEKGL  650 (667)
Q Consensus       642 ~~~~~~~~~  650 (667)
                      ++.+.+..+
T Consensus        97 ~~~lL~~eP  105 (126)
T 1nzn_A           97 VRGLLQTEP  105 (126)
T ss_dssp             HHHHHHHCT
T ss_pred             HHHHHHhCC
Confidence            999987653

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.67  E-value=0.66  Score=38.64  Aligned_cols=129  Identities=10%  Similarity=0.015  Sum_probs=91.5

Q ss_pred             HHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCCh
Q 005966          490 AGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL  569 (667)
Q Consensus       490 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  569 (667)
                      ......|+++.|.++.+.+      .+...|..|.......|+++-|.+.|.+...          +..+.-.|.-.|+.
T Consensus        13 ~LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~   76 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDV   76 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCH
T ss_pred             HHHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCH
Confidence            4456789999999988765      3677899999999999999999999998865          66677778888888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          570 DEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       570 ~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      +.-.++-+....+-+   ++.....+...|+++++.+++.+.-..        ..-.-....-|-.+.|.++.+++
T Consensus        77 e~L~kla~iA~~~g~---~n~af~~~l~lGdv~~~i~lL~~~~r~--------~eA~~~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           77 NKLSKMQNIAQTRED---FGSMLLNTFYNNSTKERSSIFAEGGSL--------PLAYAVAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHHHTTC---HHHHHHHHHHHTCHHHHHHHHHHTTCH--------HHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHCcc---HHHHHHHHHHcCCHHHHHHHHHHCCCh--------HHHHHHHHHcCcHHHHHHHHHHh
Confidence            776666554422222   344455567889999999998764332        11111222346677888887776

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=95.37  E-value=0.024  Score=51.48  Aligned_cols=63  Identities=13%  Similarity=0.138  Sum_probs=33.4

Q ss_pred             HHHHHHHHHhh-----cCChHHHHHHHHhC-CCCCC--HHHHHHHHHHHHh-cCCHHHHHHHHHHhhccCCC
Q 005966          555 HYTCIVDLLGR-----AGRLDEAYDLIRTM-PLKPT--HAVWGALLGACVI-HGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       555 ~~~~l~~~~~~-----~g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .|..++..|.+     .|+.++|.+.|++. .+.|+  ..++......++. .|+.+.|.+.+++++...|.
T Consensus       201 A~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          201 VWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             HHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             HHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            44445555544     35555555555554 34442  3444444554444 36666666666666666555

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.92  E-value=0.082  Score=55.71  Aligned_cols=58  Identities=14%  Similarity=0.047  Sum_probs=52.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh
Q 005966          589 GALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD  646 (667)
Q Consensus       589 ~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  646 (667)
                      ..-...|...|+++.|+.+.+++....|++-..|..|+.+|...|+|+.|+-.+..+.
T Consensus       341 ~~Qa~FLl~K~~~elAL~~Ak~AV~~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          341 NIQTNFLLNRGDYELALGVSNTSTELALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHHHHHhccCcHHHHHHHHHHHHhcCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            3334557788999999999999999999999999999999999999999999999884

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.92  E-value=5.2  Score=43.27  Aligned_cols=251  Identities=11%  Similarity=0.025  Sum_probs=124.7

Q ss_pred             HHHhcCCHHHHHHHHhhcCC----CChh--HHHHHHHHHHhCCChHHHHHHHHHHHhcCC--CCC---h-hh-HHHHHHH
Q 005966          256 MYVKCGSVNEARLVFDRMSE----RDVV--TWTSMINGYALNGDVRNALGLFQLMQFEGV--RPN---S-LT-IGSLLSA  322 (667)
Q Consensus       256 ~~~~~g~~~~A~~~~~~~~~----~~~~--~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~---~-~t-~~~ll~~  322 (667)
                      +....|+.++++.+++....    .+..  .=..+.-+.+..|...++.+++.......-  .-+   . .. -..+--+
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            35567788888888877654    1222  122333445566666677777776654311  000   1 11 1111111


Q ss_pred             --hhcccchHHHHHHHHHHHHhcCCCCc--hHHhHHHHHHHhcCCHHHHHHHHhccCCC-Cccc--HHHHHHHHHhCCCh
Q 005966          323 --CSSLYYLKRGRSLHAWTIKQNLECEV--IVETALIDMYAKCNLVKLSFQVFARTSKK-KTVP--WNAILAGCVHNGLA  395 (667)
Q Consensus       323 --~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~--~~~li~~~~~~~~~  395 (667)
                        +.-.++. ++...+..+....- ...  ...-++...+.-.|+-+....++..+... +...  .-.+.-++...|+.
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence              2222332 33333333332211 001  11123334455667766666666544321 1111  33344455567888


Q ss_pred             HHHHHHHHHHHHCCCCCCHHH--HHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHh
Q 005966          396 RKAVELFRQMLVEVVEPNDAT--LNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFS  473 (667)
Q Consensus       396 ~~A~~~~~~m~~~g~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  473 (667)
                      +.+..+.+.+... ..|....  ...+.-+|+..|+.....+++..+.+.. ..++.....+.-++...|+.+.+.++++
T Consensus       541 e~~~~li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          541 ELADDLITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GGGHHHHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             HHHHHHHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            8888888887753 1222221  1234456778888877777888777542 2233333333334444666666667766


Q ss_pred             hCCCCC-CCcchHHHHHHHHHHcCCh-HHHHHHHHHHHH
Q 005966          474 EIPIKD-KDIVVWSVIIAGYGMHGHG-ETAVSLFKEMVQ  510 (667)
Q Consensus       474 ~~~~~~-~~~~~~~~l~~~~~~~~~~-~~a~~~~~~m~~  510 (667)
                      .+...+ |.+..--++.-+....|+. .+++.++..+..
T Consensus       619 ~L~~~~d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          619 LLSKSHNAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TGGGCSCHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHhcCCHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            554432 3333333333444444443 577888888865

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.82  E-value=0.23  Score=39.33  Aligned_cols=74  Identities=12%  Similarity=0.029  Sum_probs=42.4

Q ss_pred             CCchhHHHHHHHHHhhcCChH---HHHHHHHhC-CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          550 CSRADHYTCIVDLLGRAGRLD---EAYDLIRTM-PLKP--THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       550 ~~~~~~~~~l~~~~~~~g~~~---~A~~~~~~~-~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                      .|+..+-..+..++.+..+.+   +++.++++. ...|  ....+..+.-++.+.|++++|.+..+.+++..|+|..+..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~n~QA~~  115 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  115 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCCCHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHH
Confidence            455555555666666655433   455555554 2223  2334455556667777777777777777777777544433

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=94.59  E-value=0.14  Score=40.96  Aligned_cols=105  Identities=13%  Similarity=0.011  Sum_probs=73.7

Q ss_pred             CCHHHHHHHHHHHhccCCH------HHHHHHHHHhHHhcCCCCchh-HHHHHHH------HHhhcCChHHHHHHHHhC--
Q 005966          515 PNEVTFTSALHACSHGGLL------DEGLDLFNFMLENHQTCSRAD-HYTCIVD------LLGRAGRLDEAYDLIRTM--  579 (667)
Q Consensus       515 p~~~~~~~ll~~~~~~g~~------~~A~~~~~~~~~~~~~~~~~~-~~~~l~~------~~~~~g~~~~A~~~~~~~--  579 (667)
                      -|..+|...+....+.|+.      ++..++|+++..  .+||+.. .|...|.      .+...++.++|.++|+.+  
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3567888888888878988      888899998887  5666532 2222222      123457888888888887  


Q ss_pred             -CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          580 -PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       580 -~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                       ..+- ...|.....--.++|+...|.+++.+++.+.|.....+
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~~~l  131 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPLEML  131 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCHHHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcHHHH
Confidence             1222 55666666667789999999999999999988844333

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=94.25  E-value=0.087  Score=41.11  Aligned_cols=73  Identities=12%  Similarity=0.020  Sum_probs=38.8

Q ss_pred             CchhHHHHHHHHHhhcCCh---HHHHHHHHhC-CCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHH
Q 005966          551 SRADHYTCIVDLLGRAGRL---DEAYDLIRTM-PLKP--THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYV  623 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~-~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~  623 (667)
                      |+..+--.+..++.+..+.   .+++.++++. ...|  ....+..+.-++.+.|++++|.+..+.+++..|+|..+..
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N~QA~~  116 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVGA  116 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTCHHHHH
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCCHHHHH
Confidence            4444444455555555443   3445555544 2223  2334555555666666666666666666666666554433

>4h7y_A Dual specificity protein kinase TTK; mitotic checkpoint kinase, chromosome instability, cancer, tetratricopeptide repeat (TPR) motif; 1.80A {Homo sapiens} PDB: 4h7x_A

Probab=93.58  E-value=0.36  Score=38.55  Aligned_cols=97  Identities=10%  Similarity=0.148  Sum_probs=69.4

Q ss_pred             CCcchHHHHHHHHHHcCCh------HHHHHHHHHHHHcCCCCCHH----HHHHHHHHH---hccCCHHHHHHHHHHhHHh
Q 005966          480 KDIVVWSVIIAGYGMHGHG------ETAVSLFKEMVQSGVQPNEV----TFTSALHAC---SHGGLLDEGLDLFNFMLEN  546 (667)
Q Consensus       480 ~~~~~~~~l~~~~~~~~~~------~~a~~~~~~m~~~~~~p~~~----~~~~ll~~~---~~~g~~~~A~~~~~~~~~~  546 (667)
                      .|..+|-..+....+.|++      ++.+++|++.... ++|+..    .|..+---|   ...++.++|.++|+.+++.
T Consensus        11 ~~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia~-~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           11 NNPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIEA-LPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             CSHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHHH-SCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHHc-CCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4677888888888888888      8888888888876 566542    233333222   2347888889999888774


Q ss_pred             cCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          547 HQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       547 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                       ...- ...|......-.++|++..|.+++.+.
T Consensus        90 -hKkF-AKiwi~~AqFEiRqgnl~kARkILg~A  120 (161)
T 4h7y_A           90 -CKKF-AFVHISFAQFELSQGNVKKSKQLLQKA  120 (161)
T ss_dssp             -CTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             -hHHH-HHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence             2222 667777777778899999999988875

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=92.79  E-value=2.8  Score=32.78  Aligned_cols=138  Identities=10%  Similarity=0.044  Sum_probs=86.8

Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHH
Q 005966          391 HNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHK  470 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  470 (667)
                      -.|..++..++..+....   .+..-++.++--....-+-+...++++.+-+.   -|          ...+|++.....
T Consensus        19 ldG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki---FD----------is~C~NlKrVi~   82 (172)
T 1wy6_A           19 LDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY---FD----------LDKCQNLKSVVE   82 (172)
T ss_dssp             HTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG---SC----------GGGCSCTHHHHH
T ss_pred             HhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh---cC----------cHhhhcHHHHHH
Confidence            356777777777776643   23344444444444444444444444433221   11          234566666666


Q ss_pred             HHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCC
Q 005966          471 IFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQT  549 (667)
Q Consensus       471 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~  549 (667)
                      .+-.+-   .+.......+..+...|+-++-.+++..+... .+|++.....+..+|.+.|+..+|.+++.++-+ .|.
T Consensus        83 C~~~~n---~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n-~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~-kG~  156 (172)
T 1wy6_A           83 CGVINN---TLNEHVNKALDILVIQGKRDKLEEIGREILKN-NEVSASILVAIANALRRVGDERDATTLLIEACK-KGE  156 (172)
T ss_dssp             HHHHTT---CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTC
T ss_pred             HHHHhc---chHHHHHHHHHHHHHhccHhHHHHHHHHHhcc-CCCChHHHHHHHHHHHHhcchhhHHHHHHHHHH-hhh
Confidence            665543   35566677778888888888888888886543 477888888888888888888888888888876 454

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=92.66  E-value=0.42  Score=39.08  Aligned_cols=25  Identities=24%  Similarity=0.263  Sum_probs=12.5

Q ss_pred             hHHHHHHHHhhcCCchHHHHHHHHh
Q 005966          621 NYVLLSKLYSAVRRWKDAENVRDVM  645 (667)
Q Consensus       621 ~~~~l~~~~~~~g~~~~A~~~~~~~  645 (667)
                      .-+.++.+|.+.|++++|+.+++.+
T Consensus       124 lkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A          124 VKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHCCHHHHHHHHhcC
Confidence            4444555555555555555555443

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=92.25  E-value=7.1  Score=36.14  Aligned_cols=168  Identities=10%  Similarity=0.103  Sum_probs=100.6

Q ss_pred             hHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHH----HHHHHhcCCCCChhhHHHHHHHh
Q 005966          248 AAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGL----FQLMQFEGVRPNSLTIGSLLSAC  323 (667)
Q Consensus       248 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~----~~~m~~~~~~p~~~t~~~ll~~~  323 (667)
                      ..|.++..-|.+.+++++|.+++..           -...+.+.|+...|-++    ++-..+.+++++......++..+
T Consensus        34 Q~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~  102 (312)
T 2wpv_A           34 QTLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLI  102 (312)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            3566777778889999999988644           23456677887766665    44455678889988888888776


Q ss_pred             hcccchH-HHHHHHHHH----HHhc--CCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhC---C
Q 005966          324 SSLYYLK-RGRSLHAWT----IKQN--LECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHN---G  393 (667)
Q Consensus       324 ~~~~~~~-~a~~~~~~~----~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~---~  393 (667)
                      ......+ .-.++...+    .+.|  ..-++.....+...|.+.|++.+|+..|-.-...+...+..++.-+...   |
T Consensus       103 ~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~  182 (312)
T 2wpv_A          103 AELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDI  182 (312)
T ss_dssp             TTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCC
Confidence            5533211 123333333    3333  2346778888899999999999988877633322344444443333333   3


Q ss_pred             ChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 005966          394 LARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLI  441 (667)
Q Consensus       394 ~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  441 (667)
                      ...++--              ..-..++ .|...++...|..+++...
T Consensus       183 ~~~e~dl--------------f~~RaVL-~yL~l~n~~~A~~~~~~f~  215 (312)
T 2wpv_A          183 EDSTVAE--------------FFSRLVF-NYLFISNISFAHESKDIFL  215 (312)
T ss_dssp             CHHHHHH--------------HHHHHHH-HHHHTTBHHHHHHHHHHHH
T ss_pred             CcchHHH--------------HHHHHHH-HHHHhcCHHHHHHHHHHHH
Confidence            3333211              1112222 3445677777777777654

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=91.62  E-value=3.2  Score=32.89  Aligned_cols=71  Identities=10%  Similarity=-0.054  Sum_probs=56.7

Q ss_pred             CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHhhccCCC-CCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          580 PLKPTHAVWGALLGACVIHGN---VELGEVAAKWLFELEPE-NPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       580 ~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ...|+..+-..+.+++.++.+   ..+++.+++.++...|+ ....++.|+-.+++.|+|++|+++.+.+.+..+
T Consensus        34 ~~~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP  108 (144)
T 1y8m_A           34 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  108 (144)
T ss_dssp             STTSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCC
T ss_pred             cCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCC
Confidence            335788888888888887764   56788888888888774 456788889999999999999999998887653

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.62  E-value=1.3  Score=36.29  Aligned_cols=59  Identities=8%  Similarity=0.059  Sum_probs=34.7

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC-CCCCH-------HHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSG-VQPNE-------VTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~~-------~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      .-+..+...|.++.|+-+.+.+.... ..|+.       .++..+.+++...|++.+|...|+++++
T Consensus        25 dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            33455566666776666666544311 12221       2455566777777777777777777654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.42  E-value=12  Score=37.04  Aligned_cols=95  Identities=11%  Similarity=0.079  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHc--CCCCCH---HHHHHHHHHHhccCCHHHHHHHHHHhHHh---cCCCCc--hh
Q 005966          485 WSVIIAGYGMHGHGETAVSLFKEMVQS--GVQPNE---VTFTSALHACSHGGLLDEGLDLFNFMLEN---HQTCSR--AD  554 (667)
Q Consensus       485 ~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~p~~---~~~~~ll~~~~~~g~~~~A~~~~~~~~~~---~~~~~~--~~  554 (667)
                      ...|...+...|++.+|..++..+...  |..+..   ..+...++.|...+++.+|..+++++...   ...+|+  ..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~  219 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLE  219 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHH
Confidence            456788899999999999999998753  222221   34666778899999999999999987531   122232  24


Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      .+...+..+...++|.+|-+.|.++
T Consensus       220 ~~~~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          220 YYNLLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            5677888889999999998887765

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.24  E-value=4.3  Score=40.24  Aligned_cols=184  Identities=13%  Similarity=0.142  Sum_probs=115.1

Q ss_pred             CCHHHHHHHHhhCCCC---C----CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----hccC
Q 005966          463 GSLESAHKIFSEIPIK---D----KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC----SHGG  531 (667)
Q Consensus       463 g~~~~A~~~~~~~~~~---~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~----~~~g  531 (667)
                      |+++.|.+.+-.+.+.   .    ........++..|...|+++...+.+.-+....-... .....+++.+    ....
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk-~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK-LSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH-HHHHHHHHHHHHHHHHHC
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH-HHHHHHHHHHHHHHhcCC
Confidence            6788888876443321   1    2345677888999999999999888876665322221 2222333322    2223


Q ss_pred             CHHH--HHHHHHHhHHh--cCCCC---chhHHHHHHHHHhhcCChHHHHHHHHhCC-----CCCC---HHHHHHHHHHHH
Q 005966          532 LLDE--GLDLFNFMLEN--HQTCS---RADHYTCIVDLLGRAGRLDEAYDLIRTMP-----LKPT---HAVWGALLGACV  596 (667)
Q Consensus       532 ~~~~--A~~~~~~~~~~--~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~---~~~~~~l~~~~~  596 (667)
                      ..+.  -..+.+.....  ...-.   .......|...+...|++.+|.+++..+.     ..+.   ...+...++.|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence            2222  22222222110  11111   22234568899999999999999999872     2221   235667778899


Q ss_pred             hcCCHHHHHHHHHHhhc---cCCCCC----chHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          597 IHGNVELGEVAAKWLFE---LEPENP----GNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       597 ~~g~~~~A~~~~~~~~~---~~p~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      ..+|+..|..+++++..   ..+.++    ..+...+.++...++|.+|-..|.++.+
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~  246 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQ  246 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            99999999999998742   222222    3667889999999999999988877643

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=91.17  E-value=9.7  Score=35.53  Aligned_cols=167  Identities=12%  Similarity=0.088  Sum_probs=99.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHH----HHHHhcCCCCChhhHHHHHHHhh
Q 005966          249 AWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLF----QLMQFEGVRPNSLTIGSLLSACS  324 (667)
Q Consensus       249 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~----~~m~~~~~~p~~~t~~~ll~~~~  324 (667)
                      +|.++..-|.+.+++++|.+++-.           -...+.+.|+...+-++-    +-..+.++++|..+...++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            566677778899999999988644           234566777776665554    55556788999988888888776


Q ss_pred             cccchH-HHHHH----HHHHHHhc--CCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHH
Q 005966          325 SLYYLK-RGRSL----HAWTIKQN--LECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARK  397 (667)
Q Consensus       325 ~~~~~~-~a~~~----~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~  397 (667)
                      .....+ .-..+    ..+-.+.|  ..-++.....+...|.+.+++.+|+..|-.-.++++..+..++.-+...+...+
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~e  185 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESHT  185 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGGG
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCcc
Confidence            654321 11222    33333333  345677888888889999999998888753222222344444433333332221


Q ss_pred             HHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Q 005966          398 AVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLI  441 (667)
Q Consensus       398 A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  441 (667)
                      +              +.+.-..++ .|...++...|...++...
T Consensus       186 ~--------------dlfiaRaVL-~yL~l~n~~~A~~~~~~f~  214 (336)
T 3lpz_A          186 A--------------PLYCARAVL-PYLLVANVRAANTAYRIFT  214 (336)
T ss_dssp             H--------------HHHHHHHHH-HHHHTTCHHHHHHHHHHHH
T ss_pred             H--------------HHHHHHHHH-HHHHhCCHHHHHHHHHHHH
Confidence            1              222222222 3455667777777665544

>3o48_A Mitochondria fission 1 protein; tetratricopeptide repeat fold, TPR, scaffold, peroxisome, membrane fission, protein binding; 1.75A {Saccharomyces cerevisiae} PDB: 2pqr_A 2pqn_A 3uux_A

Probab=90.56  E-value=1.8  Score=33.87  Aligned_cols=70  Identities=10%  Similarity=-0.044  Sum_probs=51.4

Q ss_pred             CCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHhhccCCC-CCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          580 PLKPTHAVWGALLGACVIHGN---VELGEVAAKWLFELEPE-NPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       580 ~~~p~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      +-.|++.+-..+.+++.++.+   ..+++.+++.+++.+|. ....++.|+-.+.+.|++++|+++.+.+.+..
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~e  108 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  108 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTC
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhC
Confidence            345677777777777777654   45677888888877774 35677788888888888888888888877654

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=90.45  E-value=1  Score=47.52  Aligned_cols=52  Identities=15%  Similarity=0.121  Sum_probs=33.0

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP  580 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  580 (667)
                      |...|+++-|+.+-++...  -.|.+-.+|..|+.+|...|+++.|+-.++.++
T Consensus       347 Ll~K~~~elAL~~Ak~AV~--~aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          347 LLNRGDYELALGVSNTSTE--LALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HhccCcHHHHHHHHHHHHh--cCchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            4455666666666666655  333445666666667777777777766666665

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=90.35  E-value=12  Score=35.02  Aligned_cols=155  Identities=12%  Similarity=0.032  Sum_probs=94.8

Q ss_pred             HHHHHHHHhhccCCh---hhHhHHHHHHHHhCCCchhhhhhHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCc
Q 005966           15 LVIKLVQQYAATKSI---AGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGAS   91 (667)
Q Consensus        15 ~~~~~~~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~   91 (667)
                      -...-++.....|++   =+|.|.+..+.           .=|.+++++++|+.++-.           -...+.+.|+.
T Consensus        14 ~~i~rl~~~I~~G~y~~~YEAHQ~~RTi~-----------~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~   71 (336)
T 3lpz_A           14 RIIARLQRRIAEGQPEEQYEAAQETRLVA-----------ARYSKQGNWAAAVDILAS-----------VSQTLLRSGQG   71 (336)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHHHH-----------HHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCH
T ss_pred             HHHHHHHHHHhCCCCccccHHHHHHHHHH-----------HHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCc
Confidence            344456777788888   66766665544           347778999999987642           34456666776


Q ss_pred             hHHHHHH----HHhHHcCCCCCCcccHHHHHHHhccccc-----hHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHhcC
Q 005966           92 HDSLKMF----LGMLRLGEYNPDNYTYPIVIKACTDLAW-----RKLGIALHGRVLITG--FDMDTFVGNCLIAMYMNFG  160 (667)
Q Consensus        92 ~~a~~~~----~~~~~~~~~~~~~~~~~~ll~~~~~~~~-----~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g  160 (667)
                      ..|-++-    +-+.+. ++++|......++..+.....     ..-......+-.+.|  ..-|+..+..+...|.+.+
T Consensus        72 ~sg~DL~~llvevy~~~-~~~~~~~~~~rL~~L~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~  150 (336)
T 3lpz_A           72 GSGGDLAVLLVDTFRQA-GQRVDGASRGKLLGCLRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEG  150 (336)
T ss_dssp             HHHHHHHHHHHHHHHHH-TCCCCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTT
T ss_pred             chHHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccC
Confidence            6555544    333444 677887777777777654432     111222333333444  3456778888888999999


Q ss_pred             CHHHHHHHhcccCCCChhhHHHHHHHHHHcCC
Q 005966          161 EVKAARKVFDAMWEHSVVSWNTLISGYFKNAY  192 (667)
Q Consensus       161 ~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~  192 (667)
                      ++.+|+.-|-.-..+++..+..++..+...+.
T Consensus       151 ~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~  182 (336)
T 3lpz_A          151 EFEAAEKHLVLGTKESPEVLARMEYEWYKQDE  182 (336)
T ss_dssp             CHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSC
T ss_pred             CHHHHHHHHHhcCCchHHHHHHHHHHHHHhcC
Confidence            99999888743222233566555544444433

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=90.18  E-value=0.55  Score=45.76  Aligned_cols=67  Identities=18%  Similarity=0.092  Sum_probs=49.9

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh-----hCCCccCC
Q 005966          588 WGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD-----EKGLRKAP  654 (667)
Q Consensus       588 ~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~  654 (667)
                      ...++.++...|+.+++...+..++..+|-+...+..|..+|.+.|+..+|++.|+++.     +.|+.+.|
T Consensus       174 ~~~~~~~~l~~g~~~~a~~~l~~~~~~~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~  245 (388)
T 2ff4_A          174 HTAKAEAEIACGRASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  245 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCH
Confidence            34556667778888888888888888888878888888888888888888888877764     34555443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.70  E-value=5.5  Score=29.00  Aligned_cols=87  Identities=13%  Similarity=0.036  Sum_probs=64.3

Q ss_pred             ccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 005966          124 LAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWM  203 (667)
Q Consensus       124 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  203 (667)
                      ....++|..+-+.+...+-  ...+--.-++.+.+.|++++|..+.+...-||..+|-.|-.  .+.|..+++..-+.++
T Consensus        19 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   94 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGL   94 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            3467888888888877763  44444444566889999999999999999999999987765  4678888888877777


Q ss_pred             HHCCCCCChHHH
Q 005966          204 LKSGVEPDCASV  215 (667)
Q Consensus       204 ~~~g~~p~~~~~  215 (667)
                      ...| .|....|
T Consensus        95 a~sg-~p~~q~F  105 (115)
T 2uwj_G           95 GGSS-DPALADF  105 (115)
T ss_dssp             HTCS-SHHHHHH
T ss_pred             HhCC-CHHHHHH
Confidence            7655 3443333

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=88.43  E-value=31  Score=37.40  Aligned_cols=216  Identities=13%  Similarity=0.032  Sum_probs=92.7

Q ss_pred             HHHhcCCHHHHHHHHhccCCCC--ccc----HHHHHHHHHhCCChHHHHHHHHHHHHCCC-------CCCHHHHHHH--H
Q 005966          357 MYAKCNLVKLSFQVFARTSKKK--TVP----WNAILAGCVHNGLARKAVELFRQMLVEVV-------EPNDATLNSL--L  421 (667)
Q Consensus       357 ~~~~~g~~~~a~~~~~~~~~~~--~~~----~~~li~~~~~~~~~~~A~~~~~~m~~~g~-------~p~~~~~~~l--l  421 (667)
                      +....|+.++++.+++.....+  ...    =..+.-+....|..+++..++.......-       .+....-..+  -
T Consensus       383 GlIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLG  462 (963)
T 4ady_A          383 GVIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIG  462 (963)
T ss_dssp             HHHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHH
T ss_pred             hhhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHH
Confidence            4555667777777776655421  111    12223344455555566666665443211       0111111222  2


Q ss_pred             HHHhCcCCHHHHHHHHHHHHHhCCCCCc--hHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchHHHHHHHHHHcCCh
Q 005966          422 PAYAILADLQQAMNIHCYLIRYGFLSVV--EVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVWSVIIAGYGMHGHG  498 (667)
Q Consensus       422 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~  498 (667)
                      .++...++- ++...+..+....- +..  ..-.+|...+.-.|+.+....++..+.+...+ ..-.-++.-++...|+.
T Consensus       463 la~~GS~~e-ev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~~e~vrR~aalgLGll~~g~~  540 (963)
T 4ady_A          463 LAAMGSANI-EVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQHGNITRGLAVGLALINYGRQ  540 (963)
T ss_dssp             HHSTTCCCH-HHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCG
T ss_pred             HHhcCCCCH-HHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccCcHHHHHHHHHHHHhhhCCCh
Confidence            222333332 33333333333211 111  11122333344556666666665544332111 11122222334456666


Q ss_pred             HHHHHHHHHHHHcCCCCCHH-HHH---HHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHH
Q 005966          499 ETAVSLFKEMVQSGVQPNEV-TFT---SALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYD  574 (667)
Q Consensus       499 ~~a~~~~~~m~~~~~~p~~~-~~~---~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  574 (667)
                      +.+..+.+.+...   .++. -|.   .+.-+|+-.|+.....+++..+.++  ...++.-...+.-++...|+.+.+.+
T Consensus       541 e~~~~li~~L~~~---~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d--~~d~VRraAViaLGlI~~g~~e~v~r  615 (963)
T 4ady_A          541 ELADDLITKMLAS---DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSD--SNDDVRRAAVIALGFVLLRDYTTVPR  615 (963)
T ss_dssp             GGGHHHHHHHHHC---SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTSSSCSSHHH
T ss_pred             HHHHHHHHHHHhC---CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccC--CcHHHHHHHHHHHHhhccCCHHHHHH
Confidence            6666666666653   2222 222   2333456666766666677666651  11222222222233334455554555


Q ss_pred             HHHhC
Q 005966          575 LIRTM  579 (667)
Q Consensus       575 ~~~~~  579 (667)
                      +++.+
T Consensus       616 lv~~L  620 (963)
T 4ady_A          616 IVQLL  620 (963)
T ss_dssp             HTTTG
T ss_pred             HHHHH
Confidence            55544

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=88.32  E-value=5.9  Score=28.89  Aligned_cols=87  Identities=11%  Similarity=0.157  Sum_probs=63.3

Q ss_pred             ccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCChhhHHHHHHHHHHcCChhHHHHHHHHH
Q 005966          124 LAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHSVVSWNTLISGYFKNAYAKEALVVFDWM  203 (667)
Q Consensus       124 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  203 (667)
                      ....++|..+-+.+...+-  ...+--.-++.+.+.|++++|..+.+...-||..+|-.|-.  .+.|..+++..-+.++
T Consensus        20 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~l   95 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRL   95 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHH
Confidence            3467888888888877763  44444444566889999999999999999999999988765  4667777777777777


Q ss_pred             HHCCCCCChHHH
Q 005966          204 LKSGVEPDCASV  215 (667)
Q Consensus       204 ~~~g~~p~~~~~  215 (667)
                      ...| .|....|
T Consensus        96 a~sg-~p~~q~F  106 (116)
T 2p58_C           96 ARSQ-DPRIQTF  106 (116)
T ss_dssp             TTCC-CHHHHHH
T ss_pred             HhCC-CHHHHHH
Confidence            6654 3433333

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=88.21  E-value=2.7  Score=30.83  Aligned_cols=55  Identities=13%  Similarity=0.095  Sum_probs=42.1

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      ++.-+-.+-.-|++.++.+.+++|++.+|+..|.++++-+...-.+...+|..+.
T Consensus        32 glN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~~~iY~~~l   86 (109)
T 1v54_E           32 GMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   86 (109)
T ss_dssp             HHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCchhhHHHHH
Confidence            3333444468899999999999999999999999999988766555455565544

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=87.57  E-value=17  Score=35.03  Aligned_cols=26  Identities=4%  Similarity=-0.095  Sum_probs=13.4

Q ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHH
Q 005966          415 ATLNSLLPAYAILADLQQAMNIHCYL  440 (667)
Q Consensus       415 ~~~~~ll~~~~~~~~~~~a~~~~~~~  440 (667)
                      .....+...|...|+.++..+++...
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~   45 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVT   45 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34444555555555555555555443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=87.34  E-value=6.9  Score=35.02  Aligned_cols=121  Identities=12%  Similarity=0.053  Sum_probs=70.7

Q ss_pred             HHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchh----HHHHHHHHHhhc
Q 005966          491 GYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRAD----HYTCIVDLLGRA  566 (667)
Q Consensus       491 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~  566 (667)
                      ...+.|+.+++++....-++.. +-|...-..++..+|-.|+|++|.+-++...+.   .|+..    .|..+|.+    
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l---~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL---FPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH---CGGGHHHHHHHHHHHHH----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh---CchhhHHHHHHHHHHHH----
Confidence            4556778888888777777764 335566667777788888888888877777652   23332    23333322    


Q ss_pred             CChHHHHH-HHHhC--C--CCCCHHHHHHHHHH--HHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          567 GRLDEAYD-LIRTM--P--LKPTHAVWGALLGA--CVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       567 g~~~~A~~-~~~~~--~--~~p~~~~~~~l~~~--~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                         +...+ +|..-  +  ......-...++.+  ....|+.+.|.+.-.++++.-|..+...
T Consensus        78 ---E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~~~G~~  137 (273)
T 1zbp_A           78 ---AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLA  137 (273)
T ss_dssp             ---HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEE
T ss_pred             ---HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcccCCCc
Confidence               11111 22211  1  11122233444444  3456888888888888888887755533

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.63  E-value=0.97  Score=40.39  Aligned_cols=56  Identities=20%  Similarity=0.274  Sum_probs=35.5

Q ss_pred             HHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          562 LLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       562 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      .+.+.|++++|++.+..- +..| |...-..++..++-.|++++|..-++.+.+++|+
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~   63 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE   63 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence            345666777776655443 4444 5555666666666777777777777777777666

>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus} SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E* 1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E* 2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E* 3ag1_E* 3ag2_E* ...

Probab=86.57  E-value=3.3  Score=30.38  Aligned_cols=62  Identities=11%  Similarity=0.217  Sum_probs=43.6

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          498 GETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       498 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      .-+..+-+..+....+.|++......+.+|.+.+++.-|.++++.++.+.+..  ..+|..+++
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~~--~~iY~~~lq   87 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPH--KEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTC--TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCc--hhhHHHHHH
Confidence            33455666666667778888888888888888888888888888887744433  345655543

>2ff4_A Probable regulatory protein EMBR; winged-helix, tetratricopeptide repeat, beta-sandwich, trans; HET: DNA TPO; 1.90A {Mycobacterium tuberculosis} SCOP: a.4.6.1 a.118.8.3 b.26.1.2 PDB: 2fez_A*

Probab=85.80  E-value=3.6  Score=39.97  Aligned_cols=69  Identities=10%  Similarity=-0.026  Sum_probs=48.4

Q ss_pred             HHHHHHHhCCCchHHHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHH-----hCCCCchHHHH
Q 005966           80 TVMKMYAQNGASHDSLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLI-----TGFDMDTFVGN  150 (667)
Q Consensus        80 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~  150 (667)
                      .++..+...|++++++..+..+...  .+.+...+..++.++.+.|+..+|...|+...+     .|+.|+..+-.
T Consensus       176 ~~~~~~l~~g~~~~a~~~l~~~~~~--~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          176 AKAEAEIACGRASAVIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            3455666777888887777777765  455667777777888788888888777777543     47777766544

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=85.34  E-value=11  Score=42.80  Aligned_cols=55  Identities=15%  Similarity=0.094  Sum_probs=35.7

Q ss_pred             HHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHH
Q 005966          350 VETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQM  405 (667)
Q Consensus       350 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m  405 (667)
                      ....++..+.+.+..+.+.++..-.. .++..--.+..++...|++++|.+.|.+.
T Consensus       814 ~~~~l~~~l~~~~~~~~~~~l~~~~~-~~~~~~yl~g~~~L~~ge~~~A~~~F~ka  868 (1139)
T 4fhn_B          814 LVTELVEKLFLFKQYNACMQLIGWLN-SDPIAVYLKALIYLKSKEAVKAVRCFKTT  868 (1139)
T ss_dssp             HHHHHHHHHHHHSCTTHHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHTC
T ss_pred             hHHHHHHHHHHhhhHHHHHHHhhhcc-CCcHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            33455666667777777776655443 33333345667777888888888888764

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=83.89  E-value=27  Score=32.30  Aligned_cols=151  Identities=9%  Similarity=0.029  Sum_probs=91.2

Q ss_pred             HHHHHHhhccCChhhHhHHHHHHHHhCCCchhhhhhHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCchHHHH
Q 005966           17 IKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHDSLK   96 (667)
Q Consensus        17 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~   96 (667)
                      ..-++.....|++=+|.|.+..+.           .=|.+++++++|+.++..           -...+.+.|++..|-+
T Consensus        17 l~rl~~~I~~G~yYEAhQ~~Rtl~-----------~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~D   74 (312)
T 2wpv_A           17 LQRFENKIKAGDYYEAHQTLRTIA-----------NRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTD   74 (312)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHH-----------HHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHhhccChHHHHHHHHHHH-----------HHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHH
Confidence            334555666677777777666544           346677889999887643           3445566677666555


Q ss_pred             H----HHHhHHcCCCCCCcccHHHHHHHhcccc-----chHHHHHHHHHHHHhC--CCCchHHHHHHHHHHHhcCCHHHH
Q 005966           97 M----FLGMLRLGEYNPDNYTYPIVIKACTDLA-----WRKLGIALHGRVLITG--FDMDTFVGNCLIAMYMNFGEVKAA  165 (667)
Q Consensus        97 ~----~~~~~~~~~~~~~~~~~~~ll~~~~~~~-----~~~~a~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~A  165 (667)
                      +    .+...+. +.+++......++..+....     +..-......+-.+.|  ..-++..+..+...|.+.|++.+|
T Consensus        75 La~llvev~~~~-~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A  153 (312)
T 2wpv_A           75 LIFYLLEVYDLA-EVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEA  153 (312)
T ss_dssp             HHHHHHHHHHHT-TCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHc-CCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHH
Confidence            4    3333344 67777777777776665422     1222333333444443  224778888899999999999999


Q ss_pred             HHHhcccCCCChhhHHHHHHHHHHc
Q 005966          166 RKVFDAMWEHSVVSWNTLISGYFKN  190 (667)
Q Consensus       166 ~~~~~~~~~~~~~~~~~li~~~~~~  190 (667)
                      +.-|-.-...+...+-.++..+...
T Consensus       154 ~~H~i~~~~~s~~~~a~~l~~w~~~  178 (312)
T 2wpv_A          154 ERYFMLGTHDSMIKYVDLLWDWLCQ  178 (312)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCCccHHHHHHHHHHHHHh
Confidence            8877532222455555555544444

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=83.03  E-value=11  Score=27.38  Aligned_cols=78  Identities=13%  Similarity=-0.077  Sum_probs=55.3

Q ss_pred             chHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHh
Q 005966          227 EIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQF  306 (667)
Q Consensus       227 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  306 (667)
                      ..++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+...-||...|-++-.  .+.|-.+++..-+.++..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            44555555555555443  23333333456778999999999999999999999987765  478888888888878876


Q ss_pred             cC
Q 005966          307 EG  308 (667)
Q Consensus       307 ~~  308 (667)
                      +|
T Consensus        97 sg   98 (115)
T 2uwj_G           97 SS   98 (115)
T ss_dssp             CS
T ss_pred             CC
Confidence            65

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=82.61  E-value=12  Score=27.32  Aligned_cols=78  Identities=12%  Similarity=-0.020  Sum_probs=53.5

Q ss_pred             chHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHh
Q 005966          227 EIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQF  306 (667)
Q Consensus       227 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  306 (667)
                      ..++|..+-+.+...+.  ...+--.-+..+.+.|++++|..+.+...-||...|-++-..  +.|-.+++..-+.++..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce~--rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCEY--RLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHHH--HHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHHH--hcccHHHHHHHHHHHHh
Confidence            44555555555555443  222333334567788999999999999999999998877654  66777777777777766


Q ss_pred             cC
Q 005966          307 EG  308 (667)
Q Consensus       307 ~~  308 (667)
                      +|
T Consensus        98 sg   99 (116)
T 2p58_C           98 SQ   99 (116)
T ss_dssp             CC
T ss_pred             CC
Confidence            54

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=81.25  E-value=6.1  Score=44.82  Aligned_cols=64  Identities=9%  Similarity=-0.145  Sum_probs=39.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc-----hHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPENPG-----NYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~-----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      -|..++..+.+.|.++.+.++.+.+++..+.+..     .|..+.+.+...|++++|...+-.+.+...
T Consensus       901 YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~  969 (1139)
T 4fhn_B          901 YYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL  969 (1139)
T ss_dssp             HHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH
Confidence            4555666666677777777777777664433222     355566666677777777777766655443

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.85  E-value=7  Score=38.53  Aligned_cols=60  Identities=12%  Similarity=-0.043  Sum_probs=26.9

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhc-CCCCchhHHHHHHHHHhhcCChHHHHHHHHhC
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENH-QTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  579 (667)
                      ...+..-|.+.|+++.|.+.+.++.... +..--...+..++..+...+++..+...++++
T Consensus       134 ~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka  194 (429)
T 4b4t_R          134 WINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAV  194 (429)
T ss_dssp             CHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            3444444555555555555555554421 11111233444444444455555554444443

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=80.77  E-value=7.7  Score=30.21  Aligned_cols=57  Identities=12%  Similarity=0.097  Sum_probs=43.6

Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          570 DEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       570 ~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      .+++.-+-.+.+-|++.++...+++|++.+|+..|.++++-+...-.+...+|..+.
T Consensus        73 rrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~~~~iY~y~l  129 (152)
T 2y69_E           73 RKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI  129 (152)
T ss_dssp             HHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCCchhhHHHHH
Confidence            334444445568899999999999999999999999999988766554455566544

>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV, proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV DMU; 1.95A {Bos taurus}

Probab=80.24  E-value=7.2  Score=30.38  Aligned_cols=60  Identities=12%  Similarity=0.256  Sum_probs=42.6

Q ss_pred             HHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHH
Q 005966          500 TAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVD  561 (667)
Q Consensus       500 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  561 (667)
                      +..+-++.+...++.|++......+.+|.+.+++.-|.++|+-++.+.+.  ...+|..+++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~--~~~iY~y~lq  130 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCC--chhhHHHHHH
Confidence            34555566666777888888888888888888888888888888774443  3445665543

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	667
d1w3ba_	388	a.118.8.1 (A:) O-GlcNAc transferase p110 subunit,	4e-04

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]} Length = 388

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 40.8 bits (94), Expect = 4e-04
 Identities = 41/349 (11%), Positives = 111/349 (31%), Gaps = 13/349 (3%)

Query: 245 KNIAAWNALVDMYVKCGSVNEARLVFDRMSERD---VVTWTSMINGYALNGDVRNALGLF 301
            N      L  ++ +C  ++ +        +++      ++++ N Y   G ++ A+  +
Sbjct: 31  DNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHY 90

Query: 302 QLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKC 361
           +             I    +  ++       ++  +          V  +   +      
Sbjct: 91  RHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGR 150

Query: 362 NLVKLSFQVFARTSKKKTVPWNAILAGCVHN-GLARKAVELFRQMLVEVVEPNDA-TLNS 419
                +  + A  ++       + L    +  G    A+  F + +   ++PN      +
Sbjct: 151 LEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAV--TLDPNFLDAYIN 208

Query: 420 LLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSE-IPIK 478
           L           +A+  +   +     +   V   L  +Y + G ++ A   +   I ++
Sbjct: 209 LGNVLKEARIFDRAVAAYLRALSLSP-NHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ 267

Query: 479 DKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLD 538
                 +  +       G    A   +   ++      +     A +     G ++E + 
Sbjct: 268 PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLA-NIKREQGNIEEAVR 326

Query: 539 LFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAY-DLIRTMPLKPTHA 586
           L+   LE     + A  ++ +  +L + G+L EA       + + PT A
Sbjct: 327 LYRKALEVFPEFAAA--HSNLASVLQQQGKLQEALMHYKEAIRISPTFA 373

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	667
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.92
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.9
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.66
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.63
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.24
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.21
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.16
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.14
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.11
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.1
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.1
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.07
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.04
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	98.97
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.85
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.83
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.8
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.77
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.76
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.74
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.67
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.65
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.63
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.63
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.63
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.53
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.42
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.42
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.39
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.37
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.37
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.35
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.32
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.3
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.25
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.24
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.16
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.12
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.11
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.07
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	97.97
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	97.94
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.93
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.9
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.88
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.78
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.74
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.73
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.71
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.69
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.59
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.53
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.5
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	96.62
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.35
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.93
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.62
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.31
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.18
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	94.27
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	90.12
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	87.25
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	85.7

>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=99.92  E-value=7.9e-22  Score=195.99  Aligned_cols=376  Identities=11%  Similarity=0.067  Sum_probs=272.6

Q ss_pred             HHcccCcchHHHHHHHHHHHhcCCCcchhHHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhHHHHHHHHHHhCCChHH
Q 005966          220 PACGYLKEIEMGRMIHELVAGGRLGKNIAAWNALVDMYVKCGSVNEARLVFDRMSE---RDVVTWTSMINGYALNGDVRN  296 (667)
Q Consensus       220 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~  296 (667)
                      ..+.+.|++++|.+.++.+.+.. +.+..++..+..+|.+.|++++|...|+++.+   .+..+|..+...+.+.|++++
T Consensus         7 ~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~   85 (388)
T d1w3ba_           7 HREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccc
Confidence            34556677888888887777654 33566777777777788888888888777654   345567777777777788888


Q ss_pred             HHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCC
Q 005966          297 ALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSK  376 (667)
Q Consensus       297 a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  376 (667)
                      |++.+....+.... +..............................                                ..
T Consensus        86 A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------------~~  132 (388)
T d1w3ba_          86 AIEHYRHALRLKPD-FIDGYINLAAALVAAGDMEGAVQAYVSALQY--------------------------------NP  132 (388)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--------------------------------CT
T ss_pred             cccccccccccccc-ccccccccccccccccccccccccccccccc--------------------------------cc
Confidence            88777777664322 1122211221122222222222211111111                                12


Q ss_pred             CCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHH
Q 005966          377 KKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLI  456 (667)
Q Consensus       377 ~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  456 (667)
                      ................+....+...+.+..... +-+...+..+...+...|+++.|...++...+.. +.+...+..+.
T Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~  210 (388)
T d1w3ba_         133 DLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLG  210 (388)
T ss_dssp             TCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             ccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHh
Confidence            222223444455556667777777777666542 3344566677777888888888888888887765 45667788888


Q ss_pred             HHHHhcCCHHHHHHHHhhCCCCC-CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          457 DIYSKCGSLESAHKIFSEIPIKD-KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       457 ~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      ..+...|++++|...++...... .+...+..+...+.+.|++++|+..|++..+.. +-+..++..+...+...|++++
T Consensus       211 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~  289 (388)
T d1w3ba_         211 NVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAE  289 (388)
T ss_dssp             HHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHH
T ss_pred             hhhhccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHH
Confidence            89999999999999988776654 355677888889999999999999999998864 2345678889999999999999


Q ss_pred             HHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          536 GLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       536 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      |.+.++....  ..+.+...+..++.++.+.|++++|++.+++. ...| +..++..++..+...|++++|+..++++++
T Consensus       290 A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  367 (388)
T d1w3ba_         290 AEDCYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIR  367 (388)
T ss_dssp             HHHHHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT
T ss_pred             HHHHHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            9999999887  44566778888999999999999999999986 5666 567888999999999999999999999999


Q ss_pred             cCCCCCchHHHHHHHHhhcCC
Q 005966          614 LEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       614 ~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      ++|+++.++..|+.+|.+.||
T Consensus       368 l~P~~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         368 ISPTFADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             TCTTCHHHHHHHHHHHHHTCC
T ss_pred             hCCCCHHHHHHHHHHHHHcCC
Confidence            999999999999999998886

>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=99.90  E-value=1.2e-20  Score=187.21  Aligned_cols=356  Identities=14%  Similarity=0.060  Sum_probs=269.2

Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC--C-ChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccch
Q 005966          253 LVDMYVKCGSVNEARLVFDRMSE--R-DVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYL  329 (667)
Q Consensus       253 l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~  329 (667)
                      +...+.+.|++++|.+.|+++.+  | +..++..+...+.+.|++++|+..|++..+..  |                  
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~--p------------------   64 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN--P------------------   64 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--T------------------
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C------------------
Confidence            34455666777777777766643  3 34556666666666777777777776665532  2                  


Q ss_pred             HHHHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCc---ccHHHHHHHHHhCCChHHHHHHHHHHH
Q 005966          330 KRGRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKT---VPWNAILAGCVHNGLARKAVELFRQML  406 (667)
Q Consensus       330 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~m~  406 (667)
                                      .+..++..+...|.+.|++++|...+......++   ..+..........+....+........
T Consensus        65 ----------------~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  128 (388)
T d1w3ba_          65 ----------------LLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSAL  128 (388)
T ss_dssp             ----------------TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHH
T ss_pred             ----------------CCHHHHHHHHHHhhhhcccccccccccccccccccccccccccccccccccccccccccccccc
Confidence                            2233445556666666666666666665542222   223334444445555556665555555


Q ss_pred             HCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC-cchH
Q 005966          407 VEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD-IVVW  485 (667)
Q Consensus       407 ~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~  485 (667)
                      ... .................+....+...+....... +.....+..+...+...|++++|...+++.....|+ ...|
T Consensus       129 ~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~  206 (388)
T d1w3ba_         129 QYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAY  206 (388)
T ss_dssp             HHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             ccc-cccccccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHH
Confidence            443 3334444455566677888888888888777665 456678888899999999999999999987766554 5688


Q ss_pred             HHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh
Q 005966          486 SVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR  565 (667)
Q Consensus       486 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  565 (667)
                      ..+...+...|++++|+..+++....+ ..+...+..+...+.+.|++++|...|+++.+  ..+.+...+..++.++..
T Consensus       207 ~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~  283 (388)
T d1w3ba_         207 INLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKE  283 (388)
T ss_dssp             HHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHH
T ss_pred             HHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHH
Confidence            889999999999999999999999875 44667788889999999999999999999988  344557789999999999


Q ss_pred             cCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHH
Q 005966          566 AGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRD  643 (667)
Q Consensus       566 ~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~  643 (667)
                      .|++++|++.++.. . .+.+...+..+...+...|++++|+..++++++..|+++.++..++.+|.+.|++++|++.++
T Consensus       284 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~  363 (388)
T d1w3ba_         284 KGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYK  363 (388)
T ss_dssp             HSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHH
T ss_pred             cCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            99999999999987 2 455778889999999999999999999999999999999999999999999999999999999


Q ss_pred             HhhhCC
Q 005966          644 VMDEKG  649 (667)
Q Consensus       644 ~~~~~~  649 (667)
                      ++.+..
T Consensus       364 ~al~l~  369 (388)
T d1w3ba_         364 EAIRIS  369 (388)
T ss_dssp             HHHTTC
T ss_pred             HHHHhC
Confidence            988764

>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=99.66  E-value=1.8e-15  Score=145.24  Aligned_cols=245  Identities=13%  Similarity=-0.003  Sum_probs=131.4

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHh
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSK  461 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  461 (667)
                      +-.....+.+.|++++|+..|++..+.. +-+..++..+..++...|+++.|...+....+.. +.+...+..++..|..
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~   99 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccc
Confidence            3345667888999999999999988753 2245677778888888888888888888887765 4456777777888888


Q ss_pred             cCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHH
Q 005966          462 CGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFN  541 (667)
Q Consensus       462 ~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~  541 (667)
                      .|++++|.+.++......|+.............                   ..+.......+..+...+.+.+|...+.
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~~~~~a~~~~~  160 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAG-------------------GAGLGPSKRILGSLLSDSLFLEVKELFL  160 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTGGGCC----------------------------------CTTHHHHHHHHHHHHHHHHH
T ss_pred             cccccccccchhhHHHhccchHHHHHhhhhhhh-------------------hcccccchhhHHHHHHhhHHHHHHHHHH
Confidence            888888888887765443321110000000000                   0000000001111122233444444444


Q ss_pred             HhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC
Q 005966          542 FMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       542 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                      ++.+.....++...+..++..+...|++++|+..+++. ...| +...|..++..+...|++++|+..++++++++|+++
T Consensus       161 ~al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  240 (323)
T d1fcha_         161 AAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYI  240 (323)
T ss_dssp             HHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhccH
Confidence            44432222233344444445555555555555555443 2222 344444555555555555555555555555555555


Q ss_pred             chHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          620 GNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       620 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      .++..+|.+|.+.|++++|++.|++..+
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            5555555555555555555555555443

>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=99.63  E-value=3e-14  Score=136.65  Aligned_cols=267  Identities=14%  Similarity=0.025  Sum_probs=197.0

Q ss_pred             HHHHHHHhcCCHHHHHHHHhccCC---CCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCC
Q 005966          353 ALIDMYAKCNLVKLSFQVFARTSK---KKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILAD  429 (667)
Q Consensus       353 ~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~  429 (667)
                      .....+.+.|++++|...|+++.+   .++..|..+..++...|++++|+..|.+..+.. +-+...+..+...+...|+
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~  102 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESL  102 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-ccccccccccccccccccc
Confidence            456678899999999999998763   345569999999999999999999999988753 2345677888889999999


Q ss_pred             HHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHH
Q 005966          430 LQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMV  509 (667)
Q Consensus       430 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  509 (667)
                      +++|.+.++......... ...........                 . ..+.......+..+...+...+|...+.+..
T Consensus       103 ~~~A~~~~~~~~~~~~~~-~~~~~~~~~~~-----------------~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al  163 (323)
T d1fcha_         103 QRQACEILRDWLRYTPAY-AHLVTPAEEGA-----------------G-GAGLGPSKRILGSLLSDSLFLEVKELFLAAV  163 (323)
T ss_dssp             HHHHHHHHHHHHHTSTTT-GGGCC---------------------------------CTTHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccccccchhhHHHhccch-HHHHHhhhhhh-----------------h-hcccccchhhHHHHHHhhHHHHHHHHHHHHH
Confidence            999999999987754211 11000000000                 0 0111111122233455567788999999888


Q ss_pred             HcCC-CCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHH
Q 005966          510 QSGV-QPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THA  586 (667)
Q Consensus       510 ~~~~-~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~  586 (667)
                      +... .++...+..+...+...|++++|...+++....  .+.+...|..++.+|.+.|++++|++.++++ ...| +..
T Consensus       164 ~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~  241 (323)
T d1fcha_         164 RLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSV--RPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIR  241 (323)
T ss_dssp             HHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHH
T ss_pred             HHhhcccccccchhhHHHHHHHHHHhhhhccccccccc--ccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHH
Confidence            7543 234567888888999999999999999999873  3345778999999999999999999999987 4555 677


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCch-----------HHHHHHHHhhcCCchHHHHH
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPENPGN-----------YVLLSKLYSAVRRWKDAENV  641 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----------~~~l~~~~~~~g~~~~A~~~  641 (667)
                      +|..++.+|...|++++|+..+++++++.|+++..           +..+..++...|+.+.+...
T Consensus       242 a~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~~  307 (323)
T d1fcha_         242 SRYNLGISCINLGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAA  307 (323)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHHH
Confidence            89999999999999999999999999999987654           34566677777777665544

>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=99.24  E-value=5.1e-11  Score=112.26  Aligned_cols=228  Identities=11%  Similarity=0.125  Sum_probs=169.1

Q ss_pred             HHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcC-CHHHHHHHHhhCCCCCC-CcchHHHHHHHH
Q 005966          415 ATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCG-SLESAHKIFSEIPIKDK-DIVVWSVIIAGY  492 (667)
Q Consensus       415 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~  492 (667)
                      ..++.+-..+.+.+.+++|++.++.+++.+ |-+...|+....++...| ++++|...++......| +..+|+.+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            355556666777888899999999998876 556677777888887766 48899999888776665 467888888888


Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC----
Q 005966          493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR----  568 (667)
Q Consensus       493 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  568 (667)
                      .+.|++++|+..++++.+.. +-+...|..+...+.+.|++++|+..++++++.  .+.+...|+.+..++.+.+.    
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccchh
Confidence            89999999999999998864 335678888888888899999999999998882  33456677777777666554    


Q ss_pred             --hHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc--hHHHHHHHHhhc--CCchHHHH
Q 005966          569 --LDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG--NYVLLSKLYSAV--RRWKDAEN  640 (667)
Q Consensus       569 --~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~--~~~~l~~~~~~~--g~~~~A~~  640 (667)
                        +++|++.+.++ ...| +...|..+...+... ..+++...++++.++.|+...  .+..++.+|...  ++.+.+..
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~~~-~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDR-GLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTT-CGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHHhc-ChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence              57788877765 4455 666777776665444 457788888888888877443  445677777553  67777887


Q ss_pred             HHHHhhh
Q 005966          641 VRDVMDE  647 (667)
Q Consensus       641 ~~~~~~~  647 (667)
                      .+++..+
T Consensus       279 ~~~ka~~  285 (315)
T d2h6fa1         279 ILNKALE  285 (315)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            7777654

>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=99.21  E-value=9.9e-10  Score=106.04  Aligned_cols=260  Identities=14%  Similarity=0.046  Sum_probs=139.3

Q ss_pred             HHHhCCChHHHHHHHHHHHHCCCCCC----HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC--C---CCchHHHHHHHH
Q 005966          388 GCVHNGLARKAVELFRQMLVEVVEPN----DATLNSLLPAYAILADLQQAMNIHCYLIRYGF--L---SVVEVSTGLIDI  458 (667)
Q Consensus       388 ~~~~~~~~~~A~~~~~~m~~~g~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~---~~~~~~~~l~~~  458 (667)
                      .+...|++++|++++++..+.....+    ...+..+...+...|++++|...++...+...  .   .....+..+...
T Consensus        21 ~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~  100 (366)
T d1hz4a_          21 VAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEI  100 (366)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHH
Confidence            34445555555555555544321111    12334444455555666666655555443210  0   012233444555


Q ss_pred             HHhcCCHHHHHHHHhhCCCCC-----CC----cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCC----CCHHHHHHHHH
Q 005966          459 YSKCGSLESAHKIFSEIPIKD-----KD----IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQ----PNEVTFTSALH  525 (667)
Q Consensus       459 ~~~~g~~~~A~~~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~----p~~~~~~~ll~  525 (667)
                      +...|++..+...+.......     +.    ...+..+...+...|+++.+...+.+.......    ....++.....
T Consensus       101 ~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~  180 (366)
T d1hz4a_         101 LFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQ  180 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHH
Confidence            666666666665554432110     11    123444556666777777777777766653211    11234444555


Q ss_pred             HHhccCCHHHHHHHHHHhHHhcCCCC-----chhHHHHHHHHHhhcCChHHHHHHHHhCC-CCC-----CHHHHHHHHHH
Q 005966          526 ACSHGGLLDEGLDLFNFMLENHQTCS-----RADHYTCIVDLLGRAGRLDEAYDLIRTMP-LKP-----THAVWGALLGA  594 (667)
Q Consensus       526 ~~~~~g~~~~A~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-----~~~~~~~l~~~  594 (667)
                      .+...+++.++...+...........     ....+..+...+...|++++|...+++.. ..|     ....+..+..+
T Consensus       181 ~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~  260 (366)
T d1hz4a_         181 CSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARA  260 (366)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHH
Confidence            56666777777766665544221111     12234445566667777777777777652 111     12345556666


Q ss_pred             HHhcCCHHHHHHHHHHhhc------cCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhh
Q 005966          595 CVIHGNVELGEVAAKWLFE------LEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDE  647 (667)
Q Consensus       595 ~~~~g~~~~A~~~~~~~~~------~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  647 (667)
                      +...|++++|...+++++.      ..|+...++..++.+|...|++++|.+.+++..+
T Consensus       261 ~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         261 QILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777777777777777653      3344455677777777777777777777776544

>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=99.16  E-value=6.9e-11  Score=108.54  Aligned_cols=221  Identities=12%  Similarity=-0.062  Sum_probs=118.4

Q ss_pred             CChHHHHHHHHHHHHCCCCCC---HHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHH
Q 005966          393 GLARKAVELFRQMLVEVVEPN---DATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAH  469 (667)
Q Consensus       393 ~~~~~A~~~~~~m~~~g~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  469 (667)
                      .+.+.++.-+++........+   ..++..+...|.+.|++++|...|+..++.. +.++.++..+..+|.+.|++++|.
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            344566666666665422111   1345555666677777777777777777665 445666777777777777777777


Q ss_pred             HHHhhCCCCCCC-cchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC
Q 005966          470 KIFSEIPIKDKD-IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQ  548 (667)
Q Consensus       470 ~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  548 (667)
                      +.|+++....|+ ..+|..+..++...|++++|+..|++..+.. +.+......+..++.+.+..+.+..+........ 
T Consensus        92 ~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-  169 (259)
T d1xnfa_          92 EAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSD-  169 (259)
T ss_dssp             HHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSC-
T ss_pred             hhhhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccc-
Confidence            777776665543 4566666677777777777777777776653 2233333333333444444444444444443311 


Q ss_pred             CCCchhHHHHHHHHHhhcCCh----HHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC
Q 005966          549 TCSRADHYTCIVDLLGRAGRL----DEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPENP  619 (667)
Q Consensus       549 ~~~~~~~~~~l~~~~~~~g~~----~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~  619 (667)
                        +....+. ++..+......    +.+...+... ...|+ ..++..++..+...|++++|...+++++..+|++-
T Consensus       170 --~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~  243 (259)
T d1xnfa_         170 --KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  243 (259)
T ss_dssp             --CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             --hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCH
Confidence              1111111 22222221111    1111111111 11222 23455566667777777777777777777777653

>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=99.14  E-value=5.1e-10  Score=105.25  Aligned_cols=226  Identities=12%  Similarity=0.097  Sum_probs=167.2

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCH-HHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPND-ATLNSLLPAYAILA-DLQQAMNIHCYLIRYGFLSVVEVSTGLIDIY  459 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  459 (667)
                      ++.+...+.+.+.+++|+++++++.+.  .|+. ..|+....++...| ++++|...++...+.. +-+..++..+...+
T Consensus        46 ~~~~~~~~~~~e~~~~Al~~~~~ai~l--nP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          46 YDYFRAVLQRDERSERAFKLTRDAIEL--NAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHTCCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCchHHHHHHHHHHHHH--CCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            666777888899999999999999975  5554 45666666666665 5899999999998877 56788899999999


Q ss_pred             HhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCC------
Q 005966          460 SKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGL------  532 (667)
Q Consensus       460 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~------  532 (667)
                      .+.|++++|++.++++.+..| +...|..+...+...|++++|++.++++++.++ -+...|+.+...+.+.+.      
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~p-~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKEDV-RNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHCC-ccHHHHHHHHHHHHHccccchhhh
Confidence            999999999999999888765 578899999999999999999999999999752 356677776666555544      


Q ss_pred             HHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC----CCCCCHHHHHHHHHHHHh--cCCHHHHHH
Q 005966          533 LDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM----PLKPTHAVWGALLGACVI--HGNVELGEV  606 (667)
Q Consensus       533 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~--~g~~~~A~~  606 (667)
                      +++|+..+..+++  ..|.+...|..+...+...| .+++.+.++..    +...+...+..++..+..  .++.+.+..
T Consensus       202 ~~~ai~~~~~al~--~~P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         202 LEREVQYTLEMIK--LVPHNESAWNYLKGILQDRG-LSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hHHhHHHHHHHHH--hCCCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            6789999988887  34456777777776665544 56666666554    222345556666655543  345555666


Q ss_pred             HHHHhhcc
Q 005966          607 AAKWLFEL  614 (667)
Q Consensus       607 ~~~~~~~~  614 (667)
                      .++++.++
T Consensus       279 ~~~ka~~l  286 (315)
T d2h6fa1         279 ILNKALEL  286 (315)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66665543

>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=5.4e-09  Score=98.11  Aligned_cols=190  Identities=13%  Similarity=0.076  Sum_probs=148.3

Q ss_pred             CCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCCC--cchHHHHHHHHHHcCChHHHHHHH
Q 005966          428 ADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDKD--IVVWSVIIAGYGMHGHGETAVSLF  505 (667)
Q Consensus       428 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~  505 (667)
                      +..+++..+++...+...+.+...+...+..+.+.|+++.|..+|+++....|.  ...|...+..+.+.|+.+.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            345778888888877655666777888888899999999999999988776553  246888999999999999999999


Q ss_pred             HHHHHcCCCCCHHHHHHHHHH-HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC----C
Q 005966          506 KEMVQSGVQPNEVTFTSALHA-CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM----P  580 (667)
Q Consensus       506 ~~m~~~~~~p~~~~~~~ll~~-~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~  580 (667)
                      +++++.+. .+...|...... +...|+.+.|..+|+.+.+.  .+.+...|...++.+.+.|++++|..+|++.    +
T Consensus       158 ~~al~~~~-~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~--~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~  234 (308)
T d2onda1         158 KKAREDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGS  234 (308)
T ss_dssp             HHHHTSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSS
T ss_pred             HHHHHhCC-CcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh--hhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC
Confidence            99988653 233444443332 44568899999999999884  4456778999999999999999999999986    2


Q ss_pred             CCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCc
Q 005966          581 LKPT--HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPG  620 (667)
Q Consensus       581 ~~p~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~  620 (667)
                      ..|+  ...|...+..-...|+.+.+..+++++.+..|++..
T Consensus       235 ~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~~~~  276 (308)
T d2onda1         235 LPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFREEYE  276 (308)
T ss_dssp             SCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTTTTS
T ss_pred             CChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCccccc
Confidence            3332  457888888878889999999999999998887543

>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=99.10  E-value=9.8e-11  Score=112.01  Aligned_cols=232  Identities=6%  Similarity=-0.106  Sum_probs=173.0

Q ss_pred             CCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHH
Q 005966          392 NGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAI--LADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAH  469 (667)
Q Consensus       392 ~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  469 (667)
                      .|++++|+.+++...+.. +-+...+..+..++..  .++++++...+..+.+.........+......+...+.+++|.
T Consensus        86 ~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          86 AALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHH
Confidence            455788999999887653 2244455555555544  4568999999999988763333333445567788899999999


Q ss_pred             HHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcC
Q 005966          470 KIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQ  548 (667)
Q Consensus       470 ~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~  548 (667)
                      ..++.+....| +...|+.+...+.+.|++++|...+.+..+.  .|+.   ......+...+..+++...+.....  .
T Consensus       165 ~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~--~  237 (334)
T d1dcea1         165 AFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLL--G  237 (334)
T ss_dssp             HHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHH--S
T ss_pred             HHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHH--h
Confidence            99999998875 5678999999999999998887666655543  2222   1223334556777788888888776  3


Q ss_pred             CCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          549 TCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       549 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      .+++...+..++..+...|++++|...+.+. ...| +..++..++.++...|+.++|+..++++++++|+++..|..|+
T Consensus       238 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~  317 (334)
T d1dcea1         238 RAEPLFRCELSVEKSTVLQSELESCKELQELEPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR  317 (334)
T ss_dssp             CCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             CcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHH
Confidence            3455555667788888899999999998876 4555 4567888888999999999999999999999999889999888


Q ss_pred             HHHhh
Q 005966          627 KLYSA  631 (667)
Q Consensus       627 ~~~~~  631 (667)
                      ..+.-
T Consensus       318 ~~~~~  322 (334)
T d1dcea1         318 SKFLL  322 (334)
T ss_dssp             HHHHH
T ss_pred             HHHhH
Confidence            87764

>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=5.9e-10  Score=102.15  Aligned_cols=218  Identities=10%  Similarity=-0.017  Sum_probs=152.5

Q ss_pred             CHHHHHHHHHHHHHhCC-CC--CchHHHHHHHHHHhcCCHHHHHHHHhhCCCCCC-CcchHHHHHHHHHHcCChHHHHHH
Q 005966          429 DLQQAMNIHCYLIRYGF-LS--VVEVSTGLIDIYSKCGSLESAHKIFSEIPIKDK-DIVVWSVIIAGYGMHGHGETAVSL  504 (667)
Q Consensus       429 ~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~  504 (667)
                      +.+.+...+++...... .+  ...++..+..+|.+.|++++|.+.|++.....| ++.+|+.+..++.+.|++++|+..
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            34455555555544321 11  234677788999999999999999999887665 468899999999999999999999


Q ss_pred             HHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCC-CCC
Q 005966          505 FKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMP-LKP  583 (667)
Q Consensus       505 ~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p  583 (667)
                      |+++.+... -+..++..+..++...|++++|...|+...+.  .+.+......+...+.+.+..+.+..+..... ..+
T Consensus        94 ~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  170 (259)
T d1xnfa_          94 FDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDK  170 (259)
T ss_dssp             HHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCC
T ss_pred             hhHHHHHHh-hhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccch
Confidence            999999642 24567888889999999999999999999883  33444444445555556665555544444331 122


Q ss_pred             CHHHHHHHHHHHH----hcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          584 THAVWGALLGACV----IHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       584 ~~~~~~~l~~~~~----~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      +...+. ++..+.    ..+..+.+...+.......|+.+.++..++.+|...|++++|+..|++..+..+
T Consensus       171 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p  240 (259)
T d1xnfa_         171 EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNV  240 (259)
T ss_dssp             CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCC
T ss_pred             hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCC
Confidence            221221 222222    233455555555556666777777899999999999999999999999887654

>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=99.07  E-value=6.3e-09  Score=97.62  Aligned_cols=184  Identities=9%  Similarity=-0.002  Sum_probs=146.4

Q ss_pred             CCHHHHHHHHhhCCCCC-C-CcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHH
Q 005966          463 GSLESAHKIFSEIPIKD-K-DIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLF  540 (667)
Q Consensus       463 g~~~~A~~~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~  540 (667)
                      +..++|..+|++..... | +...|...+..+.+.|+.+.|..+|+++++.........|...+..+.+.|+++.|.++|
T Consensus        78 ~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~  157 (308)
T d2onda1          78 LFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIF  157 (308)
T ss_dssp             HHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHH
Confidence            34678888998876542 4 456788889999999999999999999998643333457888899999999999999999


Q ss_pred             HHhHHhcCCCCchhHHHHHHHHH-hhcCChHHHHHHHHhC-C-CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          541 NFMLENHQTCSRADHYTCIVDLL-GRAGRLDEAYDLIRTM-P-LKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       541 ~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      +++.+.  .+.+...|...+... ...|+.+.|..+|+.+ . .+.+...|...+......|+++.|..+|++++...|.
T Consensus       158 ~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         158 KKARED--ARTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            999873  333444555554443 3468999999999988 3 3446788999999999999999999999999998876


Q ss_pred             CCc----hHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          618 NPG----NYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       618 ~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ++.    .|...+..-...|+.+.+.++.+++.+.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~  270 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            654    5777777777889999999999998664

>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=99.04  E-value=1.3e-08  Score=97.91  Aligned_cols=287  Identities=8%  Similarity=-0.085  Sum_probs=187.5

Q ss_pred             HHHHHhcCCHHHHHHHHhccC---CCCc-----ccHHHHHHHHHhCCChHHHHHHHHHHHHCC----CCC-CHHHHHHHH
Q 005966          355 IDMYAKCNLVKLSFQVFARTS---KKKT-----VPWNAILAGCVHNGLARKAVELFRQMLVEV----VEP-NDATLNSLL  421 (667)
Q Consensus       355 ~~~~~~~g~~~~a~~~~~~~~---~~~~-----~~~~~li~~~~~~~~~~~A~~~~~~m~~~g----~~p-~~~~~~~ll  421 (667)
                      ...+...|++++|..++++..   +.+.     ..+..+...+...|++++|+..|++..+..    ..+ ...++..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            444556677777776666542   1111     125556677777888888888887765421    111 123455566


Q ss_pred             HHHhCcCCHHHHHHHHHHHHH----hCCCCC---chHHHHHHHHHHhcCCHHHHHHHHhhCCCCC------CCcchHHHH
Q 005966          422 PAYAILADLQQAMNIHCYLIR----YGFLSV---VEVSTGLIDIYSKCGSLESAHKIFSEIPIKD------KDIVVWSVI  488 (667)
Q Consensus       422 ~~~~~~~~~~~a~~~~~~~~~----~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~------~~~~~~~~l  488 (667)
                      ..+...|++..+...+.....    ......   ...+..+...+...|+++.+...+.......      .....+...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            677778888888888776543    222221   2345567778888999999888887654322      123345556


Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcC--CCCC----HHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCC--chhHHHHHH
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSG--VQPN----EVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCS--RADHYTCIV  560 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~--~~~~~~~l~  560 (667)
                      ...+...++...+...+.+.....  ....    ...+..+...+...|++++|...+....+.....+  ....+..+.
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la  258 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  258 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            677788899999988888766521  1111    12355566678889999999999998866322212  233556688


Q ss_pred             HHHhhcCChHHHHHHHHhC-------CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC---------CchHH
Q 005966          561 DLLGRAGRLDEAYDLIRTM-------PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPEN---------PGNYV  623 (667)
Q Consensus       561 ~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~---------~~~~~  623 (667)
                      ..+...|++++|...++++       +..|+ ..++..+...+...|++++|...+++++++.+..         ...+.
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~l~~~~~~~~~~~~~~~~~~  338 (366)
T d1hz4a_         259 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALKLANRTGFISHFVIEGEAMA  338 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCCCHHHHTTHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhcCcHHHHHHHHHHHH
Confidence            8999999999999998876       23343 3467778888999999999999999998865431         12233


Q ss_pred             HHHHHHhhcCCchHHHHH
Q 005966          624 LLSKLYSAVRRWKDAENV  641 (667)
Q Consensus       624 ~l~~~~~~~g~~~~A~~~  641 (667)
                      .+...+...++.+++...
T Consensus       339 ~~~~~l~~~~~l~e~e~~  356 (366)
T d1hz4a_         339 QQLRQLIQLNTLPELEQH  356 (366)
T ss_dssp             HHHHHHHHTTCSCHHHHH
T ss_pred             HHHHHHHhcCCChHHHHH
Confidence            455556667777777654

>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=98.97  E-value=3.6e-10  Score=107.95  Aligned_cols=250  Identities=9%  Similarity=-0.048  Sum_probs=178.9

Q ss_pred             hCCChHHHHHHHHHHHHCCCCCCHHHH-H---HHHHHHh-------CcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHH
Q 005966          391 HNGLARKAVELFRQMLVEVVEPNDATL-N---SLLPAYA-------ILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIY  459 (667)
Q Consensus       391 ~~~~~~~A~~~~~~m~~~g~~p~~~~~-~---~ll~~~~-------~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  459 (667)
                      ..+..++|++++++..+.  .|+..+. +   .++....       ..|.+++|...++...+.. +.+...+..+..++
T Consensus        41 ~~~~~~~al~~~~~~l~~--~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~  117 (334)
T d1dcea1          41 AGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  117 (334)
T ss_dssp             TTCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cccccHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHH
Confidence            334457888888888763  5665432 1   2223332       3455778888888888765 55666666666666


Q ss_pred             HhcC--CHHHHHHHHhhCCCCCC-CcchHH-HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          460 SKCG--SLESAHKIFSEIPIKDK-DIVVWS-VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       460 ~~~g--~~~~A~~~~~~~~~~~~-~~~~~~-~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      ...+  ++++|...+.++....| +...|. .....+...+++++|+..++++.+.++ -+...|..+..++...|++++
T Consensus       118 ~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p-~~~~a~~~l~~~~~~~~~~~~  196 (334)
T d1dcea1         118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPD  196 (334)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCC
T ss_pred             HHhccccHHHHHHHHHHHHhhCchhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHhcCHHH
Confidence            6655  47899999988776554 345554 344667778999999999999888653 356778888888889998888


Q ss_pred             HHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          536 GLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM--PLKPTHAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       536 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      |...+....+..   |.   .......+...+..+++...+.+.  ..+++...+..++..+...|+.++|...+.++.+
T Consensus       197 A~~~~~~~~~~~---~~---~~~~~~~~~~l~~~~~a~~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  270 (334)
T d1dcea1         197 SGPQGRLPENVL---LK---ELELVQNAFFTDPNDQSAWFYHRWLLGRAEPLFRCELSVEKSTVLQSELESCKELQELEP  270 (334)
T ss_dssp             SSSCCSSCHHHH---HH---HHHHHHHHHHHCSSCSHHHHHHHHHHSCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHhHHhH---HH---HHHHHHHHHHhcchhHHHHHHHHHHHhCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            877666555411   11   112333455667777777777665  2333444566677778888999999999999999


Q ss_pred             cCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          614 LEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       614 ~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .+|++..++..++.+|...|++++|+++++++.+..+
T Consensus       271 ~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP  307 (334)
T d1dcea1         271 ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDP  307 (334)
T ss_dssp             TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCG
T ss_pred             hCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCc
Confidence            9999999999999999999999999999999987653

>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=98.85  E-value=1.2e-08  Score=79.44  Aligned_cols=102  Identities=16%  Similarity=0.113  Sum_probs=56.9

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHH
Q 005966          525 HACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVE  602 (667)
Q Consensus       525 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~  602 (667)
                      ..+...|++++|+..|+++++  ..|.+...|..++.+|...|++++|+..++++ ...| ++..|..++.++...|+++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~~~   88 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNRFE   88 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHh--cCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccCHH
Confidence            345555666666666666655  22334445555555555666666666555554 2222 4555555555666666666


Q ss_pred             HHHHHHHHhhccCCCCCchHHHHHHH
Q 005966          603 LGEVAAKWLFELEPENPGNYVLLSKL  628 (667)
Q Consensus       603 ~A~~~~~~~~~~~p~~~~~~~~l~~~  628 (667)
                      +|+..++++++++|+++.++..+..+
T Consensus        89 ~A~~~~~~a~~~~p~~~~~~~~l~~l  114 (117)
T d1elwa_          89 EAKRTYEEGLKHEANNPQLKEGLQNM  114 (117)
T ss_dssp             HHHHHHHHHHTTCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            66666666666666655555555444

>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=98.83  E-value=6.1e-09  Score=90.89  Aligned_cols=122  Identities=11%  Similarity=-0.053  Sum_probs=89.6

Q ss_pred             CCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHH
Q 005966          515 PNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALL  592 (667)
Q Consensus       515 p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  592 (667)
                      |+...+......+.+.|++++|+..|+++++  ..|.+...|..++.+|.+.|++++|+..|+++ .+.| +..+|..++
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~--~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAIT--RNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            6666677777788888888888888888777  23456677778888888888888888888776 5566 466777888


Q ss_pred             HHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHH
Q 005966          593 GACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDA  638 (667)
Q Consensus       593 ~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A  638 (667)
                      .++...|++++|+..+++++++.|++...+...+..+...++...+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~~~~~~~~~~~~~l~~~~~~~~  125 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKEQRLNFGDDIPSALRIAKKKRW  125 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHhHH
Confidence            8888888888888888888888877666666666555554443333

>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=98.83  E-value=9.6e-09  Score=80.02  Aligned_cols=94  Identities=14%  Similarity=0.150  Sum_probs=85.3

Q ss_pred             HHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCC
Q 005966          557 TCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       557 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      ..-+..+.+.|++++|+..|++. ...| ++..|..+..++...|++++|+..++++++++|+++.+|..++.+|...|+
T Consensus         7 ~~~g~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           7 KEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            34567788999999999999998 4445 778899999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHhhhCCC
Q 005966          635 WKDAENVRDVMDEKGL  650 (667)
Q Consensus       635 ~~~A~~~~~~~~~~~~  650 (667)
                      +++|+..+++..+..+
T Consensus        87 ~~~A~~~~~~a~~~~p  102 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEA  102 (117)
T ss_dssp             HHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHHHhCC
Confidence            9999999999987653

>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=98.80  E-value=2.6e-08  Score=85.45  Aligned_cols=123  Identities=11%  Similarity=-0.042  Sum_probs=94.9

Q ss_pred             HHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC
Q 005966          489 IAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR  568 (667)
Q Consensus       489 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  568 (667)
                      ...+...|+++.|++.|.++    ..|+..+|..+..+|...|++++|++.|++.++.  .+.+...|..++.++.+.|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhcc
Confidence            45567888899998888764    3567778888888888999999999999988872  34456778888888889999


Q ss_pred             hHHHHHHHHhC-C-CCCC----------------HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCC
Q 005966          569 LDEAYDLIRTM-P-LKPT----------------HAVWGALLGACVIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       569 ~~~A~~~~~~~-~-~~p~----------------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      +++|++.|++. . .+++                ..++..+..++...|++++|.+.+++++++.|+
T Consensus        86 ~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          86 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            99998888775 1 1111                245667777888888899998888888888887

>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=98.77  E-value=7.4e-09  Score=79.89  Aligned_cols=90  Identities=13%  Similarity=-0.008  Sum_probs=81.5

Q ss_pred             HHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCC
Q 005966          557 TCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRR  634 (667)
Q Consensus       557 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~  634 (667)
                      ..++..+.+.|++++|+..+++. ...| ++.+|..++.++.+.|++++|+..++++++++|+++.++..++.+|...|+
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccccccchHHHHHHHHHCCC
Confidence            34677788999999999999987 4555 678899999999999999999999999999999999999999999999999


Q ss_pred             chHHHHHHHHhh
Q 005966          635 WKDAENVRDVMD  646 (667)
Q Consensus       635 ~~~A~~~~~~~~  646 (667)
                      +++|.+.+++..
T Consensus       100 ~~~A~~~l~~~l  111 (112)
T d1hxia_         100 ANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999999853

>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=98.76  E-value=3.4e-08  Score=82.01  Aligned_cols=118  Identities=8%  Similarity=-0.014  Sum_probs=97.9

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcC
Q 005966          522 SALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHG  599 (667)
Q Consensus       522 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  599 (667)
                      .....|.+.|++++|+..|+++++.  .+.+...|..++.+|...|++++|++.|+++ ...| +...|..++.++...|
T Consensus        15 ~~gn~~~~~~~y~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          15 TQANDYFKAKDYENAIKFYSQAIEL--NPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHhhhcccc--chhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHcC
Confidence            3455688999999999999999883  4456778999999999999999999999987 4455 6678999999999999


Q ss_pred             CHHHHHHHHHHhhccCCCCCchHHHHHHHHh--hcCCchHHHHH
Q 005966          600 NVELGEVAAKWLFELEPENPGNYVLLSKLYS--AVRRWKDAENV  641 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~--~~g~~~~A~~~  641 (667)
                      ++++|...+++++.+.|+++.++..+..+..  ..+.+++|...
T Consensus        93 ~~~eA~~~~~~a~~~~p~~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999999999888876643  44556666654

>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=98.74  E-value=2e-08  Score=87.51  Aligned_cols=97  Identities=9%  Similarity=-0.077  Sum_probs=67.4

Q ss_pred             CCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHH
Q 005966          480 KDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCI  559 (667)
Q Consensus       480 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l  559 (667)
                      |+...+......+.+.|++++|+..|++.++.. +-+...|..+..+|.+.|++++|+..|+++++  -.|-+...|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHH
Confidence            445555566677777777777777777777754 23555677777777777777777777777765  233345667777


Q ss_pred             HHHHhhcCChHHHHHHHHhC
Q 005966          560 VDLLGRAGRLDEAYDLIRTM  579 (667)
Q Consensus       560 ~~~~~~~g~~~~A~~~~~~~  579 (667)
                      +.+|.+.|++++|+..|+++
T Consensus        79 g~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH
Confidence            77777777777777777765

>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=98.67  E-value=3.9e-08  Score=81.64  Aligned_cols=94  Identities=13%  Similarity=0.054  Sum_probs=85.1

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcC
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVR  633 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g  633 (667)
                      +...+..|.+.|++++|+..|+++ ...| +...|..+..++...|++++|+..++++++++|+++.++..++.+|...|
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
Confidence            344567788999999999999998 4455 77789999999999999999999999999999999999999999999999


Q ss_pred             CchHHHHHHHHhhhCC
Q 005966          634 RWKDAENVRDVMDEKG  649 (667)
Q Consensus       634 ~~~~A~~~~~~~~~~~  649 (667)
                      ++++|...+++..+..
T Consensus        93 ~~~eA~~~~~~a~~~~  108 (159)
T d1a17a_          93 KFRAALRDYETVVKVK  108 (159)
T ss_dssp             CHHHHHHHHHHHHHHS
T ss_pred             CHHHHHHHHHHHHHcC
Confidence            9999999999998765

>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=5.2e-07  Score=77.06  Aligned_cols=148  Identities=11%  Similarity=0.010  Sum_probs=116.4

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDE  535 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~  535 (667)
                      ...+...|+++.|++.|.++..  |+..+|..+..++...|++++|++.|++.++.+ +-+...|..+..+|.+.|++++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i~~--~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ld-p~~~~a~~~~g~~~~~~g~~~~   88 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAVQD--PHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTEKYDL   88 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTSSS--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHhcCC--CCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHh-hhhhhhHHHHHHHHHhhccHHH
Confidence            4457788999999999998766  788889999999999999999999999999975 3356788889999999999999


Q ss_pred             HHHHHHHhHHhcCCCC--------------chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCC
Q 005966          536 GLDLFNFMLENHQTCS--------------RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPTHAVWGALLGACVIHGN  600 (667)
Q Consensus       536 A~~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~  600 (667)
                      |...|++.+....-.+              ...++..+..++.+.|++++|.+.++.. ...|+.           ..+.
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~-----------~~~~  157 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP-----------RHSK  157 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG-----------GGGH
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCc-----------chHH
Confidence            9999999876211111              1245667888999999999999999886 556653           3445


Q ss_pred             HHHHHHHHHHhhccCCC
Q 005966          601 VELGEVAAKWLFELEPE  617 (667)
Q Consensus       601 ~~~A~~~~~~~~~~~p~  617 (667)
                      .+.|+..+.+.....|.
T Consensus       158 ~~~Al~~~~~~~~~~~~  174 (192)
T d1hh8a_         158 IDKAMECVWKQKLYEPV  174 (192)
T ss_dssp             HHHHHHHHHTTCCCCCC
T ss_pred             HHHHHHHHHhhhhCCcc
Confidence            56777776666666654

>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=98.63  E-value=5.1e-08  Score=75.86  Aligned_cols=108  Identities=13%  Similarity=-0.058  Sum_probs=84.7

Q ss_pred             HHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCC---hHHHHHHHHhC-CCCCCH---HHHHHHHH
Q 005966          521 TSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGR---LDEAYDLIRTM-PLKPTH---AVWGALLG  593 (667)
Q Consensus       521 ~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~p~~---~~~~~l~~  593 (667)
                      ..+++.+...+++++|.+.|++.++  ..+.+..++..++.++.+.++   +++|+++++++ ...|++   .+|..++.
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~--~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            3566777788899999999999888  344567778888888887554   45689998886 444543   36788899


Q ss_pred             HHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          594 ACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       594 ~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      +|.+.|++++|++.++++++++|+++.+...+..+..
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~~~~A~~l~~~I~~  117 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQNNQAKELERLIDK  117 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcCCHHHHHHHHHHHH
Confidence            9999999999999999999999998887776665544

>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=98.63  E-value=1.7e-07  Score=78.43  Aligned_cols=84  Identities=13%  Similarity=0.048  Sum_probs=73.6

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      +|+.+..+|.+.|++++|+..+++. ...| ++..+..++.++...|++++|+..++++++++|+|+.+...+..+..+.
T Consensus        64 ~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  143 (170)
T d1p5qa1          64 SHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRI  143 (170)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            5677888999999999999999887 4555 7888999999999999999999999999999999999999999998776


Q ss_pred             CCchHH
Q 005966          633 RRWKDA  638 (667)
Q Consensus       633 g~~~~A  638 (667)
                      +...+.
T Consensus       144 ~~~~~~  149 (170)
T d1p5qa1         144 RRQLAR  149 (170)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            665544

>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=1.4e-07  Score=87.34  Aligned_cols=192  Identities=11%  Similarity=-0.023  Sum_probs=124.1

Q ss_pred             HHHHHhcCCHHHHHHHHhhCCCCC---CC----cchHHHHHHHHHHcCChHHHHHHHHHHHHcCC---CCC--HHHHHHH
Q 005966          456 IDIYSKCGSLESAHKIFSEIPIKD---KD----IVVWSVIIAGYGMHGHGETAVSLFKEMVQSGV---QPN--EVTFTSA  523 (667)
Q Consensus       456 ~~~~~~~g~~~~A~~~~~~~~~~~---~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~~l  523 (667)
                      ...|...|++++|.+.|.+..+..   .+    ..+|..+..+|.+.|++++|++.+++..+...   .+.  ..++..+
T Consensus        44 a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l  123 (290)
T d1qqea_          44 ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFEL  123 (290)
T ss_dssp             HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHH
Confidence            456667777777777776554321   11    35677788888888999998888887665211   111  2345666


Q ss_pred             HHHHh-ccCCHHHHHHHHHHhHHhc---CCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhCC-CCC-------CH-HHHH
Q 005966          524 LHACS-HGGLLDEGLDLFNFMLENH---QTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTMP-LKP-------TH-AVWG  589 (667)
Q Consensus       524 l~~~~-~~g~~~~A~~~~~~~~~~~---~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-------~~-~~~~  589 (667)
                      ...|. ..|++++|.+.++++.+..   +.++. ..++..++..+...|++++|++.++++. ..|       .. ..+.
T Consensus       124 ~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~~  203 (290)
T d1qqea_         124 GEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFL  203 (290)
T ss_dssp             HHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHHH
Confidence            66664 4699999999998876521   22121 3457778899999999999999998861 111       11 2334


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhccCCCCCch-----HHHHHHHHhh--cCCchHHHHHHHHhhh
Q 005966          590 ALLGACVIHGNVELGEVAAKWLFELEPENPGN-----YVLLSKLYSA--VRRWKDAENVRDVMDE  647 (667)
Q Consensus       590 ~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-----~~~l~~~~~~--~g~~~~A~~~~~~~~~  647 (667)
                      ..+..+...|+++.|...++++.+.+|..+..     +..++.++..  .+++++|+..|+++.+
T Consensus       204 ~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e~~~eai~~y~~~~~  268 (290)
T d1qqea_         204 KKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (290)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhh
Confidence            45556778899999999999999998864432     3445556554  3457888888876554

>d1qqea_ a.118.8.1 (A:) Vesicular transport protein sec17 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Vesicular transport protein sec17
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=98.53  E-value=6.3e-07  Score=82.69  Aligned_cols=173  Identities=12%  Similarity=0.038  Sum_probs=130.4

Q ss_pred             CHHHHHHHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHc----CCCCC-HHHHHHHHHHHhccCCHHHHHH
Q 005966          464 SLESAHKIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQS----GVQPN-EVTFTSALHACSHGGLLDEGLD  538 (667)
Q Consensus       464 ~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~g~~~~A~~  538 (667)
                      ++++|.++|.+             ....|...|++++|.+.|.+..+.    +-.++ ..+|..+..+|.+.|++++|..
T Consensus        32 ~~~~Aa~~y~~-------------aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~   98 (290)
T d1qqea_          32 KFEEAADLCVQ-------------AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVD   98 (290)
T ss_dssp             HHHHHHHHHHH-------------HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             cHHHHHHHHHH-------------HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHH
Confidence            45667666544             567889999999999999998763    11222 2478889999999999999999


Q ss_pred             HHHHhHHhcCCCCc----hhHHHHHHHHHhh-cCChHHHHHHHHhCC----CCCC----HHHHHHHHHHHHhcCCHHHHH
Q 005966          539 LFNFMLENHQTCSR----ADHYTCIVDLLGR-AGRLDEAYDLIRTMP----LKPT----HAVWGALLGACVIHGNVELGE  605 (667)
Q Consensus       539 ~~~~~~~~~~~~~~----~~~~~~l~~~~~~-~g~~~~A~~~~~~~~----~~p~----~~~~~~l~~~~~~~g~~~~A~  605 (667)
                      .+++..+......+    ...+..++..|.. .|++++|++.+++..    ...+    ..++..++..+...|++++|.
T Consensus        99 ~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~  178 (290)
T d1qqea_          99 SLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEAS  178 (290)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHH
Confidence            99987663221122    3456667777754 699999999998761    1112    235788888999999999999


Q ss_pred             HHHHHhhccCCCCCc-------hHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          606 VAAKWLFELEPENPG-------NYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       606 ~~~~~~~~~~p~~~~-------~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      ..++++....|.++.       .+...+.++...|+++.|...+++..+..
T Consensus       179 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~  229 (290)
T d1qqea_         179 DIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSED  229 (290)
T ss_dssp             HHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-
T ss_pred             HHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            999999998887653       34567777888999999999999987664

>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=98.42  E-value=7.3e-07  Score=74.42  Aligned_cols=113  Identities=10%  Similarity=-0.065  Sum_probs=81.2

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIH  598 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  598 (667)
                      .+......+.+.|++++|+..|.++++.....+....            ........+       ...++..+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~------------~~~~~~~~~-------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSN------------EEAQKAQAL-------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCS------------HHHHHHHHH-------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccch------------HHHhhhchh-------HHHHHHHHHHHHHhh
Confidence            3444555677777777777777777663222111100            000000000       123567788889999


Q ss_pred             CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          599 GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       599 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      |++++|+..++++++++|+++.++..+|.+|...|++++|+..|+++.+..+
T Consensus        76 ~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P  127 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYP  127 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCS
T ss_pred             hhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999988653

>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=98.42  E-value=2.3e-05  Score=70.82  Aligned_cols=148  Identities=13%  Similarity=-0.015  Sum_probs=100.4

Q ss_pred             cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHH----hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh----c
Q 005966          495 HGHGETAVSLFKEMVQSGVQPNEVTFTSALHAC----SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR----A  566 (667)
Q Consensus       495 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~----~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  566 (667)
                      .++.+.|...+++..+.|..+   ....+...+    ........+...+..... .   .+...+..|...|..    .
T Consensus        87 ~~~~~~a~~~~~~a~~~g~~~---a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~-~---~~~~~~~~L~~~~~~~~~~~  159 (265)
T d1ouva_          87 SQNTNKALQYYSKACDLKYAE---GCASLGGIYHDGKVVTRDFKKAVEYFTKACD-L---NDGDGCTILGSLYDAGRGTP  159 (265)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHH---HHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTSSSC
T ss_pred             chhhHHHHHHHhhhhhhhhhh---HHHhhcccccCCCcccchhHHHHHHhhhhhc-c---cccchhhhhhhhhccCCCcc
Confidence            345677777777777765321   112222222    234556677777776655 1   344556667777764    4


Q ss_pred             CChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh----cCCchHH
Q 005966          567 GRLDEAYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA----VRRWKDA  638 (667)
Q Consensus       567 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A  638 (667)
                      .+...+...++......+......+...+..    ..|.+.|+..|+++.+.+  ++.++..|+.+|..    ..++++|
T Consensus       160 ~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~LG~~y~~G~g~~~n~~~A  237 (265)
T d1ouva_         160 KDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE--NGGGCFNLGAMQYNGEGVTRNEKQA  237 (265)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHTTSSSSCCSTTH
T ss_pred             cccccchhhhhccccccccccccchhhhcccCcccccchhhhhhhHhhhhccc--CHHHHHHHHHHHHcCCCCccCHHHH
Confidence            5666777777766444577777777766665    568999999999998874  57789999999986    4489999


Q ss_pred             HHHHHHhhhCCCc
Q 005966          639 ENVRDVMDEKGLR  651 (667)
Q Consensus       639 ~~~~~~~~~~~~~  651 (667)
                      .++|++..+.|..
T Consensus       238 ~~~~~kAa~~g~~  250 (265)
T d1ouva_         238 IENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHTCH
T ss_pred             HHHHHHHHHCcCH
Confidence            9999999887753

>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=98.39  E-value=7.6e-07  Score=74.40  Aligned_cols=86  Identities=14%  Similarity=-0.003  Sum_probs=67.1

Q ss_pred             chhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHH
Q 005966          552 RADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLY  629 (667)
Q Consensus       552 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~  629 (667)
                      ....|..+..++.+.|++++|+..++++ ...| ++..|..++.++...|+++.|+..++++++++|+++.+...+..++
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n~~~~~~l~~~~  155 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPEDKAIQAELLKVK  155 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            3445677788888888888888888876 5555 6668888888888888888888888888888888888888887777


Q ss_pred             hhcCCchH
Q 005966          630 SAVRRWKD  637 (667)
Q Consensus       630 ~~~g~~~~  637 (667)
                      .+.....+
T Consensus       156 ~~l~~~~~  163 (169)
T d1ihga1         156 QKIKAQKD  163 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            65544443

>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=98.37  E-value=2.5e-06  Score=70.97  Aligned_cols=93  Identities=9%  Similarity=0.008  Sum_probs=76.2

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhc
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAV  632 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~  632 (667)
                      +|..+..+|.+.|++++|+..+++. ...| +...+..++.++...|++++|+..++++++++|+++.+...+..+....
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~~~  145 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQNKAARLQIFMCQKKA  145 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHH
Confidence            4666888899999999999999987 4444 7788999999999999999999999999999999999999998888776


Q ss_pred             CCch-HHHHHHHHhhh
Q 005966          633 RRWK-DAENVRDVMDE  647 (667)
Q Consensus       633 g~~~-~A~~~~~~~~~  647 (667)
                      +... ...+.+.+|-+
T Consensus       146 ~~~~e~~kk~~~~~f~  161 (168)
T d1kt1a1         146 KEHNERDRRTYANMFK  161 (168)
T ss_dssp             HHHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHh
Confidence            6554 34555555543

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.37  E-value=4.5e-07  Score=71.56  Aligned_cols=93  Identities=14%  Similarity=0.104  Sum_probs=75.2

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCch-------HHHHH
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGN-------YVLLS  626 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~-------~~~l~  626 (667)
                      +..++..+.+.|++++|++.|++. ...| +...+..+..+|...|+++.|+..++++++++|+++..       |..++
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg   86 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIG   86 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHH
Confidence            455777888888888888888877 3444 67788889999999999999999999999999887764       45566


Q ss_pred             HHHhhcCCchHHHHHHHHhhhC
Q 005966          627 KLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       627 ~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      .++...+++++|++.+++....
T Consensus        87 ~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          87 NSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHhCCHHHHHHHHHHHHhc
Confidence            7778888999999999887653

>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=98.35  E-value=1.3e-06  Score=71.40  Aligned_cols=76  Identities=12%  Similarity=-0.025  Sum_probs=49.2

Q ss_pred             HHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHh
Q 005966          555 HYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYS  630 (667)
Q Consensus       555 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~  630 (667)
                      +|..++.+|.+.|++++|++.++++ ...| +..+|..++.++...|++++|+..++++++++|+|+.+...+..+..
T Consensus        69 ~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~n~~~~~~l~~~~~  146 (153)
T d2fbna1          69 CNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVN  146 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHH
T ss_pred             HHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH
Confidence            4555666666777777777766665 3334 55666667777777777777777777777777776666665555443

>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=98.32  E-value=5.2e-07  Score=70.00  Aligned_cols=94  Identities=9%  Similarity=-0.032  Sum_probs=79.6

Q ss_pred             HHHHHHHhhcCChHHHHHHHHhC-CCC-CCHHHHHHHHHHHHhcC---CHHHHHHHHHHhhccCCCC--CchHHHHHHHH
Q 005966          557 TCIVDLLGRAGRLDEAYDLIRTM-PLK-PTHAVWGALLGACVIHG---NVELGEVAAKWLFELEPEN--PGNYVLLSKLY  629 (667)
Q Consensus       557 ~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~--~~~~~~l~~~~  629 (667)
                      ..+++.+...+++++|.+.|++. ... .++.++..++.++.+.+   ++++|+.+++++++.+|.+  +.+++.||.+|
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
Confidence            45777888999999999999997 444 47789999999988754   5567999999999988764  34889999999


Q ss_pred             hhcCCchHHHHHHHHhhhCCC
Q 005966          630 SAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       630 ~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .+.|++++|+++|+++.+..+
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P  103 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEP  103 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHhhhHHHHHHHHHHHHhCc
Confidence            999999999999999988653

>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=98.30  E-value=2.3e-06  Score=69.83  Aligned_cols=65  Identities=8%  Similarity=-0.117  Sum_probs=60.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .++..++.+|.+.|++++|+..++++++++|+++.+|+.+|.+|...|++++|+..|++..+..+
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P  132 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNP  132 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHST
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            46778888999999999999999999999999999999999999999999999999999887653

>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=98.25  E-value=5.3e-08  Score=97.60  Aligned_cols=108  Identities=10%  Similarity=-0.061  Sum_probs=41.6

Q ss_pred             HHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCc-hhHHHHHHHHHhhcCChHHHHHHHHhC-CCCC-CHHHHHHHHHHH
Q 005966          519 TFTSALHACSHGGLLDEGLDLFNFMLENHQTCSR-ADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKP-THAVWGALLGAC  595 (667)
Q Consensus       519 ~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  595 (667)
                      .+..+...+.+.|+.++|...+.....     ++ ...+..+++.+...|++++|...|++. ...| +...|+.++..+
T Consensus       122 ~~~~lg~~~~~~~~~~~A~~~~~~al~-----~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~~~~~~~~Lg~~~  196 (497)
T d1ya0a1         122 KSSQLGIISNKQTHTSAIVKPQSSSCS-----YICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPSNGQPYNQLAILA  196 (497)
T ss_dssp             ---------------------CCHHHH-----HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTBSHHHHHHHHHH
T ss_pred             HHHHhHHHHHhCCCHHHHHHHHHHHhC-----CCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCchHHHHHHHHHH
Confidence            344444444455555555554444433     11 123444455555555555555555554 2333 233455555555


Q ss_pred             HhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh
Q 005966          596 VIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA  631 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~  631 (667)
                      ...|+..+|...|.+++...|+.+.++..|+.++.+
T Consensus       197 ~~~~~~~~A~~~y~ral~~~~~~~~a~~nL~~~~~~  232 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVKFPFPAASTNLQKALSK  232 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSSBCCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHH
Confidence            555555555555555555555555555555544443

>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=98.24  E-value=1.6e-06  Score=72.36  Aligned_cols=111  Identities=8%  Similarity=0.019  Sum_probs=80.6

Q ss_pred             HHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCC-CHHHHHHHHHHHHhc
Q 005966          520 FTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKP-THAVWGALLGACVIH  598 (667)
Q Consensus       520 ~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~  598 (667)
                      +......+...|++++|+..|.++++..             ..........+      .....| ....+..+..++.+.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~~-------------~~~~~~~~~~~------~~~~~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRYV-------------EGSRAAAEDAD------GAKLQPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHH-------------HHHHHHSCHHH------HGGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhh-------------hhhhhhhhhHH------HHHhChhhHHHHHHHHHHHHhh
Confidence            4444555667777777777777665410             00000000000      011223 345677888899999


Q ss_pred             CCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCC
Q 005966          599 GNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKG  649 (667)
Q Consensus       599 g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~  649 (667)
                      |++++|+..++++++++|+++.+|..+|.+|...|++++|++.|+++.+..
T Consensus        91 ~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~  141 (169)
T d1ihga1          91 SDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA  141 (169)
T ss_dssp             TCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             cccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC
Confidence            999999999999999999999999999999999999999999999998865

>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=98.16  E-value=6.5e-06  Score=68.33  Aligned_cols=64  Identities=8%  Similarity=-0.044  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          587 VWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       587 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ++..+..++.+.|++++|+..++++++++|+++.++..++.+|...|++++|++.|+++.+..+
T Consensus        66 ~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P  129 (168)
T d1kt1a1          66 AFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP  129 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT
T ss_pred             HHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            5667788899999999999999999999999999999999999999999999999999987653

>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=98.12  E-value=1e-05  Score=61.60  Aligned_cols=89  Identities=9%  Similarity=-0.100  Sum_probs=54.2

Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA  566 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  566 (667)
                      .+...+.+.|++++|+..|++.++..+ -+..+|..+..++.+.|++++|+..++++++  ..|.+...+..++..|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEP-EREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccccc-ccchhhhhhhhhhhhhhhHHHhhcccccccc--cccccccchHHHHHHHHHC
Confidence            345556666666666666666666531 1345666666666666666666666666665  2333455566666666666


Q ss_pred             CChHHHHHHHHh
Q 005966          567 GRLDEAYDLIRT  578 (667)
Q Consensus       567 g~~~~A~~~~~~  578 (667)
                      |++++|++.+++
T Consensus        98 g~~~~A~~~l~~  109 (112)
T d1hxia_          98 HNANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHH
Confidence            666666666654

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=98.11  E-value=8.8e-07  Score=71.43  Aligned_cols=44  Identities=18%  Similarity=0.185  Sum_probs=33.3

Q ss_pred             CHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          600 NVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       600 ~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      +++.|.+.|+++++++|+++.++..|+...       +|.+.+.+..++|+
T Consensus       101 ~~~~A~~~~~kal~l~P~~~~~~~~L~~~~-------ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPDNTHYLKSLEMTA-------KAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHH-------THHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCCHHHHHHHHHHHH-------HHHHHHHHHHHHhc
Confidence            468899999999999999888877777664       45556665555553

>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=98.07  E-value=8.8e-06  Score=67.87  Aligned_cols=120  Identities=15%  Similarity=0.068  Sum_probs=85.2

Q ss_pred             HHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCCh-HHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 005966          522 SALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRL-DEAYDLIRTMPLKPTHAVWGALLGACVIHGN  600 (667)
Q Consensus       522 ~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~  600 (667)
                      .........|++++|.+.|...+....-++-..        + ..+.+ .....-++..    ....+..++.++...|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~--------~-~~~~w~~~~r~~l~~~----~~~a~~~la~~~~~~g~   82 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVLDD--------L-RDFQFVEPFATALVED----KVLAHTAKAEAEIACGR   82 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGG--------G-TTSTTHHHHHHHHHHH----HHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCccccccc--------C-cchHHHHHHHHHHHHH----HHHHHHHHHHHHHHCCC
Confidence            344567788999999999998887322111100        0 01111 1111111111    23467788889999999


Q ss_pred             HHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhh-----hCCCccCC
Q 005966          601 VELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMD-----EKGLRKAP  654 (667)
Q Consensus       601 ~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~~~~~~~  654 (667)
                      +++|+..++++++.+|.+...|..++.+|.+.|++++|++.|+++.     +.|+.+.+
T Consensus        83 ~~~Al~~~~~al~~~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          83 ASAVIAELEALTFEHPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HHHHHHHHHHHHHHSTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             chHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH
Confidence            9999999999999999999999999999999999999999999984     45776554

>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=97.97  E-value=2.8e-05  Score=60.86  Aligned_cols=91  Identities=7%  Similarity=-0.032  Sum_probs=44.0

Q ss_pred             HHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCC---CC-----HHHHHHHHHHH
Q 005966          525 HACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLK---PT-----HAVWGALLGAC  595 (667)
Q Consensus       525 ~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~---p~-----~~~~~~l~~~~  595 (667)
                      ..+...|++++|+..|.++++.  .|.+...+..+..+|.+.|++++|++.++++ ...   +.     ..++..+...+
T Consensus        12 ~~~~~~~~y~~Ai~~y~~al~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~lg~~~   89 (128)
T d1elra_          12 NDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARIGNSY   89 (128)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHH
Confidence            3444444444444444444441  2223334444444444444444444444443 100   00     12444555566


Q ss_pred             HhcCCHHHHHHHHHHhhccCCC
Q 005966          596 VIHGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       596 ~~~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ...+++++|+..+++++...|+
T Consensus        90 ~~~~~~~~A~~~~~kal~~~~~  111 (128)
T d1elra_          90 FKEEKYKDAIHFYNKSLAEHRT  111 (128)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHhCCHHHHHHHHHHHHhcCCC
Confidence            6667777777777777666554

>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=97.94  E-value=0.0024  Score=56.91  Aligned_cols=222  Identities=11%  Similarity=-0.055  Sum_probs=132.5

Q ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhC----cCCHHHHHHHHHHHHHhCCCCCchHHHHHHH
Q 005966          382 WNAILAGCVHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAI----LADLQQAMNIHCYLIRYGFLSVVEVSTGLID  457 (667)
Q Consensus       382 ~~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  457 (667)
                      +..+...+...+++++|++.|++..+.|   +...+..|-..|..    ..+...+...+....+.+.   +.....+..
T Consensus         5 ~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~~   78 (265)
T d1ouva_           5 LVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLGN   78 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhcccc
Confidence            4445555566677777777777766655   33333334444433    4566777777766665552   222233333


Q ss_pred             HHHh----cCCHHHHHHHHhhCCCCCCCcchHHHHHHHHHH----cCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhc
Q 005966          458 IYSK----CGSLESAHKIFSEIPIKDKDIVVWSVIIAGYGM----HGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSH  529 (667)
Q Consensus       458 ~~~~----~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  529 (667)
                      .+..    ..+.+.|...++.....++. .....+...+..    ......+...+......   .+...+..+...+..
T Consensus        79 ~~~~~~~~~~~~~~a~~~~~~a~~~g~~-~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~L~~~~~~  154 (265)
T d1ouva_          79 LYYSGQGVSQNTNKALQYYSKACDLKYA-EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL---NDGDGCTILGSLYDA  154 (265)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCH-HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHH
T ss_pred             ccccccccchhhHHHHHHHhhhhhhhhh-hHHHhhcccccCCCcccchhHHHHHHhhhhhcc---cccchhhhhhhhhcc
Confidence            3322    45666777777665554322 222222223222    34566677777776664   355566666666654


Q ss_pred             ----cCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh----cCChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----
Q 005966          530 ----GGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR----AGRLDEAYDLIRTMPLKPTHAVWGALLGACVI----  597 (667)
Q Consensus       530 ----~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----  597 (667)
                          ..+...+...++...+ .+   +......+...|..    ..++++|+..|++....-++..+..|...|..    
T Consensus       155 ~~~~~~~~~~~~~~~~~a~~-~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~  230 (265)
T d1ouva_         155 GRGTPKDLKKALASYDKACD-LK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNGEGV  230 (265)
T ss_dssp             TSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS
T ss_pred             CCCcccccccchhhhhcccc-cc---ccccccchhhhcccCcccccchhhhhhhHhhhhcccCHHHHHHHHHHHHcCCCC
Confidence                4567778888877766 22   44455556666665    56899999999887433466777777777764    


Q ss_pred             cCCHHHHHHHHHHhhccCCC
Q 005966          598 HGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       598 ~g~~~~A~~~~~~~~~~~p~  617 (667)
                      ..|.++|...|+++.+.++.
T Consensus       231 ~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         231 TRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             SCCSTTHHHHHHHHHHHTCH
T ss_pred             ccCHHHHHHHHHHHHHCcCH
Confidence            34888999999998877654

>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=97.93  E-value=1.7e-05  Score=64.83  Aligned_cols=63  Identities=10%  Similarity=-0.127  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCC-----------CchHHHHHHHHhhcCCchHHHHHHHHhhhC
Q 005966          586 AVWGALLGACVIHGNVELGEVAAKWLFELEPEN-----------PGNYVLLSKLYSAVRRWKDAENVRDVMDEK  648 (667)
Q Consensus       586 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~-----------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  648 (667)
                      ..|+.+..++...|++++|...+++++++.|..           ..++..++.+|...|++++|++.|++..+.
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l  129 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEM  129 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            456777778888888888888888887654321           225778899999999999999999997654

>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=97.90  E-value=2.7e-06  Score=68.46  Aligned_cols=98  Identities=9%  Similarity=0.002  Sum_probs=65.8

Q ss_pred             hccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 005966          528 SHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVA  607 (667)
Q Consensus       528 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~  607 (667)
                      .+.+.+++|...|+.+.+  ..|.++..+..++.+|...+++..+.+                      ..+.+++|+..
T Consensus         8 ~r~~~fe~A~~~~e~al~--~~P~~~~~~~~~g~~l~~~~~~~~~~e----------------------~~~~~~~Ai~~   63 (145)
T d1zu2a1           8 DRILLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISD----------------------AKQMIQEAITK   63 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHH----------------------HHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHh--hCCcchHHHHHHHHHHHHhhhhhhhhH----------------------HHHHHHHHHHH
Confidence            344455555555555555  223344445555555444433333222                      23456889999


Q ss_pred             HHHhhccCCCCCchHHHHHHHHhhcCC-----------chHHHHHHHHhhhCC
Q 005966          608 AKWLFELEPENPGNYVLLSKLYSAVRR-----------WKDAENVRDVMDEKG  649 (667)
Q Consensus       608 ~~~~~~~~p~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~~~~~~  649 (667)
                      ++++++++|+++.+|..+|.+|...|+           +++|.+.|++..+..
T Consensus        64 ~~kAl~l~P~~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~  116 (145)
T d1zu2a1          64 FEEALLIDPKKDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQ  116 (145)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHhcchhhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccC
Confidence            999999999999999999999988764           688999999887765

>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=97.88  E-value=2.1e-05  Score=57.56  Aligned_cols=74  Identities=15%  Similarity=0.030  Sum_probs=56.6

Q ss_pred             HHHHHHHHhhcCChHHHHHHHHhC----C----CCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          556 YTCIVDLLGRAGRLDEAYDLIRTM----P----LKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       556 ~~~l~~~~~~~g~~~~A~~~~~~~----~----~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      +..++..+.+.|++++|+..|++.    +    ..++ ..++..+..++.+.|++++|+..++++++++|+++.++..++
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~~a~~Nl~   87 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQRANGNLK   87 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCHHHHHHHH
Confidence            345666777777777777766655    1    1222 457888999999999999999999999999999998888876


Q ss_pred             HHH
Q 005966          627 KLY  629 (667)
Q Consensus       627 ~~~  629 (667)
                      ...
T Consensus        88 ~~~   90 (95)
T d1tjca_          88 YFE   90 (95)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            543

>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=97.78  E-value=9.8e-05  Score=61.32  Aligned_cols=128  Identities=9%  Similarity=-0.078  Sum_probs=93.2

Q ss_pred             hHHHHHHHHhhccCChhhHhHHHHHHHHhCCCchhhhhhHhhhcCChhhHHHhhcccCCCCcchHHHHHHHHHhCCCchH
Q 005966           14 HLVIKLVQQYAATKSIAGTKQLHAFIITSGPLFTHLRSSLVRAYGHVSNVRILFDEMSERSSFLYNTVMKMYAQNGASHD   93 (667)
Q Consensus        14 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~   93 (667)
                      .............|++++|.+.+.+++..-++...      ...+..+-+...-..+.......+..+...+.+.|++++
T Consensus        12 ~~~~~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l------~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~   85 (179)
T d2ff4a2          12 VAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVL------DDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASA   85 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTT------GGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCccccc------ccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchH
Confidence            44556667788899999999999999887544311      000010111111111112234578889999999999999


Q ss_pred             HHHHHHHhHHcCCCCCCcccHHHHHHHhccccchHHHHHHHHHHHH-----hCCCCchHHH
Q 005966           94 SLKMFLGMLRLGEYNPDNYTYPIVIKACTDLAWRKLGIALHGRVLI-----TGFDMDTFVG  149 (667)
Q Consensus        94 a~~~~~~~~~~~~~~~~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~  149 (667)
                      |+..++++++.  .+-+...|..++.++...|+..+|.+.|+++.+     .|+.|+..+-
T Consensus        86 Al~~~~~al~~--~P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~  144 (179)
T d2ff4a2          86 VIAELEALTFE--HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  144 (179)
T ss_dssp             HHHHHHHHHHH--STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHHh--CCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHH
Confidence            99999999987  577888999999999999999999999999754     6999987653

>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=97.74  E-value=3e-05  Score=69.10  Aligned_cols=129  Identities=11%  Similarity=-0.064  Sum_probs=89.2

Q ss_pred             HHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHH
Q 005966          493 GMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEA  572 (667)
Q Consensus       493 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  572 (667)
                      .+.|++++|+..+++.++.. +-|...+..+...++..|++++|...++...+.  .+-+...+..+...+...+..+++
T Consensus         7 L~~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           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            45688999999999988864 335678888888899999999999999988872  223344555555555555555554


Q ss_pred             HHHHHhC--CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHH
Q 005966          573 YDLIRTM--PLKPT-HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVL  624 (667)
Q Consensus       573 ~~~~~~~--~~~p~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  624 (667)
                      ..-....  ...|+ ...+......+...|+.++|...++++.+..|..+..+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~~~~~~  138 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKGFLAND  138 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCCEEETT
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCCccccc
Confidence            4333222  12332 2334444556778899999999999999999987776543

>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=97.73  E-value=0.016  Score=52.69  Aligned_cols=51  Identities=12%  Similarity=-0.072  Sum_probs=17.8

Q ss_pred             CChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHHHHHH
Q 005966          276 RDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKRGRSL  335 (667)
Q Consensus       276 ~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~a~~~  335 (667)
                      +|..--..+..-|.+.|.++.|..+|..+..         |..++..+.+.++++.+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~d---------~~rl~~~~v~l~~~~~avd~   62 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVSN---------FGRLASTLVHLGEYQAAVDG   62 (336)
T ss_dssp             C----------------CTTTHHHHHHHTTC---------HHHHHHHHHTTTCHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCCC---------HHHHHHHHHhhccHHHHHHH
Confidence            4444444455556666777777666665422         33444444444444444433

>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=97.71  E-value=0.017  Score=52.49  Aligned_cols=24  Identities=4%  Similarity=0.122  Sum_probs=6.8

Q ss_pred             HHHHHHHHHHcCChhHHHHHHHHH
Q 005966          180 WNTLISGYFKNAYAKEALVVFDWM  203 (667)
Q Consensus       180 ~~~li~~~~~~~~~~~A~~~~~~m  203 (667)
                      -..+..-|.+.|.++.|..+|..+
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~   40 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNV   40 (336)
T ss_dssp             ------------CTTTHHHHHHHT
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhC
Confidence            334445555556666666655543

>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=97.69  E-value=0.00016  Score=58.75  Aligned_cols=95  Identities=18%  Similarity=0.014  Sum_probs=61.3

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCc----------hhHHHHHHHHHhhcCChHHHHHHHHhC--------CCCCC----
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCSR----------ADHYTCIVDLLGRAGRLDEAYDLIRTM--------PLKPT----  584 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~----  584 (667)
                      +...|++++|+..|++.++.....|+          ...|+.+..+|...|++++|++.+++.        ...++    
T Consensus        19 ~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~   98 (156)
T d2hr2a1          19 QLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKL   98 (156)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccch
Confidence            44556666666666666543222221          235666777777777777777666654        12222    


Q ss_pred             -HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCch
Q 005966          585 -HAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGN  621 (667)
Q Consensus       585 -~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~  621 (667)
                       ...+..+..++...|++++|+..|++++++.|+....
T Consensus        99 ~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~~~~~  136 (156)
T d2hr2a1          99 WISAVYSRALALDGLGRGAEAMPEFKKVVEMIEERKGE  136 (156)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCCSC
T ss_pred             hHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHHhhch
Confidence             1246778888999999999999999999987765443

>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=97.59  E-value=5.5e-05  Score=55.27  Aligned_cols=66  Identities=11%  Similarity=-0.157  Sum_probs=56.7

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCC-------chHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          585 HAVWGALLGACVIHGNVELGEVAAKWLFELEPENP-------GNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       585 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      ......++..+.+.|+++.|+..+++++++.|.++       .++..|+.+|.+.|++++|++.++++.+..+
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P   77 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDP   77 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCc
Confidence            34456788899999999999999999998776543       4688899999999999999999999988754

>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=97.53  E-value=3.9e-05  Score=68.30  Aligned_cols=122  Identities=14%  Similarity=0.058  Sum_probs=90.1

Q ss_pred             HhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCHHHH
Q 005966          527 CSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDEAYDLIRTM-PLKPT-HAVWGALLGACVIHGNVELG  604 (667)
Q Consensus       527 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~A  604 (667)
                      ..+.|++++|+..+++.++  ..|.+...+..++..|+..|++++|...++.. ...|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            4567999999999999998  56667889999999999999999999999998 56664 44555555555555544444


Q ss_pred             HHHHHHhhc-cCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          605 EVAAKWLFE-LEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       605 ~~~~~~~~~-~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .....+... ..|++...+...+.++...|++++|.+.++++.+...
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p  130 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQ  130 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC
Confidence            333222222 2344445566678889999999999999999877653

>d1ya0a1 a.118.8.1 (A:1-497) SMG-7 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: SMG-7
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.50  E-value=4.5e-05  Score=75.76  Aligned_cols=203  Identities=7%  Similarity=-0.109  Sum_probs=89.9

Q ss_pred             hhHhHHHHHHHHhCCCc--hhhhh-hHhhhcCChhhHHHhhcccCCCCcc---hHHHHHHHHHhCCCchHHHHHHHHhHH
Q 005966           30 AGTKQLHAFIITSGPLF--THLRS-SLVRAYGHVSNVRILFDEMSERSSF---LYNTVMKMYAQNGASHDSLKMFLGMLR  103 (667)
Q Consensus        30 ~~a~~~~~~~~~~~~~~--~~~~~-~~~~~~g~~~~A~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~~~  103 (667)
                      -+|.+.+.++++..|+.  .+... .+|...|++++|   |+++...|+.   .++..- .+- +..+..+++.++...+
T Consensus         3 ~eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~e~-~Lw-~~~y~~~ie~~r~~~k   77 (497)
T d1ya0a1           3 LQSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKVEQ-DLW-NHAFKNQITTLQGQAK   77 (497)
T ss_dssp             HHHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTHHH-HHH-HHHTHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChhhHHHHhHHH-HHH-HHHHHHHHHHHHHhcc
Confidence            36788899999888877  33333 778877888776   4444322221   111111 111 1125667777777775


Q ss_pred             cCCCCCCcccHHHHHHHh--ccccchHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhcCCHHHHHHHhcccCCCC-hhhH
Q 005966          104 LGEYNPDNYTYPIVIKAC--TDLAWRKLGIALHGRVLITGFDMDTFVGNCLIAMYMNFGEVKAARKVFDAMWEHS-VVSW  180 (667)
Q Consensus       104 ~~~~~~~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~-~~~~  180 (667)
                      . ...++..-....+..+  ...+.++.+...+....+.. +++...+..+...+.+.|+.+.|...+.....++ ..++
T Consensus        78 ~-~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~  155 (497)
T d1ya0a1          78 N-RANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCL  155 (497)
T ss_dssp             C-SSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHHHHHHH
T ss_pred             c-ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHH
Confidence            5 2333333222222111  12344444544444433332 3445566667777777788887776665543322 2355


Q ss_pred             HHHHHHHHHcCChhHHHHHHHHHHHCCCCCCh-HHHHHHHHHcccCcchHHHHHHHHHHHhc
Q 005966          181 NTLISGYFKNAYAKEALVVFDWMLKSGVEPDC-ASVVSVLPACGYLKEIEMGRMIHELVAGG  241 (667)
Q Consensus       181 ~~li~~~~~~~~~~~A~~~~~~m~~~g~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  241 (667)
                      ..+...+...|++++|...|++..+  +.|+. ..|+.+...+...|+..+|...|...+..
T Consensus       156 ~~LG~l~~~~~~~~~A~~~y~~A~~--l~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~  215 (497)
T d1ya0a1         156 VHLGDIARYRNQTSQAESYYRHAAQ--LVPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAV  215 (497)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HCTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHH--HCCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            6667777777777777777777766  34442 34444444444444444444444444443

>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=96.62  E-value=0.0022  Score=47.83  Aligned_cols=72  Identities=13%  Similarity=-0.001  Sum_probs=38.8

Q ss_pred             CchhHHHHHHHHHhhcC---ChHHHHHHHHhC-CCCC-CH-HHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchH
Q 005966          551 SRADHYTCIVDLLGRAG---RLDEAYDLIRTM-PLKP-TH-AVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNY  622 (667)
Q Consensus       551 ~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p-~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~  622 (667)
                      |+..+-.....++.+..   +.++++.++++. ...| +. ..+..|.-+|.+.|++++|.+.++++++.+|+|..+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~n~qA~  110 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNNKQVG  110 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCCcHHHH
Confidence            34444444555555443   344566666554 2223 22 3555566666666666666666666666666654443

>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=96.35  E-value=0.015  Score=44.85  Aligned_cols=81  Identities=10%  Similarity=-0.049  Sum_probs=48.2

Q ss_pred             ChHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhh----cCCchHHH
Q 005966          568 RLDEAYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEPENPGNYVLLSKLYSA----VRRWKDAE  639 (667)
Q Consensus       568 ~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~----~g~~~~A~  639 (667)
                      +.++|++.+++....-++.....|...|..    ..|.++|.+.++++.+..  ++.+...|+.+|..    ..+.++|.
T Consensus        38 ~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g--~~~a~~~Lg~~y~~G~gv~~d~~~A~  115 (133)
T d1klxa_          38 NKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN--DQDGCLILGYKQYAGKGVVKNEKQAV  115 (133)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT--CHHHHHHHHHHHHHTSSSCCCHHHHH
T ss_pred             CHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC--cchHHHHHHHHHHcCCccCCCHHHHH
Confidence            444444444443222233333344433332    346777778887776653  45677778877776    45788888


Q ss_pred             HHHHHhhhCCC
Q 005966          640 NVRDVMDEKGL  650 (667)
Q Consensus       640 ~~~~~~~~~~~  650 (667)
                      +++++..+.|.
T Consensus       116 ~~~~~Aa~~G~  126 (133)
T d1klxa_         116 KTFEKACRLGS  126 (133)
T ss_dssp             HHHHHHHHTTC
T ss_pred             HHHHHHHHCCC
Confidence            88888777764

>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=95.93  E-value=0.18  Score=36.71  Aligned_cols=141  Identities=12%  Similarity=0.067  Sum_probs=95.7

Q ss_pred             HHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH
Q 005966          492 YGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       492 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  571 (667)
                      +.-.|..++..+++.+.....   +..-|+-++--....-+-+-..++++.+-+.+.              ...++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~ss---~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FD--------------ls~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFD--------------LDKCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSC--------------GGGCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHcccC---CccccceeeeecccccchHHHHHHHHHHhhhcC--------------chhhhcHHH
Confidence            456678888888888877642   333444444333444445555555555543221              124555555


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHHHHhhhCCCc
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVRDVMDEKGLR  651 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~  651 (667)
                      ....+-.+..  +...++..+.....+|.-+.-..+++.+++.+.-+|..+..++.+|.+.|...+|-+++.+.=++|++
T Consensus        75 vv~C~~~~n~--~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          75 VVECGVINNT--LNEHVNKALDILVIQGKRDKLEEIGREILKNNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             HHHHHHHTTC--CCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhcc--hHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            5555555532  33455666778889999999999999988876667889999999999999999999999999998875

>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=95.62  E-value=0.048  Score=40.38  Aligned_cols=69  Identities=10%  Similarity=-0.037  Sum_probs=57.3

Q ss_pred             CCCHHHHHHHHHHHHhcC---CHHHHHHHHHHhhccCCCCC-chHHHHHHHHhhcCCchHHHHHHHHhhhCCC
Q 005966          582 KPTHAVWGALLGACVIHG---NVELGEVAAKWLFELEPENP-GNYVLLSKLYSAVRRWKDAENVRDVMDEKGL  650 (667)
Q Consensus       582 ~p~~~~~~~l~~~~~~~g---~~~~A~~~~~~~~~~~p~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  650 (667)
                      .|...+-....++..++.   +.++|+.+++.+++.+|.+. .+++.|+.+|.+.|++++|+++++++.+..+
T Consensus        32 ~~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP  104 (124)
T d2pqrb1          32 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHER  104 (124)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT
T ss_pred             CCCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            466677778888887664   56789999999999888764 7889999999999999999999999987654

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.31  E-value=1.2  Score=42.01  Aligned_cols=114  Identities=11%  Similarity=0.019  Sum_probs=66.6

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHH----HHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhcCChHH
Q 005966          496 GHGETAVSLFKEMVQSGVQPNEVTFT----SALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRAGRLDE  571 (667)
Q Consensus       496 ~~~~~a~~~~~~m~~~~~~p~~~~~~----~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  571 (667)
                      .+.+.|..++......... +..-+.    .+.......+..+.+...+...... .  .+......++....+.+++..
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~-~--~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR-S--QSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT-C--CCHHHHHHHHHHHHHHTCHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccc-c--cchHHHHHHHHHHHHcCChHH
Confidence            4677777777776654322 222121    2222233456667777776666541 2  233333444455566778888


Q ss_pred             HHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHhhc
Q 005966          572 AYDLIRTMPLKP--THAVWGALLGACVIHGNVELGEVAAKWLFE  613 (667)
Q Consensus       572 A~~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~  613 (667)
                      +...++.+...|  ...-..-+..+....|+.+.|...+..+-.
T Consensus       304 ~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~  347 (450)
T d1qsaa1         304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (450)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc
Confidence            888888875333  233345566777778888888888887754

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.18  E-value=0.16  Score=38.65  Aligned_cols=113  Identities=9%  Similarity=-0.081  Sum_probs=76.3

Q ss_pred             CChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhh----cCChHH
Q 005966          496 GHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGR----AGRLDE  571 (667)
Q Consensus       496 ~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  571 (667)
                      .|+++|+++|++..+.|   +......|.  .....+.++|.+++++..+ .+   ++.....|...|..    ..+.++
T Consensus         7 kd~~~A~~~~~kaa~~g---~~~a~~~l~--~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~   77 (133)
T d1klxa_           7 KDLKKAIQYYVKACELN---EMFGCLSLV--SNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRK   77 (133)
T ss_dssp             HHHHHHHHHHHHHHHTT---CTTHHHHHH--TCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHHCC---Chhhhhhhc--cccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHH
Confidence            36778888888888876   222233332  3445678889998888877 33   33345556666654    457889


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHhhccCCC
Q 005966          572 AYDLIRTMPLKPTHAVWGALLGACVI----HGNVELGEVAAKWLFELEPE  617 (667)
Q Consensus       572 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~~p~  617 (667)
                      |+++|++.-..-++.....|...|..    ..|.++|.+.++++-+.+..
T Consensus        78 A~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          78 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            99999887434456666667666665    45899999999998876643

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=94.27  E-value=0.64  Score=33.81  Aligned_cols=136  Identities=10%  Similarity=0.048  Sum_probs=83.3

Q ss_pred             HhCCChHHHHHHHHHHHHCCCCCCHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHhcCCHHHHH
Q 005966          390 VHNGLARKAVELFRQMLVEVVEPNDATLNSLLPAYAILADLQQAMNIHCYLIRYGFLSVVEVSTGLIDIYSKCGSLESAH  469 (667)
Q Consensus       390 ~~~~~~~~A~~~~~~m~~~g~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  469 (667)
                      .-.|..++..+++.+....   .+..-|+.++--....-+-+...+.++.+-+.- .            ...++++....
T Consensus        13 ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~F-D------------ls~C~Nlk~vv   76 (161)
T d1wy6a1          13 LLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYF-D------------LDKCQNLKSVV   76 (161)
T ss_dssp             HHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGS-C------------GGGCSCTHHHH
T ss_pred             HHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhc-C------------chhhhcHHHHH
Confidence            3457777777777776643   233445555544444444444444444432211 1            23345555555


Q ss_pred             HHHhhCCCCCCCcchHHHHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHH
Q 005966          470 KIFSEIPIKDKDIVVWSVIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLE  545 (667)
Q Consensus       470 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~  545 (667)
                      ..+-.+-   .+...+...+..+...|+-++-.+++..+.+.+ +|++.....+..+|.+.|...++.+++.++-+
T Consensus        77 ~C~~~~n---~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe  148 (161)
T d1wy6a1          77 ECGVINN---TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACK  148 (161)
T ss_dssp             HHHHHTT---CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhc---chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHH
Confidence            5554433   244556667777788888888888888877654 77777888888888888888888888887766

>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=90.12  E-value=7.4  Score=36.26  Aligned_cols=355  Identities=9%  Similarity=-0.021  Sum_probs=184.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCCChhHHHHHHHHHHhCCChHHHHHHHHHHHhcCCCCChhhHHHHHHHhhcccchHH
Q 005966          252 ALVDMYVKCGSVNEARLVFDRMSERDVVTWTSMINGYALNGDVRNALGLFQLMQFEGVRPNSLTIGSLLSACSSLYYLKR  331 (667)
Q Consensus       252 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~t~~~ll~~~~~~~~~~~  331 (667)
                      ..+..+.+.++++.....+..-+ .+...-.....+....|+.+.|...+..+-..|. ..+..+.              
T Consensus        77 ~~l~~L~~~~~w~~~~~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~-~~p~~c~--------------  140 (450)
T d1qsaa1          77 RFVNELARREDWRGLLAFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGK-SQPNACD--------------  140 (450)
T ss_dssp             HHHHHHHHTTCHHHHHHHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSS-CCCTHHH--------------
T ss_pred             HHHHHHHhccCHHHHHHhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-CCchHHH--------------
Confidence            33455666777766555543321 2333344566677778888888877776655432 1112222              


Q ss_pred             HHHHHHHHHHhcCCCCchHHhHHHHHHHhcCCHHHHHHHHhccCCCCcccHHHHHHHHHhCCChHHHHHHHHHHHHCCCC
Q 005966          332 GRSLHAWTIKQNLECEVIVETALIDMYAKCNLVKLSFQVFARTSKKKTVPWNAILAGCVHNGLARKAVELFRQMLVEVVE  411 (667)
Q Consensus       332 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~m~~~g~~  411 (667)
                        .++....+.| ..+...+-.-+......|+...|..+...+...........+.....   ...+......     ..
T Consensus       141 --~l~~~~~~~~-~lt~~~~~~R~~~~l~~~~~~~a~~l~~~l~~~~~~~~~a~~~l~~~---p~~~~~~~~~-----~~  209 (450)
T d1qsaa1         141 --KLFSVWRASG-KQDPLAYLERIRLAMKAGNTGLVTVLAGQMPADYQTIASAIISLANN---PNTVLTFART-----TG  209 (450)
T ss_dssp             --HHHHHHHHTT-CSCHHHHHHHHHHHHHTTCHHHHHHHHHTCCGGGHHHHHHHHHHHHC---GGGHHHHHHH-----SC
T ss_pred             --HHHHHHHhcC-CCCHHHHHHHHHHHHHcCChhhHHHHHhhCChhHHHHHHHHHHHHhC---hHhHHHHHhc-----CC
Confidence              2233333332 22233333344455566777777777776654433333333333322   2222222111     12


Q ss_pred             CCHHHHHHHHHHHhC--cCCHHHHHHHHHHHHHhCCCCCchH---HHHHHHHHHhcCCHHHHHHHHhhCCCCCCCcchHH
Q 005966          412 PNDATLNSLLPAYAI--LADLQQAMNIHCYLIRYGFLSVVEV---STGLIDIYSKCGSLESAHKIFSEIPIKDKDIVVWS  486 (667)
Q Consensus       412 p~~~~~~~ll~~~~~--~~~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~  486 (667)
                      ++......+..++.+  ..+.+.+...+..............   ...+...+...+..+.+...+........+.....
T Consensus       210 ~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  289 (450)
T d1qsaa1         210 ATDFTRQMAAVAFASVARQDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIE  289 (450)
T ss_dssp             CCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHH
T ss_pred             CChhhhHHHHHHHHHHhccChhHHHHHHHhhhhcccccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHH
Confidence            233322233333322  3466777777776655432221111   11122233345566667666665544334444444


Q ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHHHHHhhc
Q 005966          487 VIIAGYGMHGHGETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIVDLLGRA  566 (667)
Q Consensus       487 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  566 (667)
                      -.+......+++..+...+..|.... .....-.-=+..++...|+.++|...|..+.. .   ++  .|..|...-  .
T Consensus       290 w~~~~al~~~~~~~~~~~~~~l~~~~-~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a~-~---~~--fYG~LAa~~--L  360 (450)
T d1qsaa1         290 RRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYWQADLLLERGREAEAKEILHQLMQ-Q---RG--FYPMVAAQR--I  360 (450)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHSCTTG-GGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-S---CS--HHHHHHHHH--T
T ss_pred             HHHHHHHHcCChHHHHHHHHhcCccc-ccHHHHHHHHHHHHHHcCChhhHHHHHHHHhc-C---CC--hHHHHHHHH--c
Confidence            44555567788888888887764321 11222333456778888999999998888764 1   33  354443222  2


Q ss_pred             CChHHHHHHHHhCCCCCCHH----HHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHHHHHhhcCCchHHHHHH
Q 005966          567 GRLDEAYDLIRTMPLKPTHA----VWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLSKLYSAVRRWKDAENVR  642 (667)
Q Consensus       567 g~~~~A~~~~~~~~~~p~~~----~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~  642 (667)
                      |..-. .. .......++..    .-...+..+...|....|...+..+.+..  ++.-...++.+..+.|.++.|+...
T Consensus       361 g~~~~-~~-~~~~~~~~~~~~~~~~~~~ra~~L~~~g~~~~A~~e~~~l~~~~--~~~~~~~la~lA~~~g~~~~aI~a~  436 (450)
T d1qsaa1         361 GEEYE-LK-IDKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKSK--SKTEQAQLARYAFNNQWWDLSVQAT  436 (450)
T ss_dssp             TCCCC-CC-CCCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--CHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCCCC-CC-cCCCCccHHHhhhcChHHHHHHHHHHcCCchHHHHHHHHHHhCC--CHHHHHHHHHHHHHCCChhHHHHHH
Confidence            21100 00 00001111111    01123445668899999999888877543  3557778889999999999999887


Q ss_pred             HHhh
Q 005966          643 DVMD  646 (667)
Q Consensus       643 ~~~~  646 (667)
                      .+..
T Consensus       437 ~~~~  440 (450)
T d1qsaa1         437 IAGK  440 (450)
T ss_dssp             HHTT
T ss_pred             HHHH
Confidence            7764

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=87.25  E-value=1.6  Score=29.99  Aligned_cols=51  Identities=14%  Similarity=0.094  Sum_probs=39.6

Q ss_pred             HHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHhhccCCCCCchHHHHH
Q 005966          576 IRTMPLKPTHAVWGALLGACVIHGNVELGEVAAKWLFELEPENPGNYVLLS  626 (667)
Q Consensus       576 ~~~~~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~  626 (667)
                      +-.+-.-|++.+..+.+++|++-+|+..|.++++-+......+...|..+.
T Consensus        32 l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~~k~~y~yil   82 (105)
T d1v54e_          32 LVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKEIYPYVI   82 (105)
T ss_dssp             HTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            333457899999999999999999999999999988765544455555443

>d1v54e_ a.118.11.1 (E:) Cytochrome c oxidase subunit E {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Cytochrome c oxidase subunit E
family: Cytochrome c oxidase subunit E
domain: Cytochrome c oxidase subunit E
species: Cow (Bos taurus) [TaxId: 9913]

Probab=85.70  E-value=1.9  Score=29.65  Aligned_cols=61  Identities=11%  Similarity=0.226  Sum_probs=42.0

Q ss_pred             hHHHHHHHHHHHHcCCCCCHHHHHHHHHHHhccCCHHHHHHHHHHhHHhcCCCCchhHHHHHH
Q 005966          498 GETAVSLFKEMVQSGVQPNEVTFTSALHACSHGGLLDEGLDLFNFMLENHQTCSRADHYTCIV  560 (667)
Q Consensus       498 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  560 (667)
                      .-++.+-+..+....+.|++......+.+|.+.+++.-|.++++.++.+.+.  +...|..++
T Consensus        22 ~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~--~k~~y~yil   82 (105)
T d1v54e_          22 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--cHHHHHHHH
Confidence            3345556666666677888888888888888888888888888887764433  344555544