Citrus Sinensis ID: 022531

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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-----
Protein Sequence
MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
Secondary Structure (PSIPRED)
ccccccccccHHHHHHHHHHHHHHccHHHHHHHHHHcccccccHHcHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHcHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
cHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
mvthkefvlsdsdyaTRIDLMTKVFGihsgeryfeglplsaktsETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKrknvvpdifTYNLWISSCAATLNIDQVKKFLDemscdsggsddwvKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGafsdvgltEKANEFHMLLLQkncaptnasg
Flexible Loop (DISEMBL)
mvthkefvlsdsdyatRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLqkncaptnasg
Low Complexity Region (SEG)
MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
Disordered region (IsUnstruct)
******FVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN********
Disordered Region (DISOPRED)
****KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT****
Disordered Region (DISEMBL)
MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
Disordered Region (DISPRO)
****KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP*****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
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	295	2.2.26 [Sep-21-2011]
Q94B59	409	Pentatricopeptide repeat-	yes	no	0.989	0.713	0.621	1e-108
O22714	491	Pentatricopeptide repeat-	no	no	0.901	0.541	0.384	2e-48
Q9SY07	532	Pentatricopeptide repeat-	no	no	0.972	0.539	0.302	2e-38
Q3E911	491	Pentatricopeptide repeat-	no	no	0.969	0.582	0.320	5e-38
Q8LPS6	524	Pentatricopeptide repeat-	no	no	0.976	0.549	0.293	5e-35
Q9SKU6	490	Pentatricopeptide repeat-	no	no	0.959	0.577	0.306	2e-34
Q9FZ24	537	Pentatricopeptide repeat-	no	no	0.962	0.528	0.296	7e-34
Q93WC5	502	Pentatricopeptide repeat-	no	no	0.918	0.539	0.311	5e-33
Q84JR3	492	Pentatricopeptide repeat-	no	no	0.966	0.579	0.292	4e-31
Q9C7F1	566	Putative pentatricopeptid	no	no	0.901	0.469	0.286	5e-23

>sp|Q94B59|PP372_ARATH Pentatricopeptide repeat-containing protein At5g09450, mitochondrial OS=Arabidopsis thaliana GN=At5g09450 PE=2 SV=1

 Score =  390 bits (1001), Expect = e-108,   Method: Compositional matrix adjust.
 Identities = 182/293 (62%), Positives = 237/293 (80%), Gaps = 1/293 (0%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV H+E  +SD+DYA+RIDL++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K T
Sbjct: 113 MVQHEESKISDADYASRIDLISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQT 172

Query: 61  EKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL 119
           E+AE LF+R+ +S+ L+F A+ YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNL
Sbjct: 173 ERAEALFKRIIESDSLTFGAITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNL 232

Query: 120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK 179
           W+SSCAAT NID+++K L+EM  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEK
Sbjct: 233 WLSSCAATFNIDELRKILEEMRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEK 292

Query: 180 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE 239
           SI+QR+WITYDFL+IL+ GLGNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E
Sbjct: 293 SISQREWITYDFLMILHTGLGNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLRE 352

Query: 240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 292
             EII QWK+S T++FD SAC R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 353 AEEIIHQWKESKTTEFDASACLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 405

Arabidopsis thaliana (taxid: 3702)

>sp|O22714|PPR86_ARATH Pentatricopeptide repeat-containing protein At1g60770 OS=Arabidopsis thaliana GN=At1g60770 PE=2 SV=1

 Score =  192 bits (488), Expect = 2e-48,   Method: Compositional matrix adjust.
 Identities = 103/268 (38%), Positives = 161/268 (60%), Gaps = 2/268 (0%)

Query: 12  SDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVK 71
           SD A  +DL+ K   I +GE YF  LP ++KT  TY +LL+ Y     TEKAE L  ++K
Sbjct: 91  SDQAIHLDLVAKAREITAGENYFVDLPETSKTELTYGSLLNCYCKELLTEKAEGLLNKMK 150

Query: 72  QSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID 131
           + N++ +++ YN +MTLY   G+ EKV  +++E+K +NV+PD +TYN+W+ + AAT +I 
Sbjct: 151 ELNITPSSMSYNSLMTLYTKTGETEKVPAMIQELKAENVMPDSYTYNVWMRALAATNDIS 210

Query: 132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDF 191
            V++ ++EM+ D   + DW  Y N+ +IY+ A     AE + L E E   TQR +  Y F
Sbjct: 211 GVERVIEEMNRDGRVAPDWTTYSNMASIYVDAGLSQKAEKA-LQELEMKNTQRDFTAYQF 269

Query: 192 LIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA 251
           LI LY  LG   ++ +IW+SLR+   K ++  Y+ ++   + L  L     +  +W Q+ 
Sbjct: 270 LITLYGRLGKLTEVYRIWRSLRLAIPKTSNVAYLNMIQVLVKLNDLPGAETLFKEW-QAN 328

Query: 252 TSDFDISACNRLLGAFSDVGLTEKANEF 279
            S +DI   N L+GA++  GL +KANE 
Sbjct: 329 CSTYDIRIVNVLIGAYAQEGLIQKANEL 356

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SY07|PP302_ARATH Pentatricopeptide repeat-containing protein At4g02820, mitochondrial OS=Arabidopsis thaliana GN=At4g02820 PE=2 SV=1

 Score =  159 bits (402), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 88/291 (30%), Positives = 166/291 (57%), Gaps = 4/291 (1%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV  ++  L   DYA  +DL++K+ G++S E++FE +P   +     T+LLH Y   K +
Sbjct: 119 MVVQEDIKLQAGDYAVHLDLISKIRGLNSAEKFFEDMPDQMRGHAACTSLLHSYVQNKLS 178

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
           +KAE LFE++ +     + L YN M+++Y+S GQ EKV ++++E+K +   PDI TYNLW
Sbjct: 179 DKAEALFEKMGECGFLKSCLPYNHMLSMYISRGQFEKVPVLIKELKIR-TSPDIVTYNLW 237

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
           +++ A+  +++  +K   + + +   + DWV Y  L N+Y    ++  A  + L E EK 
Sbjct: 238 LTAFASGNDVEGAEKVYLK-AKEEKLNPDWVTYSVLTNLYAKTDNVEKARLA-LKEMEKL 295

Query: 181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV 240
           ++++  + Y  LI L+A LG+KD ++  WK ++ + +KM    Y+ ++S+ + LG  ++ 
Sbjct: 296 VSKKNRVAYASLISLHANLGDKDGVNLTWKKVKSSFKKMNDAEYLSMISAVVKLGEFEQA 355

Query: 241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT 291
             + D+W +S +   D    N +L  + +        +F+  +++K   P+
Sbjct: 356 KGLYDEW-ESVSGTGDARIPNLILAEYMNRDEVLLGEKFYERIVEKGINPS 405

Arabidopsis thaliana (taxid: 3702)

>sp|Q3E911|PP400_ARATH Pentatricopeptide repeat-containing protein At5g27460 OS=Arabidopsis thaliana GN=At5g27460 PE=2 SV=1

 Score =  158 bits (399), Expect = 5e-38,   Method: Compositional matrix adjust.
 Identities = 95/296 (32%), Positives = 151/296 (51%), Gaps = 10/296 (3%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGL---PLSAKTSET-YTALLHLYAG 56
           M   K+   S  D A R+DL+ K  G+  GE YFE L    +S + +++ Y  LL  Y  
Sbjct: 96  MENQKDIEFSVYDIALRLDLIIKTHGLKQGEEYFEKLLHSSVSMRVAKSAYLPLLRAYVK 155

Query: 57  AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT 116
            K  ++AE L E++           +NEMM LY + GQ EKV +VV  +K   +  ++ +
Sbjct: 156 NKMVKEAEALMEKLNGLGFLVTPHPFNEMMKLYEASGQYEKVVMVVSMMKGNKIPRNVLS 215

Query: 117 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV- 175
           YNLW+++C     +  V+    EM  D      W     L N+YI +      E + LV 
Sbjct: 216 YNLWMNACCEVSGVAAVETVYKEMVGDKSVEVGWSSLCTLANVYIKSGF---DEKARLVL 272

Query: 176 -EAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML 234
            +AEK + +   + Y FLI LYA LGNK+ + ++W+  +    +++  NYIC+LSS +  
Sbjct: 273 EDAEKMLNRSNRLGYFFLITLYASLGNKEGVVRLWEVSKSVCGRISCVNYICVLSSLVKT 332

Query: 235 GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP 290
           G L+E   +  +W ++   ++D+   N LLGA+   G   KA   H  +L++   P
Sbjct: 333 GDLEEAERVFSEW-EAQCFNYDVRVSNVLLGAYVRNGEIRKAESLHGCVLERGGTP 387

Arabidopsis thaliana (taxid: 3702)

>sp|Q8LPS6|PPR3_ARATH Pentatricopeptide repeat-containing protein At1g02150 OS=Arabidopsis thaliana GN=At1g02150 PE=2 SV=2

 Score =  148 bits (373), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 85/290 (29%), Positives = 154/290 (53%), Gaps = 2/290 (0%)

Query: 5   KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAE 64
           + F LS SD A ++DL+ KV GI   E +F  LP + K    Y +LL+ Y  AK  EKAE
Sbjct: 130 ERFRLSASDAAIQLDLIGKVRGIPDAEEFFLQLPENFKDRRVYGSLLNAYVRAKSREKAE 189

Query: 65  ELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC 124
            L   ++    + + L +N MMTLYM++ + +KV  +V E+K+K++  DI++YN+W+SSC
Sbjct: 190 ALLNTMRDKGYALHPLPFNVMMTLYMNLREYDKVDAMVFEMKQKDIRLDIYSYNIWLSSC 249

Query: 125 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR 184
            +  ++++++    +M  D     +W  +  +  +YI       AE + L + E  IT R
Sbjct: 250 GSLGSVEKMELVYQQMKSDVSIYPNWTTFSTMATMYIKMGETEKAEDA-LRKVEARITGR 308

Query: 185 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII 244
             I Y +L+ LY  LGNK ++ ++W   +     + +  Y  ++SS + +G ++   ++ 
Sbjct: 309 NRIPYHYLLSLYGSLGNKKELYRVWHVYKSVVPSIPNLGYHALVSSLVRMGDIEGAEKVY 368

Query: 245 DQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 294
           ++W     S +D    N L+ A+      E A      +++    P++++
Sbjct: 369 EEW-LPVKSSYDPRIPNLLMNAYVKNDQLETAEGLFDHMVEMGGKPSSST 417

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SKU6|PP166_ARATH Pentatricopeptide repeat-containing protein At2g20710, mitochondrial OS=Arabidopsis thaliana GN=At2g20710 PE=2 SV=1

 Score =  146 bits (368), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 88/287 (30%), Positives = 154/287 (53%), Gaps = 4/287 (1%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           M  H+   +S+ D A R+DL+ KV G+   E++FE +P+  +    Y ALL+ YA  K  
Sbjct: 96  MSEHRVHEISEGDVAIRLDLIAKVGGLGEAEKFFETIPMERRNYHLYGALLNCYASKKVL 155

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
            KAE++F+ +K+       L YN M+ LY+  G+   V  ++ E++ + V PDIFT N  
Sbjct: 156 HKAEQVFQEMKELGFLKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTR 215

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
           + + +   +++ ++KFL     D G   DW  Y +  N YI A  L       L ++E+ 
Sbjct: 216 LHAYSVVSDVEGMEKFLMRCEADQGLHLDWRTYADTANGYIKAG-LTEKALEMLRKSEQM 274

Query: 181 I-TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE 239
           +  Q++   Y+ L+  Y   G K+++ ++W SL        +  YI ++S+ L +  ++E
Sbjct: 275 VNAQKRKHAYEVLMSFYGAAGKKEEVYRLW-SLYKELDGFYNTGYISVISALLKMDDIEE 333

Query: 240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK 286
           V +I+++W ++  S FDI   + L+  +   G+ EKA E   +L+QK
Sbjct: 334 VEKIMEEW-EAGHSLFDIRIPHLLITGYCKKGMMEKAEEVVNILVQK 379

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FZ24|PPR4_ARATH Pentatricopeptide repeat-containing protein At1g02370, mitochondrial OS=Arabidopsis thaliana GN=At1g02370 PE=2 SV=1

 Score =  144 bits (363), Expect = 7e-34,   Method: Compositional matrix adjust.
 Identities = 85/287 (29%), Positives = 155/287 (54%), Gaps = 3/287 (1%)

Query: 5   KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSE-TYTALLHLYAGAKWTEKA 63
           ++   S SD+A  +DL+ K  G+ + E YF  L  SAK  + TY AL++ Y      EKA
Sbjct: 132 RKMTFSVSDHAICLDLIGKTKGLEAAENYFNNLDPSAKNHQSTYGALMNCYCVELEEEKA 191

Query: 64  EELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS 123
           +  FE + + N   N+L +N MM++YM + Q EKV ++V+ +K++ + P   TY++W+ S
Sbjct: 192 KAHFEIMDELNFVNNSLPFNNMMSMYMRLSQPEKVPVLVDAMKQRGISPCGVTYSIWMQS 251

Query: 124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ 183
           C +  ++D ++K +DEM  DS     W  + NL  IY T + L     S L   E+ +  
Sbjct: 252 CGSLNDLDGLEKIIDEMGKDSEAKTTWNTFSNLAAIY-TKAGLYEKADSALKSMEEKMNP 310

Query: 184 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI 243
               ++ FL+ LYAG+    ++ ++W+SL+  + ++ + +Y+ +L +   LG L  + +I
Sbjct: 311 NNRDSHHFLMSLYAGISKGPEVYRVWESLKKARPEVNNLSYLVMLQAMSKLGDLDGIKKI 370

Query: 244 IDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP 290
             +W +S    +D+   N  +  +    + E+A +     ++K+  P
Sbjct: 371 FTEW-ESKCWAYDMRLANIAINTYLKGNMYEEAEKILDGAMKKSKGP 416

Arabidopsis thaliana (taxid: 3702)

>sp|Q93WC5|PP300_ARATH Pentatricopeptide repeat-containing protein At4g01990, mitochondrial OS=Arabidopsis thaliana GN=At4g01990 PE=2 SV=1

 Score =  141 bits (356), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 85/273 (31%), Positives = 140/273 (51%), Gaps = 2/273 (0%)

Query: 4   HKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKA 63
            KE   + SD+A R++L+ K  G+ + E YF  L  S K   TY +LL+ Y   K   KA
Sbjct: 100 RKEIAFTGSDHAIRLNLIAKSKGLEAAETYFNSLDDSIKNQSTYGSLLNCYCVEKEEVKA 159

Query: 64  EELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS 123
           +  FE +   N   N+L +N +M +YM +GQ EKV  +V  +K K++ P   TY++WI S
Sbjct: 160 KAHFENMVDLNHVSNSLPFNNLMAMYMGLGQPEKVPALVVAMKEKSITPCDITYSMWIQS 219

Query: 124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ 183
           C +  ++D V+K LDEM  +  G   W  + NL  IYI       AE + L   E ++  
Sbjct: 220 CGSLKDLDGVEKVLDEMKAEGEGIFSWNTFANLAAIYIKVGLYGKAEEA-LKSLENNMNP 278

Query: 184 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI 243
                Y FLI LY G+ N  ++ ++W  L+     + + +Y+ +L +   L  +  V ++
Sbjct: 279 DVRDCYHFLINLYTGIANASEVYRVWDLLKKRYPNVNNSSYLTMLRALSKLDDIDGVKKV 338

Query: 244 IDQWKQSATSDFDISACNRLLGAFSDVGLTEKA 276
             +W +S    +D+   N  + ++    + E+A
Sbjct: 339 FAEW-ESTCWTYDMRMANVAISSYLKQNMYEEA 370

Arabidopsis thaliana (taxid: 3702)

>sp|Q84JR3|PP334_ARATH Pentatricopeptide repeat-containing protein At4g21705, mitochondrial OS=Arabidopsis thaliana GN=At4g21705 PE=2 SV=1

 Score =  135 bits (340), Expect = 4e-31,   Method: Compositional matrix adjust.
 Identities = 84/287 (29%), Positives = 148/287 (51%), Gaps = 2/287 (0%)

Query: 8   VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELF 67
           V S +++A  +DL+ +V+G  + E YFE L    K  +TY ALL+ Y   +  EK+   F
Sbjct: 90  VFSPTEHAVHLDLIGRVYGFVTAEEYFENLKEQYKNDKTYGALLNCYVRQQNVEKSLLHF 149

Query: 68  ERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT 127
           E++K+     ++L YN +M LY ++GQ EKV  V+EE+K +NV PD ++Y + I++  A 
Sbjct: 150 EKMKEMGFVTSSLTYNNIMCLYTNIGQHEKVPKVLEEMKEENVAPDNYSYRICINAFGAM 209

Query: 128 LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI 187
            +++++   L +M      + DW  Y      YI       A    L  +E  + ++   
Sbjct: 210 YDLERIGGTLRDMERRQDITMDWNTYAVAAKFYIDGGDCDRA-VELLKMSENRLEKKDGE 268

Query: 188 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQW 247
            Y+ LI LYA LG K ++ ++W   +   ++  +++Y+ +L S + +  L E  E++ +W
Sbjct: 269 GYNHLITLYARLGKKIEVLRLWDLEKDVCKRRINQDYLTVLQSLVKIDALVEAEEVLTEW 328

Query: 248 KQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 294
           K S    +D    N ++  +    + EKA      L ++  A T  S
Sbjct: 329 KSSGNC-YDFRVPNTVIRGYIGKSMEEKAEAMLEDLARRGKATTPES 374

Arabidopsis thaliana (taxid: 3702)

>sp|Q9C7F1|PPR61_ARATH Putative pentatricopeptide repeat-containing protein At1g28020 OS=Arabidopsis thaliana GN=At1g28020 PE=3 SV=2

 Score =  108 bits (270), Expect = 5e-23,   Method: Compositional matrix adjust.
 Identities = 79/276 (28%), Positives = 140/276 (50%), Gaps = 10/276 (3%)

Query: 9   LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTE-KAEELF 67
           L   D+A R+ L+  V G+   E++FE +P +A+    YT+LL+ YA +  T  KAE  F
Sbjct: 102 LIPEDFAARLHLIENVVGLEEAEKFFESIPKNARGDSVYTSLLNSYARSDKTLCKAEATF 161

Query: 68  ERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT 127
           ++++   L    + YN MM+LY ++   EKV  ++ E+K  +V  D  T N  +   +A 
Sbjct: 162 QKMRDLGLLLRPVPYNAMMSLYSALKNREKVEELLLEMKDNDVEADNVTVNNVLKLYSAV 221

Query: 128 LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI 187
            ++ +++KFL++     G   +W   +++   Y+ A     A    L   E+ + Q+   
Sbjct: 222 CDVTEMEKFLNKWEGIHGIKLEWHTTLDMAKAYLRARSSGKA-MKMLRLTEQLVDQKSLK 280

Query: 188 T-YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN---YICILSSYLMLGHLKEVGEI 243
           + YD L+ LY   GN++++ ++WK   + K K+  R+   Y  ++ S L +  +    EI
Sbjct: 281 SAYDHLMKLYGEAGNREEVLRVWK---LYKSKIGERDNNGYRTVIRSLLKVDDIVGAEEI 337

Query: 244 IDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEF 279
              W +S   +FD      L   + D G+TEKA + 
Sbjct: 338 YKVW-ESLPLEFDHRIPTMLASGYRDRGMTEKAEKL 372

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	295
255563224	426	pentatricopeptide repeat-containing prot	0.989	0.685	0.756	1e-133
224141193	355	predicted protein [Populus trichocarpa]	0.976	0.811	0.762	1e-131
356525847	395	PREDICTED: pentatricopeptide repeat-cont	0.979	0.731	0.712	1e-122
359484901	396	PREDICTED: pentatricopeptide repeat-cont	0.996	0.742	0.700	1e-121
356554749	399	PREDICTED: pentatricopeptide repeat-cont	0.979	0.724	0.705	1e-121
449438238	406	PREDICTED: pentatricopeptide repeat-cont	0.993	0.721	0.651	1e-114
297806979	410	hypothetical protein ARALYDRAFT_487758 [	0.989	0.712	0.627	1e-107
18415979	409	pentatricopeptide repeat-containing prot	0.989	0.713	0.621	1e-106
21592522	409	unknown [Arabidopsis thaliana]	0.989	0.713	0.621	1e-106
9955532	402	putative protein [Arabidopsis thaliana]	0.979	0.718	0.620	1e-105

>gi|255563224|ref|XP_002522615.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223538091|gb|EEF39702.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  479 bits (1232), Expect = e-133,   Method: Compositional matrix adjust.
 Identities = 221/292 (75%), Positives = 257/292 (88%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MVT+KEF L D DYATRIDLMTKVFGI + ERYFEGLP++ KTSETYTALLH YAG K  
Sbjct: 132 MVTNKEFELMDFDYATRIDLMTKVFGIDAAERYFEGLPITVKTSETYTALLHSYAGVKQL 191

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
            KAEEL+ER+K SNLSF AL YNEMMTLYMSVGQVEKV+LVVEE+KR+ + PDIFTYNLW
Sbjct: 192 GKAEELYERIKGSNLSFTALTYNEMMTLYMSVGQVEKVSLVVEELKRQKIAPDIFTYNLW 251

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
           ISSCAA LNIDQV + LDEM  DSG +DDW++Y+++ NIY+ A HLVN ESS +VEAEKS
Sbjct: 252 ISSCAAILNIDQVTRILDEMKHDSGCNDDWLRYIDIANIYVKAGHLVNTESSAVVEAEKS 311

Query: 181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV 240
           ITQR+WITYDFLIILYAGL +KDK+DQIWKSLRMTKQKMT+RN++CILSSY+MLGHLKE 
Sbjct: 312 ITQREWITYDFLIILYAGLRDKDKVDQIWKSLRMTKQKMTNRNFVCILSSYMMLGHLKEA 371

Query: 241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 292
           GE++DQWK+S T+DFD+SAC+RLL AFS  GLTE AN+FHMLL+++NC PTN
Sbjct: 372 GEVLDQWKKSTTTDFDLSACSRLLDAFSGSGLTEIANDFHMLLIERNCDPTN 423

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224141193|ref|XP_002323959.1| predicted protein [Populus trichocarpa] gi|222866961|gb|EEF04092.1| predicted protein [Populus trichocarpa]

 Score =  474 bits (1221), Expect = e-131,   Method: Compositional matrix adjust.
 Identities = 221/290 (76%), Positives = 257/290 (88%), Gaps = 2/290 (0%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV H+EF LSD+D+A+RIDLMTKVFG+ + ERYF+GLPL+AKT+ETYTALLH YA AK  
Sbjct: 66  MVAHEEFELSDTDHASRIDLMTKVFGVDAAERYFDGLPLAAKTTETYTALLHSYAAAKLI 125

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
           EKAEE ++R+K SNL F ALMYNEMMTLYMSVGQ+EKV+ VVEE+K + V PDIFTYNLW
Sbjct: 126 EKAEEFYKRIKGSNLPFTALMYNEMMTLYMSVGQLEKVSQVVEELKHQKVAPDIFTYNLW 185

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESST--LVEAE 178
           ISSCAA LNID+V++ LDEMS DSG +DDW++Y+ +VNIY+TA HLVNAESST  +VEAE
Sbjct: 186 ISSCAAALNIDKVRRILDEMSQDSGVNDDWMRYIKIVNIYVTAGHLVNAESSTAAVVEAE 245

Query: 179 KSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLK 238
           K ITQR+WITYDFL+ILYAGLG KDKIDQIWKSLRMT QKMTSRN++CILSSYLMLGHLK
Sbjct: 246 KKITQREWITYDFLVILYAGLGKKDKIDQIWKSLRMTNQKMTSRNFVCILSSYLMLGHLK 305

Query: 239 EVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNC 288
           EVGEI+DQWKQS T+DFDISACNRLL A S +GLTE AN FHMLL+++NC
Sbjct: 306 EVGEIVDQWKQSTTTDFDISACNRLLDAISCLGLTEIANNFHMLLIERNC 355

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356525847|ref|XP_003531533.1| PREDICTED: pentatricopeptide repeat-containing protein At5g09450, mitochondrial-like [Glycine max]

 Score =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 206/289 (71%), Positives = 246/289 (85%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV+H+E+ LSDSDYA RIDL TKVFGI + ERYFEGLPL+ KT+ETYTALLH YAGAK T
Sbjct: 103 MVSHEEYELSDSDYAARIDLTTKVFGIDAAERYFEGLPLATKTAETYTALLHSYAGAKLT 162

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
           +KAEEL++R+K SNLSF+AL YNEMMTLYMSVGQ EKV  VVEE+K++ V PDIFTYNLW
Sbjct: 163 KKAEELYQRIKDSNLSFDALTYNEMMTLYMSVGQFEKVPSVVEELKQQKVSPDIFTYNLW 222

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
           IS CAA LNID+V++ LDEMS  +G ++ W++Y+NL NIYI+  HL NA S+TLVE EK 
Sbjct: 223 ISYCAAILNIDEVRRILDEMSHGAGSNESWIRYLNLANIYISVGHLDNASSNTLVETEKR 282

Query: 181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV 240
           ITQRQWITYDFLIILY GLG+KDK+DQIW SLRMTKQKM SRNYICI+SSYLMLGH KEV
Sbjct: 283 ITQRQWITYDFLIILYGGLGSKDKLDQIWNSLRMTKQKMISRNYICIISSYLMLGHTKEV 342

Query: 241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCA 289
           GE+IDQWKQS T+DFD+ AC +++ AF D+GL E AN  +M+L++KN +
Sbjct: 343 GEVIDQWKQSTTTDFDMLACKKIMVAFRDMGLAEIANNLNMILIEKNLS 391

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359484901|ref|XP_002268952.2| PREDICTED: pentatricopeptide repeat-containing protein At5g09450, mitochondrial [Vitis vinifera]

 Score =  441 bits (1135), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 206/294 (70%), Positives = 250/294 (85%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV+H EF LSDSD A RIDLMT+VFGI + ERYFEGLP +AKTSETYTALLH YAGAK  
Sbjct: 102 MVSHDEFELSDSDNAVRIDLMTRVFGIDAAERYFEGLPSAAKTSETYTALLHSYAGAKLA 161

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
           EKAEEL+ER+K+SN+  N L+YNEMMTLYMSVGQVEKV+LVVEE+KR+ VVPD+FTYNLW
Sbjct: 162 EKAEELYERIKESNVPLNILLYNEMMTLYMSVGQVEKVSLVVEELKRQKVVPDLFTYNLW 221

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
           +SSCAATL+ID V++ L EMS +S  +D WV+Y NL NIYI A HLVN+ S+++VEA  +
Sbjct: 222 VSSCAATLDIDGVRRILKEMSNNSSANDGWVRYRNLANIYIMAGHLVNSASNSVVEAGTN 281

Query: 181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV 240
            TQR WITYDFLIILYAGLGNKDKIDQIWKSL+MTKQK+ SR+Y+CILSSY+MLGH+K+V
Sbjct: 282 TTQRDWITYDFLIILYAGLGNKDKIDQIWKSLKMTKQKIKSRSYVCILSSYVMLGHIKDV 341

Query: 241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 294
           G +ID+WK+S T+DFDIS   RLL AF+++ L E+A  FH LL++K+C PT+ S
Sbjct: 342 GIVIDEWKKSTTTDFDISVFYRLLDAFAELRLIEEAETFHKLLIRKSCLPTDES 395

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356554749|ref|XP_003545705.1| PREDICTED: pentatricopeptide repeat-containing protein At5g09450, mitochondrial-like [Glycine max]

 Score =  440 bits (1132), Expect = e-121,   Method: Compositional matrix adjust.
 Identities = 204/289 (70%), Positives = 248/289 (85%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV+++E+ LSDSDYA RIDLMT+VFGI + ERYFEGLPL+ KT+ETYTALLH YAGAK T
Sbjct: 107 MVSNEEYELSDSDYAVRIDLMTQVFGIDAAERYFEGLPLATKTTETYTALLHSYAGAKLT 166

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
           EKAEEL++R+K SNLSF+AL YNEMMTLYMSVGQ EKV +VVEE+K++ V PDIFTYNLW
Sbjct: 167 EKAEELYQRIKDSNLSFDALTYNEMMTLYMSVGQFEKVPIVVEELKQQKVSPDIFTYNLW 226

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
           ISSCAA LNID+V++ LDEMS  +G ++ W++Y+NL NIYI+ +HL NA S+TLVE EK 
Sbjct: 227 ISSCAAILNIDEVRRILDEMSHGAGSNESWIRYLNLANIYISVAHLDNASSNTLVETEKR 286

Query: 181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV 240
           ITQRQWITYDFLIILY GLG+KDK+DQIW SL MTKQKM SRNY+CI+SSYLMLG  KEV
Sbjct: 287 ITQRQWITYDFLIILYGGLGSKDKLDQIWNSLGMTKQKMISRNYMCIISSYLMLGLTKEV 346

Query: 241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCA 289
           GE+IDQWKQS T+DFD+ AC ++L AF D+GL E AN  +++L++KN +
Sbjct: 347 GEVIDQWKQSTTTDFDMLACKKILVAFRDIGLAEIANNLNVILIEKNLS 395

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449438238|ref|XP_004136896.1| PREDICTED: pentatricopeptide repeat-containing protein At5g09450, mitochondrial-like [Cucumis sativus] gi|449478839|ref|XP_004155431.1| PREDICTED: pentatricopeptide repeat-containing protein At5g09450, mitochondrial-like [Cucumis sativus]

 Score =  417 bits (1072), Expect = e-114,   Method: Compositional matrix adjust.
 Identities = 191/293 (65%), Positives = 247/293 (84%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV+H +  LSDSD+A RIDLMTKVFG+ + ERYFEGLP+ AKT ETYTALLH +AG+K T
Sbjct: 114 MVSHNQSELSDSDFAIRIDLMTKVFGVDAAERYFEGLPIDAKTCETYTALLHSFAGSKLT 173

Query: 61  EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
           +KAE L+E++K+S++   AL +NEMMTLY S+GQVEKV+ +V+++K++ V PDIFTYNLW
Sbjct: 174 DKAETLYEKMKESDIPLTALPFNEMMTLYTSIGQVEKVSSIVDDLKQRMVHPDIFTYNLW 233

Query: 121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
           ISS AA LNID VK+ L+EM+ +   +++WV+Y+ LVNIY+ +++L+++ES+++VE+   
Sbjct: 234 ISSLAAALNIDGVKQILNEMNHNPNSNENWVRYIELVNIYVKSANLLHSESNSVVESVSG 293

Query: 181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV 240
           I+QR+WITYD LIILYAGLGNKDKIDQIW+SLRMTKQKMTSRNYICI+S YLML  LKE+
Sbjct: 294 ISQREWITYDLLIILYAGLGNKDKIDQIWRSLRMTKQKMTSRNYICIVSCYLMLDDLKEI 353

Query: 241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA 293
           GE+IDQWKQS T+DFDIS+CNRL+ AF + GL EKAN F  +L+QKNC PT A
Sbjct: 354 GEVIDQWKQSTTTDFDISSCNRLVNAFIEAGLHEKANSFVNVLIQKNCEPTEA 406

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297806979|ref|XP_002871373.1| hypothetical protein ARALYDRAFT_487758 [Arabidopsis lyrata subsp. lyrata] gi|297317210|gb|EFH47632.1| hypothetical protein ARALYDRAFT_487758 [Arabidopsis lyrata subsp. lyrata]

 Score =  394 bits (1013), Expect = e-107,   Method: Compositional matrix adjust.
 Identities = 184/293 (62%), Positives = 238/293 (81%), Gaps = 1/293 (0%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV H+E  +SD+DYA+RIDL++KVFGI + ERYFEGL + AKT+ETYT+LLH YAG+K T
Sbjct: 114 MVQHEELKVSDADYASRIDLISKVFGIDAAERYFEGLHIDAKTTETYTSLLHAYAGSKQT 173

Query: 61  EKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL 119
           E+AE LF+R+ +++ LSF A+ YNEMMTLYMSVGQVEKV  V++ +K K V PDIFTYNL
Sbjct: 174 ERAEALFKRIIETDSLSFGAITYNEMMTLYMSVGQVEKVPEVIQVLKHKKVSPDIFTYNL 233

Query: 120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK 179
           W+SSCAAT NID++++ L+EM  D+  ++ WV+Y+NL +IYI +S + NAES++ VEAEK
Sbjct: 234 WLSSCAATFNIDELRRILEEMRHDASSNEGWVRYINLTSIYINSSRVTNAESTSPVEAEK 293

Query: 180 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE 239
           SI+QR+WITYDFL+IL+ GLGNK  IDQIWKSL  T QK++SR+YIC+LSSYLMLGHL+E
Sbjct: 294 SISQREWITYDFLMILHTGLGNKVMIDQIWKSLGNTNQKLSSRSYICVLSSYLMLGHLRE 353

Query: 240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 292
             EII QWK+S T++FD SAC R+L AF DVGL   A+ FH+LL+   C+  N
Sbjct: 354 AEEIIHQWKESKTTEFDASACLRILNAFRDVGLEGVASGFHLLLVYNKCSLEN 406

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18415979|ref|NP_568214.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana] gi|75165070|sp|Q94B59.1|PP372_ARATH RecName: Full=Pentatricopeptide repeat-containing protein At5g09450, mitochondrial; Flags: Precursor gi|14596093|gb|AAK68774.1| putative protein [Arabidopsis thaliana] gi|27311913|gb|AAO00922.1| putative protein [Arabidopsis thaliana] gi|332004012|gb|AED91395.1| pentatricopeptide repeat-containing protein [Arabidopsis thaliana]

 Score =  390 bits (1001), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 182/293 (62%), Positives = 237/293 (80%), Gaps = 1/293 (0%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV H+E  +SD+DYA+RIDL++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K T
Sbjct: 113 MVQHEESKISDADYASRIDLISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQT 172

Query: 61  EKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL 119
           E+AE LF+R+ +S+ L+F A+ YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNL
Sbjct: 173 ERAEALFKRIIESDSLTFGAITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNL 232

Query: 120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK 179
           W+SSCAAT NID+++K L+EM  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEK
Sbjct: 233 WLSSCAATFNIDELRKILEEMRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEK 292

Query: 180 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE 239
           SI+QR+WITYDFL+IL+ GLGNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E
Sbjct: 293 SISQREWITYDFLMILHTGLGNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLRE 352

Query: 240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 292
             EII QWK+S T++FD SAC R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 353 AEEIIHQWKESKTTEFDASACLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 405

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|21592522|gb|AAM64472.1| unknown [Arabidopsis thaliana]

 Score =  390 bits (1001), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 182/293 (62%), Positives = 237/293 (80%), Gaps = 1/293 (0%)

Query: 1   MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
           MV H+E  +SD+DYA+RIDL++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K T
Sbjct: 113 MVQHEESKISDADYASRIDLISKVFGIDAAERYFEGLHIDSKTAETYTSLLHAYAASKQT 172

Query: 61  EKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL 119
           E+AE LF+R+ +S+ L+F A+ YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNL
Sbjct: 173 ERAEALFKRIIESDSLTFGAITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNL 232

Query: 120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK 179
           W+SSCAAT NID+++K L+EM  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEK
Sbjct: 233 WLSSCAATFNIDELRKILEEMRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEK 292

Query: 180 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE 239
           SI+QR+WITYDFL+IL+ GLGNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E
Sbjct: 293 SISQREWITYDFLMILHTGLGNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLRE 352

Query: 240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 292
             EII QWK+S T++FD SAC R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 353 AEEIIHQWKESKTTEFDASACLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 405

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|9955532|emb|CAC05471.1| putative protein [Arabidopsis thaliana]

 Score =  387 bits (993), Expect = e-105,   Method: Compositional matrix adjust.
 Identities = 180/290 (62%), Positives = 235/290 (81%), Gaps = 1/290 (0%)

Query: 4   HKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKA 63
           H+E  +SD+DYA+RIDL++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K TE+A
Sbjct: 109 HEESKISDADYASRIDLISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQTERA 168

Query: 64  EELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS 122
           E LF+R+ +S+ L+F A+ YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNLW+S
Sbjct: 169 EALFKRIIESDSLTFGAITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNLWLS 228

Query: 123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT 182
           SCAAT NID+++K L+EM  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEKSI+
Sbjct: 229 SCAATFNIDELRKILEEMRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEKSIS 288

Query: 183 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGE 242
           QR+WITYDFL+IL+ GLGNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E  E
Sbjct: 289 QREWITYDFLMILHTGLGNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLREAEE 348

Query: 243 IIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 292
           II QWK+S T++FD SAC R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 349 IIHQWKESKTTEFDASACLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 398

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

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	295
TAIR|locus:2184807	409	AT5G09450 "AT5G09450" [Arabido	0.989	0.713	0.621	1.5e-97
TAIR|locus:2036586	491	AT1G60770 [Arabidopsis thalian	0.898	0.539	0.385	1.6e-47
TAIR|locus:2140220	532	AT4G02820 "AT4G02820" [Arabido	0.969	0.537	0.308	2.3e-39
TAIR|locus:2146390	491	AT5G27460 "AT5G27460" [Arabido	0.976	0.586	0.319	4.3e-38
TAIR|locus:2051379	490	AT2G20710 [Arabidopsis thalian	0.959	0.577	0.306	5.7e-36
TAIR|locus:2204808	537	AT1G02370 "AT1G02370" [Arabido	0.962	0.528	0.292	1.9e-35
TAIR|locus:2204793	524	AT1G02150 [Arabidopsis thalian	0.884	0.498	0.311	3.1e-35
TAIR|locus:2141360	502	AT4G01990 [Arabidopsis thalian	0.915	0.537	0.308	3.1e-35
TAIR|locus:504955535	492	AT4G21705 "AT4G21705" [Arabido	0.966	0.579	0.292	2.3e-32
TAIR|locus:2010459	566	AT1G28020 "AT1G28020" [Arabido	0.908	0.473	0.279	1.6e-25

TAIR|locus:2184807 AT5G09450 "AT5G09450" [Arabidopsis thaliana (taxid:3702)]

 Score = 969 (346.2 bits), Expect = 1.5e-97, P = 1.5e-97
 Identities = 182/293 (62%), Positives = 237/293 (80%)

Query:     1 MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
             MV H+E  +SD+DYA+RIDL++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K T
Sbjct:   113 MVQHEESKISDADYASRIDLISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQT 172

Query:    61 EKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL 119
             E+AE LF+R+ +S+ L+F A+ YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNL
Sbjct:   173 ERAEALFKRIIESDSLTFGAITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNL 232

Query:   120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK 179
             W+SSCAAT NID+++K L+EM  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEK
Sbjct:   233 WLSSCAATFNIDELRKILEEMRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEK 292

Query:   180 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE 239
             SI+QR+WITYDFL+IL+ GLGNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E
Sbjct:   293 SISQREWITYDFLMILHTGLGNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLRE 352

Query:   240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 292
               EII QWK+S T++FD SAC R+L AF DVGL   A+ FH++L+   C+  N
Sbjct:   353 AEEIIHQWKESKTTEFDASACLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 405

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2036586 AT1G60770 [Arabidopsis thaliana (taxid:3702)]

 Score = 497 (180.0 bits), Expect = 1.6e-47, P = 1.6e-47
 Identities = 103/267 (38%), Positives = 161/267 (60%)

Query:    12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVK 71
             SD A  +DL+ K   I +GE YF  LP ++KT  TY +LL+ Y     TEKAE L  ++K
Sbjct:    91 SDQAIHLDLVAKAREITAGENYFVDLPETSKTELTYGSLLNCYCKELLTEKAEGLLNKMK 150

Query:    72 QSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID 131
             + N++ +++ YN +MTLY   G+ EKV  +++E+K +NV+PD +TYN+W+ + AAT +I 
Sbjct:   151 ELNITPSSMSYNSLMTLYTKTGETEKVPAMIQELKAENVMPDSYTYNVWMRALAATNDIS 210

Query:   132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDF 191
              V++ ++EM+ D   + DW  Y N+ +IY+ A     AE + L E E   TQR +  Y F
Sbjct:   211 GVERVIEEMNRDGRVAPDWTTYSNMASIYVDAGLSQKAEKA-LQELEMKNTQRDFTAYQF 269

Query:   192 LIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA 251
             LI LY  LG   ++ +IW+SLR+   K ++  Y+ ++   + L  L     +  +W Q+ 
Sbjct:   270 LITLYGRLGKLTEVYRIWRSLRLAIPKTSNVAYLNMIQVLVKLNDLPGAETLFKEW-QAN 328

Query:   252 TSDFDISACNRLLGAFSDVGLTEKANE 278
              S +DI   N L+GA++  GL +KANE
Sbjct:   329 CSTYDIRIVNVLIGAYAQEGLIQKANE 355

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2140220 AT4G02820 "AT4G02820" [Arabidopsis thaliana (taxid:3702)]

 Score = 420 (152.9 bits), Expect = 2.3e-39, P = 2.3e-39
 Identities = 90/292 (30%), Positives = 166/292 (56%)

Query:     1 MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
             MV  ++  L   DYA  +DL++K+ G++S E++FE +P   +     T+LLH Y   K +
Sbjct:   119 MVVQEDIKLQAGDYAVHLDLISKIRGLNSAEKFFEDMPDQMRGHAACTSLLHSYVQNKLS 178

Query:    61 EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
             +KAE LFE++ +     + L YN M+++Y+S GQ EKV ++++E+K +   PDI TYNLW
Sbjct:   179 DKAEALFEKMGECGFLKSCLPYNHMLSMYISRGQFEKVPVLIKELKIRTS-PDIVTYNLW 237

Query:   121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
             +++ A+  +++  +K   +   +   + DWV Y  L N+Y    ++  A  + L E EK 
Sbjct:   238 LTAFASGNDVEGAEKVYLKAK-EEKLNPDWVTYSVLTNLYAKTDNVEKARLA-LKEMEKL 295

Query:   181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV 240
             ++++  + Y  LI L+A LG+KD ++  WK ++ + +KM    Y+ ++S+ + LG  ++ 
Sbjct:   296 VSKKNRVAYASLISLHANLGDKDGVNLTWKKVKSSFKKMNDAEYLSMISAVVKLGEFEQA 355

Query:   241 GEIIDQWKQ-SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT 291
               + D+W+  S T D  I   N +L  + +        +F+  +++K   P+
Sbjct:   356 KGLYDEWESVSGTGDARIP--NLILAEYMNRDEVLLGEKFYERIVEKGINPS 405

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

GO:0006606 "protein import into nucleus" evidence=RCA

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

TAIR|locus:2146390 AT5G27460 "AT5G27460" [Arabidopsis thaliana (taxid:3702)]

 Score = 408 (148.7 bits), Expect = 4.3e-38, P = 4.3e-38
 Identities = 94/294 (31%), Positives = 149/294 (50%)

Query:     1 MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGL---PLSAKTSET-YTALLHLYAG 56
             M   K+   S  D A R+DL+ K  G+  GE YFE L    +S + +++ Y  LL  Y  
Sbjct:    96 MENQKDIEFSVYDIALRLDLIIKTHGLKQGEEYFEKLLHSSVSMRVAKSAYLPLLRAYVK 155

Query:    57 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT 116
              K  ++AE L E++           +NEMM LY + GQ EKV +VV  +K   +  ++ +
Sbjct:   156 NKMVKEAEALMEKLNGLGFLVTPHPFNEMMKLYEASGQYEKVVMVVSMMKGNKIPRNVLS 215

Query:   117 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE 176
             YNLW+++C     +  V+    EM  D      W     L N+YI +     A    L +
Sbjct:   216 YNLWMNACCEVSGVAAVETVYKEMVGDKSVEVGWSSLCTLANVYIKSGFDEKARL-VLED 274

Query:   177 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH 236
             AEK + +   + Y FLI LYA LGNK+ + ++W+  +    +++  NYIC+LSS +  G 
Sbjct:   275 AEKMLNRSNRLGYFFLITLYASLGNKEGVVRLWEVSKSVCGRISCVNYICVLSSLVKTGD 334

Query:   237 LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP 290
             L+E   +  +W ++   ++D+   N LLGA+   G   KA   H  +L++   P
Sbjct:   335 LEEAERVFSEW-EAQCFNYDVRVSNVLLGAYVRNGEIRKAESLHGCVLERGGTP 387

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2051379 AT2G20710 [Arabidopsis thaliana (taxid:3702)]

 Score = 388 (141.6 bits), Expect = 5.7e-36, P = 5.7e-36
 Identities = 88/287 (30%), Positives = 154/287 (53%)

Query:     1 MVTHKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT 60
             M  H+   +S+ D A R+DL+ KV G+   E++FE +P+  +    Y ALL+ YA  K  
Sbjct:    96 MSEHRVHEISEGDVAIRLDLIAKVGGLGEAEKFFETIPMERRNYHLYGALLNCYASKKVL 155

Query:    61 EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW 120
              KAE++F+ +K+       L YN M+ LY+  G+   V  ++ E++ + V PDIFT N  
Sbjct:   156 HKAEQVFQEMKELGFLKGCLPYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTR 215

Query:   121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS 180
             + + +   +++ ++KFL     D G   DW  Y +  N YI A  L       L ++E+ 
Sbjct:   216 LHAYSVVSDVEGMEKFLMRCEADQGLHLDWRTYADTANGYIKAG-LTEKALEMLRKSEQM 274

Query:   181 IT-QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE 239
             +  Q++   Y+ L+  Y   G K+++ ++W SL        +  YI ++S+ L +  ++E
Sbjct:   275 VNAQKRKHAYEVLMSFYGAAGKKEEVYRLW-SLYKELDGFYNTGYISVISALLKMDDIEE 333

Query:   240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK 286
             V +I+++W ++  S FDI   + L+  +   G+ EKA E   +L+QK
Sbjct:   334 VEKIMEEW-EAGHSLFDIRIPHLLITGYCKKGMMEKAEEVVNILVQK 379

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

TAIR|locus:2204808 AT1G02370 "AT1G02370" [Arabidopsis thaliana (taxid:3702)]

 Score = 383 (139.9 bits), Expect = 1.9e-35, P = 1.9e-35
 Identities = 84/287 (29%), Positives = 155/287 (54%)

Query:     5 KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSE-TYTALLHLYAGAKWTEKA 63
             ++   S SD+A  +DL+ K  G+ + E YF  L  SAK  + TY AL++ Y      EKA
Sbjct:   132 RKMTFSVSDHAICLDLIGKTKGLEAAENYFNNLDPSAKNHQSTYGALMNCYCVELEEEKA 191

Query:    64 EELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS 123
             +  FE + + N   N+L +N MM++YM + Q EKV ++V+ +K++ + P   TY++W+ S
Sbjct:   192 KAHFEIMDELNFVNNSLPFNNMMSMYMRLSQPEKVPVLVDAMKQRGISPCGVTYSIWMQS 251

Query:   124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ 183
             C +  ++D ++K +DEM  DS     W  + NL  IY T + L     S L   E+ +  
Sbjct:   252 CGSLNDLDGLEKIIDEMGKDSEAKTTWNTFSNLAAIY-TKAGLYEKADSALKSMEEKMNP 310

Query:   184 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI 243
                 ++ FL+ LYAG+    ++ ++W+SL+  + ++ + +Y+ +L +   LG L  + +I
Sbjct:   311 NNRDSHHFLMSLYAGISKGPEVYRVWESLKKARPEVNNLSYLVMLQAMSKLGDLDGIKKI 370

Query:   244 IDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP 290
               +W+    + +D+   N  +  +    + E+A +     ++K+  P
Sbjct:   371 FTEWESKCWA-YDMRLANIAINTYLKGNMYEEAEKILDGAMKKSKGP 416

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0006626 "protein targeting to mitochondrion" evidence=RCA

TAIR|locus:2204793 AT1G02150 [Arabidopsis thaliana (taxid:3702)]

 Score = 381 (139.2 bits), Expect = 3.1e-35, P = 3.1e-35
 Identities = 82/263 (31%), Positives = 144/263 (54%)

Query:     5 KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAE 64
             + F LS SD A ++DL+ KV GI   E +F  LP + K    Y +LL+ Y  AK  EKAE
Sbjct:   130 ERFRLSASDAAIQLDLIGKVRGIPDAEEFFLQLPENFKDRRVYGSLLNAYVRAKSREKAE 189

Query:    65 ELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC 124
              L   ++    + + L +N MMTLYM++ + +KV  +V E+K+K++  DI++YN+W+SSC
Sbjct:   190 ALLNTMRDKGYALHPLPFNVMMTLYMNLREYDKVDAMVFEMKQKDIRLDIYSYNIWLSSC 249

Query:   125 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR 184
              +  ++++++    +M  D     +W  +  +  +YI       AE + L + E  IT R
Sbjct:   250 GSLGSVEKMELVYQQMKSDVSIYPNWTTFSTMATMYIKMGETEKAEDA-LRKVEARITGR 308

Query:   185 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII 244
               I Y +L+ LY  LGNK ++ ++W   +     + +  Y  ++SS + +G ++   ++ 
Sbjct:   309 NRIPYHYLLSLYGSLGNKKELYRVWHVYKSVVPSIPNLGYHALVSSLVRMGDIEGAEKVY 368

Query:   245 DQWKQSATSDFDISACNRLLGAF 267
             ++W     S +D    N L+ A+
Sbjct:   369 EEWLP-VKSSYDPRIPNLLMNAY 390

GO:0005739 "mitochondrion" evidence=ISM

GO:0009507 "chloroplast" evidence=IDA

GO:0006364 "rRNA processing" evidence=RCA

GO:0006399 "tRNA metabolic process" evidence=RCA

GO:0009658 "chloroplast organization" evidence=RCA

GO:0019288 "isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway" evidence=RCA

GO:0045036 "protein targeting to chloroplast" evidence=RCA

TAIR|locus:2141360 AT4G01990 [Arabidopsis thaliana (taxid:3702)]

 Score = 381 (139.2 bits), Expect = 3.1e-35, P = 3.1e-35
 Identities = 84/272 (30%), Positives = 141/272 (51%)

Query:     5 KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAE 64
             KE   + SD+A R++L+ K  G+ + E YF  L  S K   TY +LL+ Y   K   KA+
Sbjct:   101 KEIAFTGSDHAIRLNLIAKSKGLEAAETYFNSLDDSIKNQSTYGSLLNCYCVEKEEVKAK 160

Query:    65 ELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC 124
               FE +   N   N+L +N +M +YM +GQ EKV  +V  +K K++ P   TY++WI SC
Sbjct:   161 AHFENMVDLNHVSNSLPFNNLMAMYMGLGQPEKVPALVVAMKEKSITPCDITYSMWIQSC 220

Query:   125 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR 184
              +  ++D V+K LDEM  +  G   W  + NL  IYI       AE + L   E ++   
Sbjct:   221 GSLKDLDGVEKVLDEMKAEGEGIFSWNTFANLAAIYIKVGLYGKAEEA-LKSLENNMNPD 279

Query:   185 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII 244
                 Y FLI LY G+ N  ++ ++W  L+     + + +Y+ +L +   L  +  V ++ 
Sbjct:   280 VRDCYHFLINLYTGIANASEVYRVWDLLKKRYPNVNNSSYLTMLRALSKLDDIDGVKKVF 339

Query:   245 DQWKQSATSDFDISACNRLLGAFSDVGLTEKA 276
              +W+ +  + +D+   N  + ++    + E+A
Sbjct:   340 AEWESTCWT-YDMRMANVAISSYLKQNMYEEA 370

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0009560 "embryo sac egg cell differentiation" evidence=RCA

TAIR|locus:504955535 AT4G21705 "AT4G21705" [Arabidopsis thaliana (taxid:3702)]

 Score = 354 (129.7 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 84/287 (29%), Positives = 148/287 (51%)

Query:     8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELF 67
             V S +++A  +DL+ +V+G  + E YFE L    K  +TY ALL+ Y   +  EK+   F
Sbjct:    90 VFSPTEHAVHLDLIGRVYGFVTAEEYFENLKEQYKNDKTYGALLNCYVRQQNVEKSLLHF 149

Query:    68 ERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT 127
             E++K+     ++L YN +M LY ++GQ EKV  V+EE+K +NV PD ++Y + I++  A 
Sbjct:   150 EKMKEMGFVTSSLTYNNIMCLYTNIGQHEKVPKVLEEMKEENVAPDNYSYRICINAFGAM 209

Query:   128 LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI 187
              +++++   L +M      + DW  Y      YI       A    L  +E  + ++   
Sbjct:   210 YDLERIGGTLRDMERRQDITMDWNTYAVAAKFYIDGGDCDRAVE-LLKMSENRLEKKDGE 268

Query:   188 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQW 247
              Y+ LI LYA LG K ++ ++W   +   ++  +++Y+ +L S + +  L E  E++ +W
Sbjct:   269 GYNHLITLYARLGKKIEVLRLWDLEKDVCKRRINQDYLTVLQSLVKIDALVEAEEVLTEW 328

Query:   248 KQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 294
             K S    +D    N ++  +    + EKA      L ++  A T  S
Sbjct:   329 KSSGNC-YDFRVPNTVIRGYIGKSMEEKAEAMLEDLARRGKATTPES 374

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2010459 AT1G28020 "AT1G28020" [Arabidopsis thaliana (taxid:3702)]

 Score = 296 (109.3 bits), Expect = 1.6e-25, P = 1.6e-25
 Identities = 76/272 (27%), Positives = 137/272 (50%)

Query:     9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTE-KAEELF 67
             L   D+A R+ L+  V G+   E++FE +P +A+    YT+LL+ YA +  T  KAE  F
Sbjct:   102 LIPEDFAARLHLIENVVGLEEAEKFFESIPKNARGDSVYTSLLNSYARSDKTLCKAEATF 161

Query:    68 ERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT 127
             ++++   L    + YN MM+LY ++   EKV  ++ E+K  +V  D  T N  +   +A 
Sbjct:   162 QKMRDLGLLLRPVPYNAMMSLYSALKNREKVEELLLEMKDNDVEADNVTVNNVLKLYSAV 221

Query:   128 LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI 187
              ++ +++KFL++     G   +W   +++   Y+ A     A    L   E+ + Q+   
Sbjct:   222 CDVTEMEKFLNKWEGIHGIKLEWHTTLDMAKAYLRARSSGKA-MKMLRLTEQLVDQKSLK 280

Query:   188 T-YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ 246
             + YD L+ LY   GN++++ ++WK  +    +  +  Y  ++ S L +  +    EI   
Sbjct:   281 SAYDHLMKLYGEAGNREEVLRVWKLYKSKIGERDNNGYRTVIRSLLKVDDIVGAEEIYKV 340

Query:   247 WKQSATSDFDISACNRLLGAFSDVGLTEKANE 278
             W +S   +FD      L   + D G+TEKA +
Sbjct:   341 W-ESLPLEFDHRIPTMLASGYRDRGMTEKAEK 371

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q94B59	PP372_ARATH	No assigned EC number	0.6211	0.9898	0.7139	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.XVII.269.1 hypothetical protein (355 aa) (Populus trichocarpa)

Predicted Functional Partners:

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

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	295
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	8e-06
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.003

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

 Score = 43.9 bits (105), Expect = 2e-06
 Identities = 12/48 (25%), Positives = 28/48 (58%)

Query: 78  NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA 125
           + + YN ++  Y   G+VE+   +  E+K++ + P+++TY++ I    
Sbjct: 2   DVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLC 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 = 46.8 bits (111), Expect = 8e-06
 Identities = 30/111 (27%), Positives = 53/111 (47%), Gaps = 7/111 (6%)

Query: 14  YATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQS 73
           +A  +D   K F I    R  +G+ L   +   Y++L+   + AK  +KA EL+E +K  
Sbjct: 661 HAGDLD---KAFEILQDARK-QGIKLGTVS---YSSLMGACSNAKNWKKALELYEDIKSI 713

Query: 74  NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC 124
            L       N ++T      Q+ K   V+ E+KR  + P+  TY++ + + 
Sbjct: 714 KLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS 764

Length = 1060

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

 Score = 38.7 bits (90), Expect = 0.003
 Identities = 29/101 (28%), Positives = 50/101 (49%), Gaps = 10/101 (9%)

Query: 48  TALLHLYAGAKW--TEKAEELFERVKQSNL-SFNALMYNEMMTLYMSVGQVEKVALVVEE 104
           TAL+ LY+  KW   E A  +F+R+ + NL S+NAL+       Y + G+  K   + E 
Sbjct: 364 TALVDLYS--KWGRMEDARNVFDRMPRKNLISWNALIAG-----YGNHGRGTKAVEMFER 416

Query: 105 IKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSG 145
           +  + V P+  T+   +S+C  +   +Q  +    MS +  
Sbjct: 417 MIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHR 457

Length = 697

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	295
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.94
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.9
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.85
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.81
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.81
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.8
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.78
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.76
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.75
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.74
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.73
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.72
KOG1126	638	consensus DNA-binding cell division cycle control	99.71
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.71
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.69
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.69
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.67
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.66
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.66
PRK12370	553	invasion protein regulator; Provisional	99.65
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.65
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.65
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.65
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.65
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.63
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.63
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.63
PRK14574	822	hmsH outer membrane protein; Provisional	99.61
PRK14574	822	hmsH outer membrane protein; Provisional	99.61
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.58
PF13041	50	PPR_2: PPR repeat family	99.58
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.57
PF13041	50	PPR_2: PPR repeat family	99.56
PRK12370	553	invasion protein regulator; Provisional	99.55
KOG1126	638	consensus DNA-binding cell division cycle control	99.55
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.49
KOG2076	895	consensus RNA polymerase III transcription factor	99.47
KOG1129	478	consensus TPR repeat-containing protein [General f	99.47
KOG1129	478	consensus TPR repeat-containing protein [General f	99.44
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.43
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.42
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.42
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.42
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.41
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.4
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.39
PRK11189	296	lipoprotein NlpI; Provisional	99.37
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.36
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.34
KOG2003	840	consensus TPR repeat-containing protein [General f	99.34
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.34
KOG2076	895	consensus RNA polymerase III transcription factor	99.33
KOG2003	840	consensus TPR repeat-containing protein [General f	99.33
PRK11189	296	lipoprotein NlpI; Provisional	99.33
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.3
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.29
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.29
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.27
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.22
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.2
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.19
KOG1125	579	consensus TPR repeat-containing protein [General f	99.18
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.17
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.11
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.1
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.09
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.07
PLN02789	320	farnesyltranstransferase	99.07
KOG1128	777	consensus Uncharacterized conserved protein, conta	99.06
PF12854	34	PPR_1: PPR repeat	99.05
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.05
PF12854	34	PPR_1: PPR repeat	99.02
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.0
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.99
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	98.99
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.97
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.95
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.92
PLN02789	320	farnesyltranstransferase	98.9
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.89
PRK15359	144	type III secretion system chaperone protein SscB;	98.88
KOG1125	579	consensus TPR repeat-containing protein [General f	98.87
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.86
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.86
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.85
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.83
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.83
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.82
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.82
PRK04841	903	transcriptional regulator MalT; Provisional	98.82
PRK15359	144	type III secretion system chaperone protein SscB;	98.81
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.78
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.75
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.75
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.73
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.73
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.7
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.7
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.7
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.66
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.66
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.64
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.64
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.63
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.63
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.6
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.57
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.56
PRK04841	903	transcriptional regulator MalT; Provisional	98.56
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.55
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.53
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.52
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.52
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.51
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.51
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.5
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.49
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.47
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.47
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.46
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.45
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.45
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.44
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.43
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.41
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.38
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.36
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.36
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.35
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.34
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.32
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.32
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.31
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.31
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.3
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.3
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.29
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.29
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.28
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.25
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.23
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.22
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	98.22
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.15
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.15
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.14
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.11
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.08
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.04
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.02
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.02
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.02
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.01
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.0
KOG2376	652	consensus Signal recognition particle, subunit Srp	97.99
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.98
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.97
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.97
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.95
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	97.93
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.92
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	97.92
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.89
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.88
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.86
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.82
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.82
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.82
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.81
PF12688	120	TPR_5: Tetratrico peptide repeat	97.8
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.79
KOG0553	304	consensus TPR repeat-containing protein [General f	97.78
KOG0553	304	consensus TPR repeat-containing protein [General f	97.77
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.76
PF12688	120	TPR_5: Tetratrico peptide repeat	97.75
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.72
PRK10803	263	tol-pal system protein YbgF; Provisional	97.7
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.69
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.67
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.67
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.63
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.61
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.58
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.57
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.55
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.5
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.46
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.46
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.45
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.42
PRK10803	263	tol-pal system protein YbgF; Provisional	97.41
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	97.38
KOG3941	406	consensus Intermediate in Toll signal transduction	97.37
PF13371	73	TPR_9: Tetratricopeptide repeat	97.36
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.3
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.27
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.26
PF13371	73	TPR_9: Tetratricopeptide repeat	97.25
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	97.16
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.14
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.13
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.12
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.04
PRK15331	165	chaperone protein SicA; Provisional	97.01
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	96.94
PRK15331	165	chaperone protein SicA; Provisional	96.91
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.83
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.82
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.81
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.79
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.76
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.75
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.74
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.73
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.71
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.66
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.62
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.61
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.59
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.54
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.53
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.51
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.47
PF13428	44	TPR_14: Tetratricopeptide repeat	96.44
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.42
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.34
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.29
PRK11906	458	transcriptional regulator; Provisional	96.27
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.25
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.22
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.19
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.15
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.14
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.13
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.12
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.03
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.01
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.99
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.99
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.99
KOG3941	406	consensus Intermediate in Toll signal transduction	95.98
PF13428	44	TPR_14: Tetratricopeptide repeat	95.95
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.79
KOG4555	175	consensus TPR repeat-containing protein [Function	95.78
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.77
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	95.68
KOG4555	175	consensus TPR repeat-containing protein [Function	95.66
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	95.54
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	95.52
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	95.45
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.41
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.33
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	95.3
PF13929	292	mRNA_stabil: mRNA stabilisation	95.29
PF13512	142	TPR_18: Tetratricopeptide repeat	95.22
PF13512	142	TPR_18: Tetratricopeptide repeat	95.2
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.13
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	95.07
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	94.95
PRK11906	458	transcriptional regulator; Provisional	94.45
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	94.37
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.32
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.3
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.3
PF13431	34	TPR_17: Tetratricopeptide repeat	94.25
COG3898	531	Uncharacterized membrane-bound protein [Function u	94.24
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.24
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	94.23
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.2
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	94.18
KOG2610	491	consensus Uncharacterized conserved protein [Funct	94.11
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.08
KOG4570	418	consensus Uncharacterized conserved protein [Funct	94.05
PF13929	292	mRNA_stabil: mRNA stabilisation	94.01
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.98
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.95
PF13431	34	TPR_17: Tetratricopeptide repeat	93.94
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.83
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.8
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	93.76
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	93.7
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	93.59
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	93.32
PRK09687	280	putative lyase; Provisional	93.3
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	93.24
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	93.17
COG1747	711	Uncharacterized N-terminal domain of the transcrip	93.16
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	93.1
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.99
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.93
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	92.87
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.79
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	92.57
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.54
COG4455	273	ImpE Protein of avirulence locus involved in tempe	92.39
KOG1585	308	consensus Protein required for fusion of vesicles	92.37
KOG2582	422	consensus COP9 signalosome, subunit CSN3 [Posttran	92.23
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.19
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.78
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.78
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	91.65
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	91.63
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.51
COG1747	711	Uncharacterized N-terminal domain of the transcrip	91.11
KOG1585	308	consensus Protein required for fusion of vesicles	91.04
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.0
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	90.93
COG3947	361	Response regulator containing CheY-like receiver a	90.61
KOG1586	288	consensus Protein required for fusion of vesicles	90.4
PRK09687	280	putative lyase; Provisional	90.4
PHA02875	413	ankyrin repeat protein; Provisional	90.23
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	90.01
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.88
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	89.16
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	88.98
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	88.55
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.26
PF09477	116	Type_III_YscG: Bacterial type II secretion system	87.9
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	87.77
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	87.77
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	87.52
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.37
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	87.35
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.96
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	86.88
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	86.66
KOG4648	536	consensus Uncharacterized conserved protein, conta	86.66
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	86.24
KOG4234	271	consensus TPR repeat-containing protein [General f	86.19
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	86.09
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.06
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	85.7
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	84.88
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	84.66
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.42
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	84.39
KOG1550	552	consensus Extracellular protein SEL-1 and related	84.36
PF13762	145	MNE1: Mitochondrial splicing apparatus component	84.26
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	84.25
KOG4648	536	consensus Uncharacterized conserved protein, conta	83.73
PF11817	247	Foie-gras_1: Foie gras liver health family 1; Inte	83.7
COG4455	273	ImpE Protein of avirulence locus involved in tempe	83.46
KOG2908	380	consensus 26S proteasome regulatory complex, subun	82.79
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	82.56
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	82.53
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	82.49
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	81.87
KOG3364	149	consensus Membrane protein involved in organellar	81.85
KOG4507	886	consensus Uncharacterized conserved protein, conta	81.64
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	81.0
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	80.8
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	80.26

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=8.2e-55  Score=387.39  Aligned_cols=290  Identities=18%  Similarity=0.155  Sum_probs=251.7

Q ss_pred             cCCCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccC--CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHH
Q 022531            3 THKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLS--AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL   80 (295)
Q Consensus         3 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~   80 (295)
                      .+.++.||..+|+.+|.+|++.|++++|.++|++|...  .||..+|+.||.+|++.|++++|.++|++|.+.|+.||..
T Consensus       464 ~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~v  543 (1060)
T PLN03218        464 QEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRV  543 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHH
Confidence            35678888888999999999999999999999888876  3788889999999999999889999998888888888888


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh--CCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKR--KNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      +|+.||.+|++.|++++|.++|++|..  .|+.||..+|+++|.+|++.|++++|.++|++|.+. +++|+..+|+.+|.
T Consensus       544 TYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~-gi~p~~~tynsLI~  622 (1060)
T PLN03218        544 VFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEY-NIKGTPEVYTIAVN  622 (1060)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCChHHHHHHHH
Confidence            888888888888888888888888876  578888888888888888888888888888888887 88888888888888


Q ss_pred             HHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChH
Q 022531          159 IYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLK  238 (295)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  238 (295)
                      +|++.|++++|.+ +|.+|...+..||..+|+.++.+|++.|++++|.+++++|.+.|+.|+..+|+.+|.+|++.|+++
T Consensus       623 ay~k~G~~deAl~-lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~e  701 (1060)
T PLN03218        623 SCSQKGDWDFALS-IYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWK  701 (1060)
T ss_pred             HHHhcCCHHHHHH-HHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHH
Confidence            8888888888888 888888888888888888888888888888888888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCCCC
Q 022531          239 EVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  295 (295)
Q Consensus       239 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  295 (295)
                      +|.++|++|.+.+. .||..+|+.||.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       702 eA~~lf~eM~~~g~-~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty  757 (1060)
T PLN03218        702 KALELYEDIKSIKL-RPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITY  757 (1060)
T ss_pred             HHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            88888888887765 688888888888888888888888888888888888887765

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.3e-53  Score=379.83  Aligned_cols=289  Identities=15%  Similarity=0.137  Sum_probs=280.5

Q ss_pred             CCCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccC--CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHh--CCCCCCH
Q 022531            4 HKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLS--AKTSETYTALLHLYAGAKWTEKAEELFERVKQ--SNLSFNA   79 (295)
Q Consensus         4 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~--~~~~p~~   79 (295)
                      +.++.||..+|+.+|.+|++.|++++|.++|+.|...  .||..+|+.||.+|++.|++++|.++|++|..  .|+.||.
T Consensus       500 ~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~  579 (1060)
T PLN03218        500 NAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDH  579 (1060)
T ss_pred             HcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcH
Confidence            4688999999999999999999999999999999876  58999999999999999999999999999986  6799999


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  159 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  159 (295)
                      .+|++||.+|++.|++++|.++|++|.+.|+.|+..+|+++|.+|++.|++++|.++|++|... |+.||..+|++++.+
T Consensus       580 vTynaLI~ay~k~G~ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~-Gv~PD~~TynsLI~a  658 (1060)
T PLN03218        580 ITVGALMKACANAGQVDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKK-GVKPDEVFFSALVDV  658 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCCHHHHHHHHHH
Confidence            9999999999999999999999999999999999999999999999999999999999999998 999999999999999


Q ss_pred             HHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHH
Q 022531          160 YITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE  239 (295)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  239 (295)
                      |++.|++++|.+ ++..|.+.+..||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++
T Consensus       659 ~~k~G~~eeA~~-l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~ee  737 (1060)
T PLN03218        659 AGHAGDLDKAFE-ILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPK  737 (1060)
T ss_pred             HHhCCCHHHHHH-HHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHH
Confidence            999999999999 9999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCCCC
Q 022531          240 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  295 (295)
Q Consensus       240 A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  295 (295)
                      |.++|++|...+. .||..+|+.++.+|++.|++++|.+++++|.+.|+.||..+|
T Consensus       738 Alelf~eM~~~Gi-~Pd~~Ty~sLL~a~~k~G~le~A~~l~~~M~k~Gi~pd~~ty  792 (1060)
T PLN03218        738 ALEVLSEMKRLGL-CPNTITYSILLVASERKDDADVGLDLLSQAKEDGIKPNLVMC  792 (1060)
T ss_pred             HHHHHHHHHHcCC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            9999999999876 699999999999999999999999999999999999998664

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

Probab=100.00  E-value=9.9e-50  Score=350.85  Aligned_cols=279  Identities=13%  Similarity=0.164  Sum_probs=251.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHH---
Q 022531            4 HKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL---   80 (295)
Q Consensus         4 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---   80 (295)
                      +.|+.||..+|+.++.+|++.|++++|.++|++|.+  ||..+||+++.+|++.|++++|+++|++|.+.|+.|+..   
T Consensus       151 ~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~--~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~  228 (697)
T PLN03081        151 SSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPE--RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFV  228 (697)
T ss_pred             HhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCC--CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHH
Confidence            468899999999999999999999999999999986  899999999999999999999999999998877666554   


Q ss_pred             --------------------------------HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC
Q 022531           81 --------------------------------MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL  128 (295)
Q Consensus        81 --------------------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  128 (295)
                                                      +||+||.+|++.|++++|.++|++|.+    +|..+|+++|.+|++.|
T Consensus       229 ~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g  304 (697)
T PLN03081        229 VMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHG  304 (697)
T ss_pred             HHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCC
Confidence                                            457778888888889999999988854    58889999999999999


Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHH
Q 022531          129 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  208 (295)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  208 (295)
                      ++++|.++|++|... |+.||..+|++++.+|++.|++++|.+ ++..+.+.+..||..+|++|+.+|++.|++++|.++
T Consensus       305 ~~~eA~~lf~~M~~~-g~~pd~~t~~~ll~a~~~~g~~~~a~~-i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~v  382 (697)
T PLN03081        305 YSEEALCLYYEMRDS-GVSIDQFTFSIMIRIFSRLALLEHAKQ-AHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNV  382 (697)
T ss_pred             CHHHHHHHHHHHHHc-CCCCCHHHHHHHHHHHHhccchHHHHH-HHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHH
Confidence            999999999999887 889999999999999999999999999 899999999999999999999999999999999999


Q ss_pred             HHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh-cC
Q 022531          209 WKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ-KN  287 (295)
Q Consensus       209 ~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~g  287 (295)
                      |++|.    .||..+|+.+|.+|++.|+.++|.++|++|.+.|. .||..||+.++.+|.+.|++++|.++|+.|.+ .|
T Consensus       383 f~~m~----~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~-~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g  457 (697)
T PLN03081        383 FDRMP----RKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGV-APNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHR  457 (697)
T ss_pred             HHhCC----CCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcC
Confidence            99885    47888999999999999999999999999998876 69999999999999999999999999999976 69


Q ss_pred             CCCCCCCC
Q 022531          288 CAPTNASG  295 (295)
Q Consensus       288 ~~p~~~t~  295 (295)
                      +.|+..+|
T Consensus       458 ~~p~~~~y  465 (697)
T PLN03081        458 IKPRAMHY  465 (697)
T ss_pred             CCCCccch
Confidence            99998776

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=8.1e-48  Score=346.03  Aligned_cols=284  Identities=14%  Similarity=0.118  Sum_probs=247.6

Q ss_pred             CCCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH
Q 022531            4 HKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYN   83 (295)
Q Consensus         4 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   83 (295)
                      +.++.||..+|+.||.+|++.|++++|.++|+.|+.  ||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+
T Consensus       215 ~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~--~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~  292 (857)
T PLN03077        215 RFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR--RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT  292 (857)
T ss_pred             HcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC--CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHH
Confidence            357788888999999999999999999999999986  899999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      .++.+|++.|+++.|.+++..|.+.|+.||..+|++++.+|++.|++++|.++|++|..     ||..+|++++.+|++.
T Consensus       293 ~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~d~~s~n~li~~~~~~  367 (857)
T PLN03077        293 SVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET-----KDAVSWTAMISGYEKN  367 (857)
T ss_pred             HHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCeeeHHHHHHHHHhC
Confidence            99999999999999999999999999999999999999999999999999999988863     6778888889999998


Q ss_pred             CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 022531          164 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI  243 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  243 (295)
                      |++++|.+ +|.+|...+..||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+|+.||.+|++.|++++|.++
T Consensus       368 g~~~~A~~-lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~v  446 (857)
T PLN03077        368 GLPDKALE-TYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEV  446 (857)
T ss_pred             CCHHHHHH-HHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHH
Confidence            88888888 88888888888888888888888888888888888888888888888887777777777777777777777


Q ss_pred             HHHHhhhcC-----------------------------------------------------------------------
Q 022531          244 IDQWKQSAT-----------------------------------------------------------------------  252 (295)
Q Consensus       244 ~~~~~~~~~-----------------------------------------------------------------------  252 (295)
                      |++|.+.+.                                                                       
T Consensus       447 f~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~  526 (857)
T PLN03077        447 FHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFL  526 (857)
T ss_pred             HHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCcccee
Confidence            776643210                                                                       


Q ss_pred             -----------------------CCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCCCC
Q 022531          253 -----------------------SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  295 (295)
Q Consensus       253 -----------------------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  295 (295)
                                             ..||..+|++||.+|++.|+.++|.++|++|.+.|+.||..||
T Consensus       527 ~naLi~~y~k~G~~~~A~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~  592 (857)
T PLN03077        527 PNALLDLYVRCGRMNYAWNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTF  592 (857)
T ss_pred             chHHHHHHHHcCCHHHHHHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccH
Confidence                                   0356677888888888899999999999999999999998886

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

Probab=100.00  E-value=2.8e-47  Score=335.38  Aligned_cols=269  Identities=16%  Similarity=0.179  Sum_probs=234.8

Q ss_pred             CCCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH
Q 022531            4 HKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYN   83 (295)
Q Consensus         4 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   83 (295)
                      +.++.+|..+|++||++|+++|++++|.++|+.|..  +|..+||+||.+|++.|++++|+++|++|.+.|+.||..||+
T Consensus       252 ~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~--~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~  329 (697)
T PLN03081        252 KTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE--KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFS  329 (697)
T ss_pred             HhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC--CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHH
Confidence            456788888999999999999999999999999975  799999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      +++.+|++.|++++|.+++.+|.+.|+.||..+|++|+++|++.|++++|.++|++|.+     ||..+|+++|.+|++.
T Consensus       330 ~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~-----~d~~t~n~lI~~y~~~  404 (697)
T PLN03081        330 IMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-----KNLISWNALIAGYGNH  404 (697)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC-----CCeeeHHHHHHHHHHc
Confidence            99999999999999999999999999999999999999999999999999999998864     6888999999999999


Q ss_pred             CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHh-ccCCCCHHhHHHHHHHHHhcCChHHHHH
Q 022531          164 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM-TKQKMTSRNYICILSSYLMLGHLKEVGE  242 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~~~~~~~~~~A~~  242 (295)
                      |+.++|.+ +|++|...+..||..||+.++.+|++.|.+++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.+
T Consensus       405 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        405 GRGTKAVE-MFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYA  483 (697)
T ss_pred             CCHHHHHH-HHHHHHHhCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHH
Confidence            99999999 999999999999999999999999999999999999999975 5888999999999999999999999998


Q ss_pred             HHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          243 IIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      ++++|.    ..|+..+|++|+.+|...|+++.|..+++++.
T Consensus       484 ~~~~~~----~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~  521 (697)
T PLN03081        484 MIRRAP----FKPTVNMWAALLTACRIHKNLELGRLAAEKLY  521 (697)
T ss_pred             HHHHCC----CCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHh
Confidence            887762    24666666666666665555555555555554

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.4e-46  Score=338.06  Aligned_cols=278  Identities=14%  Similarity=0.162  Sum_probs=259.4

Q ss_pred             CCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531            5 KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus         5 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      .+..++...++.++..|++.|+++.|.++|++|++  ||..+||++|.+|++.|++++|+++|++|...|+.||..||+.
T Consensus       115 ~~~~~~~~~~n~li~~~~~~g~~~~A~~~f~~m~~--~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~  192 (857)
T PLN03077        115 SHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPE--RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPC  192 (857)
T ss_pred             cCCCCCchHHHHHHHHHHhCCChHHHHHHHhcCCC--CCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHH
Confidence            45567888899999999999999999999999986  8999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  164 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (295)
                      ++.+|+..++++.+.+++..|.+.|+.||..+|++++.+|++.|+++.|..+|++|..     ||..+|++++.+|++.|
T Consensus       193 ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~-----~d~~s~n~li~~~~~~g  267 (857)
T PLN03077        193 VLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR-----RDCISWNAMISGYFENG  267 (857)
T ss_pred             HHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC-----CCcchhHHHHHHHHhCC
Confidence            9999999999999999999999999999999999999999999999999999999874     67889999999999999


Q ss_pred             chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 022531          165 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII  244 (295)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  244 (295)
                      +.++|.+ +|.+|...+..||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|+.+|.+|++.|++++|.++|
T Consensus       268 ~~~eAl~-lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf  346 (857)
T PLN03077        268 ECLEGLE-LFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVF  346 (857)
T ss_pred             CHHHHHH-HHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHH
Confidence            9999999 999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCCCC
Q 022531          245 DQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  295 (295)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  295 (295)
                      ++|.     .||..+|+.++.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       347 ~~m~-----~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~  392 (857)
T PLN03077        347 SRME-----TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITI  392 (857)
T ss_pred             hhCC-----CCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeH
Confidence            9875     478889999999999999999999999999999999998875

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=1.2e-23  Score=174.56  Aligned_cols=275  Identities=12%  Similarity=0.062  Sum_probs=227.9

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-----CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-----TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      +..++..+...+.+.|++++|..+++.+....+     ....+..++..+.+.|++++|..+|+++.+.. +++..+++.
T Consensus        68 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~  146 (389)
T PRK11788         68 TVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQ  146 (389)
T ss_pred             cHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHH
Confidence            456788899999999999999999998877532     13568888999999999999999999998764 456788999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCh----HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDI----FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      ++..+.+.|++++|.+.++.+.+.+..++.    ..+..+...+.+.|++++|...|+++.+.  .+.+...+..+...+
T Consensus       147 la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~  224 (389)
T PRK11788        147 LLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAA--DPQCVRASILLGDLA  224 (389)
T ss_pred             HHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHHHHHH
Confidence            999999999999999999999886543322    23556777788999999999999998874  244566788888999


Q ss_pred             HhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          161 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      .+.|++++|.+ .+.++....+.....+++.++.+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|
T Consensus       225 ~~~g~~~~A~~-~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A  301 (389)
T PRK11788        225 LAQGDYAAAIE-ALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAA  301 (389)
T ss_pred             HHCCCHHHHHH-HHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHH
Confidence            99999999999 8888877654434567888999999999999999999998876  56666778899999999999999


Q ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHc---cCChHHHHHHHHHHHhcCCCCCCC
Q 022531          241 GEIIDQWKQSATSDFDISACNRLLGAFSD---VGLTEKANEFHMLLLQKNCAPTNA  293 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~g~~p~~~  293 (295)
                      .++++++.+.   .|+...++.++..+..   .|+.+++..++++|.+.+++|+..
T Consensus       302 ~~~l~~~l~~---~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        302 QALLREQLRR---HPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             HHHHHHHHHh---CcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            9999998874   4788888888877764   568999999999999988888763

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=3.1e-22  Score=166.10  Aligned_cols=267  Identities=13%  Similarity=0.015  Sum_probs=221.3

Q ss_pred             HHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCC
Q 022531           19 DLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSVGQ   94 (295)
Q Consensus        19 ~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~   94 (295)
                      ..+...|++++|...|+.+....| +..++..+...+...|++++|..+++.+...+..++   ..++..+...|.+.|+
T Consensus        43 ~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~  122 (389)
T PRK11788         43 LNFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGL  122 (389)
T ss_pred             HHHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCC
Confidence            345678999999999999998877 677899999999999999999999999987642222   3568899999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhcCchhhHHH
Q 022531           95 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITASHLVNAES  171 (295)
Q Consensus        95 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~  171 (295)
                      +++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.....+.   ...+..+...+.+.|++++|..
T Consensus       123 ~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~  201 (389)
T PRK11788        123 LDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA  201 (389)
T ss_pred             HHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            999999999998863 346788999999999999999999999999875221111   2245677888899999999999


Q ss_pred             HHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          172 STLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                       .+.++.+..+. +...+..+...+.+.|++++|.++++++...+......++..++.+|...|++++|.+.++++.+..
T Consensus       202 -~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~  279 (389)
T PRK11788        202 -LLKKALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY  279 (389)
T ss_pred             -HHHHHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence             89888776533 4567788889999999999999999999876433234567889999999999999999999998853


Q ss_pred             CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCC
Q 022531          252 TSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  293 (295)
Q Consensus       252 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  293 (295)
                         |+...+..++..+.+.|++++|..+++++.+.  .|+..
T Consensus       280 ---p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~~  316 (389)
T PRK11788        280 ---PGADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSLR  316 (389)
T ss_pred             ---CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCHH
Confidence               56666788999999999999999999999875  46643

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

Probab=99.90  E-value=2.3e-20  Score=170.52  Aligned_cols=268  Identities=12%  Similarity=0.015  Sum_probs=171.5

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      +.++..|..+...+.+.|++++|...|+.+....| +...+..+..++.+.|++++|...|+++.+.. +.+..++..++
T Consensus       598 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~  676 (899)
T TIGR02917       598 PDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLA  676 (899)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHH
Confidence            44567778888888888888888888887776655 56677777788888888888888888777654 44566777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      ..+...|++++|.++++.+.+.+ +++...+..+...+.+.|++++|.+.|+++...   .|+..++..+..++.+.|++
T Consensus       677 ~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~  752 (899)
T TIGR02917       677 QLLLAAKRTESAKKIAKSLQKQH-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR---APSSQNAIKLHRALLASGNT  752 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHhhC-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CCCchHHHHHHHHHHHCCCH
Confidence            77777777777777777776654 235556666667777777777777777776654   23335555666666777777


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      ++|.+ .+..+....+. +...+..+...|...|++++|.+.|+++.+.. +.+...+..+...+...|+ .+|+..+++
T Consensus       753 ~~A~~-~~~~~l~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~-~~A~~~~~~  828 (899)
T TIGR02917       753 AEAVK-TLEAWLKTHPN-DAVLRTALAELYLAQKDYDKAIKHYRTVVKKA-PDNAVVLNNLAWLYLELKD-PRALEYAEK  828 (899)
T ss_pred             HHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCc-HHHHHHHHH
Confidence            77766 66665554432 45566666666666677777776666666553 3344455555555555555 445555555


Q ss_pred             HhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          247 WKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       247 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      ..+..  +.+..++..+..++...|++++|..+++++++.
T Consensus       829 ~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~  866 (899)
T TIGR02917       829 ALKLA--PNIPAILDTLGWLLVEKGEADRALPLLRKAVNI  866 (899)
T ss_pred             HHhhC--CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            54432  223334444555555555555555555555543

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=99.90  E-value=5.9e-20  Score=167.85  Aligned_cols=270  Identities=13%  Similarity=-0.002  Sum_probs=175.4

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      +.++..+..+...+...|++++|...|+++....| +...+..++..+...|++++|.+.|+++...+ +.+..++..+.
T Consensus       462 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  540 (899)
T TIGR02917       462 PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQEGNPDDAIQRFEKVLTID-PKNLRAILALA  540 (899)
T ss_pred             CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHH
Confidence            34566677777777777777777777777666555 55666667777777777777777777776654 34566677777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      ..+.+.|+.++|..+++++.+.+. .+...+..++..+.+.|++++|..+++.+...  .+.+..+|..+..++.+.|++
T Consensus       541 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  617 (899)
T TIGR02917       541 GLYLRTGNEEEAVAWLEKAAELNP-QEIEPALALAQYYLGKGQLKKALAILNEAADA--APDSPEAWLMLGRAQLAAGDL  617 (899)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCc-cchhHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCH
Confidence            777777777777777777665432 34455666666677777777777777776652  345566677777777777777


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      ++|.. .+..+.+..+ .+...+..+...+...|++++|..+++++.+.. +.+...+..++..+...|++++|.++++.
T Consensus       618 ~~A~~-~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  694 (899)
T TIGR02917       618 NKAVS-SFKKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKS  694 (899)
T ss_pred             HHHHH-HHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            77777 6666655432 244556666666667777777777777666542 22345556666666666666666666666


Q ss_pred             HhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          247 WKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       247 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      +.+..  +++...+..+...+...|++++|...|+++.+.
T Consensus       695 ~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  732 (899)
T TIGR02917       695 LQKQH--PKAALGFELEGDLYLRQKDYPAAIQAYRKALKR  732 (899)
T ss_pred             HHhhC--cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh
Confidence            66543  244555666666666666666666666666553

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.

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.85  E-value=1.3e-17  Score=145.70  Aligned_cols=265  Identities=11%  Similarity=-0.031  Sum_probs=177.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      +..+..+...+...|++++|...|+......| +...+..++..+...|++++|...++.+.... +.+...+..+ ..+
T Consensus       110 ~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~-P~~~~a~~~~-~~l  187 (656)
T PRK15174        110 PEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEV-PPRGDMIATC-LSF  187 (656)
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-CCCHHHHHHH-HHH
Confidence            44556666666777777777777777666555 56666667777777777777777777665543 2233333333 235


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh-
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN-  168 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-  168 (295)
                      .+.|++++|...++.+.+....++...+..+..++.+.|++++|...++++...  .+.+...+..+...+...|++++ 
T Consensus       188 ~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~--~p~~~~~~~~Lg~~l~~~G~~~eA  265 (656)
T PRK15174        188 LNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALAR--GLDGAALRRSLGLAYYQSGRSREA  265 (656)
T ss_pred             HHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCchhh
Confidence            666777777777777665533333444444556677778888888888777764  24556677777888888888775 


Q ss_pred             ---HHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 022531          169 ---AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIID  245 (295)
Q Consensus       169 ---a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  245 (295)
                         |.. .++......+. +...+..+...+...|++++|+..+++..... +.+...+..+..++.+.|++++|.+.|+
T Consensus       266 ~~~A~~-~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~-P~~~~a~~~La~~l~~~G~~~eA~~~l~  342 (656)
T PRK15174        266 KLQAAE-HWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLATH-PDLPYVRAMYARALRQVGQYTAASDEFV  342 (656)
T ss_pred             HHHHHH-HHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence               666 67766665443 56677778888888888888888888877653 2234455667778888888888888888


Q ss_pred             HHhhhcCCCCCH-HHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          246 QWKQSATSDFDI-SACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       246 ~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ++....   |+. ..+..+..++...|+.++|...|++..+
T Consensus       343 ~al~~~---P~~~~~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        343 QLAREK---GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHHhC---ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            877643   332 3344456677888888888888888766

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=2.5e-17  Score=143.98  Aligned_cols=267  Identities=9%  Similarity=-0.074  Sum_probs=211.8

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      +..+..++.+....|++++|...|+.+....| +...+..+...+...|++++|...+++..+.. +.+...+..+...+
T Consensus        76 ~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l  154 (656)
T PRK15174         76 RDLLRRWVISPLASSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTL  154 (656)
T ss_pred             hhHHHHHhhhHhhcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            44455666777789999999999999988877 67788888999999999999999999998764 44677888899999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      ...|++++|...++++...... +...+..+ ..+.+.|++++|...++.+... ...++......+..++.+.|++++|
T Consensus       155 ~~~g~~~eA~~~~~~~~~~~P~-~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~-~~~~~~~~~~~l~~~l~~~g~~~eA  231 (656)
T PRK15174        155 VLMDKELQAISLARTQAQEVPP-RGDMIATC-LSFLNKSRLPEDHDLARALLPF-FALERQESAGLAVDTLCAVGKYQEA  231 (656)
T ss_pred             HHCCChHHHHHHHHHHHHhCCC-CHHHHHHH-HHHHHcCCHHHHHHHHHHHHhc-CCCcchhHHHHHHHHHHHCCCHHHH
Confidence            9999999999999988765333 22333333 3477889999999999988765 2233444555667788899999999


Q ss_pred             HHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHH----HHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 022531          170 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK----IDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIID  245 (295)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~----a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  245 (295)
                      .. .+.......+. +...+..+...+...|++++    |...|++..... +.+...+..+...+...|++++|...++
T Consensus       232 ~~-~~~~al~~~p~-~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~  308 (656)
T PRK15174        232 IQ-TGESALARGLD-GAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQ  308 (656)
T ss_pred             HH-HHHHHHhcCCC-CHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            99 88888776543 56777888889999999885    799999887763 2345677889999999999999999999


Q ss_pred             HHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          246 QWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       246 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      +.....  +.+...+..+..++.+.|++++|...++++.+.
T Consensus       309 ~al~l~--P~~~~a~~~La~~l~~~G~~~eA~~~l~~al~~  347 (656)
T PRK15174        309 QSLATH--PDLPYVRAMYARALRQVGQYTAASDEFVQLARE  347 (656)
T ss_pred             HHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            988854  345667788899999999999999999998864

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

Probab=99.81  E-value=4.5e-19  Score=140.24  Aligned_cols=268  Identities=15%  Similarity=0.101  Sum_probs=115.0

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhh-cccC-CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEG-LPLS-AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~-~~~~-~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      .|+...+ .+...+.+.|++++|.++++. +... +| +...|..+.......++++.|...++++...+- -++..+..
T Consensus         6 ~~~~~~l-~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~   83 (280)
T PF13429_consen    6 GPSEEAL-RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYER   83 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccc-ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccc
Confidence            3443333 567888899999999999965 4444 35 677777788888889999999999999998763 35667878


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  164 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (295)
                      ++.. ...+++++|.+++.+..+..  ++...+...+..+.+.++++++..+++.+......+++...|..+...+.+.|
T Consensus        84 l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G  160 (280)
T PF13429_consen   84 LIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLG  160 (280)
T ss_dssp             -------------------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCC
T ss_pred             cccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcC
Confidence            8887 79999999999998876653  56677888889999999999999999998865455678888999999999999


Q ss_pred             chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 022531          165 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII  244 (295)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  244 (295)
                      +.++|.+ .+++..+..+. |....+.++..+...|+.+++.++++...... +.++..+..+..+|...|+.++|+.+|
T Consensus       161 ~~~~A~~-~~~~al~~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~  237 (280)
T PF13429_consen  161 DPDKALR-DYRKALELDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYL  237 (280)
T ss_dssp             HHHHHHH-HHHHHHHH-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHH
T ss_pred             CHHHHHH-HHHHHHHcCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhccccccccccccc
Confidence            9999999 99998887765 66778889999999999999999999887764 455567788999999999999999999


Q ss_pred             HHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          245 DQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ++..+..  +.|......+..++...|+.++|.++..+..+
T Consensus       238 ~~~~~~~--p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  238 EKALKLN--PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHS--TT-HHHHHHHHHHHT-----------------
T ss_pred             ccccccc--cccccccccccccccccccccccccccccccc
Confidence            9998865  45888889999999999999999999887654

>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=99.81  E-value=6.4e-16  Score=135.25  Aligned_cols=185  Identities=11%  Similarity=-0.079  Sum_probs=133.3

Q ss_pred             HHHHHHHHHHHHhCC-CCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHH
Q 022531           95 VEKVALVVEEIKRKN-VVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  172 (295)
Q Consensus        95 ~~~a~~~~~~m~~~~-~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (295)
                      +++|.+.|++..+.+ ..| ....+..+...+...|++++|+..|++....  .+.....|..+..++...|++++|.. 
T Consensus       310 y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~-  386 (615)
T TIGR00990       310 YEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEE-  386 (615)
T ss_pred             HHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHH-
Confidence            444444444444432 122 2344566666667778888888888887763  23445677788888888888888888 


Q ss_pred             HHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcC
Q 022531          173 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  252 (295)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  252 (295)
                      .++......+ .+..+|..+...+...|++++|+..|++..+.. +.+...+..+...+.+.|++++|+..|++..+.. 
T Consensus       387 ~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~-  463 (615)
T TIGR00990       387 DFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASSMATFRRCKKNF-  463 (615)
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-
Confidence            7777766543 356677888888888899999998888887753 2345556677888888899999999998887743 


Q ss_pred             CCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          253 SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       253 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                       +.+...|+.+..++...|++++|...|++.++.
T Consensus       464 -P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       464 -PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             -CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence             345677888888899999999999999888764

>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=99.80  E-value=5.9e-16  Score=135.45  Aligned_cols=255  Identities=9%  Similarity=-0.040  Sum_probs=207.6

Q ss_pred             ccChhHHHHHHhhcccC---CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 022531           24 VFGIHSGERYFEGLPLS---AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   99 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~---~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~   99 (295)
                      .+++++|.+.|+.....   .| ....|+.+...+...|++++|+..|++..+.. +-+...|..+...+...|++++|+
T Consensus       307 ~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~  385 (615)
T TIGR00990       307 DESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAE  385 (615)
T ss_pred             hhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHH
Confidence            36789999999988764   34 56788999999999999999999999998874 334678899999999999999999


Q ss_pred             HHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Q 022531          100 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       100 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                      ..|++..+... .+..+|..+...+...|++++|...|++....  .+.+...+..+..++.+.|++++|.. .+.....
T Consensus       386 ~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~-~~~~al~  461 (615)
T TIGR00990       386 EDFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKEGSIASSMA-TFRRCKK  461 (615)
T ss_pred             HHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHH
Confidence            99999988632 35778889999999999999999999999874  35567788889999999999999999 8888876


Q ss_pred             hcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHH------hHHHHHHHHHhcCChHHHHHHHHHHhhhcCC
Q 022531          180 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR------NYICILSSYLMLGHLKEVGEIIDQWKQSATS  253 (295)
Q Consensus       180 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~  253 (295)
                      ..+. +...|+.+...+...|++++|++.|++........+..      .++.....+...|++++|.+++++..+..  
T Consensus       462 ~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~--  538 (615)
T TIGR00990       462 NFPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID--  538 (615)
T ss_pred             hCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--
Confidence            5543 56788889999999999999999999987653221111      11222233445799999999999987753  


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          254 DFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       254 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      +.+...+..+...+.+.|++++|..+|++..+.
T Consensus       539 p~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       539 PECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            345667899999999999999999999998753

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

Probab=99.78  E-value=9.5e-17  Score=131.38  Aligned_cols=267  Identities=15%  Similarity=0.085  Sum_probs=222.7

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      .|+.|...+-..|++..|+..|++.....| -...|-.|...|...+.+++|+..+.+..... +-...++..|...|..
T Consensus       220 awsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYye  298 (966)
T KOG4626|consen  220 AWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYE  298 (966)
T ss_pred             eehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEec
Confidence            456677777788888888888888888777 46788888899988999999999888877653 2345677888888889


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           92 VGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      .|.++-|+..|++..+.  +|+ ...|+.+..++-..|+..+|...|.+...-  .+......+.|...|...|.+++|.
T Consensus       299 qG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~A~  374 (966)
T KOG4626|consen  299 QGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEEAT  374 (966)
T ss_pred             cccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchHHH
Confidence            99999999999998884  565 567999999999999999999999998874  4556678899999999999999999


Q ss_pred             HHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          171 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      . ++...++-.+. -...++.|...|-..|++++|+..|++...  ++|+. ..|+.+...|-..|+.+.|.+.+.+.+.
T Consensus       375 ~-ly~~al~v~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~  450 (966)
T KOG4626|consen  375 R-LYLKALEVFPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQ  450 (966)
T ss_pred             H-HHHHHHhhChh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHh
Confidence            9 88877765543 456789999999999999999999998776  46664 5688889999999999999999999887


Q ss_pred             hcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          250 SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       250 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      -+  +.-...++.|...|..+|++.+|..-++..+.  ++||.
T Consensus       451 ~n--Pt~AeAhsNLasi~kDsGni~~AI~sY~~aLk--lkPDf  489 (966)
T KOG4626|consen  451 IN--PTFAEAHSNLASIYKDSGNIPEAIQSYRTALK--LKPDF  489 (966)
T ss_pred             cC--cHHHHHHhhHHHHhhccCCcHHHHHHHHHHHc--cCCCC
Confidence            43  23467899999999999999999999999886  77775

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.78  E-value=2e-15  Score=118.67  Aligned_cols=277  Identities=14%  Similarity=0.149  Sum_probs=186.2

Q ss_pred             CCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCC--CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531            7 FVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus         7 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      .+-++++|.++|.++|+-...+.|.+++++.....  .+..+||.+|.+-.-..+    .+++.+|.+..++||..|+|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHH
Confidence            34578999999999999999999999999887762  488999999876543322    788999999999999999999


Q ss_pred             HHHHHHhcCCHHH----HHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHH-HHHHHHHHhhc-C--CC----CCCHHH
Q 022531           85 MMTLYMSVGQVEK----VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ-VKKFLDEMSCD-S--GG----SDDWVK  152 (295)
Q Consensus        85 li~~~~~~~~~~~----a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~-a~~~~~~~~~~-~--~~----~~~~~~  152 (295)
                      ++++.++.|+++.    |.+++.+|++-|+.|...+|..+|..+.+-+++.+ +..++.++... .  .+    +.+...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            9999999998764    56778889999999999999999999998888754 44444444331 0  12    223344


Q ss_pred             HHHHHHHHHhcCchhhHHHH-----------------------------------------HHHHHHHhcCCCccccHHH
Q 022531          153 YVNLVNIYITASHLVNAESS-----------------------------------------TLVEAEKSITQRQWITYDF  191 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~-----------------------------------------~~~~~~~~~~~~~~~~~~~  191 (295)
                      +...+..|.+..+.+-|.++                                         .++.+.-...-|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            56666777777777767662                                         2222222223344555566


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCC---------------------------------------------------
Q 022531          192 LIILYAGLGNKDKIDQIWKSLRMTKQKMT---------------------------------------------------  220 (295)
Q Consensus       192 li~~~~~~g~~~~a~~~~~~m~~~~~~~~---------------------------------------------------  220 (295)
                      ++++....|.++-.-++|..+...|...+                                                   
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~  518 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQ  518 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhc
Confidence            66777777777777777777665553111                                                   


Q ss_pred             ---HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHH---HHHHHHHccCChHHHHHHHHHHHhcC
Q 022531          221 ---SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN---RLLGAFSDVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       221 ---~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~a~~~~~~m~~~g  287 (295)
                         ....+.+...+.|.|+.++|.++|..+.+++...|-....|   -+++.-.+......|..+++-|...+
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               11233444455667777777777766644332223333333   44455555666666666666665443

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

Probab=99.76  E-value=2.9e-16  Score=128.61  Aligned_cols=269  Identities=14%  Similarity=0.031  Sum_probs=172.4

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHH--------
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL--------   80 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--------   80 (295)
                      -..+|..+.+.+-..|++++|+.+++.+.+..| .+..|..+..++...|+.+.|...|.+.++.+  |+..        
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqln--P~l~ca~s~lgn  192 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLN--PDLYCARSDLGN  192 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcC--cchhhhhcchhH
Confidence            356888899999999999999999999998877 78899999999999999999999998887764  4332        


Q ss_pred             ---------------------------HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHH
Q 022531           81 ---------------------------MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQ  132 (295)
Q Consensus        81 ---------------------------~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~  132 (295)
                                                 +|..|...+-..|+...|+..|++....  .|+ ...|-.|...|...+.+++
T Consensus       193 Llka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~  270 (966)
T KOG4626|consen  193 LLKAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDR  270 (966)
T ss_pred             HHHhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchH
Confidence                                       2333333444445555555555555442  333 2345555555555555566


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531          133 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSL  212 (295)
Q Consensus       133 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  212 (295)
                      |...|.+....  -+....++..+...|-..|.+|.|.. .+++..+..+. -...|+.|..++-..|++.+|++.|.+.
T Consensus       271 Avs~Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~-~Ykral~~~P~-F~~Ay~NlanALkd~G~V~ea~~cYnka  346 (966)
T KOG4626|consen  271 AVSCYLRALNL--RPNHAVAHGNLACIYYEQGLLDLAID-TYKRALELQPN-FPDAYNNLANALKDKGSVTEAVDCYNKA  346 (966)
T ss_pred             HHHHHHHHHhc--CCcchhhccceEEEEeccccHHHHHH-HHHHHHhcCCC-chHHHhHHHHHHHhccchHHHHHHHHHH
Confidence            65555555432  12334445555555555666666666 55555544332 2356777777777777777777777766


Q ss_pred             HhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCC
Q 022531          213 RMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  291 (295)
Q Consensus       213 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~  291 (295)
                      .... .--....+.|...|...|.+++|..+|....+-.  +--...++.|...|.+.|++++|...+++.++  ++|+
T Consensus       347 L~l~-p~hadam~NLgni~~E~~~~e~A~~ly~~al~v~--p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~  420 (966)
T KOG4626|consen  347 LRLC-PNHADAMNNLGNIYREQGKIEEATRLYLKALEVF--PEFAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPT  420 (966)
T ss_pred             HHhC-CccHHHHHHHHHHHHHhccchHHHHHHHHHHhhC--hhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCch
Confidence            5542 1123345556677777777777777777666532  22345567777777777777777777777665  5554

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.75  E-value=1e-14  Score=135.86  Aligned_cols=269  Identities=10%  Similarity=-0.040  Sum_probs=213.3

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      .+..+...+...|++++|.+.|++.....| +...+..+...+.+.|++++|...|+++.+.. +.+...+..+...+..
T Consensus       463 ~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~  541 (1157)
T PRK11447        463 RLAQQAEALENQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSG  541 (1157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHh
Confidence            355567778889999999999999998878 67888999999999999999999999998754 4466667667777888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChH---------hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 022531           92 VGQVEKVALVVEEIKRKNVVPDIF---------TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  162 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~~~---------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (295)
                      .++.++|+..++.+......++..         .+..+...+...|++++|..+++.      .+++...+..+...+.+
T Consensus       542 ~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~  615 (1157)
T PRK11447        542 SDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQ  615 (1157)
T ss_pred             CCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHH
Confidence            999999999998875443332221         123456678899999999999872      24566677889999999


Q ss_pred             cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHH
Q 022531          163 ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGE  242 (295)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  242 (295)
                      .|++++|.. .+.......+. +...+..++..|...|+.++|++.++.+.... +.+......+..++...|++++|.+
T Consensus       616 ~g~~~~A~~-~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~-p~~~~~~~~la~~~~~~g~~~eA~~  692 (1157)
T PRK11447        616 RGDYAAARA-AYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPATA-NDSLNTQRRVALAWAALGDTAAAQR  692 (1157)
T ss_pred             cCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC-CCChHHHHHHHHHHHhCCCHHHHHH
Confidence            999999999 89888876544 67788999999999999999999999887642 2234456668888999999999999


Q ss_pred             HHHHHhhhcCCCC----CHHHHHHHHHHHHccCChHHHHHHHHHHHh-cCCCCC
Q 022531          243 IIDQWKQSATSDF----DISACNRLLGAFSDVGLTEKANEFHMLLLQ-KNCAPT  291 (295)
Q Consensus       243 ~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~-~g~~p~  291 (295)
                      +++.+.......|    +...+..+...+...|+.++|...|++.+. .|+.|+
T Consensus       693 ~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        693 TFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             HHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence            9999887532212    234666678889999999999999998863 456554

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.74  E-value=3.9e-14  Score=117.23  Aligned_cols=260  Identities=10%  Similarity=0.047  Sum_probs=196.9

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHH--HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYT--ALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      |-....+..+.|+++.|...|.++.+..|+.....  .....+...|+++.|...++++.+.. |-++.....+...|.+
T Consensus       121 ~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~  199 (398)
T PRK10747        121 YLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIR  199 (398)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHH
Confidence            33334555788999999999998888777654333  33567888899999999999988875 4567788888889999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCh-------HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 022531           92 VGQVEKVALVVEEIKRKNVVPDI-------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  164 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (295)
                      .|+|++|.+++..+.+.+..++.       .+|..++.......+.+...++++.....  .+.++.....+...+...|
T Consensus       200 ~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~~--~~~~~~~~~~~A~~l~~~g  277 (398)
T PRK10747        200 TGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSRK--TRHQVALQVAMAEHLIECD  277 (398)
T ss_pred             HHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCHH--HhCCHHHHHHHHHHHHHCC
Confidence            99999999999998887654322       13333444444445566666677766553  3567778889999999999


Q ss_pred             chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 022531          165 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII  244 (295)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  244 (295)
                      +.++|.+ .+.+..+..  ++..  -.++.+....++.+++.+..+...+.. +-|...+..+.+.|.+.+++++|.+.|
T Consensus       278 ~~~~A~~-~L~~~l~~~--~~~~--l~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~l  351 (398)
T PRK10747        278 DHDTAQQ-IILDGLKRQ--YDER--LVLLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAF  351 (398)
T ss_pred             CHHHHHH-HHHHHHhcC--CCHH--HHHHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999 777776633  3331  123344446699999999999988763 334455778999999999999999999


Q ss_pred             HHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          245 DQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +...+.   .|+...|..+..++.+.|+.++|.+++++...
T Consensus       352 e~al~~---~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        352 RAALKQ---RPDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             HHHHhc---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            999874   48888888999999999999999999998765

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.73  E-value=3.9e-14  Score=131.97  Aligned_cols=261  Identities=10%  Similarity=0.022  Sum_probs=184.9

Q ss_pred             HHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH----------
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM----------   86 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li----------   86 (295)
                      ...+.+.|++++|...|+++....| +...+..+...+...|++++|++.|++..+.. +.+...+..+.          
T Consensus       358 g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~  436 (1157)
T PRK11447        358 GDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEK  436 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHH
Confidence            4466788999999999999888776 67788888899999999999999999888754 23343433332          


Q ss_pred             --------------------------------HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHH
Q 022531           87 --------------------------------TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVK  134 (295)
Q Consensus        87 --------------------------------~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~  134 (295)
                                                      ..+...|++++|++.|++..+.... +...+..+...|.+.|++++|.
T Consensus       437 A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~  515 (1157)
T PRK11447        437 ALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQAD  515 (1157)
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHH
Confidence                                            3344678888888888888775322 4566777888888889999999


Q ss_pred             HHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH-----------------------------------
Q 022531          135 KFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK-----------------------------------  179 (295)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----------------------------------  179 (295)
                      ..++++...  .+.+...+..+...+...++.++|.. .++.+..                                   
T Consensus       516 ~~l~~al~~--~P~~~~~~~a~al~l~~~~~~~~Al~-~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA  592 (1157)
T PRK11447        516 ALMRRLAQQ--KPNDPEQVYAYGLYLSGSDRDRAALA-HLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEA  592 (1157)
T ss_pred             HHHHHHHHc--CCCCHHHHHHHHHHHHhCCCHHHHHH-HHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHH
Confidence            998888764  22333333333333344444444444 3222100                                   


Q ss_pred             ----hcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC
Q 022531          180 ----SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF  255 (295)
Q Consensus       180 ----~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~  255 (295)
                          ...+.+...+..+...+.+.|+.++|++.|++..... +.+...+..++..|...|+.++|.+.++...+..  +.
T Consensus       593 ~~~l~~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--p~  669 (1157)
T PRK11447        593 EALLRQQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA--ND  669 (1157)
T ss_pred             HHHHHhCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CC
Confidence                0122344566677788888999999999999888763 3356677788899999999999999999877643  34


Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          256 DISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      +..++..+..++...|++++|.+++++++..
T Consensus       670 ~~~~~~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        670 SLNTQRRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            5566777888888999999999999998764

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.72  E-value=5.5e-14  Score=126.54  Aligned_cols=264  Identities=7%  Similarity=-0.131  Sum_probs=169.3

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      +...|..+..++.. ++.++|...|.......|+......+...+...|++++|...|+++...  +|+...+..+...+
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~al  552 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTA  552 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHH
Confidence            45556666666665 6777777777666666665444444445556777788888887776544  34455566666777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      .+.|++++|...|++..+.+. ++...+..+.....+.|++++|...+++..+.   .|+...+..+..++.+.|+.++|
T Consensus       553 l~~Gd~~eA~~~l~qAL~l~P-~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA  628 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQRGL-GDNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVPAA  628 (987)
T ss_pred             HHCCCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHH
Confidence            777788888887777776531 12222333333344557788888877777754   24566777777777788888888


Q ss_pred             HHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          170 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      .. .+.......+. +...++.+..++...|+.++|+..+++..+.. +-+...+..+..++...|++++|+..|++..+
T Consensus       629 ~~-~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~  705 (987)
T PRK09782        629 VS-DLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVID  705 (987)
T ss_pred             HH-HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh
Confidence            77 77776665543 55666777777777788888888777776653 22345566677777778888888887777776


Q ss_pred             hcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          250 SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       250 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..  +-+..+.........+..+++.|.+-+++...
T Consensus       706 l~--P~~a~i~~~~g~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        706 DI--DNQALITPLTPEQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             cC--CCCchhhhhhhHHHHHHHHHHHHHHHHHHHhh
Confidence            33  22334444455555566666666665555443

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

Probab=99.71  E-value=3.2e-15  Score=123.25  Aligned_cols=257  Identities=16%  Similarity=0.101  Sum_probs=201.5

Q ss_pred             ChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC------------------------------
Q 022531           26 GIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSN------------------------------   74 (295)
Q Consensus        26 ~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~------------------------------   74 (295)
                      +..+|...|..++.+.+ +..+...+..+|...+++++|.++|+.+.+..                              
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~L  413 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDL  413 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHH
Confidence            35677777777666655 34556667777777888888888887775532                              


Q ss_pred             ---CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH
Q 022531           75 ---LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW  150 (295)
Q Consensus        75 ---~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  150 (295)
                         -+-.+.+|-++.++|.-.++.+.|++.|++..+.  .| ...+|+.+..-+.....+|.|...|+....-  .+-+-
T Consensus       414 i~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~~rhY  489 (638)
T KOG1126|consen  414 IDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--DPRHY  489 (638)
T ss_pred             HhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--Cchhh
Confidence               0126789999999999999999999999999885  45 6788998888899999999999999998853  22344


Q ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHH
Q 022531          151 VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSS  230 (295)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  230 (295)
                      .+|.-+...|.+.++++.|+- .|++..+-.+. +.+....+...+-+.|+.++|++++++......+ |+..--.-+..
T Consensus       490 nAwYGlG~vy~Kqek~e~Ae~-~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~k-n~l~~~~~~~i  566 (638)
T KOG1126|consen  490 NAWYGLGTVYLKQEKLEFAEF-HFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPK-NPLCKYHRASI  566 (638)
T ss_pred             HHHHhhhhheeccchhhHHHH-HHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCC-CchhHHHHHHH
Confidence            456667888999999999999 88888776654 6677777788889999999999999998766432 33333345666


Q ss_pred             HHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCC
Q 022531          231 YLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  291 (295)
Q Consensus       231 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~  291 (295)
                      +...++.++|++.++++++  ..+.+...|..+...|.+.|+.+.|+.-|..+.+.+-++.
T Consensus       567 l~~~~~~~eal~~LEeLk~--~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~  625 (638)
T KOG1126|consen  567 LFSLGRYVEALQELEELKE--LVPQESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGA  625 (638)
T ss_pred             HHhhcchHHHHHHHHHHHH--hCcchHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccc
Confidence            7778999999999999998  4445677899999999999999999999998887554443

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.71  E-value=2.5e-14  Score=112.61  Aligned_cols=240  Identities=15%  Similarity=0.106  Sum_probs=193.5

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHH
Q 022531           42 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  121 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li  121 (295)
                      .+..+|.+||.++|+-...+.|.+++++......+.+..+||.+|.+-.-..    ..++..+|....+.||..|||+++
T Consensus       205 KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqkm~Pnl~TfNalL  280 (625)
T KOG4422|consen  205 KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQKMTPNLFTFNALL  280 (625)
T ss_pred             CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhhcCCchHhHHHHH
Confidence            3788999999999999999999999999998888899999999998765433    378899999999999999999999


Q ss_pred             HHHHccCCHHH----HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh-HHHHHHHHHHHhc----CCC----cccc
Q 022531          122 SSCAATLNIDQ----VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN-AESSTLVEAEKSI----TQR----QWIT  188 (295)
Q Consensus       122 ~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~~~~----~~~----~~~~  188 (295)
                      ++.++.|+++.    |.+++.+|++- |+.|+..+|..+|..+++.++..+ +.. +..++....    .+|    |...
T Consensus       281 ~c~akfg~F~~ar~aalqil~EmKei-GVePsLsSyh~iik~f~re~dp~k~as~-~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  281 SCAAKFGKFEDARKAALQILGEMKEI-GVEPSLSSYHLIIKNFKRESDPQKVASS-WINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHhcchHHHHHHHHHHHHHHHHh-CCCcchhhHHHHHHHhcccCCchhhhHH-HHHHHHHhhccCcccCCCCchhHH
Confidence            99999998765    45778889988 999999999999999999988755 344 555554422    222    3344


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcc----CCCCH---HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHH
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRMTK----QKMTS---RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN  261 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~~~~---~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  261 (295)
                      |..-+..|.+..+.+-|.++-..+....    +.|+.   .-|..+..+.|+....+.-...|+.|...-. -|+..+..
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y-~p~~~~m~  437 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAY-FPHSQTMI  437 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcccee-cCCchhHH
Confidence            5566677888888888888877654321    23332   1245688888999999999999999988755 48888899


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhcCC
Q 022531          262 RLLGAFSDVGLTEKANEFHMLLLQKNC  288 (295)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~m~~~g~  288 (295)
                      .++++....|.++-..++|.++++.|-
T Consensus       438 ~~lrA~~v~~~~e~ipRiw~D~~~~gh  464 (625)
T KOG4422|consen  438 HLLRALDVANRLEVIPRIWKDSKEYGH  464 (625)
T ss_pred             HHHHHHhhcCcchhHHHHHHHHHHhhh
Confidence            999999999999999999999988773

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.69  E-value=5.7e-13  Score=119.18  Aligned_cols=274  Identities=10%  Similarity=-0.046  Sum_probs=158.6

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      +..+..+...+...|++++|...++.+....| +.. +..+..++...|+.++|+..++++.+.. +.+...+..+...+
T Consensus        83 ~~a~~~la~~l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~-P~~~~~~~~la~~l  160 (765)
T PRK10049         83 DDYQRGLILTLADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRA-PQTQQYPTEYVQAL  160 (765)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            44455555666666666666666666665555 444 6666666666666666666666666553 23344444444444


Q ss_pred             HhcCCHHHHHHHH----------------------------------------------HHHHhC-CCCCChH-hHH---
Q 022531           90 MSVGQVEKVALVV----------------------------------------------EEIKRK-NVVPDIF-TYN---  118 (295)
Q Consensus        90 ~~~~~~~~a~~~~----------------------------------------------~~m~~~-~~~p~~~-~~~---  118 (295)
                      ...+..++|++.+                                              +.+.+. ...|+.. .+.   
T Consensus       161 ~~~~~~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~  240 (765)
T PRK10049        161 RNNRLSAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRAR  240 (765)
T ss_pred             HHCCChHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHH
Confidence            4444444333222                                              222221 1111111 010   


Q ss_pred             -HHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC---ccccHHHHHH
Q 022531          119 -LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR---QWITYDFLII  194 (295)
Q Consensus       119 -~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~li~  194 (295)
                       ..+..+...|++++|+..|+.+.+.....|+. ....+..+|...|++++|.. .++.+....+..   .......+..
T Consensus       241 ~d~l~~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~-~l~~~l~~~p~~~~~~~~~~~~L~~  318 (765)
T PRK10049        241 IDRLGALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQS-ILTELFYHPETIADLSDEELADLFY  318 (765)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHH-HHHHHhhcCCCCCCCChHHHHHHHH
Confidence             00223445577777888888777652111222 12224667778888888888 777765533221   1223445566


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccC-----------CCCH---HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHH
Q 022531          195 LYAGLGNKDKIDQIWKSLRMTKQ-----------KMTS---RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC  260 (295)
Q Consensus       195 ~~~~~g~~~~a~~~~~~m~~~~~-----------~~~~---~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  260 (295)
                      ++...|++++|.++++.+.....           .|+.   ..+..+...+...|+.++|+++++++....  +.+...+
T Consensus       319 a~~~~g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~--P~n~~l~  396 (765)
T PRK10049        319 SLLESENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA--PGNQGLR  396 (765)
T ss_pred             HHHhcccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHH
Confidence            67788888888888887765421           1221   233456667777888888888888877654  3456677


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          261 NRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       261 ~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      ..+...+...|++++|++.+++.++  ..|+.
T Consensus       397 ~~lA~l~~~~g~~~~A~~~l~~al~--l~Pd~  426 (765)
T PRK10049        397 IDYASVLQARGWPRAAENELKKAEV--LEPRN  426 (765)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHh--hCCCC
Confidence            7788888888888888888887776  44654

>TIGR00540 hemY_coli hemY protein

Probab=99.69  E-value=4.5e-13  Score=111.51  Aligned_cols=272  Identities=10%  Similarity=0.025  Sum_probs=196.4

Q ss_pred             CCCHHH-HHHHHHHHHhccChhHHHHHHhhcccCCCCH--HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531            8 VLSDSD-YATRIDLMTKVFGIHSGERYFEGLPLSAKTS--ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus         8 ~~~~~~-~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~--~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      .|++.. +-....+..+.|+.+.|.+.|....+..|+.  ...-.....+...|+++.|.+.++.+.+.. |-++.+...
T Consensus       114 ~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~l  192 (409)
T TIGR00540       114 AAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKL  192 (409)
T ss_pred             CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            454433 3445677788899999999999987766654  344445888888999999999999999886 457778999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHH-HHHHHH---HccCCHHHHHHHHHHHhhcC--CCCCCHHHHHHHHH
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYN-LWISSC---AATLNIDQVKKFLDEMSCDS--GGSDDWVKYVNLVN  158 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~-~li~~~---~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~  158 (295)
                      +...+.+.|++++|.+++..+.+.++. +...+. .-..++   ...+..+++.+.+..+....  ..+.+...+..+..
T Consensus       193 l~~~~~~~~d~~~a~~~l~~l~k~~~~-~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~  271 (409)
T TIGR00540       193 AEEAYIRSGAWQALDDIIDNMAKAGLF-DDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAE  271 (409)
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHH
Confidence            999999999999999999999988754 333332 111221   23333344444555555431  11247888899999


Q ss_pred             HHHhcCchhhHHHHHHHHHHHhcCCCccccH-HHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHH---hHHHHHHHHHhc
Q 022531          159 IYITASHLVNAESSTLVEAEKSITQRQWITY-DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR---NYICILSSYLML  234 (295)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~  234 (295)
                      .+...|+.++|.+ .+++..+..+......+ ..........++.+.+.+.++...+.  .|+..   ...++...+.+.
T Consensus       272 ~l~~~g~~~~A~~-~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p~~~~~~ll~sLg~l~~~~  348 (409)
T TIGR00540       272 HLIDCDDHDSAQE-IIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VDDKPKCCINRALGQLLMKH  348 (409)
T ss_pred             HHHHCCChHHHHH-HHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHHHc
Confidence            9999999999999 88888776654322211 11222233457888899998887765  45444   455789999999


Q ss_pred             CChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          235 GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       235 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      |++++|.+.|+....... .|+...+..+...+.+.|+.++|.+++++...
T Consensus       349 ~~~~~A~~~le~a~a~~~-~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       349 GEFIEAADAFKNVAACKE-QLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             ccHHHHHHHHHHhHHhhc-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999995333223 48888888999999999999999999998643

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.

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.67  E-value=1.5e-12  Score=117.51  Aligned_cols=235  Identities=11%  Similarity=-0.004  Sum_probs=189.7

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...|..+..++.. +++++|...+.+.....  |+......+...+...|++++|...|+++...  .|+...+..+..
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~  550 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAAN  550 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHH
Confidence            56788888888877 88899999888887764  66555445555667899999999999998664  445555667778


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  202 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  202 (295)
                      .+.+.|++++|...+++..+. . ++....+..+.....+.|++++|.. .+.+.....+  +...|..+...+.+.|+.
T Consensus       551 all~~Gd~~eA~~~l~qAL~l-~-P~~~~l~~~La~~l~~~Gr~~eAl~-~~~~AL~l~P--~~~a~~~LA~~l~~lG~~  625 (987)
T PRK09782        551 TAQAAGNGAARDRWLQQAEQR-G-LGDNALYWWLHAQRYIPGQPELALN-DLTRSLNIAP--SANAYVARATIYRQRHNV  625 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhc-C-CccHHHHHHHHHHHHhCCCHHHHHH-HHHHHHHhCC--CHHHHHHHHHHHHHCCCH
Confidence            889999999999999999875 2 4444445555555566799999999 8888877654  467888999999999999


Q ss_pred             HHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          203 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      ++|+..+++..... +-+...+..+..++...|+.++|++.+++..+..  +-+...+..+..++...|++++|...+++
T Consensus       626 deA~~~l~~AL~l~-Pd~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~--P~~~~a~~nLA~al~~lGd~~eA~~~l~~  702 (987)
T PRK09782        626 PAAVSDLRAALELE-PNNSNYQAALGYALWDSGDIAQSREMLERAHKGL--PDDPALIRQLAYVNQRLDDMAATQHYARL  702 (987)
T ss_pred             HHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            99999999988874 3345566778889999999999999999998854  45778899999999999999999999999


Q ss_pred             HHhcCCCCCC
Q 022531          283 LLQKNCAPTN  292 (295)
Q Consensus       283 m~~~g~~p~~  292 (295)
                      ..+  ..|+.
T Consensus       703 Al~--l~P~~  710 (987)
T PRK09782        703 VID--DIDNQ  710 (987)
T ss_pred             HHh--cCCCC
Confidence            987  44654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.66  E-value=1.8e-12  Score=116.00  Aligned_cols=274  Identities=9%  Similarity=-0.019  Sum_probs=178.9

Q ss_pred             CCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531            7 FVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus         7 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      -..++.-..-.+......|+.++|++++.......| +...+..+..++...|++++|..+|++..+.. +.+...+..+
T Consensus        11 ~~~~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~l   89 (765)
T PRK10049         11 SALSNNQIADWLQIALWAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGL   89 (765)
T ss_pred             cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            345555666667777777777777777777765333 55567777777777777777777777777653 4456666777


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH  165 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (295)
                      ...+...|++++|+..+++..+.. +.+.. +..+..++...|++++|+..++++.+.  .+.+...+..+..++...+.
T Consensus        90 a~~l~~~g~~~eA~~~l~~~l~~~-P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~  165 (765)
T PRK10049         90 ILTLADAGQYDEALVKAKQLVSGA-PDKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRL  165 (765)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCC
Confidence            777777777777777777777652 22344 666677777777777777777777763  23444455555555555555


Q ss_pred             hhhHHHH---------------------------------------------HHHHHHHh-cCCCcccc-HH----HHHH
Q 022531          166 LVNAESS---------------------------------------------TLVEAEKS-ITQRQWIT-YD----FLII  194 (295)
Q Consensus       166 ~~~a~~~---------------------------------------------~~~~~~~~-~~~~~~~~-~~----~li~  194 (295)
                      .+.|...                                             .++.+... ...|+... +.    ..+.
T Consensus       166 ~e~Al~~l~~~~~~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~  245 (765)
T PRK10049        166 SAPALGAIDDANLTPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLG  245 (765)
T ss_pred             hHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHH
Confidence            5544430                                             33333322 11222211 11    1123


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCC-CCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC--CHHHHHHHHHHHHccC
Q 022531          195 LYAGLGNKDKIDQIWKSLRMTKQK-MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--DISACNRLLGAFSDVG  271 (295)
Q Consensus       195 ~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g  271 (295)
                      ++...|++++|+..|+.+...+.. |+. ....+..+|...|++++|++.|+++.+.....+  ....+..+..++...|
T Consensus       246 ~Ll~~g~~~eA~~~~~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g  324 (765)
T PRK10049        246 ALLARDRYKDVISEYQRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESE  324 (765)
T ss_pred             HHHHhhhHHHHHHHHHHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcc
Confidence            445779999999999999887532 322 222357789999999999999999876432111  1345666777889999


Q ss_pred             ChHHHHHHHHHHHhc
Q 022531          272 LTEKANEFHMLLLQK  286 (295)
Q Consensus       272 ~~~~a~~~~~~m~~~  286 (295)
                      ++++|..+++++.+.
T Consensus       325 ~~~eA~~~l~~~~~~  339 (765)
T PRK10049        325 NYPGALTVTAHTINN  339 (765)
T ss_pred             cHHHHHHHHHHHhhc
Confidence            999999999999864

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

Probab=99.66  E-value=2.5e-15  Score=118.89  Aligned_cols=233  Identities=15%  Similarity=0.084  Sum_probs=113.0

Q ss_pred             CCHHHH-HHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            9 LSDSDY-ATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         9 ~~~~~~-~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      |+...| ..+...+...++++.|...++.+...++ +...+..++.. ...+++++|.+++++..+..  +++..+..++
T Consensus        41 ~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l  117 (280)
T PF13429_consen   41 PDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSAL  117 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccccc--cccchhhHHH
Confidence            444444 4455566678999999999999988766 67778888888 79999999999998876653  5777888999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCC-CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKN-VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH  165 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (295)
                      ..+.+.++++++..+++.+.... .+++...|..+...+.+.|++++|+..+++..+.  .|.+..+...++..+...|+
T Consensus       118 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~  195 (280)
T PF13429_consen  118 QLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGD  195 (280)
T ss_dssp             H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCH
T ss_pred             HHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCC
Confidence            99999999999999999987643 3457778888999999999999999999999985  34568888899999999999


Q ss_pred             hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 022531          166 LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIID  245 (295)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  245 (295)
                      .+++.+ ++....... +.|...+..+..+|...|+.++|..+|++..... +.|+.....+..++...|+.++|.++.+
T Consensus       196 ~~~~~~-~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~  272 (280)
T PF13429_consen  196 YDEARE-ALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRR  272 (280)
T ss_dssp             HHHHHH-HHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-------------
T ss_pred             hHHHHH-HHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccc
Confidence            999888 777766655 4466778899999999999999999999988763 4467777889999999999999999988


Q ss_pred             HHhh
Q 022531          246 QWKQ  249 (295)
Q Consensus       246 ~~~~  249 (295)
                      +..+
T Consensus       273 ~~~~  276 (280)
T PF13429_consen  273 QALR  276 (280)
T ss_dssp             ----
T ss_pred             cccc
Confidence            7654

>PRK12370 invasion protein regulator; Provisional

Probab=99.65  E-value=3.5e-13  Score=116.25  Aligned_cols=266  Identities=9%  Similarity=-0.017  Sum_probs=190.9

Q ss_pred             CHHHHHHHHHHHHh-----ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHH---------ccCcHHHHHHHHHHHHhCC
Q 022531           10 SDSDYATRIDLMTK-----VFGIHSGERYFEGLPLSAK-TSETYTALLHLYA---------GAKWTEKAEELFERVKQSN   74 (295)
Q Consensus        10 ~~~~~~~li~~~~~-----~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~---------~~~~~~~a~~~~~~m~~~~   74 (295)
                      +...|...+.+-..     .+.+++|...|++..+..| +...|..+..++.         ..+++++|...+++..+.+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld  334 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD  334 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC
Confidence            34455555555322     2347899999999998888 5667777766544         2345899999999999886


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHH
Q 022531           75 LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYV  154 (295)
Q Consensus        75 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  154 (295)
                       +-+..++..+...+...|++++|...|++..+.+. .+...+..+...+...|++++|...+++..+..  +.+...+.
T Consensus       335 -P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P-~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~--P~~~~~~~  410 (553)
T PRK12370        335 -HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSP-ISADIKYYYGWNLFMAGQLEEALQTINECLKLD--PTRAAAGI  410 (553)
T ss_pred             -CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCChhhHH
Confidence             55788899999999999999999999999998642 246678888889999999999999999998752  22333333


Q ss_pred             HHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHh-HHHHHHHHHh
Q 022531          155 NLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN-YICILSSYLM  233 (295)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-~~~li~~~~~  233 (295)
                      .++..+...|++++|.. .+.+.....++.+...+..+..++...|+.++|...+.++...  .|+... .+.+...|+.
T Consensus       411 ~~~~~~~~~g~~eeA~~-~~~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        411 TKLWITYYHTGIDDAIR-LGDELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHhccCHHHHHH-HHHHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhc
Confidence            44555677899999999 8887766543334455777888889999999999999987654  444433 4455666777


Q ss_pred             cCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcC
Q 022531          234 LGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       234 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  287 (295)
                      .|  +.|...++.+.+.....+....+  +-..+.-.|+-+.+..+ +++.+.|
T Consensus       488 ~g--~~a~~~l~~ll~~~~~~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQRIDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhHhhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            77  47888888776643333433333  34445666777666655 7777654

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.65  E-value=4e-12  Score=99.42  Aligned_cols=269  Identities=11%  Similarity=0.052  Sum_probs=215.4

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccC--CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLS--AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      .|-.-.++..+.|+.+.|-.++.+..+.  .++...+-+..+.....|+.+.|..-+.++.+.+ +-++........+|.
T Consensus       120 ~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v~~ll~~~-pr~~~vlrLa~r~y~  198 (400)
T COG3071         120 AYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENVDQLLEMT-PRHPEVLRLALRAYI  198 (400)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHHHHHHHhC-cCChHHHHHHHHHHH
Confidence            4666677778889999999999998887  3567778888888899999999999999988876 456788899999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCh-------HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDI-------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      +.|++.....++.+|.+.|.-.+.       .+|..+++-....+..+.-...++....+  .+.++..-.+++.-+.++
T Consensus       199 ~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~pr~--lr~~p~l~~~~a~~li~l  276 (400)
T COG3071         199 RLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQPRK--LRNDPELVVAYAERLIRL  276 (400)
T ss_pred             HhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhccHH--hhcChhHHHHHHHHHHHc
Confidence            999999999999999998875554       46788888877777777777777777663  455666777999999999


Q ss_pred             CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 022531          164 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI  243 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  243 (295)
                      |+.++|.+ +..+..+....|+    -...-.+.+.++.+.-++..++-.+.. +-++-.+..|...|.+.+.+.+|...
T Consensus       277 ~~~~~A~~-~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~L~~tLG~L~~k~~~w~kA~~~  350 (400)
T COG3071         277 GDHDEAQE-IIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPLLLSTLGRLALKNKLWGKASEA  350 (400)
T ss_pred             CChHHHHH-HHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhHHHHHHHH
Confidence            99999999 7777777776655    122234567788777777776654432 23345677899999999999999999


Q ss_pred             HHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCC
Q 022531          244 IDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  293 (295)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  293 (295)
                      |+...+.   .|+..+|+.+.+++.+.|+..+|.++.++....-.+|+..
T Consensus       351 leaAl~~---~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~~~  397 (400)
T COG3071         351 LEAALKL---RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPNLP  397 (400)
T ss_pred             HHHHHhc---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCCCc
Confidence            9987763   5899999999999999999999999999988766666643

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

Probab=99.65  E-value=5.2e-13  Score=106.12  Aligned_cols=266  Identities=13%  Similarity=0.064  Sum_probs=189.4

Q ss_pred             CCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC----CHHHHHHHHHHHHccCcHH-HHHHHHHHHHhCCCCCCHH
Q 022531            6 EFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK----TSETYTALLHLYAGAKWTE-KAEELFERVKQSNLSFNAL   80 (295)
Q Consensus         6 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p----~~~~~~~li~~~~~~~~~~-~a~~~~~~m~~~~~~p~~~   80 (295)
                      |++.+...-+....+.-...++|.|+.+|+++..+.|    |..+|+.++-.--.+.++. .|..+++ +-+    -.+.
T Consensus       257 gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v~~-idK----yR~E  331 (559)
T KOG1155|consen  257 GFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNVSN-IDK----YRPE  331 (559)
T ss_pred             cCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHHHH-hcc----CCcc
Confidence            4555555444455555567788999999998888865    6778877766543333322 2222221 111    2356


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      |...+.+.|+-.++.++|...|++..+.+.. ....|+.+..-|....+...|.+-++.+.+  -.|-|-.+|-.+.++|
T Consensus       332 TCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYGLGQaY  408 (559)
T KOG1155|consen  332 TCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYGLGQAY  408 (559)
T ss_pred             ceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhhhhHHH
Confidence            6777778888888899999999988886432 456788888889999999999999999887  4577888888999999


Q ss_pred             HhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          161 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      .-.+...-|+- ++++...-.+. |...|.+|..+|.+.++.++|+..|......| +.+...+..|.+.|-+.++..+|
T Consensus       409 eim~Mh~YaLy-YfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~eA  485 (559)
T KOG1155|consen  409 EIMKMHFYALY-YFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNEA  485 (559)
T ss_pred             HHhcchHHHHH-HHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHHH
Confidence            99988888888 77777665543 78889999999999999999999999888776 44667888899999999999999


Q ss_pred             HHHHHHHhhh----cCCCC-CHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          241 GEIIDQWKQS----ATSDF-DISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       241 ~~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      .+.|....+.    |...| ......-|..-+.+.+++++|..+...
T Consensus       486 a~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~  532 (559)
T KOG1155|consen  486 AQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYATL  532 (559)
T ss_pred             HHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHHHH
Confidence            8888876652    22223 122222245556666777666654443

>TIGR00540 hemY_coli hemY protein

Probab=99.65  E-value=4.8e-13  Score=111.33  Aligned_cols=272  Identities=9%  Similarity=-0.042  Sum_probs=192.7

Q ss_pred             HHHHHHH--HhccChhHHHHHHhhcccCCCCH-HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHH
Q 022531           15 ATRIDLM--TKVFGIHSGERYFEGLPLSAKTS-ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA--LMYNEMMTLY   89 (295)
Q Consensus        15 ~~li~~~--~~~~~~~~A~~~~~~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~   89 (295)
                      ..+.++.  ...|+++.|.+.+....+..|+. ..+-....+..+.|+.+.|.+.+.+..+..  |+.  ...-.....+
T Consensus        86 ~~~~~glla~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~  163 (409)
T TIGR00540        86 KQTEEALLKLAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRIL  163 (409)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHH
Confidence            3344444  35799999999999888877754 444555678888999999999999987653  444  3444458888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH---HHHhcCch
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN---IYITASHL  166 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~---~~~~~~~~  166 (295)
                      ...|++++|...++.+.+.... +......+...+...|++++|.+.+....+. +..+.......-..   .....+..
T Consensus       164 l~~~~~~~Al~~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~-~~~~~~~~~~l~~~a~~~~l~~~~~  241 (409)
T TIGR00540       164 LAQNELHAARHGVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKA-GLFDDEEFADLEQKAEIGLLDEAMA  241 (409)
T ss_pred             HHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999997532 6678889999999999999999999999986 43322222111111   11233333


Q ss_pred             hhHHHHHHHHHHHhcCC---CccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhH---HHHHHHHHhcCChHHH
Q 022531          167 VNAESSTLVEAEKSITQ---RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNY---ICILSSYLMLGHLKEV  240 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~---~~li~~~~~~~~~~~A  240 (295)
                      +.+.+ .+..+....+.   .+...+..+...+...|+.++|.+++++..+.  .|+....   ..........++.+.+
T Consensus       242 ~~~~~-~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~  318 (409)
T TIGR00540       242 DEGID-GLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKL  318 (409)
T ss_pred             hcCHH-HHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHH
Confidence            33344 44445454442   36778888999999999999999999999886  3444321   1122223445788889


Q ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCC
Q 022531          241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  293 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  293 (295)
                      .+.++...+.....|+.....++...|.+.|++++|.++|+........||..
T Consensus       319 ~~~~e~~lk~~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~  371 (409)
T TIGR00540       319 EKLIEKQAKNVDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDAN  371 (409)
T ss_pred             HHHHHHHHHhCCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHH
Confidence            99998888764322322567789999999999999999999655444566643

This is an uncharacterized protein encoded next to a heme-biosynthetic enzyme in two gamma division proteobacteria (E. coli and H. influenzae). It is known in no other species. The gene symbol hemY is unfortunate in that an unrelated protein, protoporphyrinogen oxidase, is designated as HemG in E. coli but as HemY in Bacillus subtilis.

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.65  E-value=7.3e-13  Score=109.72  Aligned_cols=257  Identities=11%  Similarity=-0.003  Sum_probs=189.7

Q ss_pred             ccChhHHHHHHhhcccCCCCHHHHHHH-HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHHHhcCCHHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAKTSETYTAL-LHLYAGAKWTEKAEELFERVKQSNLSFNALMYN--EMMTLYMSVGQVEKVAL  100 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~  100 (295)
                      .|+++.|.+.+....+..+++..+..+ ..+..+.|+++.|.+.+.++.+.  .|+.....  .....+...|++++|.+
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            599999999988876654444444444 45558899999999999999875  35654333  33668899999999999


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH------HHHHHHHHHHHhcCchhhHHHHHH
Q 022531          101 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW------VKYVNLVNIYITASHLVNAESSTL  174 (295)
Q Consensus       101 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~~~~~~a~~~~~  174 (295)
                      .++++.+.... +......+...|.+.|++++|.+++..+.+.....+..      .+|..++.......+.+...+ ++
T Consensus       175 ~l~~~~~~~P~-~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~-~w  252 (398)
T PRK10747        175 GVDKLLEVAPR-HPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKR-WW  252 (398)
T ss_pred             HHHHHHhcCCC-CHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH-HH
Confidence            99999987533 67788899999999999999999999999873332221      123333333334444444444 44


Q ss_pred             HHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC
Q 022531          175 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  254 (295)
Q Consensus       175 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~  254 (295)
                      +.+-... +.+......+...+...|+.++|.+++++..+.  .|+...  .++.+....++.+++.+..+...+..  +
T Consensus       253 ~~lp~~~-~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~--P  325 (398)
T PRK10747        253 KNQSRKT-RHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH--G  325 (398)
T ss_pred             HhCCHHH-hCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHH--HHHHhhccCCChHHHHHHHHHHHhhC--C
Confidence            4443322 346677888899999999999999999988774  555532  23444456699999999999998865  3


Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCC
Q 022531          255 FDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  293 (295)
Q Consensus       255 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  293 (295)
                      -|...+..+...|.+.|++++|.+.|+.+.+  ..|+..
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~--~~P~~~  362 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALK--QRPDAY  362 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCCCHH
Confidence            4667788899999999999999999999997  456643

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.63  E-value=8.2e-13  Score=101.58  Aligned_cols=202  Identities=15%  Similarity=0.035  Sum_probs=164.3

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      ....+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+++..+... .+...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNP-NNGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC-CCHHHHHHHHH
Confidence            46778888999999999999999999988764 44577888899999999999999999999887643 35567777888


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  202 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  202 (295)
                      .+...|++++|.+.+++.......+.....+..+..++...|++++|.. .+.+.....+. +...+..+...+...|++
T Consensus       108 ~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~~~-~~~~~~~la~~~~~~~~~  185 (234)
T TIGR02521       108 FLCQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEK-YLTRALQIDPQ-RPESLLELAELYYLRGQY  185 (234)
T ss_pred             HHHHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCcC-ChHHHHHHHHHHHHcCCH
Confidence            8999999999999999988753333445667778888999999999999 88887765543 456778888889999999


Q ss_pred             HHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          203 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      ++|.+.+++.... .+.+...+..+...+...|+.+.|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999988776 244566677788888899999999998887765

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.

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.63  E-value=1.3e-12  Score=100.45  Aligned_cols=203  Identities=9%  Similarity=0.059  Sum_probs=164.0

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHH
Q 022531           76 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN  155 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  155 (295)
                      ......+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++....  .+.+...+..
T Consensus        28 ~~~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~  104 (234)
T TIGR02521        28 NKAAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTL--NPNNGDVLNN  104 (234)
T ss_pred             CcHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHH
Confidence            3446778889999999999999999999988753 234677888888899999999999999998874  3456677888


Q ss_pred             HHHHHHhcCchhhHHHHHHHHHHHhcCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhc
Q 022531          156 LVNIYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML  234 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  234 (295)
                      +...+...|++++|.+ .+.........+ ....+..+...+...|++++|...+++..... +.+...+..+...+...
T Consensus       105 ~~~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  182 (234)
T TIGR02521       105 YGTFLCQQGKYEQAMQ-QFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLR  182 (234)
T ss_pred             HHHHHHHcccHHHHHH-HHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHc
Confidence            8999999999999999 888877643222 34466777888899999999999999887763 23456777888999999


Q ss_pred             CChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          235 GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       235 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      |++++|.+.+++..+..  +.+...+..+...+...|+.++|..+.+.+..
T Consensus       183 ~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       183 GQYKDARAYLERYQQTY--NQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             CCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            99999999999988753  35667777888888999999999999888765

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.

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.63  E-value=2.8e-12  Score=97.66  Aligned_cols=223  Identities=13%  Similarity=0.095  Sum_probs=140.1

Q ss_pred             ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC-CCCCC--HHHHHHHHHHHHhcCCHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS-NLSFN--ALMYNEMMTLYMSVGQVEKVA   99 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~--~~~~~~li~~~~~~~~~~~a~   99 (295)
                      +++.++|.+.|-+|.+..| +..+--+|.+.|-+.|.++.|+++...+.+. +++-+  ..+...|..-|...|-+|.|+
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE  127 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAE  127 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHH
Confidence            4667777777777776655 5666677777777777777777777776654 21111  123345556677777777777


Q ss_pred             HHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH---HHHHHHHHHHHhcCchhhHHHHHHHH
Q 022531          100 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW---VKYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus       100 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      .+|..+.+.|. .-......|+..|-...+|++|+++-+++.+.++-+.+.   ..|--+...+....+.+.|.. ++.+
T Consensus       128 ~~f~~L~de~e-fa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~-~l~k  205 (389)
T COG2956         128 DIFNQLVDEGE-FAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARE-LLKK  205 (389)
T ss_pred             HHHHHHhcchh-hhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHH-HHHH
Confidence            77777776532 234556667777777777777777777666653222222   123344444455566677777 6666


Q ss_pred             HHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          177 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       177 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      ..+..++ ++..--.+...+...|+++.|.+.++...+.+...-+.+...|..+|...|+.++...++..+.+
T Consensus       206 Alqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~  277 (389)
T COG2956         206 ALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAME  277 (389)
T ss_pred             HHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            5554433 33344445566667777777777777777665544455566677777777777777766666554

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.61  E-value=1.5e-11  Score=108.97  Aligned_cols=261  Identities=10%  Similarity=-0.012  Sum_probs=154.6

Q ss_pred             HHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      ...+...|++++|.++|+.+.+..| +...+..++..+...++.++|++.++++....  |+...+..++..+...++..
T Consensus       109 A~ly~~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~  186 (822)
T PRK14574        109 ARAYRNEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNY  186 (822)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHH
Confidence            5577777888888888888888877 66777777888888888888888888887764  55555544444444455555


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHH-------------------------------------------------------
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWI-------------------------------------------------------  121 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li-------------------------------------------------------  121 (295)
                      +|++.++++.+.... +...+..+.                                                       
T Consensus       187 ~AL~~~ekll~~~P~-n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~  265 (822)
T PRK14574        187 DALQASSEAVRLAPT-SEEVLKNHLEILQRNRIVEPALRLAKENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFD  265 (822)
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            577777776654211 122222222                                                       


Q ss_pred             ----------------------------------HHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh
Q 022531          122 ----------------------------------SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  167 (295)
Q Consensus       122 ----------------------------------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (295)
                                                        -++...+++.++++.|+.+... +.+....+-.++.++|...++.+
T Consensus       266 ~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~-~~~~P~y~~~a~adayl~~~~P~  344 (822)
T PRK14574        266 IADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAE-GYKMPDYARRWAASAYIDRRLPE  344 (822)
T ss_pred             HHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhc-CCCCCHHHHHHHHHHHHhcCCcH
Confidence                                              2233344555555555555554 33322334456666666666666


Q ss_pred             hHHHHHHHHHHHhcC-----CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccC-----------CCCH---HhHHHHH
Q 022531          168 NAESSTLVEAEKSIT-----QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-----------KMTS---RNYICIL  228 (295)
Q Consensus       168 ~a~~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----------~~~~---~~~~~li  228 (295)
                      +|.. ++..+.....     .++......|.-+|...+++++|..+++.+.+.-.           .||+   ..+..++
T Consensus       345 kA~~-l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a  423 (822)
T PRK14574        345 KAAP-ILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLV  423 (822)
T ss_pred             HHHH-HHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHH
Confidence            6666 6665544321     11222234566666667777777777766655210           1111   1123355


Q ss_pred             HHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          229 SSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       229 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..+.-.|++.+|++.++.+....  +-|......+.+.+...|.+.+|...++....
T Consensus       424 ~~~~~~gdl~~Ae~~le~l~~~a--P~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~  478 (822)
T PRK14574        424 QSLVALNDLPTAQKKLEDLSSTA--PANQNLRIALASIYLARDLPRKAEQELKAVES  478 (822)
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhh
Confidence            56666677777777777766644  34666666666777777777777777755543

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.61  E-value=1.1e-11  Score=109.72  Aligned_cols=265  Identities=12%  Similarity=0.022  Sum_probs=186.7

Q ss_pred             HHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 022531           16 TRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ   94 (295)
Q Consensus        16 ~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~   94 (295)
                      .++..+...|+.++|+.++++.....| .......+...+...|++++|+++|+++.+.. +-++..+..++..+...++
T Consensus        73 dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q  151 (822)
T PRK14574         73 DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGR  151 (822)
T ss_pred             HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCC
Confidence            777777788888888888888773211 33333444667778888888888888888775 4456777777888888888


Q ss_pred             HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHH--
Q 022531           95 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS--  172 (295)
Q Consensus        95 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~--  172 (295)
                      .++|++.++++...  .|+...+..++..+...++..+|++.++++.+.  .|.+...+..+..+..+.|-...|.++  
T Consensus       152 ~~eAl~~l~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~--~P~n~e~~~~~~~~l~~~~~~~~a~~l~~  227 (822)
T PRK14574        152 GGVVLKQATELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL--APTSEEVLKNHLEILQRNRIVEPALRLAK  227 (822)
T ss_pred             HHHHHHHHHHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCcHHHHHHHH
Confidence            88888888888775  455555544444444455665688888888875  345566666677777666655544442  


Q ss_pred             ---------------------------------------------HHHHHHHhc-CCCccc-cH----HHHHHHHHhcCC
Q 022531          173 ---------------------------------------------TLVEAEKSI-TQRQWI-TY----DFLIILYAGLGN  201 (295)
Q Consensus       173 ---------------------------------------------~~~~~~~~~-~~~~~~-~~----~~li~~~~~~g~  201 (295)
                                                                   -++.+.... ..|... .|    .-.+-++...|+
T Consensus       228 ~~p~~f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r  307 (822)
T PRK14574        228 ENPNLVSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQ  307 (822)
T ss_pred             hCccccCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhh
Confidence                                                         111111111 112111 11    123446778899


Q ss_pred             HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcC----CCCCHHHHHHHHHHHHccCChHHHH
Q 022531          202 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT----SDFDISACNRLLGAFSDVGLTEKAN  277 (295)
Q Consensus       202 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~a~  277 (295)
                      +.++++.|+.|...+.+....+-..+..+|...+++++|..+|+++.....    ..++......|..+|...+++++|.
T Consensus       308 ~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~  387 (822)
T PRK14574        308 TADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAY  387 (822)
T ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHH
Confidence            999999999999888766667778899999999999999999999866431    1234444678999999999999999


Q ss_pred             HHHHHHHh
Q 022531          278 EFHMLLLQ  285 (295)
Q Consensus       278 ~~~~~m~~  285 (295)
                      .+++++.+
T Consensus       388 ~~l~~~~~  395 (822)
T PRK14574        388 QFAVNYSE  395 (822)
T ss_pred             HHHHHHHh
Confidence            99999987

>COG2956 Predicted N-acetylglucosaminyl transferase [Carbohydrate transport and metabolism]

Probab=99.58  E-value=1.4e-11  Score=93.89  Aligned_cols=267  Identities=12%  Similarity=0.097  Sum_probs=208.2

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-----CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-----TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMT   87 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~   87 (295)
                      +.-+|.+.|.+.|.+|.|+++...+.+++.     -....-.|..-|...|-+|.|..+|..+.+.+ ..-......|+.
T Consensus        71 ~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~  149 (389)
T COG2956          71 AHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLN  149 (389)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHH
Confidence            444688999999999999999999887621     24456678888999999999999999999876 234667889999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCh----HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531           88 LYMSVGQVEKVALVVEEIKRKNVVPDI----FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      .|-...+|++|+.+-+++.+.+-++..    ..|.-+...+....+.+.|...+++..+.  .+.++.+--.+.+.+...
T Consensus       150 IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~  227 (389)
T COG2956         150 IYQATREWEKAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA--DKKCVRASIILGRVELAK  227 (389)
T ss_pred             HHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh--CccceehhhhhhHHHHhc
Confidence            999999999999999999887655442    34666677777788999999999998875  234455555677889999


Q ss_pred             CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 022531          164 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI  243 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~  243 (295)
                      |+++.|.+ .++.+.+..+.--..+...|..+|...|+.++...++..+.+...  +...-..+.+.-....-.+.|...
T Consensus       228 g~y~~AV~-~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~--g~~~~l~l~~lie~~~G~~~Aq~~  304 (389)
T COG2956         228 GDYQKAVE-ALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNT--GADAELMLADLIELQEGIDAAQAY  304 (389)
T ss_pred             cchHHHHH-HHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccC--CccHHHHHHHHHHHhhChHHHHHH
Confidence            99999999 999988887766667788899999999999999999999887643  444444555555555666777777


Q ss_pred             HHHHhhhcCCCCCHHHHHHHHHHHHc---cCChHHHHHHHHHHHhcCC
Q 022531          244 IDQWKQSATSDFDISACNRLLGAFSD---VGLTEKANEFHMLLLQKNC  288 (295)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~g~  288 (295)
                      +.+-...   +|+...+..++..-..   .|...+-+..++.|....+
T Consensus       305 l~~Ql~r---~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l  349 (389)
T COG2956         305 LTRQLRR---KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQL  349 (389)
T ss_pred             HHHHHhh---CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHH
Confidence            6665553   5899999999987654   3456777778888875433

>PF13041 PPR_2: PPR repeat family

Probab=99.58  E-value=7e-15  Score=83.54  Aligned_cols=49  Identities=27%  Similarity=0.587  Sum_probs=29.5

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHH
Q 022531           77 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  125 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  125 (295)
                      ||..+||++|.+|++.|++++|+++|++|.+.|+.||..||+++|++|+
T Consensus         1 P~~~~yn~li~~~~~~~~~~~a~~l~~~M~~~g~~P~~~Ty~~li~~~~   49 (50)
T PF13041_consen    1 PDVVTYNTLISGYCKAGKFEEALKLFKEMKKRGIKPDSYTYNILINGLC   49 (50)
T ss_pred             CchHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHc
Confidence            4555666666666666666666666666666666666666666665554

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=99.57  E-value=2.2e-13  Score=115.89  Aligned_cols=256  Identities=13%  Similarity=0.090  Sum_probs=152.8

Q ss_pred             cCCCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCC-C-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHH
Q 022531            3 THKEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSA-K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL   80 (295)
Q Consensus         3 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~   80 (295)
                      +..|+.|+..||..+|..||..|+++.|- +|.-|.-.. | +...++.++.+..++++.+.+.           .|.+.
T Consensus        17 e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aD   84 (1088)
T KOG4318|consen   17 EISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLAD   84 (1088)
T ss_pred             HHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchh
Confidence            35678888999999999999999999888 888777652 4 7888999998888888866655           57788


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      ||..|..+|.+.||+.. ++..++           -.-.+...+...|--..-..++..+...++..|+..   ..+.-.
T Consensus        85 tyt~Ll~ayr~hGDli~-fe~veq-----------dLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~---n~illl  149 (1088)
T KOG4318|consen   85 TYTNLLKAYRIHGDLIL-FEVVEQ-----------DLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAE---NAILLL  149 (1088)
T ss_pred             HHHHHHHHHHhccchHH-HHHHHH-----------HHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHH---HHHHHH
Confidence            99999999999988765 222222           122233344444544444455544444434444443   233334


Q ss_pred             HhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          161 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      .-.|.++.+.+ ++..+-....  + .++..+++-+...  ....+++....+...-.|++.+|..++.+-..+|+++.|
T Consensus       150 v~eglwaqllk-ll~~~Pvsa~--~-~p~~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~A  223 (1088)
T KOG4318|consen  150 VLEGLWAQLLK-LLAKVPVSAW--N-APFQVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGA  223 (1088)
T ss_pred             HHHHHHHHHHH-HHhhCCcccc--c-chHHHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhH
Confidence            44455555555 2221100000  0 0111112222221  222223332222221147777777777777777777777


Q ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCCCC
Q 022531          241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  295 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  295 (295)
                      ..++.+|++.|.+ .+..-|..|+-+   .++..-+..+++-|.+.|+.|++.|+
T Consensus       224 k~ll~emke~gfp-ir~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~  274 (1088)
T KOG4318|consen  224 KNLLYEMKEKGFP-IRAHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQ  274 (1088)
T ss_pred             HHHHHHHHHcCCC-cccccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchh
Confidence            7777777777653 444444455433   66777777777777777777777774

>PF13041 PPR_2: PPR repeat family

Probab=99.56  E-value=1.3e-14  Score=82.38  Aligned_cols=50  Identities=24%  Similarity=0.327  Sum_probs=48.3

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           42 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      ||..+||++|.+|++.|++++|.++|++|.+.|++||..||+.||++|++
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            79999999999999999999999999999999999999999999999875

>PRK12370 invasion protein regulator; Provisional

Probab=99.55  E-value=9.9e-12  Score=107.35  Aligned_cols=232  Identities=10%  Similarity=-0.060  Sum_probs=173.0

Q ss_pred             CHHHHHHHHHHHHc-----cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---------cCCHHHHHHHHHHHHhC
Q 022531           43 TSETYTALLHLYAG-----AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS---------VGQVEKVALVVEEIKRK  108 (295)
Q Consensus        43 ~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~  108 (295)
                      +...|...+.+-..     .+.+++|..+|++..+.+ +-+...|..+..+|..         .+++++|...+++..+.
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~ld-P~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~l  333 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNMS-PNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATEL  333 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhc
Confidence            56666666665321     245789999999999875 3345677766665542         34589999999999986


Q ss_pred             CCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcccc
Q 022531          109 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT  188 (295)
Q Consensus       109 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (295)
                      +.. +..++..+...+...|++++|...|+++.+.  .+.+..++..+..++...|++++|.. .+++.....+. +...
T Consensus       334 dP~-~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l--~P~~~~a~~~lg~~l~~~G~~~eAi~-~~~~Al~l~P~-~~~~  408 (553)
T PRK12370        334 DHN-NPQALGLLGLINTIHSEYIVGSLLFKQANLL--SPISADIKYYYGWNLFMAGQLEEALQ-TINECLKLDPT-RAAA  408 (553)
T ss_pred             CCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHhcCCC-Chhh
Confidence            432 6777888888889999999999999999985  35567788889999999999999999 89888776654 2333


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHH
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  267 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  267 (295)
                      +..++..+...|++++|+..++++.... .| ++..+..+..++...|+.++|.+.+.++....  +.+....+.+...|
T Consensus       409 ~~~~~~~~~~~g~~eeA~~~~~~~l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~--~~~~~~~~~l~~~~  485 (553)
T PRK12370        409 GITKLWITYYHTGIDDAIRLGDELRSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEISTQE--ITGLIAVNLLYAEY  485 (553)
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhcc--chhHHHHHHHHHHH
Confidence            3444555667899999999999887653 34 34446678888899999999999999876643  23445566667777


Q ss_pred             HccCChHHHHHHHHHHHh
Q 022531          268 SDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       268 ~~~g~~~~a~~~~~~m~~  285 (295)
                      ...|  ++|...++++.+
T Consensus       486 ~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        486 CQNS--ERALPTIREFLE  501 (553)
T ss_pred             hccH--HHHHHHHHHHHH
Confidence            8877  478887777654

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

Probab=99.55  E-value=1.3e-12  Score=108.13  Aligned_cols=232  Identities=11%  Similarity=-0.030  Sum_probs=189.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccC----------------------------------CC-CHHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLS----------------------------------AK-TSETYTALLHLYA   55 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~----------------------------------~p-~~~~~~~li~~~~   55 (295)
                      ......+..+|...+++++|.++|+.+.+.                                  .| .+.+|.++..+|.
T Consensus       353 ~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li~~~~~sPesWca~GNcfS  432 (638)
T KOG1126|consen  353 GWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLIDTDPNSPESWCALGNCFS  432 (638)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHHhhCCCCcHHHHHhcchhh
Confidence            355667888999999999999999877443                                  23 4677999999999


Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHH
Q 022531           56 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  135 (295)
                      -+++.+.|++.|++..+.+ +-...+|+.+.+-++...++|+|...|+..+..... +-.+|.-+.-.|.+.++++.|+-
T Consensus       433 LQkdh~~Aik~f~RAiQld-p~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~r-hYnAwYGlG~vy~Kqek~e~Ae~  510 (638)
T KOG1126|consen  433 LQKDHDTAIKCFKRAIQLD-PRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPR-HYNAWYGLGTVYLKQEKLEFAEF  510 (638)
T ss_pred             hhhHHHHHHHHHHHhhccC-CccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCch-hhHHHHhhhhheeccchhhHHHH
Confidence            9999999999999999886 337889999999999999999999999988763211 23345556777999999999999


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          136 FLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      .|+.+..-  .|.+.+....+...+.+.|+.|+|++ ++++.....++ |...--..+..+...++.++|+..++++++.
T Consensus       511 ~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~-~~~~A~~ld~k-n~l~~~~~~~il~~~~~~~eal~~LEeLk~~  586 (638)
T KOG1126|consen  511 HFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQ-LYEKAIHLDPK-NPLCKYHRASILFSLGRYVEALQELEELKEL  586 (638)
T ss_pred             HHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHH-HHHHHHhcCCC-CchhHHHHHHHHHhhcchHHHHHHHHHHHHh
Confidence            99999873  45677778888899999999999999 89988776654 5555555666778899999999999999886


Q ss_pred             cCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          216 KQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       216 ~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                        .|+. ..|..+...|.+.|+.+.|+.-|.-+..-
T Consensus       587 --vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  587 --VPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             --CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence              5554 55677889999999999999999877664

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

Probab=99.49  E-value=6.8e-11  Score=94.36  Aligned_cols=254  Identities=12%  Similarity=0.036  Sum_probs=187.8

Q ss_pred             HHHhccChhHHHHHHhhcccCC-CC-HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCH
Q 022531           20 LMTKVFGIHSGERYFEGLPLSA-KT-SETYTALLHLYAGAKWTEKAEELFERVKQSNL--SFNALMYNEMMTLYMSVGQV   95 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~~~~~~-p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~~~~   95 (295)
                      ++....+.+++..=.+.....+ |+ ...-+....+.-...++++|+.+|+++.+.+-  --|..+|..++..--....+
T Consensus       236 a~~el~q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skL  315 (559)
T KOG1155|consen  236 AYQELHQHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKL  315 (559)
T ss_pred             HHHHHHHHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHH
Confidence            3444445555555555555442 42 22223333344456778888888888887640  01566777666543322211


Q ss_pred             H-HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHH
Q 022531           96 E-KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTL  174 (295)
Q Consensus        96 ~-~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  174 (295)
                      . -|..+++ .    -+--+.|+.++.+-|+-.++.++|..+|++..+.  .+....+|+.+.+-|....+...|.+ -+
T Consensus       316 s~LA~~v~~-i----dKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~-sY  387 (559)
T KOG1155|consen  316 SYLAQNVSN-I----DKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIE-SY  387 (559)
T ss_pred             HHHHHHHHH-h----ccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHH-HH
Confidence            1 1222221 1    1223467888888899899999999999999985  35677889999999999999999999 88


Q ss_pred             HHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC
Q 022531          175 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  254 (295)
Q Consensus       175 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~  254 (295)
                      ....+-.+ .|-..|-.|.++|.-.+...-|+-.|++..... +-|+..|.+|..+|.+.++.++|++.|.+....+  .
T Consensus       388 RrAvdi~p-~DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~--d  463 (559)
T KOG1155|consen  388 RRAVDINP-RDYRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG--D  463 (559)
T ss_pred             HHHHhcCc-hhHHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc--c
Confidence            88877554 488999999999999999999999999887763 4467889999999999999999999999998865  4


Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          255 FDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       255 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+...+..|...|-+.++.++|..+|..-++
T Consensus       464 te~~~l~~LakLye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  464 TEGSALVRLAKLYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             cchHHHHHHHHHHHHHHhHHHHHHHHHHHHH
Confidence            5678899999999999999999999887765

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

Probab=99.47  E-value=3e-10  Score=97.48  Aligned_cols=117  Identities=11%  Similarity=0.057  Sum_probs=60.2

Q ss_pred             ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV  102 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  102 (295)
                      .|++++|.+++.++....| +...|..|...|-..|+.+++...+-..-..+ +-|...|-.+.....+.|++++|.-.|
T Consensus       152 rg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~-p~d~e~W~~ladls~~~~~i~qA~~cy  230 (895)
T KOG2076|consen  152 RGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLN-PKDYELWKRLADLSEQLGNINQARYCY  230 (895)
T ss_pred             hCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcC-CCChHHHHHHHHHHHhcccHHHHHHHH
Confidence            3666777766666666555 56666666666666666666665554433332 334455555555555555555555555


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 022531          103 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       103 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      .+..+... ++...+---...|-+.|+...|...|.++..
T Consensus       231 ~rAI~~~p-~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~  269 (895)
T KOG2076|consen  231 SRAIQANP-SNWELIYERSSLYQKTGDLKRAMETFLQLLQ  269 (895)
T ss_pred             HHHHhcCC-cchHHHHHHHHHHHHhChHHHHHHHHHHHHh
Confidence            55544321 2222222233334444444444444444433

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.47  E-value=1.6e-11  Score=93.90  Aligned_cols=226  Identities=9%  Similarity=0.020  Sum_probs=96.6

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      +...|.+.|.+.+|.+.|+.-..+.|-+.||-.|-++|.+..++..|+.+|.+-.+. ++-|+.-...+.+.+-..++.+
T Consensus       229 ~gkCylrLgm~r~AekqlqssL~q~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~eam~~~~  307 (478)
T KOG1129|consen  229 MGKCYLRLGMPRRAEKQLQSSLTQFPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEAMEQQE  307 (478)
T ss_pred             HHHHHHHhcChhhhHHHHHHHhhcCCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHHHHhHH
Confidence            334444444444554444444444444444444444444444444454444444433 1222222233344444444444


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      +|.++|+...+.. ..++....++...|.-.++++-|+.+|+++.+- | ..++..|+.+.-+|.-.+++|-++. -|.+
T Consensus       308 ~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqm-G-~~speLf~NigLCC~yaqQ~D~~L~-sf~R  383 (478)
T KOG1129|consen  308 DALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQM-G-AQSPELFCNIGLCCLYAQQIDLVLP-SFQR  383 (478)
T ss_pred             HHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHHh-c-CCChHHHhhHHHHHHhhcchhhhHH-HHHH
Confidence            4444444444431 123333444444444444444455544444443 2 1233444444444444444444444 4444


Q ss_pred             HHHhcCCCcc--ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          177 AEKSITQRQW--ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       177 ~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      ......+|+.  -.|..+.......|++.-|.+.|+....++ .-+...++.|.-.-.+.|++++|..++....
T Consensus       384 Alstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d-~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  384 ALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD-AQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC-cchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            4333322221  233333333344444444444444433332 1223334444444444444444444444433

>KOG1129 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.44  E-value=3.2e-11  Score=92.22  Aligned_cols=232  Identities=11%  Similarity=-0.059  Sum_probs=194.1

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHh-HHHHHHHHHc
Q 022531           48 TALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT-YNLWISSCAA  126 (295)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~  126 (295)
                      +.+.++|.+.|-+.+|...|+.-...  .|-+.||-.|-..|.+..+++.|+.+|.+-.+.  .|-.+| ..-+.+.+-.
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~--fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS--FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc--CCchhhhhhhhHHHHHH
Confidence            56889999999999999999987776  477889999999999999999999999998875  455555 4456677888


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHH
Q 022531          127 TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKID  206 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  206 (295)
                      .++.++|.++|+...+.  .+.++....++...|.-.++.+-|.. ++.++...|.. +...|+.+.-+|.-.++++-++
T Consensus       303 m~~~~~a~~lYk~vlk~--~~~nvEaiAcia~~yfY~~~PE~Alr-yYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L  378 (478)
T KOG1129|consen  303 MEQQEDALQLYKLVLKL--HPINVEAIACIAVGYFYDNNPEMALR-YYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVL  378 (478)
T ss_pred             HHhHHHHHHHHHHHHhc--CCccceeeeeeeeccccCCChHHHHH-HHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhH
Confidence            89999999999999874  35677777788888999999999999 99999998876 7788999988899999999999


Q ss_pred             HHHHHHHhccCCCCH--HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          207 QIWKSLRMTKQKMTS--RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       207 ~~~~~m~~~~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      --|.+....--.|+.  ..|-.+-......||+..|.+.|+-.....  ..+...+|.|.-.-.+.|+++.|..+++...
T Consensus       379 ~sf~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d--~~h~ealnNLavL~~r~G~i~~Arsll~~A~  456 (478)
T KOG1129|consen  379 PSFQRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSD--AQHGEALNNLAVLAARSGDILGARSLLNAAK  456 (478)
T ss_pred             HHHHHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccC--cchHHHHHhHHHHHhhcCchHHHHHHHHHhh
Confidence            999887655433443  346667777888999999999999887755  4577899999999999999999999999877


Q ss_pred             hcCCCCC
Q 022531          285 QKNCAPT  291 (295)
Q Consensus       285 ~~g~~p~  291 (295)
                      .  +-|+
T Consensus       457 s--~~P~  461 (478)
T KOG1129|consen  457 S--VMPD  461 (478)
T ss_pred             h--hCcc
Confidence            5  4454

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

Probab=99.43  E-value=1.1e-10  Score=100.94  Aligned_cols=277  Identities=14%  Similarity=0.112  Sum_probs=205.3

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccC-----CCCH------HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCC
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLS-----AKTS------ETYTALLHLYAGAKWTEKAEELFERVKQSNLS   76 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----~p~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~   76 (295)
                      .+-+...|.+.......|++.+|...|+.....     .++.      .+-..+...+-..++++.|.+.|..+.+..  
T Consensus       449 ~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh--  526 (1018)
T KOG2002|consen  449 QIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH--  526 (1018)
T ss_pred             CCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC--
Confidence            377778888888888899999999988877655     1222      122334555555678888999998888764  


Q ss_pred             CC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHH
Q 022531           77 FN-ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN  155 (295)
Q Consensus        77 p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  155 (295)
                      |. +..|--+.......+...+|...+++..+.. ..++..++.+...+.+...+..|.+-|....+.....+|+...-+
T Consensus       527 p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~Yslia  605 (1018)
T KOG2002|consen  527 PGYIDAYLRLGCMARDKNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIA  605 (1018)
T ss_pred             chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHH
Confidence            33 3344444433334567888888888887753 346666777777888888888888877777665444566666666


Q ss_pred             HHHHHHh------------cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHh
Q 022531          156 LVNIYIT------------ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN  223 (295)
Q Consensus       156 l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  223 (295)
                      |.+.|.+            .+..+.|.+ .|.++....+. |...-|-+...++..|++.+|..+|.+.++... -...+
T Consensus       606 LGN~~~~~l~~~~rn~ek~kk~~~KAlq-~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv  682 (1018)
T KOG2002|consen  606 LGNVYIQALHNPSRNPEKEKKHQEKALQ-LYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDV  682 (1018)
T ss_pred             hhHHHHHHhcccccChHHHHHHHHHHHH-HHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCce
Confidence            6665542            345677777 77776665543 777777788888999999999999999988764 24457


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          224 YICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       224 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      |..+.++|...|++..|.++|+...+......+..+...|.+++-+.|.+.+|.+.+...+.  ..|..
T Consensus       683 ~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~--~~p~~  749 (1018)
T KOG2002|consen  683 WLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH--LAPSN  749 (1018)
T ss_pred             eeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH--hCCcc
Confidence            88899999999999999999999988776667788889999999999999999998877765  44443

>COG3071 HemY Uncharacterized enzyme of heme biosynthesis [Coenzyme metabolism]

Probab=99.42  E-value=1.7e-09  Score=84.97  Aligned_cols=267  Identities=10%  Similarity=0.001  Sum_probs=202.8

Q ss_pred             HHHHHHh--ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 022531           17 RIDLMTK--VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG   93 (295)
Q Consensus        17 li~~~~~--~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~   93 (295)
                      +.++..+  .|++..|+++...-.+.++ ....|..-..+--+.|+.+.+-..+.+.-+.--.++....-+........|
T Consensus        88 ~~egl~~l~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~  167 (400)
T COG3071          88 LNEGLLKLFEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRR  167 (400)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCC
Confidence            4444433  6899999999998777765 455666677888889999999999999988733567777888888899999


Q ss_pred             CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH-------HHHHHHHHHHHhcCch
Q 022531           94 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW-------VKYVNLVNIYITASHL  166 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~  166 (295)
                      +.+.|..-..++.+.+.. +........++|.+.|++.....++..+.+. +.-.+.       .+|..+++=....+..
T Consensus       168 d~~aA~~~v~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka-~~l~~~e~~~le~~a~~glL~q~~~~~~~  245 (400)
T COG3071         168 DYPAARENVDQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKA-GLLSDEEAARLEQQAWEGLLQQARDDNGS  245 (400)
T ss_pred             CchhHHHHHHHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHc-cCCChHHHHHHHHHHHHHHHHHHhccccc
Confidence            999999999999987554 6678899999999999999999999999997 544443       3456666655555555


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      +.-.. .++..-.. .+.++..-.+++.-+.+.|+.++|.++.++-.+.+..|+    -...-.+.+.++...-++..+.
T Consensus       246 ~gL~~-~W~~~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~  319 (400)
T COG3071         246 EGLKT-WWKNQPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEK  319 (400)
T ss_pred             hHHHH-HHHhccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHH
Confidence            55444 45544332 233556667788888999999999999999988877776    2233345677788777788877


Q ss_pred             HhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCCCC
Q 022531          247 WKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  295 (295)
Q Consensus       247 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~t~  295 (295)
                      ..+..+.  +...+.+|...|.+.+.|.+|...|+...+  ..|+..+|
T Consensus       320 ~l~~h~~--~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~  364 (400)
T COG3071         320 WLKQHPE--DPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDY  364 (400)
T ss_pred             HHHhCCC--ChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhH
Confidence            7765433  446788899999999999999999997765  56665553

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

Probab=99.42  E-value=3.9e-10  Score=92.15  Aligned_cols=272  Identities=12%  Similarity=-0.020  Sum_probs=189.4

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      ++.....-.+-+-..+++.+..++++.+.+..| ....+-.-|.++...|+..+-..+=.++.+. .|-.+.+|-++.-.
T Consensus       243 ~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~Y  321 (611)
T KOG1173|consen  243 NLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCY  321 (611)
T ss_pred             cHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHH
Confidence            444455556667777888888888888877755 6666666666777777766666666666665 35567788888888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  167 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (295)
                      |.-.|...+|.+.|.+....  .|. ...|-....+|+-.|..|+|...+..+-+.  ++-..--+--+.--|.+.++.+
T Consensus       322 Yl~i~k~seARry~SKat~l--D~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~k  397 (611)
T KOG1173|consen  322 YLMIGKYSEARRYFSKATTL--DPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLK  397 (611)
T ss_pred             HHHhcCcHHHHHHHHHHhhc--CccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHH
Confidence            88888888888888876653  333 456777888888888888888877765542  1111112223444567788888


Q ss_pred             hHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc--CC----CCHHhHHHHHHHHHhcCChHHHH
Q 022531          168 NAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK--QK----MTSRNYICILSSYLMLGHLKEVG  241 (295)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~----~~~~~~~~li~~~~~~~~~~~A~  241 (295)
                      .|.+ +|.+.....+ .|+...+-+.......+.+.+|..+|+.....-  +.    .-..+++.|.++|.+.+.+++|+
T Consensus       398 LAe~-Ff~~A~ai~P-~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI  475 (611)
T KOG1173|consen  398 LAEK-FFKQALAIAP-SDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAI  475 (611)
T ss_pred             HHHH-HHHHHHhcCC-CcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHH
Confidence            8888 7776655443 367777777766667788888888887665210  01    12235677888888888888888


Q ss_pred             HHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          242 EIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      ..++......  +.+..++.++.-.|...|+++.|.+.|.+.+-  +.||.
T Consensus       476 ~~~q~aL~l~--~k~~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n  522 (611)
T KOG1173|consen  476 DYYQKALLLS--PKDASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDN  522 (611)
T ss_pred             HHHHHHHHcC--CCchhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCcc
Confidence            8888887744  46788888888888888888888888888764  66665

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.42  E-value=1.2e-09  Score=79.79  Aligned_cols=209  Identities=11%  Similarity=-0.053  Sum_probs=170.9

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      .+...|.-.|...|+...|..-+++.++.+ +-+..+|..+...|.+.|+.+.|.+.|++..+.... +..+.|.....+
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~FL  113 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAFL  113 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHHH
Confidence            456778889999999999999999999987 456678999999999999999999999998886433 566777788888


Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHH
Q 022531          125 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK  204 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  204 (295)
                      |..|++++|...|++....+....-..+|..+.-+..+.|+.+.|.+ .+.+.....+. ...+.-.+.......|++-.
T Consensus       114 C~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~-~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~~  191 (250)
T COG3063         114 CAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEE-YLKRALELDPQ-FPPALLELARLHYKAGDYAP  191 (250)
T ss_pred             HhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHH-HHHHHHHhCcC-CChHHHHHHHHHHhcccchH
Confidence            99999999999999988875555566788888889999999999999 88888776654 44566777888889999999


Q ss_pred             HHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHH
Q 022531          205 IDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN  261 (295)
Q Consensus       205 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  261 (295)
                      |..+++.....+. ++....-..|+.-.+.|+.+.+-++=.++.+..   |...-|.
T Consensus       192 Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~f---P~s~e~q  244 (250)
T COG3063         192 ARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLF---PYSEEYQ  244 (250)
T ss_pred             HHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC---CCcHHHH
Confidence            9999998877764 888888888888889999998888766666643   5544443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.41  E-value=2.5e-10  Score=95.13  Aligned_cols=235  Identities=13%  Similarity=0.129  Sum_probs=121.5

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccC--------CCCHH-HHHHHHHHHHccCcHHHHHHHHHHHHhC-----C--C
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLS--------AKTSE-TYTALLHLYAGAKWTEKAEELFERVKQS-----N--L   75 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~--------~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~--~   75 (295)
                      .+...|...|...|++++|..++++..+.        .|... ..+.+...|...+++++|..+|+++..-     |  .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34555777777777777777777665543        23322 2233556666667777777776665431     1  1


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCC-CCChH-hHHHHHHHHHccCCHHHHHHHHHHHhhcC--CC
Q 022531           76 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKR-----KNV-VPDIF-TYNLWISSCAATLNIDQVKKFLDEMSCDS--GG  146 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~-~p~~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~--~~  146 (295)
                      +--..+++.|...|.+.|++++|...++...+     .|. .|... -++.+...|...+++++|..+++...+.-  -.
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~  359 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAP  359 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhc
Confidence            11233556666666777776666666554432     111 12221 24445555666666666666665533210  01


Q ss_pred             C----CCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC------C-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          147 S----DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ------R-QWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       147 ~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      .    .-..+++.|...|-+.|++++|++ +++........      + ....++.|...|.+.+...+|.++|.+-...
T Consensus       360 g~~~~~~a~~~~nl~~l~~~~gk~~ea~~-~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i  438 (508)
T KOG1840|consen  360 GEDNVNLAKIYANLAELYLKMGKYKEAEE-LYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDI  438 (508)
T ss_pred             cccchHHHHHHHHHHHHHHHhcchhHHHH-HHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHH
Confidence            1    122456666666666666666666 55554432211      1 1233445555566666666666555543211


Q ss_pred             c--CCCC----HHhHHHHHHHHHhcCChHHHHHHHHHH
Q 022531          216 K--QKMT----SRNYICILSSYLMLGHLKEVGEIIDQW  247 (295)
Q Consensus       216 ~--~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~  247 (295)
                      .  +.|+    ..+|..|...|.+.|+++.|.++.+..
T Consensus       439 ~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~  476 (508)
T KOG1840|consen  439 MKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKV  476 (508)
T ss_pred             HHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHH
Confidence            0  1111    233555666666666666666655544

>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=99.40  E-value=2.9e-09  Score=89.80  Aligned_cols=259  Identities=11%  Similarity=0.031  Sum_probs=168.0

Q ss_pred             HHHHHhccChhHHHHHHhhcccCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHhc---
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLSAKT-SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY-NEMMTLYMSV---   92 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~li~~~~~~---   92 (295)
                      ...+...|++++|++.++.-...-+| ..........+.+.|+.++|..+|..+++.+  |+...| ..+..+....   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhccc
Confidence            45567788888888888776655555 4455666778888888888888888888886  444444 4444444211   


Q ss_pred             --CCHHHHHHHHHHHHh----------------------------------CCCCCChHhHHHHHHHHHccCCHHHHHHH
Q 022531           93 --GQVEKVALVVEEIKR----------------------------------KNVVPDIFTYNLWISSCAATLNIDQVKKF  136 (295)
Q Consensus        93 --~~~~~a~~~~~~m~~----------------------------------~~~~p~~~~~~~li~~~~~~~~~~~a~~~  136 (295)
                        .+.+...++|+++..                                  .|++   .+|+.|-..|....+.+-..++
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l  165 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESL  165 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHH
Confidence              245556666666543                                  2332   2344444444444444444444


Q ss_pred             HHHHhhc----C---------CCCCCH--HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCC
Q 022531          137 LDEMSCD----S---------GGSDDW--VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  201 (295)
Q Consensus       137 ~~~~~~~----~---------~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  201 (295)
                      +......    +         .-+|+.  .++.-+...|-..|++++|.+ +++...+..+. .+..|..-...+-+.|+
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~-~Id~aI~htPt-~~ely~~KarilKh~G~  243 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALE-YIDKAIEHTPT-LVELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHhcCCC-cHHHHHHHHHHHHHCCC
Confidence            4443321    0         123444  344666788888999999999 88877776543 35667777788889999


Q ss_pred             HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC--CHH----HH--HHHHHHHHccCCh
Q 022531          202 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--DIS----AC--NRLLGAFSDVGLT  273 (295)
Q Consensus       202 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~----~~--~~l~~~~~~~g~~  273 (295)
                      +.+|.+.++..+... .-|...-+..+..+.++|++++|.+++..+.+.+. .|  |..    .|  .....+|.+.|++
T Consensus       244 ~~~Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~-~~~~~L~~mQc~Wf~~e~a~a~~r~~~~  321 (517)
T PF12569_consen  244 LKEAAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV-DPLSNLNDMQCMWFETECAEAYLRQGDY  321 (517)
T ss_pred             HHHHHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC-CcccCHHHHHHHHHHHHHHHHHHHHhhH
Confidence            999999999887764 22444455678888899999999999888876553 22  221    12  3455788888998


Q ss_pred             HHHHHHHHHHHh
Q 022531          274 EKANEFHMLLLQ  285 (295)
Q Consensus       274 ~~a~~~~~~m~~  285 (295)
                      ..|++.|..+.+
T Consensus       322 ~~ALk~~~~v~k  333 (517)
T PF12569_consen  322 GLALKRFHAVLK  333 (517)
T ss_pred             HHHHHHHHHHHH
Confidence            888877766543

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=99.39  E-value=1.2e-09  Score=91.18  Aligned_cols=240  Identities=19%  Similarity=0.189  Sum_probs=176.5

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhC-----CC-CCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-C
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQS-----NL-SFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRK-----N-V  110 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~-~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~-~  110 (295)
                      ..+...|...|...|+++.|..+++...+.     |. -|... ..+.+...|...+++++|..+|+++..-     | .
T Consensus       199 ~~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~  278 (508)
T KOG1840|consen  199 LRTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGED  278 (508)
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCC
Confidence            456666999999999999999999987654     21 23333 3445777899999999999999998752     2 1


Q ss_pred             CCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CC-CCCCH-HHHHHHHHHHHhcCchhhHHHHHHHHHHHhc--
Q 022531          111 VPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCD----SG-GSDDW-VKYVNLVNIYITASHLVNAESSTLVEAEKSI--  181 (295)
Q Consensus       111 ~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~--  181 (295)
                      .|. ..+++.|..+|.+.|++++|..+++....-    .+ ..|.. ..++.+...++..+++++|.. ++....+..  
T Consensus       279 h~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~-l~q~al~i~~~  357 (508)
T KOG1840|consen  279 HPAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKK-LLQKALKIYLD  357 (508)
T ss_pred             CHHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHH-HHHHHHHHHHh
Confidence            222 456888888899999999988887765431    11 12222 245677888999999999999 666655422  


Q ss_pred             -CCCc----cccHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCC--CC-HHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          182 -TQRQ----WITYDFLIILYAGLGNKDKIDQIWKSLRMT----KQK--MT-SRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       182 -~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                       +.++    ..+++.|...|...|++++|+++++.....    +.+  +. ...++.+...|.+.++..+|.++|.+...
T Consensus       358 ~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~  437 (508)
T KOG1840|consen  358 APGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKD  437 (508)
T ss_pred             hccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHH
Confidence             1222    357889999999999999999999987533    111  21 34577889999999999999999987532


Q ss_pred             ----hcCCCCC-HHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          250 ----SATSDFD-ISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       250 ----~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                          -|...|+ ..+|..|..+|...|+++.|.++.+...
T Consensus       438 i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  438 IMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence                3333444 4689999999999999999999988775

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.37  E-value=2.3e-09  Score=85.34  Aligned_cols=224  Identities=11%  Similarity=0.028  Sum_probs=135.5

Q ss_pred             ChhHHHHHHhhcccCC---C--CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 022531           26 GIHSGERYFEGLPLSA---K--TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL  100 (295)
Q Consensus        26 ~~~~A~~~~~~~~~~~---p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  100 (295)
                      ..+.++.-+.++....   |  ....|..+...+.+.|+.++|...|++..+.. +.+...|+.+...+...|++++|..
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~~  119 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAYE  119 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            3455555555555431   2  24567777778888888888888888887765 4467788888888888888888888


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Q 022531          101 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       101 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (295)
                      .|++..+.... +..+|..+..++...|++++|.+.|+...+..   |+..........+...++.++|.. .+......
T Consensus       120 ~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~~---P~~~~~~~~~~l~~~~~~~~~A~~-~l~~~~~~  194 (296)
T PRK11189        120 AFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQDD---PNDPYRALWLYLAESKLDPKQAKE-NLKQRYEK  194 (296)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC---CCCHHHHHHHHHHHccCCHHHHHH-HHHHHHhh
Confidence            88888774322 35567777777778888888888888877641   322211222223345667788888 66554433


Q ss_pred             cCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc---C--CC-CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC
Q 022531          181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK---Q--KM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  254 (295)
Q Consensus       181 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~--~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~  254 (295)
                      . .++...+ .+  .....|+...+ +.+..+.+.-   .  .| ....|..+...+.+.|++++|...|++..+..  +
T Consensus       195 ~-~~~~~~~-~~--~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~--~  267 (296)
T PRK11189        195 L-DKEQWGW-NI--VEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN--V  267 (296)
T ss_pred             C-CccccHH-HH--HHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--C
Confidence            2 2222211 22  22334554443 2444433211   0  11 22456677788888888888888888877643  3


Q ss_pred             CCHHHHHH
Q 022531          255 FDISACNR  262 (295)
Q Consensus       255 ~~~~~~~~  262 (295)
                      ||..-+..
T Consensus       268 ~~~~e~~~  275 (296)
T PRK11189        268 YNFVEHRY  275 (296)
T ss_pred             chHHHHHH
Confidence            45444433

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

Probab=99.36  E-value=1.4e-09  Score=89.07  Aligned_cols=251  Identities=12%  Similarity=0.006  Sum_probs=196.1

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMT   87 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~   87 (295)
                      +....+..-|..+...|+..+-..+=..+.+..| ...+|-++.-.|...|+.++|.+.|.+....+ +.=...|-....
T Consensus       276 fh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fgh  354 (611)
T KOG1173|consen  276 FHLPCLPLHIACLYELGKSNKLFLLSHKLVDLYPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGH  354 (611)
T ss_pred             CCcchHHHHHHHHHHhcccchHHHHHHHHHHhCCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhH
Confidence            3444455666688888887777777777777777 78899999999999999999999999887654 223568999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCh-HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           88 LYMSVGQVEKVALVVEEIKRKNVVPDI-FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      .|+-.|..++|+..|....+.  -|.. .-+--+.--|.+.+..+.|.++|.+...  -.|.|+.+.+-+.-..-..+.+
T Consensus       355 sfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y  430 (611)
T KOG1173|consen  355 SFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEY  430 (611)
T ss_pred             HhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhh
Confidence            999999999999999877663  1111 1123344468889999999999999986  4577888888888888889999


Q ss_pred             hhHHHHHHHHHHHhcCCC------ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          167 VNAESSTLVEAEKSITQR------QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      .+|.. +|..........      -..+++.|..+|.+.+..++|+..++...... +-+..++.++.-.|...|+++.|
T Consensus       431 ~~A~~-~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~A  508 (611)
T KOG1173|consen  431 PEALK-YFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKA  508 (611)
T ss_pred             HHHHH-HHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHH
Confidence            99999 777766322111      23458889999999999999999999887664 55778899999999999999999


Q ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHc
Q 022531          241 GEIIDQWKQSATSDFDISACNRLLGAFSD  269 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  269 (295)
                      ...|.+....   .|+-.+-..++..+..
T Consensus       509 id~fhKaL~l---~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  509 IDHFHKALAL---KPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHHHhc---CCccHHHHHHHHHHHH
Confidence            9999998763   4776666666655443

>COG3063 PilF Tfp pilus assembly protein PilF [Cell motility and secretion / Intracellular trafficking and secretion]

Probab=99.34  E-value=3.3e-09  Score=77.53  Aligned_cols=206  Identities=12%  Similarity=-0.019  Sum_probs=172.6

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      +..-|.-.|...|+...|..-+++..++.| +..+|..+...|-+.|+.+.|.+-|++..+.. +-+..+.|.-..-+|.
T Consensus        37 arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~  115 (250)
T COG3063          37 ARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCA  115 (250)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHh
Confidence            455677889999999999999999999988 67899999999999999999999999999875 4577899999999999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           92 VGQVEKVALVVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      .|++++|...|++......-| -..+|..+.-+..+.|+++.|...|++....  .+....+...+.....+.|++-.|.
T Consensus       116 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         116 QGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPAR  193 (250)
T ss_pred             CCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHHH
Confidence            999999999999998864322 2467888888889999999999999998875  2445566778889999999999999


Q ss_pred             HHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHH
Q 022531          171 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI  225 (295)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  225 (295)
                      . +++.....+. ++....-..|..-.+.|+.+.+-+.=.++...  -|.+.-|.
T Consensus       194 ~-~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q  244 (250)
T COG3063         194 L-YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQ  244 (250)
T ss_pred             H-HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHH
Confidence            9 7777766665 77777777788888899999998888777665  56655544

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

Probab=99.34  E-value=1.6e-09  Score=86.83  Aligned_cols=206  Identities=11%  Similarity=0.108  Sum_probs=159.6

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHH
Q 022531           57 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF  136 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  136 (295)
                      .|++++|.+.+++....+-.-....|| +...+-..|++++|+..|-++-.- +..+......+.+.|-...++.+|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            478888888888888765222222232 333466789999999998776442 233667777888889999999999999


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 022531          137 LDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  216 (295)
                      +-+...  -++.++.+.+.+...|-+.|+...|.+ ....-.... +.+..+...|..-|....-+++++.+|++..-  
T Consensus       581 ~~q~~s--lip~dp~ilskl~dlydqegdksqafq-~~ydsyryf-p~nie~iewl~ayyidtqf~ekai~y~ekaal--  654 (840)
T KOG2003|consen  581 LMQANS--LIPNDPAILSKLADLYDQEGDKSQAFQ-CHYDSYRYF-PCNIETIEWLAAYYIDTQFSEKAINYFEKAAL--  654 (840)
T ss_pred             HHHhcc--cCCCCHHHHHHHHHHhhcccchhhhhh-hhhhccccc-CcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh--
Confidence            888775  578889999999999999999999999 555444433 34777878888888888899999999997644  


Q ss_pred             CCCCHHhHHHHHHHH-HhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCC
Q 022531          217 QKMTSRNYICILSSY-LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGL  272 (295)
Q Consensus       217 ~~~~~~~~~~li~~~-~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  272 (295)
                      ++|+..-|..+|..| .+.|++.+|..+|+...++.  +.|..+..-|++.+...|-
T Consensus       655 iqp~~~kwqlmiasc~rrsgnyqka~d~yk~~hrkf--pedldclkflvri~~dlgl  709 (840)
T KOG2003|consen  655 IQPNQSKWQLMIASCFRRSGNYQKAFDLYKDIHRKF--PEDLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             cCccHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhC--ccchHHHHHHHHHhccccc
Confidence            589999999776655 57899999999999988754  5788888889998888774

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=99.34  E-value=4.5e-09  Score=83.11  Aligned_cols=262  Identities=11%  Similarity=-0.008  Sum_probs=154.0

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      ....+...+...|+.++|...|+...-..| +..........+.+.|+.++...+...+.... .-+...|-.-......
T Consensus       234 Ll~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~  312 (564)
T KOG1174|consen  234 LMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYD  312 (564)
T ss_pred             HHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhh
Confidence            333444444444444444444444333333 22222222223333444444444433333221 1122223323333334


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHH
Q 022531           92 VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAES  171 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (295)
                      .++++.|+.+-++-.+... .+...|-.-...+...+++++|.-.|+..+..  -|.+...|.-++.+|...|++.+|.-
T Consensus       313 ~K~~~rAL~~~eK~I~~~~-r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L--ap~rL~~Y~GL~hsYLA~~~~kEA~~  389 (564)
T KOG1174|consen  313 EKKFERALNFVEKCIDSEP-RNHEALILKGRLLIALERHTQAVIAFRTAQML--APYRLEIYRGLFHSYLAQKRFKEANA  389 (564)
T ss_pred             hhhHHHHHHHHHHHhccCc-ccchHHHhccHHHHhccchHHHHHHHHHHHhc--chhhHHHHHHHHHHHHhhchHHHHHH
Confidence            4555556655555554322 13444554555667778888888888887753  34567788888888888888888877


Q ss_pred             HHHHHHHHhcCCCccccHHHHH-HHHH-hcCCHHHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          172 STLVEAEKSITQRQWITYDFLI-ILYA-GLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~li-~~~~-~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                       .-+...+..+. +..+.+.+. ..+. ....-++|..+++.-...  .|+- ...+.+...+.+.|..+++..+++...
T Consensus       390 -~An~~~~~~~~-sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~--~P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L  465 (564)
T KOG1174|consen  390 -LANWTIRLFQN-SARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI--NPIYTPAVNLIAELCQVEGPTKDIIKLLEKHL  465 (564)
T ss_pred             -HHHHHHHHhhc-chhhhhhhcceeeccCchhHHHHHHHHHhhhcc--CCccHHHHHHHHHHHHhhCccchHHHHHHHHH
Confidence             55555544433 444444432 1221 223346777777754443  4442 345677888999999999999999988


Q ss_pred             hhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          249 QSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       249 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..   .||....+.|.+.+...+.+++|++.|...+.
T Consensus       466 ~~---~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  466 II---FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             hh---ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            74   38999999999999999999999999988775

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

Probab=99.33  E-value=4.7e-09  Score=90.33  Aligned_cols=273  Identities=14%  Similarity=0.090  Sum_probs=185.5

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      +..+..|-+|...|-..|+.+++...+-......| |...|..+.....+.|.+++|.-+|.+.++.. +++...+---+
T Consensus       170 p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~cy~rAI~~~-p~n~~~~~ers  248 (895)
T KOG2076|consen  170 PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARYCYSRAIQAN-PSNWELIYERS  248 (895)
T ss_pred             ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-CcchHHHHHHH
Confidence            44567888999999999999999888766666556 78889999999889999999999999988875 55655555667


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHH----HHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL----WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  162 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~----li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (295)
                      ..|-+.|+...|...|.++.+...+.|..-+..    .+..+...++-+.|.+.++......+-..+...++.++..|.+
T Consensus       249 ~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~s~~~~~~~~ed~ni~ael~l~  328 (895)
T KOG2076|consen  249 SLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGALSKEKDEASLEDLNILAELFLK  328 (895)
T ss_pred             HHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhccccccccHHHHHHHHHHH
Confidence            778888888888888888887644333332332    3444555666677777777665533444555566666666666


Q ss_pred             cCchhhHHHHHHHHHHH-------------------------------------------------------------hc
Q 022531          163 ASHLVNAESSTLVEAEK-------------------------------------------------------------SI  181 (295)
Q Consensus       163 ~~~~~~a~~~~~~~~~~-------------------------------------------------------------~~  181 (295)
                      ...++.|.. .......                                                             ..
T Consensus       329 ~~q~d~~~~-~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v~rl~icL~~L~~~e~~e~ll~~l~~~n  407 (895)
T KOG2076|consen  329 NKQSDKALM-KIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRVIRLMICLVHLKERELLEALLHFLVEDN  407 (895)
T ss_pred             hHHHHHhhH-HHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchhHhHhhhhhcccccchHHHHHHHHHHhc
Confidence            666666655 2222211                                                             11


Q ss_pred             --CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHH
Q 022531          182 --TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA  259 (295)
Q Consensus       182 --~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~  259 (295)
                        +.-++-.|..+..+|...|++.+|+++|..+......-+...|-.+.++|...|..++|.+.|.......  +.+...
T Consensus       408 ~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~e~A~e~y~kvl~~~--p~~~D~  485 (895)
T KOG2076|consen  408 VWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEYEEAIEFYEKVLILA--PDNLDA  485 (895)
T ss_pred             CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhHHHHHHHHHHHHhcC--CCchhh
Confidence              1112334455666677777778888877777766544455667777777777888888888777777643  234445


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHH
Q 022531          260 CNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       260 ~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      --.|-..+.+.|+.++|.+.+..|.
T Consensus       486 Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  486 RITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             hhhHHHHHHhcCCHHHHHHHHhccc
Confidence            5566777777788888777777765

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

Probab=99.33  E-value=7.2e-10  Score=88.70  Aligned_cols=256  Identities=14%  Similarity=0.070  Sum_probs=184.6

Q ss_pred             HHHhccChhHHHHHHhhcccCC-C--CHHHHHH-HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 022531           20 LMTKVFGIHSGERYFEGLPLSA-K--TSETYTA-LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV   95 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~~~~~~-p--~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~   95 (295)
                      -+.+.|+++.|.++++-+.... .  +...-|. .+..+-...++..|...-+.....+ +-+......-.+.-...|++
T Consensus       428 ~~lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~  506 (840)
T KOG2003|consen  428 ELLKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDL  506 (840)
T ss_pred             HHHhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcH
Confidence            4678899999999988877642 1  2222222 2333323446777777776665443 22333333333344567999


Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHH
Q 022531           96 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  175 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (295)
                      ++|.+.|++.+...-.-....|+ +.-.+-..|+.++|++.|-++..  -...+..+...+.+.|....+...|.+ ++.
T Consensus       507 dka~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~--il~nn~evl~qianiye~led~aqaie-~~~  582 (840)
T KOG2003|consen  507 DKAAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHA--ILLNNAEVLVQIANIYELLEDPAQAIE-LLM  582 (840)
T ss_pred             HHHHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHH--HHHhhHHHHHHHHHHHHHhhCHHHHHH-HHH
Confidence            99999999998753221222233 33346788999999999988765  345678888899999999999999999 665


Q ss_pred             HHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC
Q 022531          176 EAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF  255 (295)
Q Consensus       176 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~  255 (295)
                      +... .++.|....+.|...|-+.|+-.+|.+.+-.--. -++-|..+...|...|....-+++|+.+|++..   ...|
T Consensus       583 q~~s-lip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaa---liqp  657 (840)
T KOG2003|consen  583 QANS-LIPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAA---LIQP  657 (840)
T ss_pred             Hhcc-cCCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHH---hcCc
Confidence            5533 4445788899999999999999999987754322 245677888888888998888999999998765   4579


Q ss_pred             CHHHHHHHHHHH-HccCChHHHHHHHHHHHh
Q 022531          256 DISACNRLLGAF-SDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       256 ~~~~~~~l~~~~-~~~g~~~~a~~~~~~m~~  285 (295)
                      +..-|..++..| .+.|++.+|.++++...+
T Consensus       658 ~~~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  658 NQSKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             cHHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            999999887655 678999999999998865

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.33  E-value=2.2e-09  Score=85.50  Aligned_cols=196  Identities=16%  Similarity=0.090  Sum_probs=145.3

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ...|..+...+.+.|+.++|...|++.....| +...|+.+...+...|++++|...|++..+.. +-+..+|..+..++
T Consensus        64 a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l  142 (296)
T PRK11189         64 AQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEAFDSVLELD-PTYNYAYLNRGIAL  142 (296)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34577788889999999999999999988877 78999999999999999999999999999875 33577889999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      ...|++++|++.|++..+.  .|+..........+...+++++|...|.+....  ..|+...+ .  ......|+...+
T Consensus       143 ~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~--~~~~~~~~-~--~~~~~lg~~~~~  215 (296)
T PRK11189        143 YYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYEK--LDKEQWGW-N--IVEFYLGKISEE  215 (296)
T ss_pred             HHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhh--CCccccHH-H--HHHHHccCCCHH
Confidence            9999999999999999885  344332222233345667899999999776543  23332222 2  223345555443


Q ss_pred             HHHHHHHHHHhcC------CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 022531          170 ESSTLVEAEKSIT------QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       170 ~~~~~~~~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  216 (295)
                       + .+..+.....      +....+|..+...+...|+.++|+..|++....+
T Consensus       216 -~-~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        216 -T-LMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             -H-HHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence             2 2333332211      1133578889999999999999999999988764

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.30  E-value=1.3e-08  Score=83.73  Aligned_cols=266  Identities=10%  Similarity=-0.059  Sum_probs=158.5

Q ss_pred             HHHHHhccChhHHHHHHhhcccCCC-CHHHHHH---HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLSAK-TSETYTA---LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG   93 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~---li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~   93 (295)
                      ...+...|++++|.++++...+..| +...+..   ........+..+.+.+.+.. .....+........+...+...|
T Consensus        50 a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          50 ALSAWIAGDLPKALALLEQLLDDYPRDLLALKLHLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHhHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcC
Confidence            3345667889999999988777666 4445442   22222224555555555554 21222223445556677888899


Q ss_pred             CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH--HHHHHHHHHHHhcCchhhHHH
Q 022531           94 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW--VKYVNLVNIYITASHLVNAES  171 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~  171 (295)
                      ++++|.+.+++..+... .+...+..+...+...|++++|...+++........|+.  ..|..+...+...|++++|..
T Consensus       129 ~~~~A~~~~~~al~~~p-~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~  207 (355)
T cd05804         129 QYDRAEEAARRALELNP-DDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA  207 (355)
T ss_pred             CHHHHHHHHHHHHhhCC-CCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH
Confidence            99999999999888642 345677778888889999999999998877642212332  345578888899999999999


Q ss_pred             HHHHHHHHhcCC-CccccH-H--HHHHHHHhcCCHHHHHHH--HHHHHhccC--CCCHHhHHHHHHHHHhcCChHHHHHH
Q 022531          172 STLVEAEKSITQ-RQWITY-D--FLIILYAGLGNKDKIDQI--WKSLRMTKQ--KMTSRNYICILSSYLMLGHLKEVGEI  243 (295)
Q Consensus       172 ~~~~~~~~~~~~-~~~~~~-~--~li~~~~~~g~~~~a~~~--~~~m~~~~~--~~~~~~~~~li~~~~~~~~~~~A~~~  243 (295)
                       .++......+. +..... +  .++.-+...|....+.++  +........  ......-.....++...|+.+.|.++
T Consensus       208 -~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~  286 (355)
T cd05804         208 -IYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKL  286 (355)
T ss_pred             -HHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHH
Confidence             78776433221 111111 1  222223334443333333  111111110  11111222567777888999999999


Q ss_pred             HHHHhhhcCC-------CCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          244 IDQWKQSATS-------DFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       244 ~~~~~~~~~~-------~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      ++.+......       ...+...-...-++...|+.++|.+.+.+.+..
T Consensus       287 L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         287 LAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9888663311       011222222333456889999999998887654

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.

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

Probab=99.29  E-value=3.5e-08  Score=82.60  Aligned_cols=225  Identities=10%  Similarity=0.015  Sum_probs=114.8

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   92 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~   92 (295)
                      |.....+--..|..+.-..+|+......| ....|-.....+...|++..|..++....+.. +-+...|-+-+..-...
T Consensus       553 Wlra~~~ek~hgt~Esl~Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en  631 (913)
T KOG0495|consen  553 WLRAAMFEKSHGTRESLEALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFEN  631 (913)
T ss_pred             HHHHHHHHHhcCcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhcc
Confidence            33333333344555555555555555544 44445555555556666666666666666553 23455666666666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHH
Q 022531           93 GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  172 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (295)
                      .+++.|..+|.+....  .|+...|.--+..---.+..++|++++++..+.  ++.-...|..+.+.+.+.++++.|.+ 
T Consensus       632 ~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~-  706 (913)
T KOG0495|consen  632 DELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMARE-  706 (913)
T ss_pred             ccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHH-
Confidence            6666666666665553  344455544444444455666666666665552  33334455555555666666666555 


Q ss_pred             HHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          173 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      .|..-.+. ++.....|-.|...=-+.|.+-+|..++++.+-.+ +-+...|...|+.=.+.|..+.|..+..+
T Consensus       707 aY~~G~k~-cP~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmak  778 (913)
T KOG0495|consen  707 AYLQGTKK-CPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAK  778 (913)
T ss_pred             HHHhcccc-CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHH
Confidence            33221111 11123334444444444455555555555544433 22334444555555555555555444433

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

Probab=99.29  E-value=3.1e-08  Score=82.88  Aligned_cols=263  Identities=11%  Similarity=0.021  Sum_probs=209.4

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      .+|..-.+.|.+.+.++-|..+|....+..| +...|......--..|..+....+|++.... .+-....|-.....+-
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~Allqkav~~-~pkae~lwlM~ake~w  595 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQ-CPKAEILWLMYAKEKW  595 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCcchhHHHHHHHHHH
Confidence            3566667788888888888888888887766 7788888888888888899999999988877 3445556666667777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      ..|+...|..++.+..+.... +...|-..+..-..+.+++.|..+|.+....   .|+..+|..-+...--.++.++|.
T Consensus       596 ~agdv~~ar~il~~af~~~pn-seeiwlaavKle~en~e~eraR~llakar~~---sgTeRv~mKs~~~er~ld~~eeA~  671 (913)
T KOG0495|consen  596 KAGDVPAARVILDQAFEANPN-SEEIWLAAVKLEFENDELERARDLLAKARSI---SGTERVWMKSANLERYLDNVEEAL  671 (913)
T ss_pred             hcCCcHHHHHHHHHHHHhCCC-cHHHHHHHHHHhhccccHHHHHHHHHHHhcc---CCcchhhHHHhHHHHHhhhHHHHH
Confidence            789999999999988886433 6778888888888999999999999988854   578888888888888889999999


Q ss_pred             HHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          171 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      + ++++..+..+. -...|..+.+.+-..++.+.|.+.|..=.+.  -|+ ...|..|...=.+.|.+-.|..++++...
T Consensus       672 r-llEe~lk~fp~-f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~--cP~~ipLWllLakleEk~~~~~rAR~ildrarl  747 (913)
T KOG0495|consen  672 R-LLEEALKSFPD-FHKLWLMLGQIEEQMENIEMAREAYLQGTKK--CPNSIPLWLLLAKLEEKDGQLVRARSILDRARL  747 (913)
T ss_pred             H-HHHHHHHhCCc-hHHHHHHHhHHHHHHHHHHHHHHHHHhcccc--CCCCchHHHHHHHHHHHhcchhhHHHHHHHHHh
Confidence            9 77877776643 2356667777788888888888887653332  344 34566777777888899999999999888


Q ss_pred             hcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          250 SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       250 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ++  +.|...|-..|+.=.+.|+.+.|..+..+.++
T Consensus       748 kN--Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ  781 (913)
T KOG0495|consen  748 KN--PKNALLWLESIRMELRAGNKEQAELLMAKALQ  781 (913)
T ss_pred             cC--CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            66  46888999999999999999999998888775

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

Probab=99.27  E-value=2.3e-09  Score=86.45  Aligned_cols=223  Identities=12%  Similarity=0.060  Sum_probs=146.4

Q ss_pred             HHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 022531           19 DLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   97 (295)
Q Consensus        19 ~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~   97 (295)
                      .++.-.|+.-.|.+-|+......| +...|--+..+|+...+-++....|.+..+.+ +-++.+|..-...+.-.+++++
T Consensus       334 tF~fL~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~  412 (606)
T KOG0547|consen  334 TFHFLKGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEE  412 (606)
T ss_pred             hhhhhcCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHH
Confidence            344456777777777777766655 44447777777777777788888888777765 4566777777777777777888


Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHH
Q 022531           98 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  177 (295)
Q Consensus        98 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (295)
                      |..=|++....... +...|..+.-+.-+.++++++...|++.++  .+|..+.+|+.....+...++++.|.+ .++..
T Consensus       413 A~aDF~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k-~YD~a  488 (606)
T KOG0547|consen  413 AIADFQKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVK-QYDKA  488 (606)
T ss_pred             HHHHHHHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHH-HHHHH
Confidence            88888777764221 345555555555677778888888888777  356667777777888888888888887 66665


Q ss_pred             HHhcCCCcc-----cc--HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          178 EKSITQRQW-----IT--YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       178 ~~~~~~~~~-----~~--~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      ..--+..+.     .+  --.++.. .-.+++..|++++++..+... -....|..|.+.-.+.|+.++|+++|+.-.
T Consensus       489 i~LE~~~~~~~v~~~plV~Ka~l~~-qwk~d~~~a~~Ll~KA~e~Dp-kce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  489 IELEPREHLIIVNAAPLVHKALLVL-QWKEDINQAENLLRKAIELDP-KCEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             HhhccccccccccchhhhhhhHhhh-chhhhHHHHHHHHHHHHccCc-hHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            543332111     11  1111111 123677777777777665431 133457777777778888888888877654

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

Probab=99.22  E-value=1.1e-08  Score=82.57  Aligned_cols=225  Identities=11%  Similarity=0.028  Sum_probs=177.4

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  130 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  130 (295)
                      ...+.-.|+.-.|..-|+..+...-.+ ...|--+..+|+...+.++.++.|++..+.+.. |+.+|..-.....-.+++
T Consensus       333 gtF~fL~g~~~~a~~d~~~~I~l~~~~-~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q~  410 (606)
T KOG0547|consen  333 GTFHFLKGDSLGAQEDFDAAIKLDPAF-NSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQY  410 (606)
T ss_pred             hhhhhhcCCchhhhhhHHHHHhcCccc-chHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHHH
Confidence            334555788999999999999886333 333777888899999999999999999886543 566777777777888999


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          131 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      ++|..=|++.+.-  -+.+...|..+..+.-+.++++++.. .|++.....+. .+..|+.....+...+++++|.+.|+
T Consensus       411 e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~-~Fee~kkkFP~-~~Evy~~fAeiLtDqqqFd~A~k~YD  486 (606)
T KOG0547|consen  411 EEAIADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMK-TFEEAKKKFPN-CPEVYNLFAEILTDQQQFDKAVKQYD  486 (606)
T ss_pred             HHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhCCC-CchHHHHHHHHHhhHHhHHHHHHHHH
Confidence            9999999999874  35566677777778889999999999 99999888765 67889999999999999999999999


Q ss_pred             HHHhcc-----CCCCHHhHH--HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 022531          211 SLRMTK-----QKMTSRNYI--CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       211 ~m~~~~-----~~~~~~~~~--~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                      ...+..     +..+..++.  .++. +.-.+++..|.++++...+..  +.....|..|...-.+.|+.++|.++|++.
T Consensus       487 ~ai~LE~~~~~~~v~~~plV~Ka~l~-~qwk~d~~~a~~Ll~KA~e~D--pkce~A~~tlaq~~lQ~~~i~eAielFEks  563 (606)
T KOG0547|consen  487 KAIELEPREHLIIVNAAPLVHKALLV-LQWKEDINQAENLLRKAIELD--PKCEQAYETLAQFELQRGKIDEAIELFEKS  563 (606)
T ss_pred             HHHhhccccccccccchhhhhhhHhh-hchhhhHHHHHHHHHHHHccC--chHHHHHHHHHHHHHHHhhHHHHHHHHHHH
Confidence            876542     112222222  1111 123489999999999998854  456778999999999999999999999975


Q ss_pred             H
Q 022531          284 L  284 (295)
Q Consensus       284 ~  284 (295)
                      .
T Consensus       564 a  564 (606)
T KOG0547|consen  564 A  564 (606)
T ss_pred             H
Confidence            4

>cd05804 StaR_like StaR_like; a well-conserved protein found in bacteria, plants, and animals

Probab=99.20  E-value=2.4e-07  Score=76.18  Aligned_cols=269  Identities=11%  Similarity=-0.021  Sum_probs=170.9

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC---CH-HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK---TS-ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p---~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      ...|..+...+...|+.+.+...+.......|   +. .........+...|++++|.+++++..+.. |.+...+.. .
T Consensus         6 ~~a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~   83 (355)
T cd05804           6 ALGHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDY-PRDLLALKL-H   83 (355)
T ss_pred             HHHHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-h
Confidence            44667777777778888887777666554422   22 223333456677899999999999988764 445555553 2


Q ss_pred             HHHHh----cCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 022531           87 TLYMS----VGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  161 (295)
Q Consensus        87 ~~~~~----~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (295)
                      ..+..    .+..+.+.+.++.  ..+..|+ ......+...+...|++++|...+++..+.  .+.+...+..+..++.
T Consensus        84 ~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~  159 (355)
T cd05804          84 LGAFGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLE  159 (355)
T ss_pred             HHHHHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHH
Confidence            23333    4455555555554  1122333 334455666788999999999999999985  3556778889999999


Q ss_pred             hcCchhhHHHHHHHHHHHhcCC-Ccc--ccHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CCCHHhH-H--HHHHHHHhc
Q 022531          162 TASHLVNAESSTLVEAEKSITQ-RQW--ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KMTSRNY-I--CILSSYLML  234 (295)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~-~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~-~--~li~~~~~~  234 (295)
                      ..|++++|.. .+.......+. ++.  ..|..+...+...|+.++|..++++...... .+..... +  .++.-+...
T Consensus       160 ~~g~~~eA~~-~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  238 (355)
T cd05804         160 MQGRFKEGIA-FMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELA  238 (355)
T ss_pred             HcCCHHHHHH-HHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhc
Confidence            9999999999 88877665432 222  2355678889999999999999999854322 1111111 1  334444455


Q ss_pred             CChHHHHHH--HHHHhhhcCC-CCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          235 GHLKEVGEI--IDQWKQSATS-DFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       235 ~~~~~A~~~--~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      |..+.+.++  +......... ............++...|+.+.|...++.+...
T Consensus       239 g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~  293 (355)
T cd05804         239 GHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGR  293 (355)
T ss_pred             CCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHH
Confidence            544433333  2211111100 111122235677888999999999999988653

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.

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.19  E-value=1.5e-07  Score=76.04  Aligned_cols=271  Identities=9%  Similarity=0.090  Sum_probs=153.4

Q ss_pred             CCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhC-CC-CCCHHHHH
Q 022531            6 EFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQS-NL-SFNALMYN   83 (295)
Q Consensus         6 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~-~p~~~~~~   83 (295)
                      .+.|+.+.|.+.|.+=.+.+.++.|..+++...-.+|++.+|--....--++|.+..|..+|+...+. |- ..+...++
T Consensus       169 ~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~d~~~e~lfv  248 (677)
T KOG1915|consen  169 EWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGDDEEAEILFV  248 (677)
T ss_pred             cCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhhHHHHHHHHH
Confidence            46789999999999999999999999999988887899999988888888889988888888877653 10 00112222


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC------------------------C-------------------CCCChHhHHHH
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRK------------------------N-------------------VVPDIFTYNLW  120 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~------------------------~-------------------~~p~~~~~~~l  120 (295)
                      +...-=.++..++.|.-+|+-..+.                        |                   -+-|-.+|--.
T Consensus       249 aFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~np~nYDsWfdy  328 (677)
T KOG1915|consen  249 AFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKNPYNYDSWFDY  328 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhCCCCchHHHHH
Confidence            2222222333344333333222111                        0                   11233455556


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCCCHH-------HHHHH---HHHHHhcCchhhHHHHHHHHHHHhcCCCccccHH
Q 022531          121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWV-------KYVNL---VNIYITASHLVNAESSTLVEAEKSITQRQWITYD  190 (295)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~~l---~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (295)
                      ++.-...|+.+...++|+++..  +++|-..       +|.-+   +-.-....+.+.+.+ ++....+-.+ ....||.
T Consensus       329 lrL~e~~g~~~~Ire~yErAIa--nvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~-vyq~~l~lIP-HkkFtFa  404 (677)
T KOG1915|consen  329 LRLEESVGDKDRIRETYERAIA--NVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQ-VYQACLDLIP-HKKFTFA  404 (677)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHc--cCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-HHHHHHhhcC-cccchHH
Confidence            6666677888888888888886  4555321       11111   111123456666667 6666665332 3445554


Q ss_pred             HHHHHHH----hcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q 022531          191 FLIILYA----GLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  266 (295)
Q Consensus       191 ~li~~~~----~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (295)
                      .+--.|+    ++.++..|.+++...  .|..|-..+|-..|..=.+.+.+|...++++...+-+  +-|..+|......
T Consensus       405 KiWlmyA~feIRq~~l~~ARkiLG~A--IG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~--Pe~c~~W~kyaEl  480 (677)
T KOG1915|consen  405 KIWLMYAQFEIRQLNLTGARKILGNA--IGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS--PENCYAWSKYAEL  480 (677)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHH--hccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--hHhhHHHHHHHHH
Confidence            4333332    445555555555543  2334555555555555555555555555555555432  2344445444444


Q ss_pred             HHccCChHHHHHHHHHHH
Q 022531          267 FSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       267 ~~~~g~~~~a~~~~~~m~  284 (295)
                      =...|+.+.|..+|.-.+
T Consensus       481 E~~LgdtdRaRaifelAi  498 (677)
T KOG1915|consen  481 ETSLGDTDRARAIFELAI  498 (677)
T ss_pred             HHHhhhHHHHHHHHHHHh
Confidence            444555555555554443

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=99.18  E-value=1.4e-08  Score=83.54  Aligned_cols=253  Identities=13%  Similarity=0.028  Sum_probs=194.1

Q ss_pred             HHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022531           20 LMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKV   98 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a   98 (295)
                      -+.+.|++.+|.-.|+......| +...|-.|....+..++-..|+..+++..+.+ +-+..+.-.|.-.|...|.-.+|
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHH
Confidence            45688999999999999988888 88999999999999999999999999999886 55778889999999999999999


Q ss_pred             HHHHHHHHhCCCC--------CChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           99 ALVVEEIKRKNVV--------PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        99 ~~~~~~m~~~~~~--------p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      +..++.......+        ++...-..  ..+.....+....++|-++....+..+|+.+...|.-.|--.|+++.|.
T Consensus       373 l~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  373 LKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            9999988654211        00000000  2223333455666777776665465688888889999999999999999


Q ss_pred             HHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          171 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      + .|+......+. |..+||-|...++...+.++|+.-|++..+.  +|+- +...-|.-+|...|.+++|.+.|-..+.
T Consensus       451 D-cf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  451 D-CFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             H-HHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            9 88888776654 8899999999999999999999999998876  5653 2233477888999999999998876543


Q ss_pred             ---hc-----CCCCCHHHHHHHHHHHHccCChHHHHHH
Q 022531          250 ---SA-----TSDFDISACNRLLGAFSDVGLTEKANEF  279 (295)
Q Consensus       250 ---~~-----~~~~~~~~~~~l~~~~~~~g~~~~a~~~  279 (295)
                         ++     ...++...|..|=.++.-.++.|-+.+.
T Consensus       527 mq~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  527 MQRKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hhhcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence               21     1123345787777777777777755443

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

Probab=99.17  E-value=1e-07  Score=83.01  Aligned_cols=267  Identities=14%  Similarity=0.024  Sum_probs=161.1

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCC---C-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH--HHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSA---K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA--LMYN   83 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~---p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~   83 (295)
                      +|...+.|.+.|.-.|+++.+..+...+....   + -...|..+.++|-..|++++|...|-+..+..  |+.  ..+-
T Consensus       269 nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~--~d~~~l~~~  346 (1018)
T KOG2002|consen  269 NPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKAD--NDNFVLPLV  346 (1018)
T ss_pred             CcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccC--CCCcccccc
Confidence            45566677777777777777777776665542   1 34456777777777777777777776666553  333  3344


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC----CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL----NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  159 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  159 (295)
                      .|...|.+.|+++.+...|+...+. .+-+..|..+|...|+..+    ..+.|..++......  .+.+...|-.+...
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~-~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~--~~~d~~a~l~laql  423 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQ-LPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQ--TPVDSEAWLELAQL  423 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHh-CcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhc--ccccHHHHHHHHHH
Confidence            5677777777777777777777665 2234566666666666554    446666666666653  35566666666666


Q ss_pred             HHhcCchhhHHHHHHHHH----HHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc---cCCCCHH------hHHH
Q 022531          160 YITASHLVNAESSTLVEA----EKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT---KQKMTSR------NYIC  226 (295)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~------~~~~  226 (295)
                      +....-+.. +. ++...    ...+..+.....|.+...+...|++++|...|......   ...++..      +--.
T Consensus       424 ~e~~d~~~s-L~-~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YN  501 (1018)
T KOG2002|consen  424 LEQTDPWAS-LD-AYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYN  501 (1018)
T ss_pred             HHhcChHHH-HH-HHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHH
Confidence            655544433 44 33332    23344455667777777778888888888888776544   1222221      1112


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          227 ILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       227 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +..++-..++.+.|.+.|..+.+..  +--+..|-.++......++..+|...++++.+
T Consensus       502 larl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~  558 (1018)
T KOG2002|consen  502 LARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARDKNNLYEASLLLKDALN  558 (1018)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHhccCcHHHHHHHHHHHh
Confidence            5555556667777777777776643  12233444444333344666667777766654

>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=99.11  E-value=1.1e-07  Score=80.40  Aligned_cols=228  Identities=19%  Similarity=0.197  Sum_probs=149.7

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHH-c---
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA-A---  126 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~-~---  126 (295)
                      ...+...|++++|++.+++-... +.............+.+.|+.++|..+|..+.+.+  |+...|...+..+. -   
T Consensus        11 ~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~~   87 (517)
T PF12569_consen   11 NSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQLQ   87 (517)
T ss_pred             HHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhcc
Confidence            34567889999999999876554 43445566788899999999999999999999974  55555554444443 1   


Q ss_pred             --cCCHHHHHHHHHHHhhcC---------------------------------CCCCCHHHHHHHHHHHHhcCchhhHHH
Q 022531          127 --TLNIDQVKKFLDEMSCDS---------------------------------GGSDDWVKYVNLVNIYITASHLVNAES  171 (295)
Q Consensus       127 --~~~~~~a~~~~~~~~~~~---------------------------------~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (295)
                        ..+.+....+|+++....                                 |+|   .+++.+-..|....+.+-..+
T Consensus        88 ~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~  164 (517)
T PF12569_consen   88 LSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIES  164 (517)
T ss_pred             cccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHH
Confidence              124566666776665431                                 111   233333344443333333333


Q ss_pred             HHHHHHHHhc--------------CCCcc--ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-HHhHHHHHHHHHhc
Q 022531          172 STLVEAEKSI--------------TQRQW--ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLML  234 (295)
Q Consensus       172 ~~~~~~~~~~--------------~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~  234 (295)
                       ++.......              ..|+.  .++..+.+.|...|++++|++++++..++  .|+ +..|..-.+.+-+.
T Consensus       165 -l~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~  241 (517)
T PF12569_consen  165 -LVEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHA  241 (517)
T ss_pred             -HHHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHC
Confidence             333332211              12222  23345566777888888888888877776  455 45566777788888


Q ss_pred             CChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCC
Q 022531          235 GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCA  289 (295)
Q Consensus       235 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~  289 (295)
                      |++++|.+.++....-.  ..|...-+..+..+.++|++++|.+++......+..
T Consensus       242 G~~~~Aa~~~~~Ar~LD--~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~  294 (517)
T PF12569_consen  242 GDLKEAAEAMDEARELD--LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVD  294 (517)
T ss_pred             CCHHHHHHHHHHHHhCC--hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCC
Confidence            88888888888887744  356777777777888888888888888887766653

N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].

>PF04733 Coatomer_E: Coatomer epsilon subunit; InterPro: IPR006822 Proteins synthesised on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=99.10  E-value=2.7e-08  Score=78.33  Aligned_cols=245  Identities=14%  Similarity=0.031  Sum_probs=136.8

Q ss_pred             HhccChhHHHHHHhhcccCCC--CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 022531           22 TKVFGIHSGERYFEGLPLSAK--TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   99 (295)
Q Consensus        22 ~~~~~~~~A~~~~~~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~   99 (295)
                      .-.|++..++.-.+ .....+  +.....-+.+++...|+.+.++   .++.... .|.......+...+...++-+.++
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---SEIKKSS-SPELQAVRLLAEYLSSPSDKESAL   86 (290)
T ss_dssp             HCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHH
T ss_pred             HHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHH
Confidence            34577777775554 222222  3445555667777777765433   3443333 566666655555554445555565


Q ss_pred             HHHHHHHhCCCCCChHhH-HHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Q 022531          100 LVVEEIKRKNVVPDIFTY-NLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAE  178 (295)
Q Consensus       100 ~~~~~m~~~~~~p~~~~~-~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (295)
                      .-+++....+..++..++ ......+...|++++|++++..     +  .+.......+.+|.+.++++.|.+ .+..+.
T Consensus        87 ~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~-----~--~~lE~~al~Vqi~L~~~R~dlA~k-~l~~~~  158 (290)
T PF04733_consen   87 EELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHK-----G--GSLELLALAVQILLKMNRPDLAEK-ELKNMQ  158 (290)
T ss_dssp             HHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTT-----T--TCHHHHHHHHHHHHHTT-HHHHHH-HHHHHH
T ss_pred             HHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHc-----c--CcccHHHHHHHHHHHcCCHHHHHH-HHHHHH
Confidence            555554444333222222 2223345566777777776543     1  344555667777778888888887 676665


Q ss_pred             HhcCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC
Q 022531          179 KSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  254 (295)
Q Consensus       179 ~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~  254 (295)
                      +..  .| .+...+..++..    .+.+.+|..+|+++.+. ..+++.+.+.+..+....|++++|.+++.+.....  +
T Consensus       159 ~~~--eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~--~  232 (290)
T PF04733_consen  159 QID--ED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD--P  232 (290)
T ss_dssp             CCS--CC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC---C
T ss_pred             hcC--Cc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--c
Confidence            432  12 333444444332    23577888888887554 45677777777777788888888888877776644  2


Q ss_pred             CCHHHHHHHHHHHHccCCh-HHHHHHHHHHHh
Q 022531          255 FDISACNRLLGAFSDVGLT-EKANEFHMLLLQ  285 (295)
Q Consensus       255 ~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~~  285 (295)
                      -+..+...++-+....|+. +.+.+++.++..
T Consensus       233 ~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  233 NDPDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             CHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             CCHHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            3455566666666667766 556667776654

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.

>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=99.09  E-value=1.7e-08  Score=79.44  Aligned_cols=225  Identities=12%  Similarity=0.045  Sum_probs=151.5

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA-LMYNEMMTLYM   90 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~   90 (295)
                      ..-..+.+++...|+++.++.-...-.  .|.......+...+...++-+.++.-+++.......++. .........+.
T Consensus        36 e~~~~~~Rs~iAlg~~~~vl~ei~~~~--~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~  113 (290)
T PF04733_consen   36 ERDFYQYRSYIALGQYDSVLSEIKKSS--SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILF  113 (290)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHS-TTS--SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCChhHHHHHhccCC--ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHH
Confidence            345567788888888776554433322  467667766666665545566666666665544433233 33333445577


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCch
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHL  166 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~  166 (295)
                      ..|++++|++++.+-      .+.......+..+.+.++++.|.+.++.|.+.   ..| .+...+..++..    ...+
T Consensus       114 ~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~---~eD-~~l~qLa~awv~l~~g~e~~  183 (290)
T PF04733_consen  114 HEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNMQQI---DED-SILTQLAEAWVNLATGGEKY  183 (290)
T ss_dssp             CCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC---SCC-HHHHHHHHHHHHHHHTTTCC
T ss_pred             HcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc---CCc-HHHHHHHHHHHHHHhCchhH
Confidence            789999999988642      36677788899999999999999999999875   233 333444444433    4468


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCCh-HHHHHHHH
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL-KEVGEIID  245 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-~~A~~~~~  245 (295)
                      .+|.. +|+++.+. ..+++.+.+.+..++...|++++|.+++.+..+.+ +-++.+...++.+....|+. +.+.+++.
T Consensus       184 ~~A~y-~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~  260 (290)
T PF04733_consen  184 QDAFY-IFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLS  260 (290)
T ss_dssp             CHHHH-HHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHH
T ss_pred             HHHHH-HHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHH
Confidence            99999 99997664 34677888888899999999999999999876654 33456666788887888877 67788888


Q ss_pred             HHhhhc
Q 022531          246 QWKQSA  251 (295)
Q Consensus       246 ~~~~~~  251 (295)
                      ++....
T Consensus       261 qL~~~~  266 (290)
T PF04733_consen  261 QLKQSN  266 (290)
T ss_dssp             HCHHHT
T ss_pred             HHHHhC
Confidence            887753

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.

>KOG1915 consensus Cell cycle control protein (crooked neck) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.07  E-value=1.3e-06  Score=70.92  Aligned_cols=265  Identities=10%  Similarity=0.070  Sum_probs=200.1

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCC-CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSA-KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   92 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~   92 (295)
                      |..-..-=...+++..|.++|+...... .++..|-..+.+-.++..+..|..+|++.... +|--...|.--+.+=-..
T Consensus        76 WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~-lPRVdqlWyKY~ymEE~L  154 (677)
T KOG1915|consen   76 WIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTI-LPRVDQLWYKYIYMEEML  154 (677)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHh-cchHHHHHHHHHHHHHHh
Confidence            3333333345677889999999988864 58889999999999999999999999998876 222234676777777778


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHH
Q 022531           93 GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  172 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (295)
                      |++..|.++|++-.+  ..|+...|.+.|+.=.+-..++.|..++++..-   +.|+...|--....-.++|+...|.. 
T Consensus       155 gNi~gaRqiferW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~-  228 (677)
T KOG1915|consen  155 GNIAGARQIFERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALARS-  228 (677)
T ss_pred             cccHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHH-
Confidence            999999999999887  589999999999999999999999999999884   46999999999999999999999999 


Q ss_pred             HHHHHHHhcCCC--ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH---HhHHHHHHHHHhcCChHHHHHH----
Q 022531          173 TLVEAEKSITQR--QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS---RNYICILSSYLMLGHLKEVGEI----  243 (295)
Q Consensus       173 ~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~~~~~~A~~~----  243 (295)
                      +++...+.....  +...+.++...-.++..++.|.-+|+-..+.  -|..   ..|..+..-=-+-|+.......    
T Consensus       229 VyerAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~--~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~K  306 (677)
T KOG1915|consen  229 VYERAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDH--IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGK  306 (677)
T ss_pred             HHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhh
Confidence            888877654331  2344555555555678889999999877765  2333   3344444433345554333322    


Q ss_pred             ----HHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCC
Q 022531          244 ----IDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP  290 (295)
Q Consensus       244 ----~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p  290 (295)
                          ++.+.+.+  +.|-.+|--.++.-...|+.+...++|++.+. +++|
T Consensus       307 Rk~qYE~~v~~n--p~nYDsWfdylrL~e~~g~~~~Ire~yErAIa-nvpp  354 (677)
T KOG1915|consen  307 RKFQYEKEVSKN--PYNYDSWFDYLRLEESVGDKDRIRETYERAIA-NVPP  354 (677)
T ss_pred             hhhHHHHHHHhC--CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHc-cCCc
Confidence                34455544  45788898899999999999999999999986 4555

>PLN02789 farnesyltranstransferase

Probab=99.07  E-value=7.3e-07  Score=71.28  Aligned_cols=215  Identities=7%  Similarity=-0.056  Sum_probs=155.9

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccC-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      ++..+-..+...++.++|+.+.+.+....| +..+|+....++...| ++++++..++++.+.+ +.+..+|+.....+.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~  117 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHH
Confidence            444555666778899999999999988877 6667887777777777 5799999999999875 456678887766666


Q ss_pred             hcCCH--HHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc---Cc
Q 022531           91 SVGQV--EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA---SH  165 (295)
Q Consensus        91 ~~~~~--~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~  165 (295)
                      +.|..  ++++.+++++.+...+ |..+|+...-++.+.|+++++++.+.++.+.  .+.+..+|+....++.+.   |.
T Consensus       118 ~l~~~~~~~el~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~  194 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGG  194 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHhcccccc
Confidence            66653  6788889888886543 7788888888888999999999999999885  245666777666665554   22


Q ss_pred             h----hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc----CCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhc
Q 022531          166 L----VNAESSTLVEAEKSITQRQWITYDFLIILYAGL----GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML  234 (295)
Q Consensus       166 ~----~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~----g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  234 (295)
                      .    ++..+ +...+....+ -|...|+-+...+...    ++..+|.+++.+....+ ..+...+..|+..|+..
T Consensus       195 ~~~~~e~el~-y~~~aI~~~P-~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        195 LEAMRDSELK-YTIDAILANP-RNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEG  268 (320)
T ss_pred             ccccHHHHHH-HHHHHHHhCC-CCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhh
Confidence            3    34555 5555555554 3778888888777763    34466888887766543 33555677788888753

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=99.06  E-value=4.3e-08  Score=82.89  Aligned_cols=222  Identities=11%  Similarity=-0.004  Sum_probs=155.0

Q ss_pred             CCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            7 FVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         7 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      ++|-...=..+.+.+...|-...|..+|+.+.       .|.-+|.+|+..|+..+|..+..+..++  +||+..|..+.
T Consensus       394 lpp~Wq~q~~laell~slGitksAl~I~Erle-------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LG  464 (777)
T KOG1128|consen  394 LPPIWQLQRLLAELLLSLGITKSALVIFERLE-------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLG  464 (777)
T ss_pred             CCCcchHHHHHHHHHHHcchHHHHHHHHHhHH-------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhh
Confidence            34444444567788888888999999888764       7888888888888888888888877774  57888888888


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      .......-+++|+++++.....       +-..+.....+.++++++.+.|+.-.+-  .+....+|-..-.+..+.+++
T Consensus       465 Dv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~  535 (777)
T KOG1128|consen  465 DVLHDPSLYEKAWELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLEKE  535 (777)
T ss_pred             hhccChHHHHHHHHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHhhh
Confidence            8777777778888877764332       1122222233467778888777776653  244556677777777778888


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      +.|.+ .|......- +.+...||++-.+|.+.|+-.+|...+++..+.+ .-+...|...+....+.|.+++|.+.+.+
T Consensus       536 q~av~-aF~rcvtL~-Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~r  612 (777)
T KOG1128|consen  536 QAAVK-AFHRCVTLE-PDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHR  612 (777)
T ss_pred             HHHHH-HHHHHhhcC-CCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHH
Confidence            88777 666554433 2356778888888888888888888887777665 33444555666667777888888888777


Q ss_pred             Hhh
Q 022531          247 WKQ  249 (295)
Q Consensus       247 ~~~  249 (295)
                      +..
T Consensus       613 ll~  615 (777)
T KOG1128|consen  613 LLD  615 (777)
T ss_pred             HHH
Confidence            755

>PF12854 PPR_1: PPR repeat

Probab=99.05  E-value=3.6e-10  Score=57.78  Aligned_cols=32  Identities=19%  Similarity=0.412  Sum_probs=18.5

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531           74 NLSFNALMYNEMMTLYMSVGQVEKVALVVEEI  105 (295)
Q Consensus        74 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  105 (295)
                      |++||..|||+||.+|++.|++++|.++|++|
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            45555555555555555555555555555555

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=99.05  E-value=1.4e-06  Score=73.18  Aligned_cols=172  Identities=11%  Similarity=0.070  Sum_probs=104.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC---------
Q 022531          116 TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ---------  183 (295)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---------  183 (295)
                      .|..+.+.|-..|+.+.|..+|++..+. ..+.-   ..+|-.-..+-.+..+++.|.+ +......--..         
T Consensus       389 Lw~~faklYe~~~~l~~aRvifeka~~V-~y~~v~dLa~vw~~waemElrh~~~~~Al~-lm~~A~~vP~~~~~~~yd~~  466 (835)
T KOG2047|consen  389 LWVEFAKLYENNGDLDDARVIFEKATKV-PYKTVEDLAEVWCAWAEMELRHENFEAALK-LMRRATHVPTNPELEYYDNS  466 (835)
T ss_pred             HHHHHHHHHHhcCcHHHHHHHHHHhhcC-CccchHHHHHHHHHHHHHHHhhhhHHHHHH-HHHhhhcCCCchhhhhhcCC
Confidence            4666777788888888888888887764 22221   3445555555566677777777 54443221100         


Q ss_pred             --------CccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC
Q 022531          184 --------RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF  255 (295)
Q Consensus       184 --------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~  255 (295)
                              .+...|+..++.--..|-++....+++++.+..+- ++.......-.+..+.-++++.++|++-..-.. .|
T Consensus       467 ~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~NyAmfLEeh~yfeesFk~YErgI~LFk-~p  544 (835)
T KOG2047|consen  467 EPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIINYAMFLEEHKYFEESFKAYERGISLFK-WP  544 (835)
T ss_pred             CcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCC-Cc
Confidence                    12234555555555677888888888888776643 222222233334455667778888877666443 24


Q ss_pred             CH-HHHHHHHHHHHc---cCChHHHHHHHHHHHhcCCCCCC
Q 022531          256 DI-SACNRLLGAFSD---VGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       256 ~~-~~~~~l~~~~~~---~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      ++ ..|+..+.-+.+   .-..+.|.++|++.++ |++|..
T Consensus       545 ~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~  584 (835)
T KOG2047|consen  545 NVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEH  584 (835)
T ss_pred             cHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHH
Confidence            43 356666665554   2367888888888887 777753

>PF12854 PPR_1: PPR repeat

Probab=99.02  E-value=5.9e-10  Score=56.98  Aligned_cols=34  Identities=18%  Similarity=0.137  Sum_probs=26.4

Q ss_pred             CCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcc
Q 022531            5 KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLP   38 (295)
Q Consensus         5 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~   38 (295)
                      +|+.||..+|++||++|++.|++++|.++|++|+
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            4677888888888888888888888888887774

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.00  E-value=1.3e-07  Score=73.02  Aligned_cols=170  Identities=13%  Similarity=0.067  Sum_probs=117.1

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh--Hh
Q 022531           42 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA---LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI--FT  116 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~  116 (295)
                      .....+..++..+...|++++|...|+++.... +.+.   .++..+..++.+.|++++|...++++.+.......  .+
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a  109 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRY-PFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYA  109 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHH
Confidence            466677777777778888888888888776653 2222   45667777778888888888888887764321111  13


Q ss_pred             HHHHHHHHHcc--------CCHHHHHHHHHHHhhcCCCCCCHHHH-----------------HHHHHHHHhcCchhhHHH
Q 022531          117 YNLWISSCAAT--------LNIDQVKKFLDEMSCDSGGSDDWVKY-----------------VNLVNIYITASHLVNAES  171 (295)
Q Consensus       117 ~~~li~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~-----------------~~l~~~~~~~~~~~~a~~  171 (295)
                      +..+..++.+.        |++++|.+.|+.+....  +.+...+                 ..+...+.+.|++++|..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~a~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~  187 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRRY--PNSEYAPDAKKRMDYLRNRLAGKELYVARFYLKRGAYVAAIN  187 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHHC--CCChhHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            44444444443        66777888888777641  2222111                 245678899999999999


Q ss_pred             HHHHHHHHhcCC-C-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          172 STLVEAEKSITQ-R-QWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       172 ~~~~~~~~~~~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                       .+....+..+. | ....+..+..++...|+.++|..+++.+...
T Consensus       188 -~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       188 -RFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             -HHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence             88888877653 2 3467889999999999999999999988765

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).

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.99  E-value=2.8e-07  Score=71.11  Aligned_cols=190  Identities=12%  Similarity=-0.007  Sum_probs=129.0

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH-HHH
Q 022531           77 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW-VKY  153 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~  153 (295)
                      .....+..+...+...|++++|...|+++...... |. ..++..+..++.+.|++++|...++++.+.....|.. .++
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~  110 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLHPNHPDADYAY  110 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCchHHHH
Confidence            45677888888999999999999999998775321 11 2466778888999999999999999998752212221 245


Q ss_pred             HHHHHHHHhc--------CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHH
Q 022531          154 VNLVNIYITA--------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI  225 (295)
Q Consensus       154 ~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  225 (295)
                      ..+..++.+.        |+.++|.+ .+..+....+. +...+..+.....    .      .....        ....
T Consensus       111 ~~~g~~~~~~~~~~~~~~~~~~~A~~-~~~~~~~~~p~-~~~~~~a~~~~~~----~------~~~~~--------~~~~  170 (235)
T TIGR03302       111 YLRGLSNYNQIDRVDRDQTAAREAFE-AFQELIRRYPN-SEYAPDAKKRMDY----L------RNRLA--------GKEL  170 (235)
T ss_pred             HHHHHHHHHhcccccCCHHHHHHHHH-HHHHHHHHCCC-ChhHHHHHHHHHH----H------HHHHH--------HHHH
Confidence            5555556554        67888888 77777665543 2222222211100    0      00000        0112


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhhcCCCC-CHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          226 CILSSYLMLGHLKEVGEIIDQWKQSATSDF-DISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       226 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      .+...+.+.|++++|...++...+.....| ....+..+..++...|++++|..+++.+..+
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            466778899999999999999987643222 3568889999999999999999999888764

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).

>KOG4318 consensus Bicoid mRNA stability factor [RNA processing and modification]

Probab=98.99  E-value=2.7e-08  Score=85.81  Aligned_cols=217  Identities=11%  Similarity=0.078  Sum_probs=122.4

Q ss_pred             CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH
Q 022531           41 AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  120 (295)
Q Consensus        41 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  120 (295)
                      .|+..||.++|.-||..|+++.|- +|.-|.-..++.+...|+.++.+..+.++.+.+.           .|...||..|
T Consensus        22 ~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-----------ep~aDtyt~L   89 (1088)
T KOG4318|consen   22 LPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-----------EPLADTYTNL   89 (1088)
T ss_pred             CCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-----------CCchhHHHHH
Confidence            366667777777777777766666 6666666655566666666666666666665554           4566667777


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHH-HhcCCCccccHHHHHHHHHhc
Q 022531          121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAE-KSITQRQWITYDFLIILYAGL  199 (295)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~li~~~~~~  199 (295)
                      ..+|...||...    |+...+         -...+...+...|.-..... ++..+. ..+..||.   .+.+.-....
T Consensus        90 l~ayr~hGDli~----fe~veq---------dLe~i~~sfs~~Gvgs~e~~-fl~k~~c~p~~lpda---~n~illlv~e  152 (1088)
T KOG4318|consen   90 LKAYRIHGDLIL----FEVVEQ---------DLESINQSFSDHGVGSPERW-FLMKIHCCPHSLPDA---ENAILLLVLE  152 (1088)
T ss_pred             HHHHHhccchHH----HHHHHH---------HHHHHHhhhhhhccCcHHHH-HHhhcccCcccchhH---HHHHHHHHHH
Confidence            777777666544    222221         11123333344444433333 222111 01111222   2333344556


Q ss_pred             CCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHH
Q 022531          200 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEF  279 (295)
Q Consensus       200 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  279 (295)
                      |-++.+++++..+-..... .  ++...++-+....  .-..++....+.-.. .|+..+|..++++-..+|+.+.|..+
T Consensus       153 glwaqllkll~~~Pvsa~~-~--p~~vfLrqnv~~n--tpvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~l  226 (1088)
T KOG4318|consen  153 GLWAQLLKLLAKVPVSAWN-A--PFQVFLRQNVVDN--TPVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNL  226 (1088)
T ss_pred             HHHHHHHHHHhhCCccccc-c--hHHHHHHHhccCC--chHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHH
Confidence            6666666666544221110 1  1111233333322  233455544433222 58999999999999999999999999


Q ss_pred             HHHHHhcCCCCCC
Q 022531          280 HMLLLQKNCAPTN  292 (295)
Q Consensus       280 ~~~m~~~g~~p~~  292 (295)
                      +.+|+++|+..+.
T Consensus       227 l~emke~gfpir~  239 (1088)
T KOG4318|consen  227 LYEMKEKGFPIRA  239 (1088)
T ss_pred             HHHHHHcCCCccc
Confidence            9999999997654

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.97  E-value=7.7e-07  Score=80.58  Aligned_cols=243  Identities=14%  Similarity=0.117  Sum_probs=178.6

Q ss_pred             HHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-----CHHHHHHHHHHHHhcCCHHHHHHHH
Q 022531           29 SGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF-----NALMYNEMMTLYMSVGQVEKVALVV  102 (295)
Q Consensus        29 ~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-----~~~~~~~li~~~~~~~~~~~a~~~~  102 (295)
                      .|.+ |+++....| +...|-..|......+++++|.+++++.+.. +.+     -...|.++++.-..-|.-+...++|
T Consensus      1443 saeD-ferlvrssPNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVF 1520 (1710)
T KOG1070|consen 1443 SAED-FERLVRSSPNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVF 1520 (1710)
T ss_pred             CHHH-HHHHHhcCCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHH
Confidence            4444 444444456 6778999999999999999999999988754 222     2346888888777778888889999


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcC
Q 022531          103 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       103 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                      +++.+.  --.-..|..|...|.+.+++++|.++|+.|.+..  .....+|...+..+.+..+-+.|.. ++.+..+..+
T Consensus      1521 eRAcqy--cd~~~V~~~L~~iy~k~ek~~~A~ell~~m~KKF--~q~~~vW~~y~~fLl~~ne~~aa~~-lL~rAL~~lP 1595 (1710)
T KOG1070|consen 1521 ERACQY--CDAYTVHLKLLGIYEKSEKNDEADELLRLMLKKF--GQTRKVWIMYADFLLRQNEAEAARE-LLKRALKSLP 1595 (1710)
T ss_pred             HHHHHh--cchHHHHHHHHHHHHHhhcchhHHHHHHHHHHHh--cchhhHHHHHHHHHhcccHHHHHHH-HHHHHHhhcc
Confidence            998874  1123458888889999999999999999999853  4677788899999999999999999 8888887776


Q ss_pred             CCc-cccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCH-HHH
Q 022531          183 QRQ-WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDI-SAC  260 (295)
Q Consensus       183 ~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~-~~~  260 (295)
                      +.. .......+..-.+.|+.+.+..+|+.+..... --...|+.+|+.-.++|+.+.+..+|++....+...-.. ..|
T Consensus      1596 k~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ayP-KRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfff 1674 (1710)
T KOG1070|consen 1596 KQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAYP-KRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFF 1674 (1710)
T ss_pred             hhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhCc-cchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHH
Confidence            633 23334455556788999999999998876642 233568899999999999999999999998876532222 355


Q ss_pred             HHHHHHHHccCChHHHHHH
Q 022531          261 NRLLGAFSDVGLTEKANEF  279 (295)
Q Consensus       261 ~~l~~~~~~~g~~~~a~~~  279 (295)
                      ...+.-=.+.|+-+.+..+
T Consensus      1675 KkwLeyEk~~Gde~~vE~V 1693 (1710)
T KOG1070|consen 1675 KKWLEYEKSHGDEKNVEYV 1693 (1710)
T ss_pred             HHHHHHHHhcCchhhHHHH
Confidence            6666555566765544443

>KOG1070 consensus rRNA processing protein Rrp5 [RNA processing and modification]

Probab=98.95  E-value=1.3e-06  Score=79.20  Aligned_cols=203  Identities=8%  Similarity=0.064  Sum_probs=115.0

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHH
Q 022531           78 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-----IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK  152 (295)
Q Consensus        78 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  152 (295)
                      +...|-.-|..+.+.++.++|.++.++.+.. +.+.     ...|.++++.-...|.-+...++|+++.+-  . ..-.+
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--c-d~~~V 1532 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--C-DAYTV 1532 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--c-chHHH
Confidence            3445666666666666666666666665543 2221     124555555555555556666666666552  1 12334


Q ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHH---hHHHHHH
Q 022531          153 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR---NYICILS  229 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~li~  229 (295)
                      |..|...|.+.+..++|-+ +++.|.+... .....|...+..+.++++-+.|.+++.+..+.  -|-..   .....++
T Consensus      1533 ~~~L~~iy~k~ek~~~A~e-ll~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~--lPk~eHv~~IskfAq 1608 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADE-LLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKS--LPKQEHVEFISKFAQ 1608 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHH-HHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh--cchhhhHHHHHHHHH
Confidence            5566666666666666666 6666665544 24456666666666666666666666655443  23211   1223344


Q ss_pred             HHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCC
Q 022531          230 SYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP  290 (295)
Q Consensus       230 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p  290 (295)
                      .-.+.|+.+++..+|+.......  .-...|+..++.-.++|+.+.++.+|++....++.|
T Consensus      1609 LEFk~GDaeRGRtlfEgll~ayP--KRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~ 1667 (1710)
T KOG1070|consen 1609 LEFKYGDAERGRTLFEGLLSAYP--KRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSI 1667 (1710)
T ss_pred             HHhhcCCchhhHHHHHHHHhhCc--cchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCCh
Confidence            44566666666666666665432  234456666666666666666666666666666554

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.92  E-value=9.2e-07  Score=78.74  Aligned_cols=231  Identities=11%  Similarity=0.003  Sum_probs=138.2

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ...+..|+..+...+++++|.++.+...+..| ....|-.+...+.+.++.+++..+                 .++...
T Consensus        31 ~~a~~~Li~~~~~~~~~deai~i~~~~l~~~P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l~~~   93 (906)
T PRK14720         31 FKELDDLIDAYKSENLTDEAKDICEEHLKEHKKSISALYISGILSLSRRPLNDSNLL-----------------NLIDSF   93 (906)
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCcceehHHHHHHHHHhhcchhhhhhh-----------------hhhhhc
Confidence            45666788888888888888888886666666 344555555566666665554444                 223333


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      ....++..+.-+...|...+  -+...+..+..+|-+.|+.+++..+++++.+..  +.++.+.|.+...|+.. ++++|
T Consensus        94 ~~~~~~~~ve~~~~~i~~~~--~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~D--~~n~~aLNn~AY~~ae~-dL~KA  168 (906)
T PRK14720         94 SQNLKWAIVEHICDKILLYG--ENKLALRTLAEAYAKLNENKKLKGVWERLVKAD--RDNPEIVKKLATSYEEE-DKEKA  168 (906)
T ss_pred             ccccchhHHHHHHHHHHhhh--hhhHHHHHHHHHHHHcCChHHHHHHHHHHHhcC--cccHHHHHHHHHHHHHh-hHHHH
Confidence            33344444444444454432  233467777888888888888888888888752  66777788888888877 88888


Q ss_pred             HHHHHHHHHHhcCCCccccHHHHHHH---H--HhcCCHHHHHHHHHHHHhc-cCCCCHHhHHHHHHHHHhcCChHHHHHH
Q 022531          170 ESSTLVEAEKSITQRQWITYDFLIIL---Y--AGLGNKDKIDQIWKSLRMT-KQKMTSRNYICILSSYLMLGHLKEVGEI  243 (295)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~li~~---~--~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~  243 (295)
                      .+ ++.+........  .-|+.+...   +  ....+++.-..+.+.+..+ |..--..++..+-..|-..++++++..+
T Consensus       169 ~~-m~~KAV~~~i~~--kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~i  245 (906)
T PRK14720        169 IT-YLKKAIYRFIKK--KQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYI  245 (906)
T ss_pred             HH-HHHHHHHHHHhh--hcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHH
Confidence            88 666555432110  011111110   1  1122333333444443332 2233334455566777788888888888


Q ss_pred             HHHHhhhcCCCCCHHHHHHHHHHHH
Q 022531          244 IDQWKQSATSDFDISACNRLLGAFS  268 (295)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~l~~~~~  268 (295)
                      ++...+..  +.|.....-++.+|.
T Consensus       246 LK~iL~~~--~~n~~a~~~l~~~y~  268 (906)
T PRK14720        246 LKKILEHD--NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhcC--CcchhhHHHHHHHHH
Confidence            88888754  457777777777776

>PLN02789 farnesyltranstransferase

Probab=98.90  E-value=8.9e-06  Score=65.15  Aligned_cols=230  Identities=9%  Similarity=-0.020  Sum_probs=165.3

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      ++..+-..+...++.++|+.+.+++++.. +-+..+|+..-.++...| ++++++..++++.+...+ +..+|+...-.+
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~~l  116 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRWLA  116 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHHHH
Confidence            45555556667788999999999999875 345567887777777777 689999999999987543 555677655555


Q ss_pred             HccCCH--HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc---
Q 022531          125 AATLNI--DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL---  199 (295)
Q Consensus       125 ~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~---  199 (295)
                      .+.|+.  ++++.+++.+...  .+-+..+|+...-++.+.|+++++++ .+.++.+..+. |...|+.....+.+.   
T Consensus       117 ~~l~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~-~~~~~I~~d~~-N~sAW~~R~~vl~~~~~l  192 (320)
T PLN02789        117 EKLGPDAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELE-YCHQLLEEDVR-NNSAWNQRYFVITRSPLL  192 (320)
T ss_pred             HHcCchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHH-HHHHHHHHCCC-chhHHHHHHHHHHhcccc
Confidence            566653  6788889888874  46788899999999999999999999 89988887655 667787766555443   


Q ss_pred             CCH----HHHHHHHHHHHhccCCCCHHhHHHHHHHHHhc----CChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccC
Q 022531          200 GNK----DKIDQIWKSLRMTKQKMTSRNYICILSSYLML----GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG  271 (295)
Q Consensus       200 g~~----~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  271 (295)
                      |..    ++.+++........ +-|...|+.+...+...    +...+|.+++.+.....  ..+......|++.|+...
T Consensus       193 ~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~--~~s~~al~~l~d~~~~~~  269 (320)
T PLN02789        193 GGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD--SNHVFALSDLLDLLCEGL  269 (320)
T ss_pred             ccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc--CCcHHHHHHHHHHHHhhh
Confidence            222    45666766665543 33556677777777663    34456888888876643  356778888999998632


Q ss_pred             ------------------ChHHHHHHHHHHH
Q 022531          272 ------------------LTEKANEFHMLLL  284 (295)
Q Consensus       272 ------------------~~~~a~~~~~~m~  284 (295)
                                        ..++|.+++..+.
T Consensus       270 ~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        270 QPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             ccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence                              2367888888873

>KOG1174 consensus Anaphase-promoting complex (APC), subunit 7 [Cell cycle control, cell division, chromosome partitioning; Posttranslational modification, protein turnover, chaperones]

Probab=98.89  E-value=3.4e-06  Score=67.30  Aligned_cols=262  Identities=10%  Similarity=-0.011  Sum_probs=180.7

Q ss_pred             HHHHHHHHHhc--cChhHHHH--HHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC-HHHHHHHHH
Q 022531           14 YATRIDLMTKV--FGIHSGER--YFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-ALMYNEMMT   87 (295)
Q Consensus        14 ~~~li~~~~~~--~~~~~A~~--~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~   87 (295)
                      ...-+.+++.+  ++-..|..  +|-+....-| |+.....+...+...|+.++|...|++....+  |+ ......-..
T Consensus       197 ls~wika~Aq~~~~~hs~a~~t~l~le~~~~lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~  274 (564)
T KOG1174|consen  197 LSKWIKALAQMFNFKHSDASQTFLMLHDNTTLRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAV  274 (564)
T ss_pred             HHHHHHHHHHHHhcccchhhhHHHHHHhhccCCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHH
Confidence            33444444443  33333333  3434343345 88899999999999999999999999888764  32 222233333


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh
Q 022531           88 LYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  167 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (295)
                      .+.+.|+++....+...+.... +-+...|..-.......++++.|+.+-++.++.  .+.+...|-.-...+...++.+
T Consensus       275 LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~~~l~~~K~~~rAL~~~eK~I~~--~~r~~~alilKG~lL~~~~R~~  351 (564)
T KOG1174|consen  275 LLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHAQLLYDEKKFERALNFVEKCIDS--EPRNHEALILKGRLLIALERHT  351 (564)
T ss_pred             HHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhhhhhhhhhhHHHHHHHHHHHhcc--CcccchHHHhccHHHHhccchH
Confidence            4567889999888888887642 234445655566666788999999999888874  3455666666667788899999


Q ss_pred             hHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHH-HHHH-hcCChHHHHHHHH
Q 022531          168 NAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICIL-SSYL-MLGHLKEVGEIID  245 (295)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~-~~~~~~~A~~~~~  245 (295)
                      +|.- .|.....-- +-+...|.-|+..|...|++.+|..+-+..... +.-+..+...+. ..+. ...--++|.++++
T Consensus       352 ~A~I-aFR~Aq~La-p~rL~~Y~GL~hsYLA~~~~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~e  428 (564)
T KOG1174|consen  352 QAVI-AFRTAQMLA-PYRLEIYRGLFHSYLAQKRFKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAE  428 (564)
T ss_pred             HHHH-HHHHHHhcc-hhhHHHHHHHHHHHHhhchHHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHH
Confidence            9887 677654433 347789999999999999999998877665443 234555555442 2232 2334577899998


Q ss_pred             HHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          246 QWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       246 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .-.+..  +.-....+.+...|...|..+.+..++++.+.
T Consensus       429 k~L~~~--P~Y~~AV~~~AEL~~~Eg~~~D~i~LLe~~L~  466 (564)
T KOG1174|consen  429 KSLKIN--PIYTPAVNLIAELCQVEGPTKDIIKLLEKHLI  466 (564)
T ss_pred             hhhccC--CccHHHHHHHHHHHHhhCccchHHHHHHHHHh
Confidence            877643  22355677888999999999999999998765

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.88  E-value=1.1e-07  Score=67.04  Aligned_cols=108  Identities=5%  Similarity=-0.191  Sum_probs=66.8

Q ss_pred             HHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 022531           32 RYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV  111 (295)
Q Consensus        32 ~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  111 (295)
                      .+|+......|+.  +..+...+...|++++|...|+...... +.+...|..+..++.+.|++++|...|++....+. 
T Consensus        14 ~~~~~al~~~p~~--~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p-   89 (144)
T PRK15359         14 DILKQLLSVDPET--VYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA-   89 (144)
T ss_pred             HHHHHHHHcCHHH--HHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-
Confidence            3444444433432  3345666666677777777777666654 44566666677777777777777777777666432 


Q ss_pred             CChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          112 PDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       112 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .+..++..+..++...|++++|...|+.....
T Consensus        90 ~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~  121 (144)
T PRK15359         90 SHPEPVYQTGVCLKMMGEPGLAREAFQTAIKM  121 (144)
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            25566666666666777777777777766653

>KOG1125 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.87  E-value=3.9e-07  Score=75.31  Aligned_cols=226  Identities=12%  Similarity=-0.015  Sum_probs=167.7

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  130 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  130 (295)
                      ..-+.+.|++.+|.-+|+...+.+ |-+...|.-|.......++-..|+..+++..+.... |....-.|.-.|...|.-
T Consensus       292 G~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~-NleaLmaLAVSytNeg~q  369 (579)
T KOG1125|consen  292 GCNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPT-NLEALMALAVSYTNEGLQ  369 (579)
T ss_pred             HHHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCc-cHHHHHHHHHHHhhhhhH
Confidence            344567899999999999998886 557889999999999999999999999999886332 567788888889999998


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHH-----HH--HHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHH
Q 022531          131 DQVKKFLDEMSCDSGGSDDWVKYVN-----LV--NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  203 (295)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~~-----l~--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  203 (295)
                      .+|++.|+.-... . +|-...-.+     ..  ..+.....+....+++++........+|......|...|--.|+++
T Consensus       370 ~~Al~~L~~Wi~~-~-p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRN-K-PKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHh-C-ccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            9999988875442 1 111000000     00  1111222333444423333334443467778888988999999999


Q ss_pred             HHHHHHHHHHhccCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCC-HHHHHHHHHHHHccCChHHHHHHHH
Q 022531          204 KIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD-ISACNRLLGAFSDVGLTEKANEFHM  281 (295)
Q Consensus       204 ~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~  281 (295)
                      +|...|+.....  +|+ ...||.|...++...+.++|+..|++.++-   +|+ +++...|.-+|...|.+++|...|-
T Consensus       448 raiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqL---qP~yVR~RyNlgIS~mNlG~ykEA~~hlL  522 (579)
T KOG1125|consen  448 RAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQL---QPGYVRVRYNLGISCMNLGAYKEAVKHLL  522 (579)
T ss_pred             HHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhc---CCCeeeeehhhhhhhhhhhhHHHHHHHHH
Confidence            999999988775  554 567999999999999999999999999883   344 5677778889999999999999887


Q ss_pred             HHHh
Q 022531          282 LLLQ  285 (295)
Q Consensus       282 ~m~~  285 (295)
                      ..+.
T Consensus       523 ~AL~  526 (579)
T KOG1125|consen  523 EALS  526 (579)
T ss_pred             HHHH
Confidence            7654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.86  E-value=1.2e-06  Score=66.90  Aligned_cols=270  Identities=9%  Similarity=-0.040  Sum_probs=170.0

Q ss_pred             CCCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH
Q 022531            5 KEFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYN   83 (295)
Q Consensus         5 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~   83 (295)
                      .+...-..-+++.+..+.+..++..|++++....+..| +....+.|..+|-...++..|-.+++++...-  |...-|.
T Consensus         4 ~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYr   81 (459)
T KOG4340|consen    4 SGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYR   81 (459)
T ss_pred             ccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHH
Confidence            44455555688889999999999999999988888767 88899999999999999999999999987753  4444433


Q ss_pred             H-HHHHHHhcCCHHHHHHHHHHHHhC------------------C----------CCC---ChHhHHHHHHHHHccCCHH
Q 022531           84 E-MMTLYMSVGQVEKVALVVEEIKRK------------------N----------VVP---DIFTYNLWISSCAATLNID  131 (295)
Q Consensus        84 ~-li~~~~~~~~~~~a~~~~~~m~~~------------------~----------~~p---~~~~~~~li~~~~~~~~~~  131 (295)
                      . -...+.+.+.+..|+++...|...                  +          ..|   +..+.+.......+.|+++
T Consensus        82 lY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyE  161 (459)
T KOG4340|consen   82 LYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYE  161 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHH
Confidence            1 233455566666777666655442                  0          011   1112222222234667888


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-------------ccc--------cHH
Q 022531          132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-------------QWI--------TYD  190 (295)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~~--------~~~  190 (295)
                      .|.+-|+...+-+|..|- .+|+..+.. -+.|+++.|.+ ...++.+.|++.             |+.        .-+
T Consensus       162 aAvqkFqaAlqvsGyqpl-lAYniALaH-y~~~qyasALk-~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~S  238 (459)
T KOG4340|consen  162 AAVQKFQAALQVSGYQPL-LAYNLALAH-YSSRQYASALK-HISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQS  238 (459)
T ss_pred             HHHHHHHHHHhhcCCCch-hHHHHHHHH-HhhhhHHHHHH-HHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHH
Confidence            888888888776666553 456554443 46678888888 777777766542             110        112


Q ss_pred             HHHHH-------HHhcCCHHHHHHHHHHHHhc-cCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHH
Q 022531          191 FLIIL-------YAGLGNKDKIDQIWKSLRMT-KQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR  262 (295)
Q Consensus       191 ~li~~-------~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  262 (295)
                      .++.+       +.+.|+++.|.+-+..|--. ....|+.|...+.-.-. .+++.+..+-+.-+.....  -...||..
T Consensus       239 al~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~-~~~p~~g~~KLqFLL~~nP--fP~ETFAN  315 (459)
T KOG4340|consen  239 ALVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMNM-DARPTEGFEKLQFLLQQNP--FPPETFAN  315 (459)
T ss_pred             HHHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhcc-cCCccccHHHHHHHHhcCC--CChHHHHH
Confidence            23332       34667777777777766321 12445566554332222 2333333444444444333  23567888


Q ss_pred             HHHHHHccCChHHHHHHHHH
Q 022531          263 LLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       263 l~~~~~~~g~~~~a~~~~~~  282 (295)
                      ++-.||+..-++.|.+++.+
T Consensus       316 lLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  316 LLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHhhhHHHhHHHHHHhh
Confidence            89999999999988888754

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.86  E-value=2.1e-07  Score=69.34  Aligned_cols=152  Identities=8%  Similarity=0.008  Sum_probs=109.3

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      -+-.|...|+++.+....+.+..  |. .       .+...++.+++...+++..+.+ +.|...|..|...|...|+++
T Consensus        22 ~~~~Y~~~g~~~~v~~~~~~~~~--~~-~-------~~~~~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~   90 (198)
T PRK10370         22 CVGSYLLSPKWQAVRAEYQRLAD--PL-H-------QFASQQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYD   90 (198)
T ss_pred             HHHHHHHcchHHHHHHHHHHHhC--cc-c-------cccCchhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHH
Confidence            44567788888887655543322  11 0       1123666778888888777765 567888888888888889999


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHH-HHccCC--HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISS-CAATLN--IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESST  173 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  173 (295)
                      +|...|++..+.... +...+..+..+ +...|+  .++|.+++++..+.  .+.+..++..+...+.+.|++++|.. .
T Consensus        91 ~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~--dP~~~~al~~LA~~~~~~g~~~~Ai~-~  166 (198)
T PRK10370         91 NALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQTREMIDKALAL--DANEVTALMLLASDAFMQADYAQAIE-L  166 (198)
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHh--CCCChhHHHHHHHHHHHcCCHHHHHH-H
Confidence            999988888886432 56667766665 356666  48888888888874  35567778888888888899999988 8


Q ss_pred             HHHHHHhcCC
Q 022531          174 LVEAEKSITQ  183 (295)
Q Consensus       174 ~~~~~~~~~~  183 (295)
                      ++++.+..+.
T Consensus       167 ~~~aL~l~~~  176 (198)
T PRK10370        167 WQKVLDLNSP  176 (198)
T ss_pred             HHHHHhhCCC
Confidence            8888776654

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.85  E-value=1.3e-06  Score=65.55  Aligned_cols=160  Identities=12%  Similarity=0.019  Sum_probs=104.2

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 022531           83 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  162 (295)
Q Consensus        83 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (295)
                      ..+-..+.-.|+-+....+..+..... .-|.......+....+.|++.+|...+.+...  .-++|+.+|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            555566666677676666666654431 22444555567777777777777777777776  456777777777777777


Q ss_pred             cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHH
Q 022531          163 ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGE  242 (295)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  242 (295)
                      .|+.++|.. -+.+..+-.+. +....+.|.-.+.-.|+.+.|..++......+. -+...-..+.-+....|++++|..
T Consensus       147 ~Gr~~~Ar~-ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~-ad~~v~~NLAl~~~~~g~~~~A~~  223 (257)
T COG5010         147 LGRFDEARR-AYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSPA-ADSRVRQNLALVVGLQGDFREAED  223 (257)
T ss_pred             ccChhHHHH-HHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCC-CchHHHHHHHHHHhhcCChHHHHh
Confidence            777777777 66666554433 445667777777777777777777777666542 244445556666677777777777


Q ss_pred             HHHHHh
Q 022531          243 IIDQWK  248 (295)
Q Consensus       243 ~~~~~~  248 (295)
                      +...-.
T Consensus       224 i~~~e~  229 (257)
T COG5010         224 IAVQEL  229 (257)
T ss_pred             hccccc
Confidence            665543

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.83  E-value=2.1e-05  Score=67.52  Aligned_cols=85  Identities=14%  Similarity=0.122  Sum_probs=65.2

Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHH--HHHHHhhhcCCCCCHHHHHHHHHHHHccCCh
Q 022531          197 AGLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGE--IIDQWKQSATSDFDISACNRLLGAFSDVGLT  273 (295)
Q Consensus       197 ~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~--~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  273 (295)
                      ...|.+++|.+.|......  .|+. ...+++..++.+.|+...|..  ++..+.+-+  +.+...|..+...+.+.|+.
T Consensus       695 ~~~~~~~EA~~af~~Al~l--dP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d--p~n~eaW~~LG~v~k~~Gd~  770 (799)
T KOG4162|consen  695 EVKGQLEEAKEAFLVALAL--DPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD--PLNHEAWYYLGEVFKKLGDS  770 (799)
T ss_pred             HHHHhhHHHHHHHHHHHhc--CCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHccch
Confidence            3455666666666554443  4443 456788889999998888888  888888865  56888999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 022531          274 EKANEFHMLLLQ  285 (295)
Q Consensus       274 ~~a~~~~~~m~~  285 (295)
                      +.|-+.|.-..+
T Consensus       771 ~~Aaecf~aa~q  782 (799)
T KOG4162|consen  771 KQAAECFQAALQ  782 (799)
T ss_pred             HHHHHHHHHHHh
Confidence            999999988765

>COG5010 TadD Flp pilus assembly protein TadD, contains TPR repeats [Intracellular trafficking and secretion]

Probab=98.83  E-value=7.5e-07  Score=66.74  Aligned_cols=165  Identities=12%  Similarity=0.010  Sum_probs=132.3

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      |..+ ..+-..+...|+-+....+........ +-|....+..+....+.|++..|+..|++..... ++|..+|+.+.-
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~-~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~l~-p~d~~~~~~lga  142 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAY-PKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccC-cccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            5555 666777778888888888887755442 4466677779999999999999999999988763 468899999999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  202 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  202 (295)
                      +|.+.|++++|..-|.+..+-  .+.+...++.+.-.+.-.|+++.|.. ++......... |...-..+.......|++
T Consensus       143 aldq~Gr~~~Ar~ay~qAl~L--~~~~p~~~nNlgms~~L~gd~~~A~~-lll~a~l~~~a-d~~v~~NLAl~~~~~g~~  218 (257)
T COG5010         143 ALDQLGRFDEARRAYRQALEL--APNEPSIANNLGMSLLLRGDLEDAET-LLLPAYLSPAA-DSRVRQNLALVVGLQGDF  218 (257)
T ss_pred             HHHHccChhHHHHHHHHHHHh--ccCCchhhhhHHHHHHHcCCHHHHHH-HHHHHHhCCCC-chHHHHHHHHHHhhcCCh
Confidence            999999999999999998874  45667778899999999999999999 77776665543 666777788888999999


Q ss_pred             HHHHHHHHHHHh
Q 022531          203 DKIDQIWKSLRM  214 (295)
Q Consensus       203 ~~a~~~~~~m~~  214 (295)
                      ++|..+...-..
T Consensus       219 ~~A~~i~~~e~~  230 (257)
T COG5010         219 REAEDIAVQELL  230 (257)
T ss_pred             HHHHhhcccccc
Confidence            999988775443

>KOG1128 consensus Uncharacterized conserved protein, contains TPR repeats [General function prediction only]

Probab=98.82  E-value=3e-07  Score=78.00  Aligned_cols=192  Identities=15%  Similarity=0.047  Sum_probs=158.8

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      ...|.-+|.+|...|+-.+|..+..+..++.||+..|..+++......-+++|.++++....+       +-..+.....
T Consensus       424 lemw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEkawElsn~~sar-------A~r~~~~~~~  496 (777)
T KOG1128|consen  424 LEMWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKAWELSNYISAR-------AQRSLALLIL  496 (777)
T ss_pred             HHHHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHHHHHhhhhhHH-------HHHhhccccc
Confidence            456778899999999999999999888887889999999999998888899999999876543       1122222234


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      +.++++++.+.|+.-.+.+. .-..+|.....+..+.++++.|.+.|.....  +-+.+...||.+-.+|.+.++..+|.
T Consensus       497 ~~~~fs~~~~hle~sl~~np-lq~~~wf~~G~~ALqlek~q~av~aF~rcvt--L~Pd~~eaWnNls~ayi~~~~k~ra~  573 (777)
T KOG1128|consen  497 SNKDFSEADKHLERSLEINP-LQLGTWFGLGCAALQLEKEQAAVKAFHRCVT--LEPDNAEAWNNLSTAYIRLKKKKRAF  573 (777)
T ss_pred             cchhHHHHHHHHHHHhhcCc-cchhHHHhccHHHHHHhhhHHHHHHHHHHhh--cCCCchhhhhhhhHHHHHHhhhHHHH
Confidence            47899999999998776432 3467888888889999999999999999887  45667789999999999999999999


Q ss_pred             HHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          171 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      . .+.+..+.. ..+...|-+.+......|.+++|++.+.++.+
T Consensus       574 ~-~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~  615 (777)
T KOG1128|consen  574 R-KLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLD  615 (777)
T ss_pred             H-HHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHH
Confidence            9 888887776 45677788888888999999999999998754

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.82  E-value=1.7e-05  Score=62.28  Aligned_cols=158  Identities=10%  Similarity=0.020  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHHhhcCCCCCC-HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHH
Q 022531          130 IDQVKKFLDEMSCDSGGSDD-WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  208 (295)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  208 (295)
                      ..-|.+.|+-.-.. +...| ..--.++..++.-..++|+..- ++..+..-....|...+ .+.++++..|++.+|+++
T Consensus       339 lKiAqqffqlVG~S-a~ecDTIpGRQsmAs~fFL~~qFddVl~-YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEel  415 (557)
T KOG3785|consen  339 LKIAQQFFQLVGES-ALECDTIPGRQSMASYFFLSFQFDDVLT-YLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEEL  415 (557)
T ss_pred             HHHHHHHHHHhccc-ccccccccchHHHHHHHHHHHHHHHHHH-HHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHH
Confidence            44455555444333 22222 2223355555666667777777 67766666665555444 467888999999999999


Q ss_pred             HHHHHhccCCCCHHhHH-HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcC
Q 022531          209 WKSLRMTKQKMTSRNYI-CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       209 ~~~m~~~~~~~~~~~~~-~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  287 (295)
                      |-+.....++ |..+|. .|.++|.+.+.++.|+.++-.+...   .........+..-|-+.+++--|.+.|+.+...+
T Consensus       416 f~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t~---~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  416 FIRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNTP---SERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             HhhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCCc---hhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            9877655544 455665 5788999999999998887654321   1123344556677888999999999999988876


Q ss_pred             CCCCCCC
Q 022531          288 CAPTNAS  294 (295)
Q Consensus       288 ~~p~~~t  294 (295)
                      -.|....
T Consensus       492 P~pEnWe  498 (557)
T KOG3785|consen  492 PTPENWE  498 (557)
T ss_pred             CCccccC
Confidence            6666554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.82  E-value=1.3e-05  Score=74.37  Aligned_cols=270  Identities=12%  Similarity=0.058  Sum_probs=176.6

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCC--C----HHHHHHHHHHHHccCcHHHHHHHHHHHHhC----CC-CCCHHHHHHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAK--T----SETYTALLHLYAGAKWTEKAEELFERVKQS----NL-SFNALMYNEM   85 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p--~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~~~~l   85 (295)
                      +...+...|++++|...++......+  +    ....+.+...+...|++++|...+++....    |- .+...++..+
T Consensus       458 ~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~l  537 (903)
T PRK04841        458 RAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQ  537 (903)
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHH
Confidence            33455678999999999988655322  2    234566777788899999999999887642    21 0112345666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC----CCC--C-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCCCCHHHHHH
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRK----NVV--P-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGGSDDWVKYVN  155 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~----~~~--p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~  155 (295)
                      ...+...|++++|...+++....    +..  + ....+..+...+...|++++|...+.+....   .+.......+..
T Consensus       538 a~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  617 (903)
T PRK04841        538 SEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAM  617 (903)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHH
Confidence            77888999999999998876542    221  1 2233445556677789999999998886542   111112334555


Q ss_pred             HHHHHHhcCchhhHHHHHHHHHHHhcCCCc-cccHH-----HHHHHHHhcCCHHHHHHHHHHHHhccCCCCH---HhHHH
Q 022531          156 LVNIYITASHLVNAESSTLVEAEKSITQRQ-WITYD-----FLIILYAGLGNKDKIDQIWKSLRMTKQKMTS---RNYIC  226 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~-----~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~  226 (295)
                      +...+...|+.++|.+ .+........... ...+.     ..+..+...|+.+.|.+++............   ..+..
T Consensus       618 la~~~~~~G~~~~A~~-~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~  696 (903)
T PRK04841        618 LAKISLARGDLDNARR-YLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEFANNHFLQGQWRN  696 (903)
T ss_pred             HHHHHHHcCCHHHHHH-HHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCCccchhHHHHHHH
Confidence            6677888999999999 7777654322111 11111     1223445688999999998765442211111   11345


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhhc---CCCC-CHHHHHHHHHHHHccCChHHHHHHHHHHHhcC
Q 022531          227 ILSSYLMLGHLKEVGEIIDQWKQSA---TSDF-DISACNRLLGAFSDVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       227 li~~~~~~~~~~~A~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  287 (295)
                      +..++...|+.++|...+++.....   ...+ ...+...+..++...|+.++|...+.+..+..
T Consensus       697 ~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~la  761 (903)
T PRK04841        697 IARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHh
Confidence            6777889999999999999876531   1111 23456677788899999999999999987643

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.81  E-value=4.2e-07  Score=64.12  Aligned_cols=93  Identities=8%  Similarity=-0.115  Sum_probs=44.2

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   92 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~   92 (295)
                      +..+...+...|++++|...|+......| +...|..+..++...|++++|...|++....+ +.+..++..+..++...
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~-p~~~~a~~~lg~~l~~~  105 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD-ASHPEPVYQTGVCLKMM  105 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHHHc
Confidence            33344444444555555555544444433 44444444444555555555555555444433 23444444444445555


Q ss_pred             CCHHHHHHHHHHHHh
Q 022531           93 GQVEKVALVVEEIKR  107 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~  107 (295)
                      |++++|+..|+...+
T Consensus       106 g~~~eAi~~~~~Al~  120 (144)
T PRK15359        106 GEPGLAREAFQTAIK  120 (144)
T ss_pred             CCHHHHHHHHHHHHH
Confidence            555555555544444

>PRK10370 formate-dependent nitrite reductase complex subunit NrfG; Provisional

Probab=98.78  E-value=5.5e-06  Score=61.77  Aligned_cols=120  Identities=9%  Similarity=-0.017  Sum_probs=74.0

Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH-HhcCc--hhh
Q 022531           92 VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY-ITASH--LVN  168 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~~~--~~~  168 (295)
                      .++.+++...+++..+.+. .|...|..+...|...|++++|...|++....  .+.+..++..+..++ ...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~~P-~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRANP-QNSEQWALLGEYYLWRNDYDNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            4555666666666555432 35666777777777777777777777776663  244555666666653 45555  366


Q ss_pred             HHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 022531          169 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  216 (295)
                      |.+ ++++..+..+. +..++..+...+...|++++|+..|+++.+..
T Consensus       129 A~~-~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~  174 (198)
T PRK10370        129 TRE-MIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQKVLDLN  174 (198)
T ss_pred             HHH-HHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            666 66666555544 55566666666667777777777777666553

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.75  E-value=5.4e-06  Score=73.05  Aligned_cols=134  Identities=9%  Similarity=0.008  Sum_probs=73.7

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHH
Q 022531           76 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYV  154 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  154 (295)
                      +.++..+-.|.....+.|.+++|..+++...+.  .|| ......+...+.+.+++++|+..+++....  -+.+.....
T Consensus        83 ~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~  158 (694)
T PRK15179         83 PHTELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREIL  158 (694)
T ss_pred             cccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHH
Confidence            344555555666666666666666666665553  333 334455555556666666666666665552  234444555


Q ss_pred             HHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          155 NLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      .+..++.+.|++++|.. +|+++...++ .+..++..+..++-..|+.++|...|+...+.
T Consensus       159 ~~a~~l~~~g~~~~A~~-~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        159 LEAKSWDEIGQSEQADA-CFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             HHHHHHHHhcchHHHHH-HHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            55555666666666666 5555555222 13445555555555666666666666555443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.75  E-value=1.5e-06  Score=76.43  Aligned_cols=146  Identities=14%  Similarity=0.048  Sum_probs=120.8

Q ss_pred             CCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531            7 FVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus         7 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      +..++..+-.|.....+.|.+++|..+++...+..| +......++..+.+.+++++|+...++....+ +-+....+.+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            344577888899999999999999999999999888 67788889999999999999999999999886 4566778888


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  156 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  156 (295)
                      ..++.+.|++++|..+|+++...+. -+..++..+..++-..|+.++|...|++..+.  ..+....|+..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p-~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~--~~~~~~~~~~~  228 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHP-EFENGYVGWAQSLTRRGALWRARDVLQAGLDA--IGDGARKLTRR  228 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--hCcchHHHHHH
Confidence            8899999999999999999998432 24778888999999999999999999998774  23444554433

>KOG2047 consensus mRNA splicing factor [RNA processing and modification]

Probab=98.73  E-value=5.8e-05  Score=63.83  Aligned_cols=260  Identities=9%  Similarity=0.029  Sum_probs=150.4

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC---CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK---TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      .|-.-+..+.++|++..-...|+.....-|   -..+|...+...-..+-++-+.+++++.++.    ++..-+.-|..+
T Consensus       104 Iwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~----~P~~~eeyie~L  179 (835)
T KOG2047|consen  104 IWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKV----APEAREEYIEYL  179 (835)
T ss_pred             HHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhc----CHHHHHHHHHHH
Confidence            344445556666777777777766555433   2346666666666667777777777776655    244456666667


Q ss_pred             HhcCCHHHHHHHHHHHHhC----------------------------------------C--CCCC--hHhHHHHHHHHH
Q 022531           90 MSVGQVEKVALVVEEIKRK----------------------------------------N--VVPD--IFTYNLWISSCA  125 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~----------------------------------------~--~~p~--~~~~~~li~~~~  125 (295)
                      +..+++++|.+.+......                                        |  .-+|  ...|.+|.+-|.
T Consensus       180 ~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYI  259 (835)
T KOG2047|consen  180 AKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYI  259 (835)
T ss_pred             HhccchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHH
Confidence            7777777766665543321                                        1  1122  245777888888


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHH----------------H-----HHHHHHHhc---
Q 022531          126 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAES----------------S-----TLVEAEKSI---  181 (295)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~----------------~-----~~~~~~~~~---  181 (295)
                      +.|++++|..+|++....   ..+..-++.+.++|+.-..-.-+..                +     .++.+....   
T Consensus       260 r~g~~ekarDvyeeai~~---v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~  336 (835)
T KOG2047|consen  260 RSGLFEKARDVYEEAIQT---VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLL  336 (835)
T ss_pred             HhhhhHHHHHHHHHHHHh---heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchH
Confidence            888888888888876654   2333334444444443211111111                0     111111111   


Q ss_pred             --------CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC------HHhHHHHHHHHHhcCChHHHHHHHHHH
Q 022531          182 --------TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT------SRNYICILSSYLMLGHLKEVGEIIDQW  247 (295)
Q Consensus       182 --------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~------~~~~~~li~~~~~~~~~~~A~~~~~~~  247 (295)
                              .+.++..|..-+.  ...|+..+....+.+.... +.|-      ...|..+.+.|-..|+++.|..+|++.
T Consensus       337 lNsVlLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka  413 (835)
T KOG2047|consen  337 LNSVLLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKA  413 (835)
T ss_pred             HHHHHHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHh
Confidence                    1112223322222  2346666777777766543 2222      234778889999999999999999998


Q ss_pred             hhhcCCCCCH----HHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          248 KQSATSDFDI----SACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       248 ~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      .+...  +.+    .+|..-...=.++.+++.|+.+.++..
T Consensus       414 ~~V~y--~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~  452 (835)
T KOG2047|consen  414 TKVPY--KTVEDLAEVWCAWAEMELRHENFEAALKLMRRAT  452 (835)
T ss_pred             hcCCc--cchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhh
Confidence            77432  333    355555566667888888888887765

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.73  E-value=2e-05  Score=64.37  Aligned_cols=201  Identities=13%  Similarity=0.040  Sum_probs=127.0

Q ss_pred             cChhHHHHHHhhcccC----CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 022531           25 FGIHSGERYFEGLPLS----AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL  100 (295)
Q Consensus        25 ~~~~~A~~~~~~~~~~----~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  100 (295)
                      .++..+...-+.++..    .|+...+...+.+......-..+-.++-+-.+.+   -...+......+...|++++|++
T Consensus       251 ~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~---~~aa~YG~A~~~~~~~~~d~A~~  327 (484)
T COG4783         251 ERIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKRG---GLAAQYGRALQTYLAGQYDEALK  327 (484)
T ss_pred             hHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCcc---chHHHHHHHHHHHHhcccchHHH
Confidence            3455556566666554    3566667777666555444444444443333311   23333344444566788888888


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Q 022531          101 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       101 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (295)
                      .++.+... .+-|...+......+.+.++.++|.+.++.+...  .+......-.+..+|.+.|++.+|.. .++.....
T Consensus       328 ~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~-~L~~~~~~  403 (484)
T COG4783         328 LLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIR-ILNRYLFN  403 (484)
T ss_pred             HHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHH-HHHHHhhc
Confidence            88887765 2234555556666778888888888888888764  22335566677788888888888888 66665554


Q ss_pred             cCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       181 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      .+. |...|..|.++|...|+..++..-..                  ..|...|+++.|...+....+..
T Consensus       404 ~p~-dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~~A~~~~  455 (484)
T COG4783         404 DPE-DPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLMRASQQV  455 (484)
T ss_pred             CCC-CchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHHHHHHhc
Confidence            433 67788888888888887777655443                  33455677777777777766643

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.70  E-value=7.7e-05  Score=63.04  Aligned_cols=62  Identities=18%  Similarity=0.096  Sum_probs=46.7

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcC
Q 022531          224 YICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       224 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  287 (295)
                      +-.++..+-+.|+++.|..+++....+.  +.-+..|..=.+.+...|++++|..++++..+.+
T Consensus       374 ~y~laqh~D~~g~~~~A~~yId~AIdHT--PTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD  435 (700)
T KOG1156|consen  374 LYFLAQHYDKLGDYEVALEYIDLAIDHT--PTLIELYLVKARIFKHAGLLDEAAAWLDEAQELD  435 (700)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHhccC--chHHHHHHHHHHHHHhcCChHHHHHHHHHHHhcc
Confidence            3457788889999999999999887753  2234456555677888999999999998887643

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.70  E-value=2.9e-08  Score=51.50  Aligned_cols=34  Identities=24%  Similarity=0.389  Sum_probs=30.3

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          259 ACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      +|++++.+|++.|++++|.++|++|.+.|++||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6889999999999999999999999999999874

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.

>KOG1156 consensus N-terminal acetyltransferase [Chromatin structure and dynamics]

Probab=98.70  E-value=3.8e-05  Score=64.84  Aligned_cols=260  Identities=13%  Similarity=0.068  Sum_probs=147.7

Q ss_pred             HHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 022531           21 MTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   99 (295)
Q Consensus        21 ~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~   99 (295)
                      +...|+-++|......-....+ +.+.|+.+.-.+-...++++|+..|......+ +-|...|..|...-++.++++...
T Consensus        51 L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~  129 (700)
T KOG1156|consen   51 LNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYL  129 (700)
T ss_pred             hhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHH
Confidence            3445666666666665555443 66777777777777777777777777777664 446667776666667777777777


Q ss_pred             HHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH------HHHHhcCchhhHHHH
Q 022531          100 LVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV------NIYITASHLVNAESS  172 (295)
Q Consensus       100 ~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~------~~~~~~~~~~~a~~~  172 (295)
                      ....++.+.  .|+ -..|..+..+..-.|++..|..++++..+.....|+...|....      ....+.|..+.|.+ 
T Consensus       130 ~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale-  206 (700)
T KOG1156|consen  130 ETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALE-  206 (700)
T ss_pred             HHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHH-
Confidence            766666664  233 34466667777777888888888888776533456666554333      23345666677766 


Q ss_pred             HHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHH-HHHHHHhcCChHHHH-HHHHHHhhh
Q 022531          173 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYIC-ILSSYLMLGHLKEVG-EIIDQWKQS  250 (295)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~~~~~~A~-~~~~~~~~~  250 (295)
                      -+......... ....-..-...+.+.+++++|..++..+...  .||..-|.. +..++..-.+.-++. .+|....+.
T Consensus       207 ~L~~~e~~i~D-kla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~  283 (700)
T KOG1156|consen  207 HLLDNEKQIVD-KLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK  283 (700)
T ss_pred             HHHhhhhHHHH-HHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc
Confidence            44333222211 1112223344567788888888888888776  566665554 444443222322333 555554432


Q ss_pred             cCCCCCHHHHHHHHHHHHc-cCChHHHHHHHHHHHhcCCCC
Q 022531          251 ATSDFDISACNRLLGAFSD-VGLTEKANEFHMLLLQKNCAP  290 (295)
Q Consensus       251 ~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~m~~~g~~p  290 (295)
                      .   |-...-..+--.... ..-.+....++..++++|++|
T Consensus       284 y---~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~  321 (700)
T KOG1156|consen  284 Y---PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPS  321 (700)
T ss_pred             C---cccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCc
Confidence            1   111111111111111 222333445666667777654

>PRK14720 transcript cleavage factor/unknown domain fusion protein; Provisional

Probab=98.66  E-value=2e-05  Score=70.52  Aligned_cols=217  Identities=12%  Similarity=0.055  Sum_probs=148.9

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA-LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  121 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li  121 (295)
                      +...|..|+..+...+++++|.++.+...+..  |+. ..|-.+...+.+.++..++..+                 .++
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv-----------------~~l   90 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLL-----------------NLI   90 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhh-----------------hhh
Confidence            67889999999999999999999999777653  443 3444444456666664444433                 344


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCC
Q 022531          122 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  201 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  201 (295)
                      .......++.....+...+...   ..+..++..+..+|-+.|+.++|.. +++++.+..+ .|..+.|.+...|+.. +
T Consensus        91 ~~~~~~~~~~~ve~~~~~i~~~---~~~k~Al~~LA~~Ydk~g~~~ka~~-~yer~L~~D~-~n~~aLNn~AY~~ae~-d  164 (906)
T PRK14720         91 DSFSQNLKWAIVEHICDKILLY---GENKLALRTLAEAYAKLNENKKLKG-VWERLVKADR-DNPEIVKKLATSYEEE-D  164 (906)
T ss_pred             hhcccccchhHHHHHHHHHHhh---hhhhHHHHHHHHHHHHcCChHHHHH-HHHHHHhcCc-ccHHHHHHHHHHHHHh-h
Confidence            4444455554444444455543   3455578899999999999999999 9999988774 4888999999999999 9


Q ss_pred             HHHHHHHHHHHHhccCCCCHHhHHHHHH---HHH--hcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHH
Q 022531          202 KDKIDQIWKSLRMTKQKMTSRNYICILS---SYL--MLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKA  276 (295)
Q Consensus       202 ~~~a~~~~~~m~~~~~~~~~~~~~~li~---~~~--~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  276 (295)
                      .++|++++.+....-+  +..-|+.+..   -++  ...+++.-.++.+.+...-....-+.++..+...|...++++++
T Consensus       165 L~KA~~m~~KAV~~~i--~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~  242 (906)
T PRK14720        165 KEKAITYLKKAIYRFI--KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEV  242 (906)
T ss_pred             HHHHHHHHHHHHHHHH--hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHH
Confidence            9999999998766522  1112222222   111  22344455555555554433334456677777889999999999


Q ss_pred             HHHHHHHHhc
Q 022531          277 NEFHMLLLQK  286 (295)
Q Consensus       277 ~~~~~~m~~~  286 (295)
                      ..+++.+++.
T Consensus       243 i~iLK~iL~~  252 (906)
T PRK14720        243 IYILKKILEH  252 (906)
T ss_pred             HHHHHHHHhc
Confidence            9999999873

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.66  E-value=2.5e-06  Score=59.63  Aligned_cols=108  Identities=14%  Similarity=-0.015  Sum_probs=69.4

Q ss_pred             HhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 022531           34 FEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP  112 (295)
Q Consensus        34 ~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  112 (295)
                      |+......| +......+...+...|++++|.+.|+.....+ +.+...|..+...+...|++++|...+++..+.+ +.
T Consensus         6 ~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~   83 (135)
T TIGR02552         6 LKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PD   83 (135)
T ss_pred             HHHHHcCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CC
Confidence            333344444 44556666666777777777777777766654 3456667777777777777777777777766543 22


Q ss_pred             ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          113 DIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      +...+..+...+...|++++|...|+...+.
T Consensus        84 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        84 DPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4555666666677777777777777776654

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.64  E-value=5.4e-08  Score=50.06  Aligned_cols=33  Identities=21%  Similarity=0.275  Sum_probs=28.8

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHhcCCCC
Q 022531          258 SACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP  290 (295)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p  290 (295)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            578888888888888888888888888888887

>COG4783 Putative Zn-dependent protease, contains TPR repeats [General function prediction only]

Probab=98.64  E-value=9.5e-05  Score=60.54  Aligned_cols=220  Identities=12%  Similarity=-0.016  Sum_probs=141.1

Q ss_pred             HHHHHhccC-hhHHHHHHhhcccC-----CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHH
Q 022531           18 IDLMTKVFG-IHSGERYFEGLPLS-----AKTSETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLY   89 (295)
Q Consensus        18 i~~~~~~~~-~~~A~~~~~~~~~~-----~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~   89 (295)
                      +..+.+.|. .....++|+.+...     .|...    ++.-=.-..++..+...-+.++..+  -.|+...+...+.+.
T Consensus       209 i~~L~raGydp~gM~~ff~rl~~~~~~~~~~p~y----l~THPlp~~RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~  284 (484)
T COG4783         209 ITTLVRAGYDPQGMPEFFERLADQLRYGGQPPEY----LLTHPLPEERIADLRNRAEQSPPYNKLDSPDFQLARARIRAK  284 (484)
T ss_pred             HHHHHHcCCCchhHHHHHHHHHHHHhcCCCCChH----HhcCCCchhHHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHH
Confidence            344555554 45555677776631     12211    1111122345666666666666432  245666667777665


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      .....-..+-.++-+..+.  .-...-|..- -.+...|+++.|+..+..+..  ..|.|+.......+.+.+.++..+|
T Consensus       285 ~~~~~~~~~~~~~~~~~~~--~~~aa~YG~A-~~~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A  359 (484)
T COG4783         285 YEALPNQQAADLLAKRSKR--GGLAAQYGRA-LQTYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEA  359 (484)
T ss_pred             hccccccchHHHHHHHhCc--cchHHHHHHH-HHHHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHH
Confidence            5444333333333322221  1122224433 345577889999999999887  3566777777888889999999999


Q ss_pred             HHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          170 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      .+ .++.+....+.. ...+-.+..++.+.|++.+|+.+++...... +-|+..|..|.++|...|+..+|.....+...
T Consensus       360 ~e-~~~kal~l~P~~-~~l~~~~a~all~~g~~~eai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~AE~~~  436 (484)
T COG4783         360 IE-RLKKALALDPNS-PLLQLNLAQALLKGGKPQEAIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLARAEGYA  436 (484)
T ss_pred             HH-HHHHHHhcCCCc-cHHHHHHHHHHHhcCChHHHHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHHHHHHH
Confidence            99 888877766542 5666778888899999999999998876654 55677888899999999998888887776544

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.63  E-value=7.6e-08  Score=49.85  Aligned_cols=33  Identities=24%  Similarity=0.482  Sum_probs=17.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD  113 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  113 (295)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            455555555555555555555555555555554

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.

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.63  E-value=1.7e-06  Score=60.48  Aligned_cols=107  Identities=10%  Similarity=-0.010  Sum_probs=90.8

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ......+...+...|++++|.+.|+.+....| +...|..+...+...|++++|...++.....+ +.+..++..+...|
T Consensus        17 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~   95 (135)
T TIGR02552        17 LEQIYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALD-PDDPRPYFHAAECL   95 (135)
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC-CCChHHHHHHHHHH
Confidence            34566677888899999999999999888766 78899999999999999999999999988875 56788888999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  120 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  120 (295)
                      ...|++++|.+.|+...+.  .|+...+..+
T Consensus        96 ~~~g~~~~A~~~~~~al~~--~p~~~~~~~~  124 (135)
T TIGR02552        96 LALGEPESALKALDLAIEI--CGENPEYSEL  124 (135)
T ss_pred             HHcCCHHHHHHHHHHHHHh--ccccchHHHH
Confidence            9999999999999999885  4555544433

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

>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=98.60  E-value=2.9e-06  Score=69.38  Aligned_cols=127  Identities=14%  Similarity=0.158  Sum_probs=94.9

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +-..-..|+..+...++++.|..+|+++.+..  |+  ....++..+...++-.+|++++.+..+.. +-+......-..
T Consensus       168 ~NyLv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~~-p~d~~LL~~Qa~  242 (395)
T PF09295_consen  168 NNYLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKEN-PQDSELLNLQAE  242 (395)
T ss_pred             chHHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CCCHHHHHHHHH
Confidence            44555667777777888888888888888775  44  34457777777888888888888887652 235666666677


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  177 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (295)
                      .+.+.++++.|+++.+++...  .|.+-.+|..|..+|.+.|+++.|+. .++.+
T Consensus       243 fLl~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALl-aLNs~  294 (395)
T PF09295_consen  243 FLLSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALL-ALNSC  294 (395)
T ss_pred             HHHhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHH-HHhcC
Confidence            788888888888888888874  34455688888888888888888887 66644

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.57  E-value=1.1e-07  Score=48.80  Aligned_cols=32  Identities=22%  Similarity=0.470  Sum_probs=15.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP  112 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  112 (295)
                      +|+.+|.+|++.|+++.|.++|++|.+.|++|
T Consensus         3 ty~~ll~a~~~~g~~~~a~~~~~~M~~~gv~P   34 (34)
T PF13812_consen    3 TYNALLRACAKAGDPDAALQLFDEMKEQGVKP   34 (34)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC
Confidence            44444444444444444444444444444443

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.56  E-value=2.2e-05  Score=59.23  Aligned_cols=195  Identities=12%  Similarity=0.023  Sum_probs=134.8

Q ss_pred             CCHHHHHHHHHHHHhccChhHH-HHHHhhcccCCC-CHHHHHH-HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSG-ERYFEGLPLSAK-TSETYTA-LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A-~~~~~~~~~~~p-~~~~~~~-li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      |.......+-.....-++.+.- .++.+++....- +..++.. -...|+..|++++|++.....  .    +....-.=
T Consensus        70 ~~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~--~----~lE~~Al~  143 (299)
T KOG3081|consen   70 TPLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG--E----NLEAAALN  143 (299)
T ss_pred             ChHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc--c----hHHHHHHH
Confidence            3334444444444445554433 345555555422 3323333 356788999999999998762  1    23344344


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  161 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (295)
                      ...+.+..+.+-|.+.+++|.+-   -+..|.+.|..++.+    .+....|.-+|++|-.  ..+|++.+.+-...++.
T Consensus       144 VqI~lk~~r~d~A~~~lk~mq~i---ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l  218 (299)
T KOG3081|consen  144 VQILLKMHRFDLAEKELKKMQQI---DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHL  218 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcc---chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHH
Confidence            45667788899999999999984   356777777777654    4578999999999987  46899999999999999


Q ss_pred             hcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCH-HHHHHHHHHHHhcc
Q 022531          162 TASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK-DKIDQIWKSLRMTK  216 (295)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~  216 (295)
                      ..|++++|.. +++....+..+ +..+...+|..-...|.. +...+.+.+++...
T Consensus       219 ~~~~~eeAe~-lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~~~~r~l~QLk~~~  272 (299)
T KOG3081|consen  219 QLGRYEEAES-LLEEALDKDAK-DPETLANLIVLALHLGKDAEVTERNLSQLKLSH  272 (299)
T ss_pred             HhcCHHHHHH-HHHHHHhccCC-CHHHHHHHHHHHHHhCCChHHHHHHHHHHHhcC
Confidence            9999999999 88888776654 556666666555566654 55567778877653

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.56  E-value=0.00022  Score=66.28  Aligned_cols=269  Identities=8%  Similarity=-0.119  Sum_probs=162.0

Q ss_pred             HHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 022531           15 ATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ   94 (295)
Q Consensus        15 ~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~   94 (295)
                      ......+...|++.+|............-..............|+++.+...++.+.......+..........+...|+
T Consensus       345 ~raa~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~  424 (903)
T PRK04841        345 RAAAEAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHR  424 (903)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCC
Confidence            33445556667777666655544332111112222334455678888877777765322111122233445556677899


Q ss_pred             HHHHHHHHHHHHhCC--C----CCCh--HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHh
Q 022531           95 VEKVALVVEEIKRKN--V----VPDI--FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYIT  162 (295)
Q Consensus        95 ~~~a~~~~~~m~~~~--~----~p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~  162 (295)
                      ++++..++.+....-  .    .+..  .....+...+...|++++|...+++...... ..+    ....+.+...+..
T Consensus       425 ~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~lg~~~~~  503 (903)
T PRK04841        425 YSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELP-LTWYYSRIVATSVLGEVHHC  503 (903)
T ss_pred             HHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC-CccHHHHHHHHHHHHHHHHH
Confidence            999999998775421  0    1111  1222233445678999999999998765311 111    1344566677788


Q ss_pred             cCchhhHHHHHHHHHHHhcCC---Cc--cccHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCC--C-CHHhHHHHHHH
Q 022531          163 ASHLVNAESSTLVEAEKSITQ---RQ--WITYDFLIILYAGLGNKDKIDQIWKSLRMT----KQK--M-TSRNYICILSS  230 (295)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~---~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~--~-~~~~~~~li~~  230 (295)
                      .|++++|.. .+.+.......   +.  ..+...+...+...|++++|.+.+++....    +..  + ....+..+...
T Consensus       504 ~G~~~~A~~-~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~  582 (903)
T PRK04841        504 KGELARALA-MMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQL  582 (903)
T ss_pred             cCCHHHHHH-HHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHH
Confidence            999999999 77776543221   11  234455666788899999999998876442    211  1 12234455666


Q ss_pred             HHhcCChHHHHHHHHHHhhhcC---CCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          231 YLMLGHLKEVGEIIDQWKQSAT---SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       231 ~~~~~~~~~A~~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +...|++++|...+++......   .......+..+...+...|+.+.|.+.+.+...
T Consensus       583 ~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        583 LWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            7778999999999988755211   111234455566778889999999998888754

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.55  E-value=3.4e-05  Score=59.24  Aligned_cols=232  Identities=13%  Similarity=0.043  Sum_probs=150.4

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHH-HHHHHccCcHHHHHHHHHHHHhCC--------------
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTAL-LHLYAGAKWTEKAEELFERVKQSN--------------   74 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~--------------   74 (295)
                      +....+.|...|-...++..|-..++++....|...-|... ...+-+++.+.+|+++...|....              
T Consensus        43 ~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~i~ADALrV~~~~~D~~~L~~~~lqLqaAIk  122 (459)
T KOG4340|consen   43 SRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKACIYADALRVAFLLLDNPALHSRVLQLQAAIK  122 (459)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhcccHHHHHHHHHhcCCHHHHHHHHHHHHHHh
Confidence            55667778888888899999999999988877765554432 345556677777777776664311              


Q ss_pred             -----C------------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHH
Q 022531           75 -----L------------SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFL  137 (295)
Q Consensus        75 -----~------------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  137 (295)
                           +            .-+..+.+...-...+.|+++.|++-|+...+-+--.....|+..+.. .+.|+++.|++..
T Consensus       123 Yse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpllAYniALaH-y~~~qyasALk~i  201 (459)
T KOG4340|consen  123 YSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPLLAYNLALAH-YSSRQYASALKHI  201 (459)
T ss_pred             cccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCchhHHHHHHHH-HhhhhHHHHHHHH
Confidence                 0            012333444444556889999999999998875433356788876644 5678999999999


Q ss_pred             HHHhhcCCCC-------------CCH--------HHHHHHHH-------HHHhcCchhhHHHHHHHHHH-HhcCCCcccc
Q 022531          138 DEMSCDSGGS-------------DDW--------VKYVNLVN-------IYITASHLVNAESSTLVEAE-KSITQRQWIT  188 (295)
Q Consensus       138 ~~~~~~~~~~-------------~~~--------~~~~~l~~-------~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~  188 (295)
                      .++..+ |++             ||.        -.-+.++.       .+-+.|+.+.|.+ .+..|- ......|.+|
T Consensus       202 SEIieR-G~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n~eAA~e-aLtDmPPRaE~elDPvT  279 (459)
T KOG4340|consen  202 SEIIER-GIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRNYEAAQE-ALTDMPPRAEEELDPVT  279 (459)
T ss_pred             HHHHHh-hhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhcccHHHHHH-HhhcCCCcccccCCchh
Confidence            988876 432             111        11223333       3456778887777 333331 1112346677


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      ...+.-. -..+++.+..+-+.-+.... +....||..++-.||+..-++.|-.++.+
T Consensus       280 LHN~Al~-n~~~~p~~g~~KLqFLL~~n-PfP~ETFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  280 LHNQALM-NMDARPTEGFEKLQFLLQQN-PFPPETFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             hhHHHHh-cccCCccccHHHHHHHHhcC-CCChHHHHHHHHHHhhhHHHhHHHHHHhh
Confidence            7665432 23455555666566665554 34567899999999999999999888876

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.53  E-value=9.8e-06  Score=57.38  Aligned_cols=114  Identities=13%  Similarity=0.087  Sum_probs=50.0

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh--HhHHHHHHHHHccCCHH
Q 022531           57 AKWTEKAEELFERVKQSNLSFNA---LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI--FTYNLWISSCAATLNID  131 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~~~~~  131 (295)
                      .++...+...++.+.... +.+.   ...-.+...+...|++++|...|+........|+.  .....+...+...|+++
T Consensus        24 ~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d  102 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYD  102 (145)
T ss_pred             CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHH
Confidence            445555555555555432 1111   12222334445555555555555555554322211  12222344445555555


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHH
Q 022531          132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  175 (295)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (295)
                      +|+..++.....   ......+.....+|.+.|++++|.. .|+
T Consensus       103 ~Al~~L~~~~~~---~~~~~~~~~~Gdi~~~~g~~~~A~~-~y~  142 (145)
T PF09976_consen  103 EALATLQQIPDE---AFKALAAELLGDIYLAQGDYDEARA-AYQ  142 (145)
T ss_pred             HHHHHHHhccCc---chHHHHHHHHHHHHHHCCCHHHHHH-HHH
Confidence            555555443221   2233344445555555555555555 443

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.52  E-value=1.6e-06  Score=71.24  Aligned_cols=122  Identities=16%  Similarity=0.114  Sum_probs=95.4

Q ss_pred             CCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCC----CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHH
Q 022531            6 EFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSA----KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALM   81 (295)
Q Consensus         6 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~----p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   81 (295)
                      +.+.++.+...+++.+....+++.+..++-......    --..|.+++++.|.+.|..+.++.++..=...|+-||..+
T Consensus        61 ~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s  140 (429)
T PF10037_consen   61 KKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFS  140 (429)
T ss_pred             CCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhh
Confidence            445677777778888888888888888877776652    1244566888888888888888888888888888888888


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHcc
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT  127 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  127 (295)
                      +|.||..+.+.|++..|.++..+|...+...+..|+...+.+|.+.
T Consensus       141 ~n~Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  141 FNLLMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            8888888888888888888888887777666777777777776655

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 [].

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.52  E-value=2.6e-06  Score=55.41  Aligned_cols=81  Identities=15%  Similarity=0.195  Sum_probs=60.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHhcC--------CHHHHHHHHHHHHhCCCCCChHh
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNL-SFNALMYNEMMTLYMSVG--------QVEKVALVVEEIKRKNVVPDIFT  116 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~--------~~~~a~~~~~~m~~~~~~p~~~~  116 (295)
                      +-...|..|...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        ..-+.+.+|++|...+++|+..|
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            344556666677888888888888888888 788888888888776653        23456778888888888888888


Q ss_pred             HHHHHHHHHc
Q 022531          117 YNLWISSCAA  126 (295)
Q Consensus       117 ~~~li~~~~~  126 (295)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            8888877654

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.51  E-value=0.00017  Score=54.17  Aligned_cols=189  Identities=13%  Similarity=0.134  Sum_probs=140.6

Q ss_pred             ccCcHHHHHHHHHHHHh---CC-CCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH-HHHHHccCC
Q 022531           56 GAKWTEKAEELFERVKQ---SN-LSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW-ISSCAATLN  129 (295)
Q Consensus        56 ~~~~~~~a~~~~~~m~~---~~-~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l-i~~~~~~~~  129 (295)
                      ...+.++.++++.+++.   .| ..|+.. .|..++-+....|+.+.|...++++... . |...-...+ .-.+-..|+
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~  101 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGN  101 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhc
Confidence            35678999999998874   33 455554 4567777888899999999999999876 3 443322222 222456789


Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHH
Q 022531          130 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIW  209 (295)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  209 (295)
                      +++|.++++.....  .|.|..++.--+-+.-..|+--+|.+ -+..-.+..+. |...|.-+...|...|++++|.-.+
T Consensus       102 ~~~A~e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~aIk-~ln~YL~~F~~-D~EAW~eLaeiY~~~~~f~kA~fCl  177 (289)
T KOG3060|consen  102 YKEAIEYYESLLED--DPTDTVIRKRKLAILKAQGKNLEAIK-ELNEYLDKFMN-DQEAWHELAEIYLSEGDFEKAAFCL  177 (289)
T ss_pred             hhhHHHHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHHHH-HHHHHHHHhcC-cHHHHHHHHHHHHhHhHHHHHHHHH
Confidence            99999999999985  36777888777777777788888888 67766666654 8899999999999999999999999


Q ss_pred             HHHHhccCCCCHHhHHHHHHHHHhcC---ChHHHHHHHHHHhhhc
Q 022531          210 KSLRMTKQKMTSRNYICILSSYLMLG---HLKEVGEIIDQWKQSA  251 (295)
Q Consensus       210 ~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~~~~~~  251 (295)
                      +++.-.. +.++..+..+...+--.|   +.+.|.++|.+..+..
T Consensus       178 EE~ll~~-P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  178 EELLLIQ-PFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            9998763 334444556666554333   6778889999988754

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.51  E-value=0.00043  Score=58.14  Aligned_cols=53  Identities=9%  Similarity=-0.039  Sum_probs=39.2

Q ss_pred             HHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHH
Q 022531           16 TRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFE   68 (295)
Q Consensus        16 ~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~   68 (295)
                      +=++.+.+.|++++|...-..+....| +...+..-+-+..+.+++++|+.+.+
T Consensus        17 t~ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ik   70 (652)
T KOG2376|consen   17 TDLNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIK   70 (652)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHH
Confidence            345566777888888888888887766 56677777777788888888875544

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.50  E-value=1.2e-05  Score=68.90  Aligned_cols=134  Identities=10%  Similarity=0.102  Sum_probs=81.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      -....+|.+|+.+++.+.....  -..-|..+.+.|+..|+++.|.++|-+.-          .++-.|.+|.+.|+|++
T Consensus       742 ai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~~----------~~~dai~my~k~~kw~d  809 (1636)
T KOG3616|consen  742 AIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEAD----------LFKDAIDMYGKAGKWED  809 (1636)
T ss_pred             HhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhcc----------hhHHHHHHHhccccHHH
Confidence            3455677777777777766532  23346677778888888888888875532          23456788888888888


Q ss_pred             HHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          169 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      |.+ +-.+  -.++......|-+-..-.-.+|++.+|+++|-...    .|+     ..|+.|-+.|..+..+++..+
T Consensus       810 a~k-la~e--~~~~e~t~~~yiakaedldehgkf~eaeqlyiti~----~p~-----~aiqmydk~~~~ddmirlv~k  875 (1636)
T KOG3616|consen  810 AFK-LAEE--CHGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG----EPD-----KAIQMYDKHGLDDDMIRLVEK  875 (1636)
T ss_pred             HHH-HHHH--hcCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc----Cch-----HHHHHHHhhCcchHHHHHHHH
Confidence            888 3322  23434344455554455556677777766654322    233     245556666666666555544

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.49  E-value=0.00046  Score=57.47  Aligned_cols=117  Identities=10%  Similarity=-0.011  Sum_probs=80.7

Q ss_pred             HHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          173 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      .++++.......-..+|..++..-.+..-...|..+|.+.++.+..+ ....+++++.-|| .++..-|.++|+--.++.
T Consensus       353 ~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkkf  431 (656)
T KOG1914|consen  353 IYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKKF  431 (656)
T ss_pred             HHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHhc
Confidence            34444333322234567777877778888889999999998887776 5566677777776 467788889888776654


Q ss_pred             CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          252 TSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       252 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      .  .+...-...++-+...++-..|..+|++.+..++.||.
T Consensus       432 ~--d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~k  470 (656)
T KOG1914|consen  432 G--DSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADK  470 (656)
T ss_pred             C--CChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhh
Confidence            2  22333355666677788888888888888887666553

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.47  E-value=0.00024  Score=53.36  Aligned_cols=186  Identities=11%  Similarity=0.008  Sum_probs=137.9

Q ss_pred             ccChhHHHHHHhhcccC------CCCHH-HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           24 VFGIHSGERYFEGLPLS------AKTSE-TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~------~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      ..+.++..+++.++...      +++.. .|..+.-+....|+.+.|..+++++... ++-+..+-..=.--+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhchh
Confidence            45688888888887654      34444 4566667778889999999999999877 3333333332233345678999


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      +|+++|+.+.+.+ +-|..++.--+...-..|+.-+|++-+....+  .+..|...|.-+...|...|+++.|.- .+++
T Consensus       104 ~A~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~f-ClEE  179 (289)
T KOG3060|consen  104 EAIEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAF-CLEE  179 (289)
T ss_pred             hHHHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHH-HHHH
Confidence            9999999999986 34677777777777778888899998888887  578899999999999999999999999 7888


Q ss_pred             HHHhcCCCccccHHHHHHHHHhcC---CHHHHHHHHHHHHhc
Q 022531          177 AEKSITQRQWITYDFLIILYAGLG---NKDKIDQIWKSLRMT  215 (295)
Q Consensus       177 ~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~  215 (295)
                      +.-..|. +...+..+...+...|   +.+-+.++|.+..+.
T Consensus       180 ~ll~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  180 LLLIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            7665432 4445555655554444   566778888877664

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.47  E-value=0.00029  Score=61.88  Aligned_cols=134  Identities=9%  Similarity=0.032  Sum_probs=71.5

Q ss_pred             hccChhHHHHHHhhcccCCCCHHHHHHH-HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 022531           23 KVFGIHSGERYFEGLPLSAKTSETYTAL-LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV  101 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p~~~~~~~l-i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  101 (295)
                      ..+++.+|..-...+....|+....-.+ .-.+.+.|+.++|..+++.....+.. |..|...+-.+|.+.++.++|..+
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~~~~~   99 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNALYAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDEAVHL   99 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhHHHHH
Confidence            4456666666666666555543322221 12344566666666666655554422 555666666666666666666666


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 022531          102 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  161 (295)
Q Consensus       102 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (295)
                      |++..+.  .|+......+..+|.+.+.+.+-.++--++-+  ..+.+...+-++++.+.
T Consensus       100 Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK--~~pk~~yyfWsV~Slil  155 (932)
T KOG2053|consen  100 YERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK--NFPKRAYYFWSVISLIL  155 (932)
T ss_pred             HHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCcccchHHHHHHHHH
Confidence            6666553  35555555566666666665544444333333  23334444444444443

>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=98.46  E-value=3.1e-05  Score=63.45  Aligned_cols=125  Identities=11%  Similarity=0.099  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      ....|+..+...++++.|+.+|+++.+..  |+  ....+++.+...++..+|.+++.+..+.  .+.+......-...+
T Consensus       171 Lv~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fL  244 (395)
T PF09295_consen  171 LVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHH
Confidence            34556666777889999999999998863  44  3445777777888888999999988864  355677777777888


Q ss_pred             HhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531          161 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLR  213 (295)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  213 (295)
                      .+.++++.|.. +..++....+. +..+|..|..+|...|+++.|+..++.+-
T Consensus       245 l~k~~~~lAL~-iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALE-IAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHH-HHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            89999999999 77777665543 56789999999999999999998888763

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.45  E-value=0.00038  Score=54.74  Aligned_cols=269  Identities=10%  Similarity=-0.051  Sum_probs=163.5

Q ss_pred             CCCHHHHHHHH---HHHHhccChhHHHHHHhhcccCCCCHH-HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH----
Q 022531            8 VLSDSDYATRI---DLMTKVFGIHSGERYFEGLPLSAKTSE-TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA----   79 (295)
Q Consensus         8 ~~~~~~~~~li---~~~~~~~~~~~A~~~~~~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----   79 (295)
                      ..|+..|-++.   ..|...|+-..|+.=|....+..||-. .--.-...+.+.|.+++|..=|+..++..  |+.    
T Consensus        66 e~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Gele~A~~DF~~vl~~~--~s~~~~~  143 (504)
T KOG0624|consen   66 EGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGELEQAEADFDQVLQHE--PSNGLVL  143 (504)
T ss_pred             cCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhcccHHHHHHHHHHHHhcC--CCcchhH
Confidence            34444444433   344555666666665555555555432 22223445667777888887777777664  211    


Q ss_pred             HH----------H--HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC
Q 022531           80 LM----------Y--NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGS  147 (295)
Q Consensus        80 ~~----------~--~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  147 (295)
                      ..          |  ...+..+...|+...|+.....+++-. +.|...|..-..+|...|++..|+.=++...+.  ..
T Consensus       144 eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askL--s~  220 (504)
T KOG0624|consen  144 EAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKL--SQ  220 (504)
T ss_pred             HHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhc--cc
Confidence            11          1  223334556677777777777777742 246666777777777778887777766666553  23


Q ss_pred             CCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcccc----HHHH---------HHHHHhcCCHHHHHHHHHHHHh
Q 022531          148 DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT----YDFL---------IILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~~l---------i~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      .++.+...+...+-..|+.+.++. ...+..+-.  ||...    |-.|         +......++|.++.+-.+...+
T Consensus       221 DnTe~~ykis~L~Y~vgd~~~sL~-~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk  297 (504)
T KOG0624|consen  221 DNTEGHYKISQLLYTVGDAENSLK-EIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLK  297 (504)
T ss_pred             cchHHHHHHHHHHHhhhhHHHHHH-HHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            455566666677777777777777 555554433  33211    1111         1123456677777777776665


Q ss_pred             ccCCCCHHhH---HHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          215 TKQKMTSRNY---ICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       215 ~~~~~~~~~~---~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      .........|   ..+-+++...+++.+|++.-.+.....  +.|+.++.-=..+|.-...++.|..=|+...+.
T Consensus       298 ~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d--~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  298 NEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDID--PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             cCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcC--chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            5322222233   345667778888889988888887732  345778877788888888888888888887763

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.45  E-value=0.00047  Score=60.63  Aligned_cols=73  Identities=16%  Similarity=0.140  Sum_probs=35.5

Q ss_pred             hccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 022531           23 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   97 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~   97 (295)
                      +.|+.++|..+++.....++ |..|...+-.+|-..++.++|..+|++.....  |+......+..+|++.+++.+
T Consensus        55 r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~~~Ye~~~~~~--P~eell~~lFmayvR~~~yk~  128 (932)
T KOG2053|consen   55 RLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAVHLYERANQKY--PSEELLYHLFMAYVREKSYKK  128 (932)
T ss_pred             HhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHHHHHHHHHhhC--CcHHHHHHHHHHHHHHHHHHH
Confidence            44555555555544444332 44455555555555555555555555555442  344444444445555544443

>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=98.44  E-value=7.6e-06  Score=60.01  Aligned_cols=101  Identities=16%  Similarity=0.243  Sum_probs=72.5

Q ss_pred             HHHHHHhhcccCCCCHHHHHHHHHHHHc-----cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-----------
Q 022531           29 SGERYFEGLPLSAKTSETYTALLHLYAG-----AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV-----------   92 (295)
Q Consensus        29 ~A~~~~~~~~~~~p~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----------   92 (295)
                      .-...|+.......|..+|..++..+.+     .|.++-....+..|.+.|+.-|..+|+.|+..+=+.           
T Consensus        32 ~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~  111 (228)
T PF06239_consen   32 PHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAE  111 (228)
T ss_pred             chHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHH
Confidence            3445666665555788888888888865     477888889999999999999999999999976542           


Q ss_pred             -----CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC
Q 022531           93 -----GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  129 (295)
Q Consensus        93 -----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  129 (295)
                           .+.+-|++++++|...|+-||..|+..+++.+++.+.
T Consensus       112 F~hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  112 FMHYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             hccCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence                 1233466666666666666666666666666655544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.43  E-value=0.00019  Score=63.99  Aligned_cols=175  Identities=11%  Similarity=0.049  Sum_probs=82.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  159 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  159 (295)
                      .+|..+..+-.+.|...+|++-|-+.      -|+..|..+++.+.+.|.|++-.+++.-.++. ...|...  +.++-+
T Consensus      1105 ~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id--~eLi~A 1175 (1666)
T KOG0985|consen 1105 AVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYID--SELIFA 1175 (1666)
T ss_pred             HHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccch--HHHHHH
Confidence            34555555555555555554444221      13344555555555555555555554444443 3333332  245555


Q ss_pred             HHhcCchhhHHHHHHHHHHHhcCCCc--------------------------cccHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531          160 YITASHLVNAESSTLVEAEKSITQRQ--------------------------WITYDFLIILYAGLGNKDKIDQIWKSLR  213 (295)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~--------------------------~~~~~~li~~~~~~g~~~~a~~~~~~m~  213 (295)
                      |++.+++.+.++ +.       ..||                          +.-|..|...+...|++..|...-++  
T Consensus      1176 yAkt~rl~elE~-fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRK-- 1245 (1666)
T KOG0985|consen 1176 YAKTNRLTELEE-FI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARK-- 1245 (1666)
T ss_pred             HHHhchHHHHHH-Hh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhh--
Confidence            555555544444 11       1122                          33344444555555555555444332  


Q ss_pred             hccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 022531          214 MTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       214 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                          ..+..||-.+--+|...+.+..|     +|.--... ....-..-++.-|-..|-+++...+++..
T Consensus      1246 ----Ans~ktWK~VcfaCvd~~EFrlA-----QiCGL~ii-vhadeLeeli~~Yq~rGyFeElIsl~Ea~ 1305 (1666)
T KOG0985|consen 1246 ----ANSTKTWKEVCFACVDKEEFRLA-----QICGLNII-VHADELEELIEYYQDRGYFEELISLLEAG 1305 (1666)
T ss_pred             ----ccchhHHHHHHHHHhchhhhhHH-----HhcCceEE-EehHhHHHHHHHHHhcCcHHHHHHHHHhh
Confidence                12344555555555554444332     12111111 23333556777777777777777766543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.41  E-value=7.7e-05  Score=64.29  Aligned_cols=168  Identities=16%  Similarity=0.148  Sum_probs=107.1

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  130 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  130 (295)
                      +.+-....+|.+|+.+++.+.....  -..-|..+...|+..|+++.|.++|-+.         ..++-.|..|.+.|+|
T Consensus       739 ieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw  807 (1636)
T KOG3616|consen  739 IEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKW  807 (1636)
T ss_pred             HHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccH
Confidence            4455667778888888887776642  2344667777888888888888888553         2255567788888888


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          131 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      +.|.++-.+..   |.......|-+-..-+-+.|++.+|++ ++-    ....|+     .-|..|-+.|..+..+++.+
T Consensus       808 ~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeq-lyi----ti~~p~-----~aiqmydk~~~~ddmirlv~  874 (1636)
T KOG3616|consen  808 EDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQ-LYI----TIGEPD-----KAIQMYDKHGLDDDMIRLVE  874 (1636)
T ss_pred             HHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhh-eeE----EccCch-----HHHHHHHhhCcchHHHHHHH
Confidence            88888766554   334555666666666777888888877 332    223344     34667777777777777766


Q ss_pred             HHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHH
Q 022531          211 SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIID  245 (295)
Q Consensus       211 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~  245 (295)
                      +-...   .-..|-..+..-|...|++..|...|-
T Consensus       875 k~h~d---~l~dt~~~f~~e~e~~g~lkaae~~fl  906 (1636)
T KOG3616|consen  875 KHHGD---HLHDTHKHFAKELEAEGDLKAAEEHFL  906 (1636)
T ss_pred             HhChh---hhhHHHHHHHHHHHhccChhHHHHHHH
Confidence            43221   112334445555666666666655543

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.38  E-value=7.2e-05  Score=52.92  Aligned_cols=125  Identities=12%  Similarity=0.065  Sum_probs=71.9

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--HHHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAKTS----ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN--ALMYNEM   85 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~l   85 (295)
                      ..|..++..+. .++.+.+...++.+....|+.    ...-.+...+...|++++|...|+........|+  ....-.|
T Consensus        13 ~~y~~~~~~~~-~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   13 ALYEQALQALQ-AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHHHHH-CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHH
Confidence            34555555553 666666666666666655522    2333344566667777777777777766541121  1233445


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHH
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE  139 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~  139 (295)
                      ...+...|++++|+..++.....  ......+......+.+.|++++|...|+.
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~--~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~  143 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDE--AFKALAAELLGDIYLAQGDYDEARAAYQK  143 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCc--chHHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            56666677777777776553322  22334455566667777777777776665

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.36  E-value=5.4e-07  Score=45.11  Aligned_cols=30  Identities=20%  Similarity=0.310  Sum_probs=23.6

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHhcCC
Q 022531          259 ACNRLLGAFSDVGLTEKANEFHMLLLQKNC  288 (295)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  288 (295)
                      +|+.++++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677888888888888888888888877764

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.

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.36  E-value=1.4e-05  Score=65.77  Aligned_cols=120  Identities=12%  Similarity=0.131  Sum_probs=100.3

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQS--NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  120 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  120 (295)
                      +......++..+....+++++..++-+....  ....-..|.+++++.|.+.|..++++.+++.=...|+-||..+++.|
T Consensus        65 S~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~L  144 (429)
T PF10037_consen   65 SSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNLL  144 (429)
T ss_pred             cHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHHH
Confidence            6777888888888888999999999888765  22233456679999999999999999999999999999999999999


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531          121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      |+.+.+.|++..|.++...|... ....+..++...+.+|.+.
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQ-e~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQ-EEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHh-hccCCchHHHHHHHHHHHh
Confidence            99999999999999999998776 5556667766666655555

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 [].

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.35  E-value=0.00055  Score=51.90  Aligned_cols=244  Identities=12%  Similarity=0.001  Sum_probs=123.5

Q ss_pred             hccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH-H
Q 022531           23 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL-V  101 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~-~  101 (295)
                      -.|++..++..-........+...-.-+-++|...|.....   ..+++... .|....+..+.......++.++-+. +
T Consensus        20 Y~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~---~~eI~~~~-~~~lqAvr~~a~~~~~e~~~~~~~~~l   95 (299)
T KOG3081|consen   20 YLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIV---ISEIKEGK-ATPLQAVRLLAEYLELESNKKSILASL   95 (299)
T ss_pred             HhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHccccccc---cccccccc-CChHHHHHHHHHHhhCcchhHHHHHHH
Confidence            35667776665554443322333333344555555554322   22223222 3334444444444444444444333 3


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhc
Q 022531          102 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  181 (295)
Q Consensus       102 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (295)
                      .+.+.......+......-...|++.+++++|++.....       .+......=...+.+..+.+-|.. .++.|.+-.
T Consensus        96 ~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~-------~~lE~~Al~VqI~lk~~r~d~A~~-~lk~mq~id  167 (299)
T KOG3081|consen   96 YELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG-------ENLEAAALNVQILLKMHRFDLAEK-ELKKMQQID  167 (299)
T ss_pred             HHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc-------chHHHHHHHHHHHHHHHHHHHHHH-HHHHHHccc
Confidence            333333333333233333344467777777777765541       122222233444556666777776 555554422


Q ss_pred             CCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCH
Q 022531          182 TQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDI  257 (295)
Q Consensus       182 ~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  257 (295)
                         +..|.+.|..++.+    .+...+|.-+|++|-+. ..|+..+.+....++...|++++|..++++...+..  .+.
T Consensus       168 ---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~--~dp  241 (299)
T KOG3081|consen  168 ---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDA--KDP  241 (299)
T ss_pred             ---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccC--CCH
Confidence               34555555555543    34567777777777553 366777777777777777777777777777766542  234


Q ss_pred             HHHHHHHHHHHccCCh-HHHHHHHHHHH
Q 022531          258 SACNRLLGAFSDVGLT-EKANEFHMLLL  284 (295)
Q Consensus       258 ~~~~~l~~~~~~~g~~-~~a~~~~~~m~  284 (295)
                      .+...++-+-...|.. +...+.+.+++
T Consensus       242 etL~Nliv~a~~~Gkd~~~~~r~l~QLk  269 (299)
T KOG3081|consen  242 ETLANLIVLALHLGKDAEVTERNLSQLK  269 (299)
T ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHH
Confidence            4444444444444443 22334444443

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.34  E-value=2.1e-05  Score=53.43  Aligned_cols=97  Identities=12%  Similarity=-0.019  Sum_probs=48.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CChHhHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNL--SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--PDIFTYNLWI  121 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li  121 (295)
                      ++..++..+.+.|++++|...|+.+.+..-  +.....+..+..++.+.|++++|...|+.+......  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            344455555555566666666655554320  011234444555555666666666666655543211  1123344455


Q ss_pred             HHHHccCCHHHHHHHHHHHhh
Q 022531          122 SSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      .++.+.|++++|...++++..
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHH
Confidence            555555666666666665555

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.

>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=98.32  E-value=1.5e-05  Score=51.31  Aligned_cols=94  Identities=15%  Similarity=0.083  Sum_probs=48.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                      +..+...+...|++++|...|++..+.. +.+...+..+...+...+++++|.+.|+...+... .+..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDP-DNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC-cchhHHHHHHHHHHH
Confidence            3344445555555555555555555442 22334455555555555555666655555554322 122345555555555


Q ss_pred             cCCHHHHHHHHHHHhh
Q 022531          127 TLNIDQVKKFLDEMSC  142 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~  142 (295)
                      .|+++.|...+.....
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            5566666555555443

>KOG4162 consensus Predicted calmodulin-binding protein [Signal transduction mechanisms]

Probab=98.32  E-value=0.00084  Score=58.16  Aligned_cols=229  Identities=13%  Similarity=0.041  Sum_probs=152.6

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCC--CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhC-CCC-----------------
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQS-NLS-----------------   76 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~-----------------   76 (295)
                      +---|+..++++.|.+...+.....  -+...|..|.-.+...+++.+|+.+.+..... |..                 
T Consensus       484 lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~~~~~  563 (799)
T KOG4162|consen  484 LALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELTFNDR  563 (799)
T ss_pred             HHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhhcccH
Confidence            3344567788888888888777763  37888888888888888888888888765543 210                 


Q ss_pred             -CCHHHHHHHHHHHHh---------c--------------CCHHHHHHHHHHH--------HhCC---------CCC--C
Q 022531           77 -FNALMYNEMMTLYMS---------V--------------GQVEKVALVVEEI--------KRKN---------VVP--D  113 (295)
Q Consensus        77 -p~~~~~~~li~~~~~---------~--------------~~~~~a~~~~~~m--------~~~~---------~~p--~  113 (295)
                       --..|...++..+-.         .              ++..++.+....+        ...|         +.|  +
T Consensus       564 e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~  643 (799)
T KOG4162|consen  564 EEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPD  643 (799)
T ss_pred             HHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCCCC
Confidence             001111111111110         0              0111111111111        0001         111  1


Q ss_pred             ------hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccc
Q 022531          114 ------IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI  187 (295)
Q Consensus       114 ------~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  187 (295)
                            ...|......+.+.+..++|...+.+...  ..+.....|......+...|.+++|.+ .|.....-.+. ++.
T Consensus       644 ~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~-af~~Al~ldP~-hv~  719 (799)
T KOG4162|consen  644 SLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKE-AFLVALALDPD-HVP  719 (799)
T ss_pred             chHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHH-HHHHHHhcCCC-CcH
Confidence                  12344555667777888888877777776  456677788888888899999999999 67666554432 567


Q ss_pred             cHHHHHHHHHhcCCHHHHHH--HHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          188 TYDFLIILYAGLGNKDKIDQ--IWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       188 ~~~~li~~~~~~g~~~~a~~--~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      ...++...+.+.|+..-+..  ++..+...+ ..+...|-.+...+-+.|+.+.|-+.|+....-
T Consensus       720 s~~Ala~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  720 SMTALAELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHHHHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            78889999999998888887  999988876 557888999999999999999999999987653

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.31  E-value=1.9e-05  Score=51.50  Aligned_cols=81  Identities=10%  Similarity=0.152  Sum_probs=67.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCChHhHHHHHHHHHccC--------CHHHHHHHHHHHhhcCCCCCCHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPDIFTYNLWISSCAATL--------NIDQVKKFLDEMSCDSGGSDDWV  151 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  151 (295)
                      |....|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        +.-+.+.+|+.|... +.+|+..
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 TQIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSN-KLKPNDE  105 (120)
T ss_pred             HHHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHh-ccCCcHH
Confidence            445567777777999999999999999999 999999999999987653        244567888899887 7999999


Q ss_pred             HHHHHHHHHHh
Q 022531          152 KYVNLVNIYIT  162 (295)
Q Consensus       152 ~~~~l~~~~~~  162 (295)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            99998887754

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 [, , ].

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.31  E-value=4.5e-05  Score=66.32  Aligned_cols=230  Identities=13%  Similarity=0.157  Sum_probs=135.2

Q ss_pred             HHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC---------CCCCHHHHHHHHHHHH
Q 022531           20 LMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN---------LSFNALMYNEMMTLYM   90 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------~~p~~~~~~~li~~~~   90 (295)
                      .|...|+.|.|.+-.+.++    +..+|..|.+.|.+..+++-|.-.+..|....         -.|+ .+---..-.-.
T Consensus       737 fyvtiG~MD~AfksI~~Ik----S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAi  811 (1416)
T KOG3617|consen  737 FYVTIGSMDAAFKSIQFIK----SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAI  811 (1416)
T ss_pred             EEEEeccHHHHHHHHHHHh----hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHH
Confidence            4556677888777666553    56788888888888888888877776665321         1111 11112222335


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      ..|.+++|..+|++-++         |..|=..|-..|.|++|.++-+.--.    .--..||.....-+...++.+.|+
T Consensus       812 eLgMlEeA~~lYr~ckR---------~DLlNKlyQs~g~w~eA~eiAE~~DR----iHLr~Tyy~yA~~Lear~Di~~Al  878 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKR---------YDLLNKLYQSQGMWSEAFEIAETKDR----IHLRNTYYNYAKYLEARRDIEAAL  878 (1416)
T ss_pred             HHhhHHHHHHHHHHHHH---------HHHHHHHHHhcccHHHHHHHHhhccc----eehhhhHHHHHHHHHhhccHHHHH
Confidence            66778888888877655         33444556677888888776543211    112345656666666667777777


Q ss_pred             HHHHHHHH----------HhcC---------CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHH
Q 022531          171 SSTLVEAE----------KSIT---------QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  231 (295)
Q Consensus       171 ~~~~~~~~----------~~~~---------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  231 (295)
                      + +|++..          ...+         ..|...|.--..-.-..|+.+.|+.+|...++         |-++++..
T Consensus       879 e-yyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~VrI~  948 (1416)
T KOG3617|consen  879 E-YYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVRIK  948 (1416)
T ss_pred             H-HHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhheeeE
Confidence            6 554321          1110         01222222222223345666666666654432         33456666


Q ss_pred             HhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          232 LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       232 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      |-.|+.++|-++-++       .-|....-.|.+.|-..|++.+|..+|.+..
T Consensus       949 C~qGk~~kAa~iA~e-------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  949 CIQGKTDKAARIAEE-------SGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             eeccCchHHHHHHHh-------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            667777777766554       2355566677888888888888888877654

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.30  E-value=5.8e-05  Score=51.25  Aligned_cols=96  Identities=13%  Similarity=0.045  Sum_probs=49.8

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAKT----SETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMM   86 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li   86 (295)
                      ++-.+...+.+.|++++|.+.|+.+....|+    ...+..+..++.+.|+++.|...|+++....  .+....++..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            3444555555556666666665555544332    2344445555555566666666665555432  111133455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhC
Q 022531           87 TLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      .++.+.|++++|.+.++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            5555556666666666555554

Members of this protein family are the product of one of seven genes regularly clustered in operons to encode the proteins of the tol-pal system, which is critical for maintaining the integrity of the bacterial outer membrane. The gene for this periplasmic protein has been designated orf2 and ybgF. All members of the seed alignment were from unique tol-pal gene regions from completed bacterial genomes. The architecture of this protein is a signal sequence, a low-complexity region usually rich in Asn and Gln, a well-conserved region with tandem repeats that resemble the tetratricopeptide (TPR) repeat, involved in protein-protein interaction.

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.30  E-value=1e-06  Score=44.10  Aligned_cols=27  Identities=30%  Similarity=0.632  Sum_probs=11.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      ||++|++|++.|++++|.++|++|.+.
T Consensus         3 y~~li~~~~~~~~~~~a~~~~~~M~~~   29 (31)
T PF01535_consen    3 YNSLISGYCKMGQFEEALEVFDEMRER   29 (31)
T ss_pred             HHHHHHHHHccchHHHHHHHHHHHhHC
Confidence            444444444444444444444444433

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.

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.29  E-value=0.00018  Score=50.49  Aligned_cols=104  Identities=10%  Similarity=-0.059  Sum_probs=79.8

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +....-.+...+...|++++|..+|+-+...+ +-+..-|-.|.-++-..|++++|+..|......++ -|...+-.+..
T Consensus        34 ~l~~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~  111 (157)
T PRK15363         34 PLNTLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHH
Confidence            34455566667778899999999998888775 34566777888888888999999999988888754 36777777888


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCC
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSD  148 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~  148 (295)
                      ++...|+.+.|.+.|+......+-.|
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~~~~~~  137 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRICGEVS  137 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHhccCh
Confidence            88889999999988888776533333

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.29  E-value=3.7e-05  Score=60.73  Aligned_cols=130  Identities=14%  Similarity=0.213  Sum_probs=97.6

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHH-HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHL-YAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      .+|..+|.+.-+.+.++.|..+|.+.....+ +..+|-..... +...++.+.|..+|+...+. ++.+...|..-+..+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk~-f~~~~~~~~~Y~~~l   80 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDFL   80 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHHH
Confidence            4688889999999999999999999886644 45555555444 22356677799999988876 566788888888999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCh---HhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDI---FTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      ...++.+.|..+|++.... +.++.   ..|...+..=.+.|+.+.+.++.+++.+.
T Consensus        81 ~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   81 IKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            9999999999999998876 33332   47888888888889999999998888874

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.28  E-value=0.0014  Score=58.74  Aligned_cols=237  Identities=9%  Similarity=0.060  Sum_probs=116.2

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCC-C---CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSA-K---TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-p---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      |+...+..+.++...+-..+-+++++.+.-.. +   +...-|.|+-.-.+..+ .++.+..+++-..+. |+      +
T Consensus       983 dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAikad~-trVm~YI~rLdnyDa-~~------i 1054 (1666)
T KOG0985|consen  983 DPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKADR-TRVMEYINRLDNYDA-PD------I 1054 (1666)
T ss_pred             ChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhcCh-HHHHHHHHHhccCCc-hh------H
Confidence            45555566666666666666666666654431 1   23333444443333332 445555555544431 21      1


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC----------------------CCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRK----------------------NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~----------------------~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .......+-+++|..+|++.-..                      .+ -.+..|+.+..+-.+.|...+|++-|-+.   
T Consensus      1055 a~iai~~~LyEEAF~ifkkf~~n~~A~~VLie~i~~ldRA~efAe~~-n~p~vWsqlakAQL~~~~v~dAieSyika--- 1130 (1666)
T KOG0985|consen 1055 AEIAIENQLYEEAFAIFKKFDMNVSAIQVLIENIGSLDRAYEFAERC-NEPAVWSQLAKAQLQGGLVKDAIESYIKA--- 1130 (1666)
T ss_pred             HHHHhhhhHHHHHHHHHHHhcccHHHHHHHHHHhhhHHHHHHHHHhh-CChHHHHHHHHHHHhcCchHHHHHHHHhc---
Confidence            22233344455555555543110                      00 02234444444444444444444433221   


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHh
Q 022531          144 SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN  223 (295)
Q Consensus       144 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  223 (295)
                          .|+..|..+++...+.|.|++-.+ ++.+..+....|.+  =+.||-+|++.++..+.++++.       .||...
T Consensus      1131 ----dDps~y~eVi~~a~~~~~~edLv~-yL~MaRkk~~E~~i--d~eLi~AyAkt~rl~elE~fi~-------gpN~A~ 1196 (1666)
T KOG0985|consen 1131 ----DDPSNYLEVIDVASRTGKYEDLVK-YLLMARKKVREPYI--DSELIFAYAKTNRLTELEEFIA-------GPNVAN 1196 (1666)
T ss_pred             ----CCcHHHHHHHHHHHhcCcHHHHHH-HHHHHHHhhcCccc--hHHHHHHHHHhchHHHHHHHhc-------CCCchh
Confidence                234445555666666666666555 55544444444332  2345555666665555555443       455555


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          224 YICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       224 ~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      ...+..-|...|.++.|.-+|.          ++.-|..|...+...|++..|.+.-++
T Consensus      1197 i~~vGdrcf~~~~y~aAkl~y~----------~vSN~a~La~TLV~LgeyQ~AVD~aRK 1245 (1666)
T KOG0985|consen 1197 IQQVGDRCFEEKMYEAAKLLYS----------NVSNFAKLASTLVYLGEYQGAVDAARK 1245 (1666)
T ss_pred             HHHHhHHHhhhhhhHHHHHHHH----------HhhhHHHHHHHHHHHHHHHHHHHHhhh
Confidence            5555555555555555544443          233455666666666666666554433

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.25  E-value=0.00029  Score=55.61  Aligned_cols=124  Identities=13%  Similarity=0.082  Sum_probs=51.9

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHH-HHHHHH
Q 022531          119 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDF-LIILYA  197 (295)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-li~~~~  197 (295)
                      ++.+.+.-..++++++-++..+..  -+..|-..--.+.++++..|++.+|++ +|-.+..... .|..+|.+ |..+|.
T Consensus       364 smAs~fFL~~qFddVl~YlnSi~s--YF~NdD~Fn~N~AQAk~atgny~eaEe-lf~~is~~~i-kn~~~Y~s~LArCyi  439 (557)
T KOG3785|consen  364 SMASYFFLSFQFDDVLTYLNSIES--YFTNDDDFNLNLAQAKLATGNYVEAEE-LFIRISGPEI-KNKILYKSMLARCYI  439 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH--HhcCcchhhhHHHHHHHHhcChHHHHH-HHhhhcChhh-hhhHHHHHHHHHHHH
Confidence            333344444455555555555544  222222222344555555555555555 4433322211 23334332 334455


Q ss_pred             hcCCHHHHHHHHHHHHhccCCCCHHh-HHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          198 GLGNKDKIDQIWKSLRMTKQKMTSRN-YICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       198 ~~g~~~~a~~~~~~m~~~~~~~~~~~-~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      +.++++-|.+++-.+...+   +... ...+..-|-+.+.+--|-+.|+.+..
T Consensus       440 ~nkkP~lAW~~~lk~~t~~---e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~  489 (557)
T KOG3785|consen  440 RNKKPQLAWDMMLKTNTPS---ERFSLLQLIANDCYKANEFYYAAKAFDELEI  489 (557)
T ss_pred             hcCCchHHHHHHHhcCCch---hHHHHHHHHHHHHHHHHHHHHHHHhhhHHHc
Confidence            5555555555443332111   1111 11233344455555555555554443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.23  E-value=3.6e-05  Score=63.03  Aligned_cols=103  Identities=10%  Similarity=-0.055  Sum_probs=86.3

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV   95 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~   95 (295)
                      -...+...|++++|++.|++.....| +...|..+..++.+.|++++|+..+++..+.+ +.+...|..+..+|...|++
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCH
Confidence            34566788999999999999998877 78899999999999999999999999999875 45678899999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           96 EKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      ++|+..|++..+.  .|+.......+.
T Consensus        87 ~eA~~~~~~al~l--~P~~~~~~~~l~  111 (356)
T PLN03088         87 QTAKAALEKGASL--APGDSRFTKLIK  111 (356)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            9999999999885  455444444443

>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=98.22  E-value=3.8e-05  Score=49.43  Aligned_cols=94  Identities=21%  Similarity=0.137  Sum_probs=67.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHH
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFS  268 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  268 (295)
                      +..+...+...|++++|..++++..+.. +.+...+..+...+...+++++|.+.++......  +.+..++..+...+.
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~   79 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELD--PDNAKAYYNLGLAYY   79 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCC--CcchhHHHHHHHHHH
Confidence            4455666777788888888888776653 2233556667777778888888888888777643  334456777778888


Q ss_pred             ccCChHHHHHHHHHHHh
Q 022531          269 DVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       269 ~~g~~~~a~~~~~~m~~  285 (295)
                      ..|+++.|...+.+..+
T Consensus        80 ~~~~~~~a~~~~~~~~~   96 (100)
T cd00189          80 KLGKYEEALEAYEKALE   96 (100)
T ss_pred             HHHhHHHHHHHHHHHHc
Confidence            88888888888877765

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=98.22  E-value=0.00016  Score=61.90  Aligned_cols=135  Identities=14%  Similarity=0.071  Sum_probs=71.1

Q ss_pred             CHHHHHHHHHHHHc--c---CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc--------CCHHHHHHHHHHHHhCC
Q 022531           43 TSETYTALLHLYAG--A---KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV--------GQVEKVALVVEEIKRKN  109 (295)
Q Consensus        43 ~~~~~~~li~~~~~--~---~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------~~~~~a~~~~~~m~~~~  109 (295)
                      +...|...+++...  .   ++...|..+|++..+.+ |-....|..+..++...        .++..+.+..++.....
T Consensus       336 ~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld-P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~al~  414 (517)
T PRK10153        336 QGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE-PDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIVALP  414 (517)
T ss_pred             CHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhhhcc
Confidence            55666666555332  2   22556667777666654 22234444433333221        11233333333322221


Q ss_pred             -CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcC
Q 022531          110 -VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       110 -~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                       ...+...|..+.-.....|++++|...++++...   .|+...|..+...+...|+.++|.+ .+.+.....+
T Consensus       415 ~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L---~ps~~a~~~lG~~~~~~G~~~eA~~-~~~~A~~L~P  484 (517)
T PRK10153        415 ELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL---EMSWLNYVLLGKVYELKGDNRLAAD-AYSTAFNLRP  484 (517)
T ss_pred             cCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc---CCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhcCC
Confidence             2223455555544455567777777777776654   2566667777777777777777777 6666554443

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.15  E-value=1e-05  Score=51.30  Aligned_cols=81  Identities=15%  Similarity=0.114  Sum_probs=52.3

Q ss_pred             cCCHHHHHHHHHHHHhccCC-CCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHH
Q 022531          199 LGNKDKIDQIWKSLRMTKQK-MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKAN  277 (295)
Q Consensus       199 ~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  277 (295)
                      .|+++.|+.+++++.+.... ++...+-.+..+|.+.|++++|..+++. .+.+  ..+....-.+..+|.+.|++++|.
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~--~~~~~~~~l~a~~~~~l~~y~eAi   78 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLD--PSNPDIHYLLARCLLKLGKYEEAI   78 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHH--HCHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCC--CCCHHHHHHHHHHHHHhCCHHHHH
Confidence            46778888888887766431 2333444577888888888888888877 3322  123344445677888888888888


Q ss_pred             HHHHH
Q 022531          278 EFHML  282 (295)
Q Consensus       278 ~~~~~  282 (295)
                      .++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            88765

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.15  E-value=0.00056  Score=59.89  Aligned_cols=210  Identities=15%  Similarity=0.115  Sum_probs=137.3

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccC-----------CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLS-----------AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN   78 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~   78 (295)
                      +...|..+...|.+.+++|-|.-.+..|...           .|+ .+=....-.-...|-+++|+.+|++-+..+    
T Consensus       756 S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgMlEeA~~lYr~ckR~D----  830 (1416)
T KOG3617|consen  756 SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGMLEEALILYRQCKRYD----  830 (1416)
T ss_pred             hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhhHHHHHHHHHHHHHHH----
Confidence            5668999999999999999999988888653           122 222222333346788999999999887764    


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHh----------hcC----
Q 022531           79 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS----------CDS----  144 (295)
Q Consensus        79 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~----------~~~----  144 (295)
                           .|=..|-..|.|++|+++-+.=-+-.+   -.||..-..-+-..++.+.|+++|++..          ...    
T Consensus       831 -----LlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK~~~hafev~rmL~e~p~~~  902 (1416)
T KOG3617|consen  831 -----LLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEKAGVHAFEVFRMLKEYPKQI  902 (1416)
T ss_pred             -----HHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHhcCChHHHHHHHHHhChHHH
Confidence                 233456667899999987654332212   2456556666666778888888776532          110    


Q ss_pred             ----CCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC
Q 022531          145 ----GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT  220 (295)
Q Consensus       145 ----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~  220 (295)
                          ....+...|.-....+...|++|.|+. ++....+         |-+++...+-.|+.++|-++-++   .   -|
T Consensus       903 e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~-~Y~~A~D---------~fs~VrI~C~qGk~~kAa~iA~e---s---gd  966 (1416)
T KOG3617|consen  903 EQYVRRKRDESLYSWWGQYLESVGEMDAALS-FYSSAKD---------YFSMVRIKCIQGKTDKAARIAEE---S---GD  966 (1416)
T ss_pred             HHHHHhccchHHHHHHHHHHhcccchHHHHH-HHHHhhh---------hhhheeeEeeccCchHHHHHHHh---c---cc
Confidence                012233445555566667888998888 7765543         44555556677888888777654   2   23


Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          221 SRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       221 ~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      ....-.|.+.|...|++.+|..+|.+..
T Consensus       967 ~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  967 KAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             HHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            3444457777888888888877776543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.14  E-value=0.00013  Score=57.72  Aligned_cols=135  Identities=10%  Similarity=0.124  Sum_probs=97.5

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL-YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      .+|..++...-+.+.++.|..+|.+..+.+ ..+..+|-..... |...++.+.|.++|+...+. ...+...|..-++.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            478888899989999999999999998654 2234455444444 33356777799999988875 55567778888888


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCC-CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcC
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                      +.+.++.+.|..+|++....-.... ...+|...+..-.+.|+++.+.+ +..++.+..+
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~-v~~R~~~~~~  138 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRK-VEKRAEELFP  138 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHH-HHHHHHHHTT
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHhh
Confidence            8999999999999999887421112 23588889998889999999888 7777766543

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.

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.11  E-value=5.4e-06  Score=52.59  Aligned_cols=81  Identities=12%  Similarity=0.119  Sum_probs=44.1

Q ss_pred             cCcHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHH
Q 022531           57 AKWTEKAEELFERVKQSNLS-FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  135 (295)
                      .|+++.|+.+++++.+..-. |+...+..+..+|.+.|++++|..++++ .+.+. .+......+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~-~~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDP-SNPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHH-CHHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCC-CCHHHHHHHHHHHHHhCCHHHHHH
Confidence            45666677777766655311 1334444566667777777777777666 22111 122333344566667777777776


Q ss_pred             HHHH
Q 022531          136 FLDE  139 (295)
Q Consensus       136 ~~~~  139 (295)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6654

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.08  E-value=8.8e-05  Score=52.02  Aligned_cols=92  Identities=13%  Similarity=0.042  Sum_probs=82.1

Q ss_pred             HHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 022531           16 TRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ   94 (295)
Q Consensus        16 ~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~   94 (295)
                      .+...+...|++++|..+|+.+....| +..-|..|..++-..|++++|+..|......+ +-|+..+-.+..++...|+
T Consensus        40 ~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~-~ddp~~~~~ag~c~L~lG~  118 (157)
T PRK15363         40 RYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIK-IDAPQAPWAAAECYLACDN  118 (157)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHcCC
Confidence            345556789999999999999988877 78889999999999999999999999999887 4678899999999999999


Q ss_pred             HHHHHHHHHHHHhC
Q 022531           95 VEKVALVVEEIKRK  108 (295)
Q Consensus        95 ~~~a~~~~~~m~~~  108 (295)
                      .+.|.+.|+.....
T Consensus       119 ~~~A~~aF~~Ai~~  132 (157)
T PRK15363        119 VCYAIKALKAVVRI  132 (157)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999987664

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.04  E-value=0.00079  Score=49.15  Aligned_cols=87  Identities=14%  Similarity=-0.036  Sum_probs=65.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN--ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  120 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  120 (295)
                      ....+..+...+...|++++|...|++....+..+.  ...+..+...+.+.|++++|...+++..+... -+...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNP-KQPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHH
Confidence            566788888888889999999999998876542221  46788888889999999999999988887532 245556666


Q ss_pred             HHHHHccCCH
Q 022531          121 ISSCAATLNI  130 (295)
Q Consensus       121 i~~~~~~~~~  130 (295)
                      ...+...|+.
T Consensus       113 g~~~~~~g~~  122 (172)
T PRK02603        113 AVIYHKRGEK  122 (172)
T ss_pred             HHHHHHcCCh
Confidence            6677776664

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.02  E-value=0.0017  Score=54.00  Aligned_cols=221  Identities=13%  Similarity=0.005  Sum_probs=116.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHH-------
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL-------  119 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-------  119 (295)
                      ...+..+.-+..++..|++-+.......  -+..-++....+|...|.+.+....-+...+.|-. ...-|+.       
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r  303 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALAR  303 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHH
Confidence            4456666666677777777777766654  34444556666677777776666666655554422 1112222       


Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcc-ccHHHHHHHHHh
Q 022531          120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQW-ITYDFLIILYAG  198 (295)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~  198 (295)
                      +..++.+.++++.++..|.+.... ...|+..         .+....+++.. ..+...  ...|.. .-.-.-...+.+
T Consensus       304 ~g~a~~k~~~~~~ai~~~~kaLte-~Rt~~~l---------s~lk~~Ek~~k-~~e~~a--~~~pe~A~e~r~kGne~Fk  370 (539)
T KOG0548|consen  304 LGNAYTKREDYEGAIKYYQKALTE-HRTPDLL---------SKLKEAEKALK-EAERKA--YINPEKAEEEREKGNEAFK  370 (539)
T ss_pred             hhhhhhhHHhHHHHHHHHHHHhhh-hcCHHHH---------HHHHHHHHHHH-HHHHHH--hhChhHHHHHHHHHHHHHh
Confidence            233455566777777777776554 2232221         12223333333 221111  111111 000111334456


Q ss_pred             cCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHH
Q 022531          199 LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       199 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      .|++..|++.|.++.+.. +-|...|....-+|.+.|.+..|++--+...+..  ++....|..=..++....++++|++
T Consensus       371 ~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~--p~~~kgy~RKg~al~~mk~ydkAle  447 (539)
T KOG0548|consen  371 KGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD--PNFIKAYLRKGAALRAMKEYDKALE  447 (539)
T ss_pred             ccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--chHHHHHHHHHHHHHHHHHHHHHHH
Confidence            666777777776666654 3344556666666666666666666655555532  3344455444555555566666666


Q ss_pred             HHHHHHhc
Q 022531          279 FHMLLLQK  286 (295)
Q Consensus       279 ~~~~m~~~  286 (295)
                      .|.+.++.
T Consensus       448 ay~eale~  455 (539)
T KOG0548|consen  448 AYQEALEL  455 (539)
T ss_pred             HHHHHHhc
Confidence            66666553

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.02  E-value=0.004  Score=49.24  Aligned_cols=225  Identities=12%  Similarity=0.039  Sum_probs=162.0

Q ss_pred             HHHHhccChhHHHHHHhhcccCCCCH----HH------------HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHH
Q 022531           19 DLMTKVFGIHSGERYFEGLPLSAKTS----ET------------YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY   82 (295)
Q Consensus        19 ~~~~~~~~~~~A~~~~~~~~~~~p~~----~~------------~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~   82 (295)
                      ..+.+.|.++.|..=|+......|+.    ..            ....+..+...|+...|+.....+++-. +=|...|
T Consensus       114 ~vllK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~  192 (504)
T KOG0624|consen  114 VVLLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLR  192 (504)
T ss_pred             hhhhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHH
Confidence            46788999999999999998876631    11            2223445566789999999999998864 4478888


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHH----HHHH--
Q 022531           83 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK----YVNL--  156 (295)
Q Consensus        83 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~----~~~l--  156 (295)
                      ..-..+|...|++..|+.=++...+..-. +..++.-+-..+-..|+.+.++...++..+.   .|+...    |..+  
T Consensus       193 ~~Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl---dpdHK~Cf~~YKklkK  268 (504)
T KOG0624|consen  193 QARAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL---DPDHKLCFPFYKKLKK  268 (504)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc---CcchhhHHHHHHHHHH
Confidence            89999999999999999888777665333 5666666777888999999999999888864   355432    2111  


Q ss_pred             -------HHHHHhcCchhhHHHHHHHHHHHhcCCCccccHH---HHHHHHHhcCCHHHHHHHHHHHHhccCCCC-HHhHH
Q 022531          157 -------VNIYITASHLVNAESSTLVEAEKSITQRQWITYD---FLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYI  225 (295)
Q Consensus       157 -------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~  225 (295)
                             +......++|.++.+ ..+...+..+.-..+.++   .+..++...+++.+|++.-.+..+.  .|+ ..++.
T Consensus       269 v~K~les~e~~ie~~~~t~cle-~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~  345 (504)
T KOG0624|consen  269 VVKSLESAEQAIEEKHWTECLE-AGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLC  345 (504)
T ss_pred             HHHHHHHHHHHHhhhhHHHHHH-HHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHH
Confidence                   122345667777777 666666655543334443   4555667789999999999888764  555 67777


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          226 CILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       226 ~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      --..+|.-...+|.|+.-|+...+.+
T Consensus       346 dRAeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  346 DRAEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHHhcC
Confidence            77788888888888888888776643

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.02  E-value=0.006  Score=51.16  Aligned_cols=210  Identities=11%  Similarity=0.118  Sum_probs=132.0

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCC-CCCChHhHHHHHHHHHccCCHHHHHH
Q 022531           60 TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG---QVEKVALVVEEIKRKN-VVPDIFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        60 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~  135 (295)
                      .+++..++++....-..-+..+|..+...--..-   ..+.....++++...- ++|+ .+|...|+.-.+..-++.|..
T Consensus       309 t~e~~~~yEr~I~~l~~~~~~Ly~~~a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~t-Lv~~~~mn~irR~eGlkaaR~  387 (656)
T KOG1914|consen  309 TDEAASIYERAIEGLLKENKLLYFALADYEESRYDDNKEKKVHEIYNKLLKIEDIDLT-LVYCQYMNFIRRAEGLKAARK  387 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHhcccchhhhhHHHHHHHHhhhccCCc-eehhHHHHHHHHhhhHHHHHH
Confidence            3455556655544322223334433333211111   2556666777666532 3443 567778888888888899999


Q ss_pred             HHHHHhhcCCCCC-CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          136 FLDEMSCDSGGSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       136 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      +|.++.+. +..+ .+.++++++..||. ++.+-|.+ +|+.-.+.... +..--...+..+...++-..+..+|++...
T Consensus       388 iF~kaR~~-~r~~hhVfVa~A~mEy~cs-kD~~~Afr-IFeLGLkkf~d-~p~yv~~YldfL~~lNdd~N~R~LFEr~l~  463 (656)
T KOG1914|consen  388 IFKKARED-KRTRHHVFVAAALMEYYCS-KDKETAFR-IFELGLKKFGD-SPEYVLKYLDFLSHLNDDNNARALFERVLT  463 (656)
T ss_pred             HHHHHhhc-cCCcchhhHHHHHHHHHhc-CChhHHHH-HHHHHHHhcCC-ChHHHHHHHHHHHHhCcchhHHHHHHHHHh
Confidence            99999887 4444 67777888887764 56777888 66654443322 333335667777888888999999999888


Q ss_pred             ccCCCCH--HhHHHHHHHHHhcCChHHHHHHHHHHhhhcC--CCCCHHHHHHHHHHHHccCChH
Q 022531          215 TKQKMTS--RNYICILSSYLMLGHLKEVGEIIDQWKQSAT--SDFDISACNRLLGAFSDVGLTE  274 (295)
Q Consensus       215 ~~~~~~~--~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~  274 (295)
                      .++.|+.  ..|..++.-=..-|++..+.++-+++.....  ..+....-..+++-|.-.+.+.
T Consensus       464 s~l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~  527 (656)
T KOG1914|consen  464 SVLSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYP  527 (656)
T ss_pred             ccCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccc
Confidence            8655554  6688889888889999988888877655332  1222223334555565555443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.01  E-value=0.00047  Score=50.14  Aligned_cols=63  Identities=10%  Similarity=-0.057  Sum_probs=32.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--ChHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP--DIFTYNLWISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      ..|..+...+...|++++|+..|++.......|  ...++..+...+...|++++|...+++...
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            344555555555555566555555554432111  123455555555555666666665555554

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.00  E-value=0.0005  Score=56.40  Aligned_cols=91  Identities=11%  Similarity=0.030  Sum_probs=79.5

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  130 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  130 (295)
                      ...+...|++++|+++|++.++.+ +-+...|..+..+|.+.|++++|+..+++..+... .+...|..+..+|...|++
T Consensus         9 a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P-~~~~a~~~lg~~~~~lg~~   86 (356)
T PLN03088          9 AKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDP-SLAKAYLRKGTACMKLEEY   86 (356)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-CCHHHHHHHHHHHHHhCCH
Confidence            455667899999999999999875 45788899999999999999999999999988643 2567788889999999999


Q ss_pred             HHHHHHHHHHhhc
Q 022531          131 DQVKKFLDEMSCD  143 (295)
Q Consensus       131 ~~a~~~~~~~~~~  143 (295)
                      ++|...|++....
T Consensus        87 ~eA~~~~~~al~l   99 (356)
T PLN03088         87 QTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999999875

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.99  E-value=0.0073  Score=51.13  Aligned_cols=96  Identities=15%  Similarity=0.035  Sum_probs=55.9

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHH--------HHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcC-CCCCHH
Q 022531          188 TYDFLIILYAGLGNKDKIDQIWK--------SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT-SDFDIS  258 (295)
Q Consensus       188 ~~~~li~~~~~~g~~~~a~~~~~--------~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~  258 (295)
                      .--.++......|+++.|.+++.        .+.+.+..|.  +...+...+.+.++.+.|.+++++...--. ..+...
T Consensus       378 v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~~~~~P~--~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~  455 (652)
T KOG2376|consen  378 VLLLRAQLKISQGNPEVALEILSLFLESWKSSILEAKHLPG--TVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSI  455 (652)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhhhccChh--HHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccch
Confidence            33345555677899999998888        5555444443  445566667777776666666665543100 011222


Q ss_pred             H----HHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          259 A----CNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       259 ~----~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .    +.-...--.+.|+.++|..+++++.+
T Consensus       456 ~l~~~~~~aa~f~lr~G~~~ea~s~leel~k  486 (652)
T KOG2376|consen  456 ALLSLMREAAEFKLRHGNEEEASSLLEELVK  486 (652)
T ss_pred             HHHhHHHHHhHHHHhcCchHHHHHHHHHHHH
Confidence            2    22223333456888888888888776

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.98  E-value=0.0027  Score=56.88  Aligned_cols=183  Identities=12%  Similarity=-0.038  Sum_probs=115.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHH
Q 022531           94 QVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  172 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (295)
                      +...|+..|-+..+.  .|+ ...|..|...|...-+...|.+.|+..-+-  -..+......+.+.|++..+++.|..+
T Consensus       473 ~~~~al~ali~alrl--d~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeL--Datdaeaaaa~adtyae~~~we~a~~I  548 (1238)
T KOG1127|consen  473 NSALALHALIRALRL--DVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFEL--DATDAEAAAASADTYAEESTWEEAFEI  548 (1238)
T ss_pred             hHHHHHHHHHHHHhc--ccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcC--CchhhhhHHHHHHHhhccccHHHHHHH
Confidence            366666666555553  333 456888888888877888888888887763  244566677888888888888888883


Q ss_pred             HHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcC
Q 022531          173 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  252 (295)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  252 (295)
                      .+..........-...|....-.|...++...++.-|+...... +-|...|..+..+|.+.|++..|.++|.+...-  
T Consensus       549 ~l~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~d-PkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--  625 (1238)
T KOG1127|consen  549 CLRAAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTD-PKDYNLWLGLGEAYPESGRYSHALKVFTKASLL--  625 (1238)
T ss_pred             HHHHhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCC-chhHHHHHHHHHHHHhcCceehHHHhhhhhHhc--
Confidence            22222111111111223334445667788888888887665442 224455777888888888888888888876652  


Q ss_pred             CCCCHHHHHHHH--HHHHccCChHHHHHHHHHHHh
Q 022531          253 SDFDISACNRLL--GAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       253 ~~~~~~~~~~l~--~~~~~~g~~~~a~~~~~~m~~  285 (295)
                       +|+. .|...-  -.-+..|++++|...+..+..
T Consensus       626 -rP~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  626 -RPLS-KYGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -CcHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             3432 232222  234567888888877776643

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.97  E-value=0.00052  Score=50.10  Aligned_cols=92  Identities=14%  Similarity=0.022  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAKT----SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      ...+..+...+...|++++|...|++.....|+    ...+..+...+.+.|++++|...+++..+.. +-+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            345677888888999999999999988765432    4688999999999999999999999998864 33566777888


Q ss_pred             HHHHhcCCHHHHHHHHH
Q 022531           87 TLYMSVGQVEKVALVVE  103 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~  103 (295)
                      ..+...|+...+..-++
T Consensus       114 ~~~~~~g~~~~a~~~~~  130 (172)
T PRK02603        114 VIYHKRGEKAEEAGDQD  130 (172)
T ss_pred             HHHHHcCChHhHhhCHH
Confidence            88888887655544333

>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=97.97  E-value=1.8e-05  Score=47.84  Aligned_cols=50  Identities=22%  Similarity=0.232  Sum_probs=23.0

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531           57 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR  107 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  107 (295)
                      .|++++|+++|+++.... +-+..++..+..+|.+.|++++|.++++++..
T Consensus         4 ~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            444455555555444432 22444444455555555555555555544444

...

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.95  E-value=0.00032  Score=50.99  Aligned_cols=112  Identities=9%  Similarity=-0.037  Sum_probs=77.8

Q ss_pred             hhHHHHHHhhcc-cCCC--CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhcCCHHHHHHH
Q 022531           27 IHSGERYFEGLP-LSAK--TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF--NALMYNEMMTLYMSVGQVEKVALV  101 (295)
Q Consensus        27 ~~~A~~~~~~~~-~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~~~a~~~  101 (295)
                      +..+...+..+. ....  ....|..++..+...|++++|+..|++.......|  ...+|..+...+...|++++|+..
T Consensus        15 ~~~~~~~l~~~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~   94 (168)
T CHL00033         15 FTIVADILLRILPTTSGEKEAFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEY   94 (168)
T ss_pred             cccchhhhhHhccCCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444445555553 2222  46677888888888999999999999987653222  235888999999999999999999


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHH-------ccCCHHHHHHHHHH
Q 022531          102 VEEIKRKNVVPDIFTYNLWISSCA-------ATLNIDQVKKFLDE  139 (295)
Q Consensus       102 ~~~m~~~~~~p~~~~~~~li~~~~-------~~~~~~~a~~~~~~  139 (295)
                      +++..... +....++..+...+.       ..|+++.|...+++
T Consensus        95 ~~~Al~~~-~~~~~~~~~la~i~~~~~~~~~~~g~~~~A~~~~~~  138 (168)
T CHL00033         95 YFQALERN-PFLPQALNNMAVICHYRGEQAIEQGDSEIAEAWFDQ  138 (168)
T ss_pred             HHHHHHhC-cCcHHHHHHHHHHHHHhhHHHHHcccHHHHHHHHHH
Confidence            99988752 223455666666666       77887755555543

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=97.93  E-value=0.0069  Score=50.59  Aligned_cols=197  Identities=11%  Similarity=-0.009  Sum_probs=119.4

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH-------
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM-------   86 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li-------   86 (295)
                      ...+.+..-+..++..|++-+....+...++.-++....++...|.+.++...-++..+.|-. ...-|+.+-       
T Consensus       227 ek~lgnaaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g  305 (539)
T KOG0548|consen  227 EKELGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLG  305 (539)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhh
Confidence            455777777888889999888887776645556666777899999998888888877776621 222333333       


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhH-------------------------HHHHHHHHccCCHHHHHHHHHHHh
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTY-------------------------NLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~-------------------------~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      .+|.+.++++.++..|++....-..|+...=                         ..-...+.+.|++..|...|.+++
T Consensus       306 ~a~~k~~~~~~ai~~~~kaLte~Rt~~~ls~lk~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAI  385 (539)
T KOG0548|consen  306 NAYTKREDYEGAIKYYQKALTEHRTPDLLSKLKEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAI  385 (539)
T ss_pred             hhhhhHHhHHHHHHHHHHHhhhhcCHHHHHHHHHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            3555667888899888886655444433211                         111334555667777777777766


Q ss_pred             hcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          142 CDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       142 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      ..  .|.|...|..-.-+|.+.|.+..|.. -.+...+.. ++....|.-=..++....++++|.+.|.+-.+.
T Consensus       386 kr--~P~Da~lYsNRAac~~kL~~~~~aL~-Da~~~ieL~-p~~~kgy~RKg~al~~mk~ydkAleay~eale~  455 (539)
T KOG0548|consen  386 KR--DPEDARLYSNRAACYLKLGEYPEALK-DAKKCIELD-PNFIKAYLRKGAALRAMKEYDKALEAYQEALEL  455 (539)
T ss_pred             hc--CCchhHHHHHHHHHHHHHhhHHHHHH-HHHHHHhcC-chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            64  25566667777777777777766666 333332221 112222322233333445666666666665554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.92  E-value=0.0037  Score=49.68  Aligned_cols=188  Identities=12%  Similarity=0.085  Sum_probs=98.0

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC--hHh
Q 022531           48 TALLHLYAGAKWTEKAEELFERVKQ----SNLSF-NALMYNEMMTLYMSVGQVEKVALVVEEIKR----KNVVPD--IFT  116 (295)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p~--~~~  116 (295)
                      ......|-..+++++|.+.|.+...    .+-+. -...|.....+|.+. ++++|+..+++..+    .| .|+  ..+
T Consensus        39 ~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G-~~~~aA~~  116 (282)
T PF14938_consen   39 EKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAG-RFSQAAKC  116 (282)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT--HHHHHHH
T ss_pred             HHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcC-cHHHHHHH
Confidence            3344455555666666666654421    11100 112334444444333 66666666665543    22 122  234


Q ss_pred             HHHHHHHHHcc-CCHHHHHHHHHHHhhc---CCC-CCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccc----
Q 022531          117 YNLWISSCAAT-LNIDQVKKFLDEMSCD---SGG-SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI----  187 (295)
Q Consensus       117 ~~~li~~~~~~-~~~~~a~~~~~~~~~~---~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----  187 (295)
                      +..+...|... |++++|.+.|++....   .+. ..-..++..+...+.+.|++++|.+ .+++........+..    
T Consensus       117 ~~~lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~-~~e~~~~~~l~~~l~~~~~  195 (282)
T PF14938_consen  117 LKELAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIE-IYEEVAKKCLENNLLKYSA  195 (282)
T ss_dssp             HHHHHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHH-HHHHHHHTCCCHCTTGHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHHHhhcccccchhH
Confidence            55666677777 8889998888876542   121 1113456677888889999999999 888776644332221    


Q ss_pred             --cHHHHHHHHHhcCCHHHHHHHHHHHHhcc--CCCCH--HhHHHHHHHHHhcCChHH
Q 022531          188 --TYDFLIILYAGLGNKDKIDQIWKSLRMTK--QKMTS--RNYICILSSYLMLGHLKE  239 (295)
Q Consensus       188 --~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~--~~~~~li~~~~~~~~~~~  239 (295)
                        .|-..+-++...|+...|.+.+++.....  +..+.  .....|+.+|- .||.+.
T Consensus       196 ~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~-~~D~e~  252 (282)
T PF14938_consen  196 KEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYE-EGDVEA  252 (282)
T ss_dssp             HHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHH-TT-CCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHH-hCCHHH
Confidence              12223335566788888888888876542  22221  22344566654 344433

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=97.92  E-value=0.0028  Score=56.81  Aligned_cols=219  Identities=11%  Similarity=0.017  Sum_probs=137.7

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHH
Q 022531           59 WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLD  138 (295)
Q Consensus        59 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  138 (295)
                      +...|+..|-+..+.+. -=...|..|...|....+...|.+.|++..+..- -+......+.+.|++..+++.|..+.-
T Consensus       473 ~~~~al~ali~alrld~-~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDa-tdaeaaaa~adtyae~~~we~a~~I~l  550 (1238)
T KOG1127|consen  473 NSALALHALIRALRLDV-SLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDA-TDAEAAAASADTYAEESTWEEAFEICL  550 (1238)
T ss_pred             hHHHHHHHHHHHHhccc-chhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCc-hhhhhHHHHHHHhhccccHHHHHHHHH
Confidence            35666666666665542 2255788888888888888889999988887532 256678888888999999999888733


Q ss_pred             HHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCC
Q 022531          139 EMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK  218 (295)
Q Consensus       139 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~  218 (295)
                      ..-+......-...|....-.|.+.++..+|.. .++......++ |...|..+..+|.+.|++..|.++|.+....  +
T Consensus       551 ~~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~-~fQsALR~dPk-D~n~W~gLGeAY~~sGry~~AlKvF~kAs~L--r  626 (1238)
T KOG1127|consen  551 RAAQKAPAFACKENWVQRGPYYLEAHNLHGAVC-EFQSALRTDPK-DYNLWLGLGEAYPESGRYSHALKVFTKASLL--R  626 (1238)
T ss_pred             HHhhhchHHHHHhhhhhccccccCccchhhHHH-HHHHHhcCCch-hHHHHHHHHHHHHhcCceehHHHhhhhhHhc--C
Confidence            322211100111112223345667778888877 66666555443 7888889999999999999999999876553  5


Q ss_pred             CCHHhHHH--HHHHHHhcCChHHHHHHHHHHhhhcC-----CCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          219 MTSRNYIC--ILSSYLMLGHLKEVGEIIDQWKQSAT-----SDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       219 ~~~~~~~~--li~~~~~~~~~~~A~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      |+. +|..  ....-+..|.+.+|...+........     ..--..++-.+...+...|-..+|.++++.-+
T Consensus       627 P~s-~y~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksi  698 (1238)
T KOG1127|consen  627 PLS-KYGRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSI  698 (1238)
T ss_pred             cHh-HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHH
Confidence            554 3332  23344567888888888877654321     01122334444444445555555555555543

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.89  E-value=4.8e-05  Score=45.51  Aligned_cols=56  Identities=11%  Similarity=0.048  Sum_probs=33.5

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR  107 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  107 (295)
                      ...+.+.|++++|.+.|+++.+.. +-+...+..+..++.+.|++++|...|++..+
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD-PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS-TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445556666666666666666654 33455666666666666666666666666654

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.88  E-value=0.0026  Score=54.69  Aligned_cols=139  Identities=12%  Similarity=0.036  Sum_probs=92.0

Q ss_pred             CCCCChHhHHHHHHHHHccC-----CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc--------hhhHHHHHHH
Q 022531          109 NVVPDIFTYNLWISSCAATL-----NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH--------LVNAESSTLV  175 (295)
Q Consensus       109 ~~~p~~~~~~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--------~~~a~~~~~~  175 (295)
                      +.+.+...|...+++.....     +.+.|..+|++..+..  |.....+..+..++.....        +..+.+ ...
T Consensus       332 ~~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~ld--P~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~-~~~  408 (517)
T PRK10153        332 GLPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKSE--PDFTYAQAEKALADIVRHSQQPLDEKQLAALST-ELD  408 (517)
T ss_pred             cCCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHH-HHH
Confidence            34567788888888854332     3678999999988752  3444555555444433221        222233 222


Q ss_pred             HHHHh-cCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcC
Q 022531          176 EAEKS-ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  252 (295)
Q Consensus       176 ~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~  252 (295)
                      ..... ....+...|..+.......|++++|...+++....  .|+...|..+...+...|+.++|.+.+++...-..
T Consensus       409 ~a~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P  484 (517)
T PRK10153        409 NIVALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRP  484 (517)
T ss_pred             HhhhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            22121 12234456777766666789999999999998876  46778888899999999999999999998877543

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.86  E-value=0.0025  Score=50.60  Aligned_cols=199  Identities=13%  Similarity=0.072  Sum_probs=113.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhh---cCCCC-CCHHHH
Q 022531           83 NEMMTLYMSVGQVEKVALVVEEIKRK----NVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSC---DSGGS-DDWVKY  153 (295)
Q Consensus        83 ~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~-~~~~~~  153 (295)
                      ......|-..|++++|...|.+..+.    +-..+ ...|.....+|.+. ++++|...+++...   ..|.+ .-..++
T Consensus        39 ~~Aa~~fk~~~~~~~A~~ay~kAa~~~~~~~~~~~Aa~~~~~Aa~~~k~~-~~~~Ai~~~~~A~~~y~~~G~~~~aA~~~  117 (282)
T PF14938_consen   39 EKAANCFKLAKDWEKAAEAYEKAADCYEKLGDKFEAAKAYEEAANCYKKG-DPDEAIECYEKAIEIYREAGRFSQAAKCL  117 (282)
T ss_dssp             HHHHHHHHHTT-CHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHT-THHHHHHHHHHHHHHHHHCT-HHHHHHHH
T ss_pred             HHHHHHHHHHhccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhh-CHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            33445566667777777777655321    11111 22344444444443 77788777776544   11211 123356


Q ss_pred             HHHHHHHHhc-CchhhHHHHHHHHHHHhcCCCc-----cccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-----CHH
Q 022531          154 VNLVNIYITA-SHLVNAESSTLVEAEKSITQRQ-----WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-----TSR  222 (295)
Q Consensus       154 ~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-----~~~  222 (295)
                      ..+...|... |+++.|.+ .+.+..+.....+     ...+..+...+.+.|++++|.++|++........     +..
T Consensus       118 ~~lA~~ye~~~~d~e~Ai~-~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~  196 (282)
T PF14938_consen  118 KELAEIYEEQLGDYEKAIE-YYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAK  196 (282)
T ss_dssp             HHHHHHHCCTT--HHHHHH-HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHH-HHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHH
Confidence            6777888888 89999999 8877765322211     2345567778899999999999999987653322     121


Q ss_pred             -hHHHHHHHHHhcCChHHHHHHHHHHhhhc-CCC--CCHHHHHHHHHHHHcc--CChHHHHHHHHHH
Q 022531          223 -NYICILSSYLMLGHLKEVGEIIDQWKQSA-TSD--FDISACNRLLGAFSDV--GLTEKANEFHMLL  283 (295)
Q Consensus       223 -~~~~li~~~~~~~~~~~A~~~~~~~~~~~-~~~--~~~~~~~~l~~~~~~~--g~~~~a~~~~~~m  283 (295)
                       .|...+-++...||...|.+.|++..... .+.  ........|+.+|-..  ..+..+..-|+.+
T Consensus       197 ~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d~~  263 (282)
T PF14938_consen  197 EYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYDSI  263 (282)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHTTS
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHccc
Confidence             23344557777899999999999987643 121  1234556667666542  3444555444443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.82  E-value=0.011  Score=47.61  Aligned_cols=107  Identities=18%  Similarity=0.145  Sum_probs=77.5

Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHH
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  231 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  231 (295)
                      +.+..+.-+...|+...|.+     +.+....|+..-|...+.+++..++|++..++...      +-++.-|...+.+|
T Consensus       179 Sl~~Ti~~li~~~~~k~A~k-----l~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~  247 (319)
T PF04840_consen  179 SLNDTIRKLIEMGQEKQAEK-----LKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEAC  247 (319)
T ss_pred             CHHHHHHHHHHCCCHHHHHH-----HHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHH
Confidence            34455666777888877777     44555667888899999999999999988876542      12345688899999


Q ss_pred             HhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHH
Q 022531          232 LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFH  280 (295)
Q Consensus       232 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~  280 (295)
                      .+.|...+|..++..+       ++    ..-+..|.+.|++.+|.+.-
T Consensus       248 ~~~~~~~eA~~yI~k~-------~~----~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  248 LKYGNKKEASKYIPKI-------PD----EERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HHCCCHHHHHHHHHhC-------Ch----HHHHHHHHHCCCHHHHHHHH
Confidence            9999999998888761       12    23466677788887776553

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=97.82  E-value=0.00012  Score=43.72  Aligned_cols=56  Identities=14%  Similarity=0.025  Sum_probs=34.1

Q ss_pred             HHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          228 LSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       228 i~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ...+.+.|++++|.+.|+++.+..  +-+...+..+..++...|++++|..+|+++++
T Consensus         4 a~~~~~~g~~~~A~~~~~~~l~~~--P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~   59 (65)
T PF13432_consen    4 ARALYQQGDYDEAIAAFEQALKQD--PDNPEAWYLLGRILYQQGRYDEALAYYERALE   59 (65)
T ss_dssp             HHHHHHCTHHHHHHHHHHHHHCCS--TTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            445566666666666666666643  23555666666666666666666666666654

>PF06239 ECSIT: Evolutionarily conserved signalling intermediate in Toll pathway; InterPro: IPR010418 Activation of NF-kappaB as a consequence of signalling through the Toll and IL-1 receptors is a major element of innate immune responses

Probab=97.82  E-value=0.00042  Score=51.10  Aligned_cols=89  Identities=18%  Similarity=0.226  Sum_probs=66.7

Q ss_pred             CCHHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHcc----------------CCHHHHHH
Q 022531           77 FNALMYNEMMTLYMS-----VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT----------------LNIDQVKK  135 (295)
Q Consensus        77 p~~~~~~~li~~~~~-----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~----------------~~~~~a~~  135 (295)
                      .|-.+|..++..|.+     .|..+=....+..|.+-|+.-|..+|+.|++.+=+.                .+-+-|++
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            467788888887764     467777888899999999999999999999987652                12355677


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531          136 FLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      ++++|... |+.||..++..+++.+++.+..
T Consensus       125 lL~qME~~-gV~Pd~Et~~~ll~iFG~~s~p  154 (228)
T PF06239_consen  125 LLEQMENN-GVMPDKETEQMLLNIFGRKSHP  154 (228)
T ss_pred             HHHHHHHc-CCCCcHHHHHHHHHHhccccHH
Confidence            77777776 7777777777777777666553

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.81  E-value=0.00029  Score=56.73  Aligned_cols=266  Identities=15%  Similarity=0.037  Sum_probs=164.2

Q ss_pred             HHHHHhccChhHHHHHHhhcccCCC-C----HHHHHHHHHHHHccCcHHHHHHHHHH------HH--hCCCCCCHHHHHH
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLSAK-T----SETYTALLHLYAGAKWTEKAEELFER------VK--QSNLSFNALMYNE   84 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~~p-~----~~~~~~li~~~~~~~~~~~a~~~~~~------m~--~~~~~p~~~~~~~   84 (295)
                      -+-+|+.|+......+|+...+.+. |    ..+|+.|..+|.-.+++++|++....      ..  +.|   ...+-..
T Consensus        24 GERLck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklG---EAKssgN  100 (639)
T KOG1130|consen   24 GERLCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLG---EAKSSGN  100 (639)
T ss_pred             HHHHHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhc---ccccccc
Confidence            3567999999999999999887653 3    45688888899999999999887532      11  111   1223334


Q ss_pred             HHHHHHhcCCHHHHHHHHHHH----HhCCCC-CChHhHHHHHHHHHccCC--------------------HHHHHHHHHH
Q 022531           85 MMTLYMSVGQVEKVALVVEEI----KRKNVV-PDIFTYNLWISSCAATLN--------------------IDQVKKFLDE  139 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m----~~~~~~-p~~~~~~~li~~~~~~~~--------------------~~~a~~~~~~  139 (295)
                      |.+.+-..|.+++|+-.-.+-    .+.|-. .....+..+...|...|+                    ++.|.++|.+
T Consensus       101 LGNtlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~e  180 (639)
T KOG1130|consen  101 LGNTLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYME  180 (639)
T ss_pred             ccchhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHH
Confidence            555556667777765443321    222211 123444456666654433                    3445555543


Q ss_pred             Hh----hcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHH----HhcCCC-ccccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          140 MS----CDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAE----KSITQR-QWITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       140 ~~----~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      -.    +.+.--.-...|..+.+.|--.|+++.|.. .-+.-.    +-|... ....+..+..++.-.|+++.|.+.|+
T Consensus       181 NL~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~-~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK  259 (639)
T KOG1130|consen  181 NLELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIH-FHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYK  259 (639)
T ss_pred             HHHHHHHhhhHHhhcchhcccCceeeeeccHHHHHH-HHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHH
Confidence            21    111111122356666666777889999887 333221    122211 23567778888899999999999998


Q ss_pred             HHHhccCC-----CCHHhHHHHHHHHHhcCChHHHHHHHHHHhh----hcCCCCCHHHHHHHHHHHHccCChHHHHHHHH
Q 022531          211 SLRMTKQK-----MTSRNYICILSSYLMLGHLKEVGEIIDQWKQ----SATSDFDISACNRLLGAFSDVGLTEKANEFHM  281 (295)
Q Consensus       211 ~m~~~~~~-----~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  281 (295)
                      .....-++     ......-+|...|.-..+++.|+.++.+-..    -+-..-....|.+|..+|...|..++|+.+..
T Consensus       260 ~tl~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae  339 (639)
T KOG1130|consen  260 LTLNLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAE  339 (639)
T ss_pred             HHHHHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            75432221     2223344678888888889999988875432    11112356789999999999999999998887


Q ss_pred             HHHhcC
Q 022531          282 LLLQKN  287 (295)
Q Consensus       282 ~m~~~g  287 (295)
                      .-++..
T Consensus       340 ~hl~~s  345 (639)
T KOG1130|consen  340 LHLRSS  345 (639)
T ss_pred             HHHHHH
Confidence            765543

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.80  E-value=0.0036  Score=42.33  Aligned_cols=89  Identities=15%  Similarity=0.069  Sum_probs=43.9

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---h-HhHHHHHHHH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFN--ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD---I-FTYNLWISSC  124 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~-~~~~~li~~~  124 (295)
                      ..++-..|+.++|+.+|++....|+...  ...+-.+.+.+...|++++|+.+|++.....  |+   . .....+.-++
T Consensus         8 A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    8 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHHHHH
Confidence            3444455666666666666666554332  2234445555556666666666666555431  22   1 1111122234


Q ss_pred             HccCCHHHHHHHHHHHh
Q 022531          125 AATLNIDQVKKFLDEMS  141 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~  141 (295)
                      ...|+.++|+..+-...
T Consensus        86 ~~~gr~~eAl~~~l~~l  102 (120)
T PF12688_consen   86 YNLGRPKEALEWLLEAL  102 (120)
T ss_pred             HHCCCHHHHHHHHHHHH
Confidence            45566666665554433

>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=97.79  E-value=0.00012  Score=44.21  Aligned_cols=51  Identities=22%  Similarity=0.166  Sum_probs=28.2

Q ss_pred             hccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 022531           23 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS   73 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   73 (295)
                      +.|++++|.++|+.+....| +...+..+..+|.+.|++++|..+++++...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRNPDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            44555555555555555544 4555555555555555555555555555554

...

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.78  E-value=0.00039  Score=53.65  Aligned_cols=104  Identities=14%  Similarity=0.057  Sum_probs=75.8

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCC
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLN  129 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~  129 (295)
                      ..-..+.+++.+|+..|.+.++.. +-|.+-|..-..+|++.|.++.|++=.+..+..  .|+ ..+|..|..+|...|+
T Consensus        88 GN~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk  164 (304)
T KOG0553|consen   88 GNKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGK  164 (304)
T ss_pred             HHHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCc
Confidence            444566788888888888888775 456667777788888888888888877777663  343 5678888888888888


Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531          130 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      +++|.+.|++..+   +.|+..+|-.=+...
T Consensus       165 ~~~A~~aykKaLe---ldP~Ne~~K~nL~~A  192 (304)
T KOG0553|consen  165 YEEAIEAYKKALE---LDPDNESYKSNLKIA  192 (304)
T ss_pred             HHHHHHHHHhhhc---cCCCcHHHHHHHHHH
Confidence            8888888888775   346666665555444

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.77  E-value=0.00024  Score=54.78  Aligned_cols=95  Identities=19%  Similarity=0.115  Sum_probs=63.8

Q ss_pred             HHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-HHhHHHHHHHHHhcCCh
Q 022531          159 IYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHL  237 (295)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~  237 (295)
                      -..+.+++++|+. .|.+...-.+. |.+-|..-..+|.+.|.++.|++=.+.....  .|. ..+|..|..+|...|++
T Consensus        90 ~~m~~~~Y~eAv~-kY~~AI~l~P~-nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   90 KLMKNKDYQEAVD-KYTEAIELDPT-NAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHhhhHHHHHH-HHHHHHhcCCC-cchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcH
Confidence            3556777777777 77776665543 6667777777788888877777766655543  332 35677777778888888


Q ss_pred             HHHHHHHHHHhhhcCCCCCHHHH
Q 022531          238 KEVGEIIDQWKQSATSDFDISAC  260 (295)
Q Consensus       238 ~~A~~~~~~~~~~~~~~~~~~~~  260 (295)
                      ++|.+.|+...+  + .|+-.+|
T Consensus       166 ~~A~~aykKaLe--l-dP~Ne~~  185 (304)
T KOG0553|consen  166 EEAIEAYKKALE--L-DPDNESY  185 (304)
T ss_pred             HHHHHHHHhhhc--c-CCCcHHH
Confidence            888877777766  2 3544444

>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=97.76  E-value=0.00021  Score=43.21  Aligned_cols=63  Identities=25%  Similarity=0.296  Sum_probs=33.0

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHh
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKR  107 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~  107 (295)
                      ..+|..+...+...|++++|+..|++..+.+ +-+...|..+..+|...| ++++|++.+++..+
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~-p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELD-PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS-TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            3445555555555555555555555555543 234445555555555555 45555555555443

...

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.75  E-value=0.0031  Score=42.62  Aligned_cols=87  Identities=11%  Similarity=-0.065  Sum_probs=55.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCC--hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCC-CCCHHHHHHHHHHHH
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPD--IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGG-SDDWVKYVNLVNIYI  161 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~  161 (295)
                      +..++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|..+|++......- +.+......+..++.
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            44556677888888888888877776544  234555666777788888888888877664110 012223333445666


Q ss_pred             hcCchhhHHH
Q 022531          162 TASHLVNAES  171 (295)
Q Consensus       162 ~~~~~~~a~~  171 (295)
                      ..|+.++|.+
T Consensus        87 ~~gr~~eAl~   96 (120)
T PF12688_consen   87 NLGRPKEALE   96 (120)
T ss_pred             HCCCHHHHHH
Confidence            7788888777

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.72  E-value=0.012  Score=45.43  Aligned_cols=185  Identities=10%  Similarity=0.056  Sum_probs=113.9

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHh---HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHH
Q 022531           78 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT---YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYV  154 (295)
Q Consensus        78 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  154 (295)
                      +...+-.....+.+.|++++|.+.|+++...-..+ ..+   .-.+..++.+.+++++|...+++..+.....|+. -|.
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s-~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~-~~a  108 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFG-PYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNI-DYV  108 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCC-hHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCch-HHH
Confidence            44445456666778899999999999998853322 222   2345677889999999999999988763333333 233


Q ss_pred             HHHHHHHh--cC---------------c---hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          155 NLVNIYIT--AS---------------H---LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       155 ~l~~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      ..+.+.+.  .+               +   ...|.. .               +..++.-|-...-..+|...+..+.+
T Consensus       109 ~Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~-~---------------~~~li~~yP~S~ya~~A~~rl~~l~~  172 (243)
T PRK10866        109 LYMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFR-D---------------FSKLVRGYPNSQYTTDATKRLVFLKD  172 (243)
T ss_pred             HHHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHH-H---------------HHHHHHHCcCChhHHHHHHHHHHHHH
Confidence            33333321  11               0   112222 2               33344434334444555554444432


Q ss_pred             ccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC-CCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          215 TKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD-FDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       215 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      .   .-...+ .+.+-|.+.|.+..|..-++.+.++.... ........++.+|...|..++|..+...+.
T Consensus       173 ~---la~~e~-~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        173 R---LAKYEL-SVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             H---HHHHHH-HHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            1   111112 47777999999999999999998865322 233456678899999999999998877654

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.70  E-value=0.00098  Score=51.95  Aligned_cols=96  Identities=9%  Similarity=-0.001  Sum_probs=54.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCChHhHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV--VPDIFTYNL  119 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~  119 (295)
                      .|...+....+.|++++|...|+.+.+.-  |+    ..++-.+...|...|++++|...|+.+.+.-.  ......+..
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHH
Confidence            34444444445566666766666666542  22    23555666666667777777777766664311  011233444


Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhc
Q 022531          120 WISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      +...+...|+.++|..+|+.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            455556667777777777766654

>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=97.69  E-value=0.00035  Score=42.26  Aligned_cols=64  Identities=19%  Similarity=0.121  Sum_probs=48.7

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccC-ChHHHHHHHHHHHh
Q 022531          220 TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG-LTEKANEFHMLLLQ  285 (295)
Q Consensus       220 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~a~~~~~~m~~  285 (295)
                      +...|..+...+...|++++|+..|++..+..  +.+...|..+..+|...| ++++|.+.+++.++
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~--p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~   66 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELD--PNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALK   66 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHS--TTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHH
Confidence            34567777778888888888888888887754  346777888888888888 68888888887765

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.67  E-value=0.015  Score=44.97  Aligned_cols=184  Identities=9%  Similarity=0.025  Sum_probs=113.9

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHH---HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY---NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL  119 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~---~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  119 (295)
                      +...+-.....+...|++++|.+.|+++.... +-+....   -.+..+|.+.+++++|...+++..+....-...-+..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~y-P~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRY-PFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchHHHH
Confidence            44445556666678999999999999998864 2233333   4567788999999999999999988643222233444


Q ss_pred             HHHHHHc--cC---------------C---HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Q 022531          120 WISSCAA--TL---------------N---IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       120 li~~~~~--~~---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                      .+.+.+.  .+               +   ..+|+..|+++.+.  . |+..             -..+|.. .+..+..
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~~~~~li~~--y-P~S~-------------ya~~A~~-rl~~l~~  172 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFRDFSKLVRG--Y-PNSQ-------------YTTDATK-RLVFLKD  172 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHHHHHHHHHH--C-cCCh-------------hHHHHHH-HHHHHHH
Confidence            4444321  11               1   23455666666654  2 3321             2333333 2222222


Q ss_pred             hcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc--CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          180 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK--QKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       180 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      ..-.    ---.+...|.+.|.+..|..-++.+.+.-  -+........++.+|...|..++|.++...+.
T Consensus       173 ~la~----~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        173 RLAK----YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             HHHH----HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence            1111    01134566888999999999999887752  12223445678899999999999988877654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.67  E-value=0.0042  Score=53.22  Aligned_cols=261  Identities=10%  Similarity=0.042  Sum_probs=145.6

Q ss_pred             CCCCHHHHHHHHHHHHhccChhHHHHHH---------hhcccCCCCHHHHHHHHHHHHccCcH--HHHHHHHHHHHhCCC
Q 022531            7 FVLSDSDYATRIDLMTKVFGIHSGERYF---------EGLPLSAKTSETYTALLHLYAGAKWT--EKAEELFERVKQSNL   75 (295)
Q Consensus         7 ~~~~~~~~~~li~~~~~~~~~~~A~~~~---------~~~~~~~p~~~~~~~li~~~~~~~~~--~~a~~~~~~m~~~~~   75 (295)
                      +.+.+..+.+-+..|...|.+++|.++-         +.+.....+.--++..=.+|.+..+.  -+...-+++++++|-
T Consensus       552 i~~~evp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge  631 (1081)
T KOG1538|consen  552 ISAVEVPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERKKRGE  631 (1081)
T ss_pred             eecccccccccchhhhhccchhhhhcccccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCC
Confidence            4555666777777888888888887642         11111112333445555566666553  344445667888887


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC----CCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc--CCCCCC
Q 022531           76 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV----VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD--SGGSDD  149 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~----~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~  149 (295)
                      .|+...   +...++-.|.+.+|.++|.+--..+-    -.|...|. ...-+...|..++-..+.++--..  .-..| 
T Consensus       632 ~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD-~aQE~~~~g~~~eKKmL~RKRA~WAr~~keP-  706 (1081)
T KOG1538|consen  632 TPNDLL---LADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFD-YAQEFLGSGDPKEKKMLIRKRADWARNIKEP-  706 (1081)
T ss_pred             CchHHH---HHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHH-HHHHHhhcCChHHHHHHHHHHHHHhhhcCCc-
Confidence            777643   34456667888888888765322110    00111111 233344455544444433322111  01122 


Q ss_pred             HHHHHHHHHHHHhcCchhhHHHHH-----HHHHHHhc---CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH
Q 022531          150 WVKYVNLVNIYITASHLVNAESST-----LVEAEKSI---TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS  221 (295)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~-----~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  221 (295)
                          .+..+++...|+.++|..++     .+.+.+-+   ...+..+...+..-+-+...+.-|-++|..|-+.      
T Consensus       707 ----kaAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k~gD~------  776 (1081)
T KOG1538|consen  707 ----KAAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLKMGDL------  776 (1081)
T ss_pred             ----HHHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHHhccH------
Confidence                23456677788888887731     22222222   2223334444444445566677788888776432      


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHH-----------HHHHHHHHHccCChHHHHHHHHHHHhcCC
Q 022531          222 RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA-----------CNRLLGAFSDVGLTEKANEFHMLLLQKNC  288 (295)
Q Consensus       222 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~-----------~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  288 (295)
                         ..+++.....+++++|..+-+...+   ..||+..           |..--.+|.++|+-.+|.++++++....+
T Consensus       777 ---ksiVqlHve~~~W~eAFalAe~hPe---~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnnav  848 (1081)
T KOG1538|consen  777 ---KSLVQLHVETQRWDEAFALAEKHPE---FKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNNAV  848 (1081)
T ss_pred             ---HHHhhheeecccchHhHhhhhhCcc---ccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhhhh
Confidence               2477778888999999888776544   1244431           33344678889999999999988765433

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.63  E-value=0.004  Score=48.40  Aligned_cols=102  Identities=9%  Similarity=-0.027  Sum_probs=50.5

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHcc---CCHHHHHHHHHHHhhcCCCCCCHHHH
Q 022531           77 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT---LNIDQVKKFLDEMSCDSGGSDDWVKY  153 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~---~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (295)
                      -|...|-.|...|.+.|+.+.|..-|.+..+.. .++...+..+..++...   .+-.++..+|+++...  -+.++.+.
T Consensus       154 ~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~--D~~~iral  230 (287)
T COG4235         154 GDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL--DPANIRAL  230 (287)
T ss_pred             CCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc--CCccHHHH
Confidence            355555556666666666666655555555431 12333333333332211   1234555555555553  23444444


Q ss_pred             HHHHHHHHhcCchhhHHHHHHHHHHHhcC
Q 022531          154 VNLVNIYITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                      .-+...+...|++.+|.. .++.|.+..+
T Consensus       231 ~lLA~~afe~g~~~~A~~-~Wq~lL~~lp  258 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAA-AWQMLLDLLP  258 (287)
T ss_pred             HHHHHHHHHcccHHHHHH-HHHHHHhcCC
Confidence            555555555566666655 5555555443

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.61  E-value=0.013  Score=42.38  Aligned_cols=130  Identities=9%  Similarity=-0.037  Sum_probs=79.1

Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHH
Q 022531           76 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN  155 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  155 (295)
                      .|++..--.|..+..+.|+..+|...|++...--..-|....-.+.++....+++..|...++.+.+...-.-++.+...
T Consensus        86 ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          86 APTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             chhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            46666666777777777777777777777665444455666666777777777777777777776553211112233345


Q ss_pred             HHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHH
Q 022531          156 LVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  208 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  208 (295)
                      +...+...|+..+|+. .|+.....-+.|-...|..  ..+.+.|+.+++..-
T Consensus       166 ~aR~laa~g~~a~Aes-afe~a~~~ypg~~ar~~Y~--e~La~qgr~~ea~aq  215 (251)
T COG4700         166 FARTLAAQGKYADAES-AFEVAISYYPGPQARIYYA--EMLAKQGRLREANAQ  215 (251)
T ss_pred             HHHHHHhcCCchhHHH-HHHHHHHhCCCHHHHHHHH--HHHHHhcchhHHHHH
Confidence            6677777777777777 6776666555544433322  223555655554443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.58  E-value=0.019  Score=43.83  Aligned_cols=132  Identities=8%  Similarity=-0.015  Sum_probs=79.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHH-----H
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYV-----N  155 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-----~  155 (295)
                      +.+.++..+.-.|++.-...++.+..+...+-++.....|++.-.+.||.+.|..+|++..+. .-..+..+.+     .
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~-~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKV-TQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHH-HhhhhccchhHHHHhh
Confidence            445666666667777777777777777655556677777777777778888888887766654 2223333332     2


Q ss_pred             HHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          156 LVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      ....|.-.+++..|.. .+.+.....+ .+...-|.-.-+..-.|+..+|++.++.|...
T Consensus       258 ~a~i~lg~nn~a~a~r-~~~~i~~~D~-~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHR-FFTEILRMDP-RNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhheecccchHHHHH-HHhhccccCC-CchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            2334444556666666 5554443332 24444444333344567777888888877765

>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=97.57  E-value=0.0016  Score=44.55  Aligned_cols=57  Identities=19%  Similarity=0.121  Sum_probs=47.6

Q ss_pred             hccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHcc
Q 022531          214 MTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV  270 (295)
Q Consensus       214 ~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  270 (295)
                      .....|+..+..+++.+|+..|++..|.++++...+....+-+..+|..|+.-+...
T Consensus        45 ~spl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~v~  101 (126)
T PF12921_consen   45 SSPLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAYVL  101 (126)
T ss_pred             CCCCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHh
Confidence            345688999999999999999999999999999988766666788999998755443

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.55  E-value=0.022  Score=43.55  Aligned_cols=142  Identities=11%  Similarity=0.038  Sum_probs=105.6

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHH
Q 022531          115 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  194 (295)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  194 (295)
                      ...++++......|.+.-....+.+..+. ..+.++.....+.++-.+.|+.+.|.. .+++..+...+.|..+.+.++.
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~-yf~~vek~~~kL~~~q~~~~V~  255 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEK-YFQDVEKVTQKLDGLQGKIMVL  255 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHH-HHHHHHHHHhhhhccchhHHHH
Confidence            45666777778888888889999998886 556778888899999999999999999 9999988877778777776654


Q ss_pred             -----HHHhcCCHHHHHHHHHHHHhccCCCCHHhHH--HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHH
Q 022531          195 -----LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI--CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  264 (295)
Q Consensus       195 -----~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~--~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  264 (295)
                           .|.-.+++..|.+.+.+..... .-|+...|  +|+..|  .|+..+|.+.++.|++.-   |...+-++++
T Consensus       256 ~n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllY--lg~l~DAiK~~e~~~~~~---P~~~l~es~~  326 (366)
T KOG2796|consen  256 MNSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLY--LGKLKDALKQLEAMVQQD---PRHYLHESVL  326 (366)
T ss_pred             hhhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHH--HHHHHHHHHHHHHHhccC---CccchhhhHH
Confidence                 3455778888888888776553 22333333  344444  588999999999998743   5555444333

>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=97.50  E-value=0.00084  Score=47.55  Aligned_cols=125  Identities=10%  Similarity=0.085  Sum_probs=57.3

Q ss_pred             CHHHHHHHHHH---HHhccChhHHHHHHhhcccC--CC---CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHH
Q 022531           10 SDSDYATRIDL---MTKVFGIHSGERYFEGLPLS--AK---TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALM   81 (295)
Q Consensus        10 ~~~~~~~li~~---~~~~~~~~~A~~~~~~~~~~--~p---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~   81 (295)
                      |...|..++..   ....++.+.+...++.+...  ++   +...          ..-+.....-++.+.       ..+
T Consensus         2 D~~~F~~~~~~a~~~~~~~~~~~~~~~~~~al~ly~G~~l~~~~~----------~~W~~~~r~~l~~~~-------~~~   64 (146)
T PF03704_consen    2 DVDRFEALVREARAAARAGDPEEAIELLEEALALYRGDFLPDLDD----------EEWVEPERERLRELY-------LDA   64 (146)
T ss_dssp             HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHTT--SSTTGGGTT----------STTHHHHHHHHHHHH-------HHH
T ss_pred             CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhCCCCCCCCCc----------cHHHHHHHHHHHHHH-------HHH
Confidence            34455555433   35567888888877777654  21   2111          111111111221111       223


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhh----cCCCCCCHHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVK  152 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  152 (295)
                      ...++..+...|++++|..+.+.+..... .|...|..+|.++...|+...|.++|+++..    .-|+.|+..+
T Consensus        65 ~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   65 LERLAEALLEAGDYEEALRLLQRALALDP-YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHST-T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHhccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            44455555556666666666666655422 2455566666666666666666666555422    1255555543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>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=97.46  E-value=0.0039  Score=42.61  Aligned_cols=51  Identities=14%  Similarity=-0.069  Sum_probs=31.7

Q ss_pred             CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531          110 VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus       110 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      ..|+..+..+++.+|+..+++..|+++.+...+..+++.+..+|..|++-.
T Consensus        48 l~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   48 LYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             CCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            456666666666666666666666666666666555555556666655543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.46  E-value=0.067  Score=46.92  Aligned_cols=247  Identities=13%  Similarity=0.104  Sum_probs=152.4

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCC---C---CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC-----------
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSA---K---TSETYTALLHLYAGAKWTEKAEELFERVKQSN-----------   74 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~---p---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----------   74 (295)
                      .+|..+....-.+|+++-|..+++.=+..+   |   +..-+..-+.-+.+.|+.+....++-.++..-           
T Consensus       508 iSy~~iA~~Ay~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~  587 (829)
T KOG2280|consen  508 ISYAAIARRAYQEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRN  587 (829)
T ss_pred             eeHHHHHHHHHhcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHh
Confidence            467788888888999999999987655542   2   45556677777888888888877777665431           


Q ss_pred             CCCCHHHHHHHHH--------HHHhcCCHHHHHHHH--HHHH----hCCCCCChHhHHHHHHHHHccCC----------H
Q 022531           75 LSFNALMYNEMMT--------LYMSVGQVEKVALVV--EEIK----RKNVVPDIFTYNLWISSCAATLN----------I  130 (295)
Q Consensus        75 ~~p~~~~~~~li~--------~~~~~~~~~~a~~~~--~~m~----~~~~~p~~~~~~~li~~~~~~~~----------~  130 (295)
                      .+.....|.-+++        .+.+.++-.++..-|  +...    ..|..|+   .......|.+...          .
T Consensus       588 ~p~a~~lY~~~~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a~sk~~s~e~ka~ed~  664 (829)
T KOG2280|consen  588 QPLALSLYRQFMRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFAKSKEKSFEAKALEDQ  664 (829)
T ss_pred             chhhhHHHHHHHHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHhhhhhhhhHHHHHHHH
Confidence            1112222222222        111222222222222  1110    0122233   3334444544433          1


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          131 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      .+-+.+.+.+..+.+....-.+.+--+.-+...|+..+|.+     +.....-||-..|..-+.+++..++|++.+++-+
T Consensus       665 ~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~q-----l~~~FkipdKr~~wLk~~aLa~~~kweeLekfAk  739 (829)
T KOG2280|consen  665 MKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQ-----LKSDFKIPDKRLWWLKLTALADIKKWEELEKFAK  739 (829)
T ss_pred             HHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHH-----HHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHh
Confidence            22233333444433433444455566677788899999888     5566667888899999999999999999888776


Q ss_pred             HHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          211 SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       211 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      ..+      .+.-|...+.+|.+.|+.++|.+++-+..       +..   -.+.+|.+.|++.+|.++--+
T Consensus       740 skk------sPIGy~PFVe~c~~~~n~~EA~KYiprv~-------~l~---ekv~ay~~~~~~~eAad~A~~  795 (829)
T KOG2280|consen  740 SKK------SPIGYLPFVEACLKQGNKDEAKKYIPRVG-------GLQ---EKVKAYLRVGDVKEAADLAAE  795 (829)
T ss_pred             ccC------CCCCchhHHHHHHhcccHHHHhhhhhccC-------ChH---HHHHHHHHhccHHHHHHHHHH
Confidence            543      13457779999999999999999887632       111   467788888888888766443

>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=97.45  E-value=0.00061  Score=48.26  Aligned_cols=73  Identities=18%  Similarity=0.186  Sum_probs=53.8

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH-----hCCCCCChHhHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIK-----RKNVVPDIFTYN  118 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~-----~~~~~p~~~~~~  118 (295)
                      .....++..+...|++++|..+.+.+...+ |.+...|..+|.+|...|+..+|.+.|+++.     +.|+.|+..+-.
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            466777788888999999999999998876 5678889999999999999999999998764     358888876643

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.42  E-value=0.0057  Score=47.57  Aligned_cols=109  Identities=8%  Similarity=-0.025  Sum_probs=87.7

Q ss_pred             HHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhC
Q 022531           33 YFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG---QVEKVALVVEEIKRK  108 (295)
Q Consensus        33 ~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~  108 (295)
                      -++.-....| |...|-.|...|...|+++.|...|.+..+.. ++++..+..+..++....   .-.++..+|+++...
T Consensus       144 ~Le~~L~~nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~  222 (287)
T COG4235         144 RLETHLQQNPGDAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALAL  222 (287)
T ss_pred             HHHHHHHhCCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhc
Confidence            3333333356 89999999999999999999999999998874 567888888887766543   356899999999986


Q ss_pred             CCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          109 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       109 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .. -|+.+...|...+...|++.+|...|+.|.+.
T Consensus       223 D~-~~iral~lLA~~afe~g~~~~A~~~Wq~lL~~  256 (287)
T COG4235         223 DP-ANIRALSLLAFAAFEQGDYAEAAAAWQMLLDL  256 (287)
T ss_pred             CC-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHhc
Confidence            43 26777788888899999999999999999985

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.41  E-value=0.0078  Score=47.00  Aligned_cols=96  Identities=10%  Similarity=0.023  Sum_probs=44.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC--ccccHHH
Q 022531          117 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR--QWITYDF  191 (295)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~  191 (295)
                      |...+....+.|++++|...|+...+..  |.+   ..++..+..+|...|++++|.. .|..+.+..+..  ....+-.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~y--P~s~~a~~A~y~LG~~y~~~g~~~~A~~-~f~~vv~~yP~s~~~~dAl~k  222 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKY--PDSTYQPNANYWLGQLNYNKGKKDDAAY-YFASVVKNYPKSPKAADAMFK  222 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCcchHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHCCCCcchhHHHHH
Confidence            3333333344455555555555555431  111   2344455555555555555555 555554433321  1122222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          192 LIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       192 li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      +...+...|+.++|..+|+.+.+.
T Consensus       223 lg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        223 VGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHH
Confidence            334444555556666555555543

>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=97.38  E-value=0.019  Score=38.91  Aligned_cols=140  Identities=14%  Similarity=0.119  Sum_probs=69.4

Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHH
Q 022531          125 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK  204 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  204 (295)
                      .-.|..+++.++..+....    .+..-+|.+|.-....-+-+-..+ +++   .-|...|...          .|+...
T Consensus        13 ildG~V~qGveii~k~v~S----sni~E~NWvICNiiDaa~C~yvv~-~Ld---sIGkiFDis~----------C~NlKr   74 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNS----SNIKEYNWVICNIIDAADCDYVVE-TLD---SIGKIFDISK----------CGNLKR   74 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHH----S-HHHHTHHHHHHHHH--HHHHHH-HHH---HHGGGS-GGG-----------S-THH
T ss_pred             HHhchHHHHHHHHHHHcCc----CCccccceeeeecchhhchhHHHH-HHH---HHhhhcCchh----------hcchHH
Confidence            4457777777777776664    233334444433333333333333 222   3333333322          233333


Q ss_pred             HHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          205 IDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       205 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      ....+-.+     ..+...+...+..+...|+-|.-.+++..+.+.+  .+++...-.+..+|.+.|+..++.++++++-
T Consensus        75 Vi~C~~~~-----n~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~--~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   75 VIECYAKR-----NKLSEYVDLALDILVKQGKKDQLDKIYNELKKNE--EINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             HHHHHHHT-----T---HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc--CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            33333321     2233445566777777777777777777776533  4566667777778888888888888888777


Q ss_pred             hcCCC
Q 022531          285 QKNCA  289 (295)
Q Consensus       285 ~~g~~  289 (295)
                      ++|++
T Consensus       148 ekG~k  152 (161)
T PF09205_consen  148 EKGLK  152 (161)
T ss_dssp             HTT-H
T ss_pred             HhchH
Confidence            77764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.37  E-value=0.0063  Score=46.86  Aligned_cols=113  Identities=15%  Similarity=0.185  Sum_probs=86.0

Q ss_pred             HHHHHhhcccCCCCHHHHHHHHHHHHcc-----CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-----------
Q 022531           30 GERYFEGLPLSAKTSETYTALLHLYAGA-----KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-----------   93 (295)
Q Consensus        30 A~~~~~~~~~~~p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-----------   93 (295)
                      ....|........|..+|-..+..+...     +.++-....++.|.+.|+.-|..+|+.|++.+-+..           
T Consensus        53 ~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F  132 (406)
T KOG3941|consen   53 VEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVF  132 (406)
T ss_pred             hhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHH
Confidence            3455655554456888888888877654     668888888999999999999999999999765432           


Q ss_pred             -----CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCH-HHHHHHHHHHhh
Q 022531           94 -----QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI-DQVKKFLDEMSC  142 (295)
Q Consensus        94 -----~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~-~~a~~~~~~~~~  142 (295)
                           +-+=+++++++|...|+.||-.+-..|++++.+-+-. .+...+.-.|.+
T Consensus       133 ~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWmPk  187 (406)
T KOG3941|consen  133 LHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWMPK  187 (406)
T ss_pred             hhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhhhh
Confidence                 2234789999999999999999999999999887754 344444444544

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.36  E-value=0.0011  Score=40.63  Aligned_cols=55  Identities=16%  Similarity=0.178  Sum_probs=31.6

Q ss_pred             HHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           53 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      .|.+.+++++|.++++++...+ |.++..|.....++.+.|++++|.+.|+...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4455566666666666665553 334555555555666666666666666665553

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.30  E-value=0.07  Score=43.65  Aligned_cols=31  Identities=6%  Similarity=0.085  Sum_probs=20.0

Q ss_pred             CHHhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          220 TSRNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       220 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      +-+.+..++.++.-.|+.++|.+..+.|.+.
T Consensus       304 dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  304 DYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            3444556666666777777777777776653

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.27  E-value=0.076  Score=46.40  Aligned_cols=217  Identities=10%  Similarity=0.042  Sum_probs=103.8

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHH----------HHHHHccCcHHHHHHHHHHHHhCCCCC
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTAL----------LHLYAGAKWTEKAEELFERVKQSNLSF   77 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~l----------i~~~~~~~~~~~a~~~~~~m~~~~~~p   77 (295)
                      .|-+..|..|.+...+.-.++-|+..|-....- |.+...-.|          ...-+--|++++|.+++-+|-.+++  
T Consensus       689 nPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY-~Gik~vkrl~~i~s~~~q~aei~~~~g~feeaek~yld~drrDL--  765 (1189)
T KOG2041|consen  689 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDY-AGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRDL--  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccc-cchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhhh--
Confidence            456666666666666666666666666544332 111100000          0111123666666666666655542  


Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CChHhHHHHHHHHHccCCHHHHHHHHHHHhhc------------
Q 022531           78 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--PDIFTYNLWISSCAATLNIDQVKKFLDEMSCD------------  143 (295)
Q Consensus        78 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------------  143 (295)
                             .|..+.+.|+|-.+.++++.-- .+..  --...|+.+...++....|++|.++|..-...            
T Consensus       766 -------Aielr~klgDwfrV~qL~r~g~-~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~e~~~ecly~le~  837 (1189)
T KOG2041|consen  766 -------AIELRKKLGDWFRVYQLIRNGG-SDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDTENQIECLYRLEL  837 (1189)
T ss_pred             -------hHHHHHhhhhHHHHHHHHHccC-CCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccchHhHHHHHHHHHh
Confidence                   3444455555544444432210 0000  01133444444444444444444444321110            


Q ss_pred             --------CCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          144 --------SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       144 --------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                              ...+.+....-.+.+++.+.|.-++|.+ .+-+  ...  |     ..-+.+|...++|.+|.++-++..  
T Consensus       838 f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~-a~Lr--~s~--p-----kaAv~tCv~LnQW~~avelaq~~~--  905 (1189)
T KOG2041|consen  838 FGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVE-AYLR--RSL--P-----KAAVHTCVELNQWGEAVELAQRFQ--  905 (1189)
T ss_pred             hhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHH-HHHh--ccC--c-----HHHHHHHHHHHHHHHHHHHHHhcc--
Confidence                    0123444455566677777777777766 3321  111  1     134456677777777777766433  


Q ss_pred             cCCCCHHhHH--------------HHHHHHHhcCChHHHHHHHHHHhh
Q 022531          216 KQKMTSRNYI--------------CILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       216 ~~~~~~~~~~--------------~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                        -|...+..              --|..+.+.|+.-+|-+++.+|.+
T Consensus       906 --l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  906 --LPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             --chhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence              22222211              134445566766666777776644

>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=97.26  E-value=0.0014  Score=40.73  Aligned_cols=63  Identities=21%  Similarity=0.205  Sum_probs=37.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhh----cCCCCC-HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          223 NYICILSSYLMLGHLKEVGEIIDQWKQS----ATSDFD-ISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       223 ~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +|+.+...|...|++++|+..|++..+.    +...|+ ..++..+..+|...|++++|++++++..+
T Consensus         7 ~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    7 AYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4556666666777777777766665432    101122 44566777777777777777777776543

...

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.25  E-value=0.0027  Score=38.76  Aligned_cols=55  Identities=9%  Similarity=0.078  Sum_probs=29.4

Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          195 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       195 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      .|.+.+++++|.++++.+...+ +.+...+.....++.+.|++++|.+.|+...+.
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~   58 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALEL   58 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            4455555666666665555542 223334444555555666666666666655554

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.16  E-value=0.037  Score=49.05  Aligned_cols=185  Identities=14%  Similarity=0.150  Sum_probs=125.2

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      .+.+.+...-++.+.+...++-|..+-+.-....- -......-...+-+.|++++|..-|-+-+.. +.|.     .+|
T Consensus       331 ~L~ek~le~kL~iL~kK~ly~~Ai~LAk~~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi  404 (933)
T KOG2114|consen  331 ELIEKDLETKLDILFKKNLYKVAINLAKSQHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVI  404 (933)
T ss_pred             eeeeccHHHHHHHHHHhhhHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHH
Confidence            34455566778888888888888888765443111 1234444555667789999999988766644 2332     356


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      .-|....+..+-..+++.+.+.|+. +...-..|+.+|.+.++.++-.++.+... .+....|   ....+..+-+.+-.
T Consensus       405 ~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~kL~efI~~~~-~g~~~fd---~e~al~Ilr~snyl  479 (933)
T KOG2114|consen  405 KKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVEKLTEFISKCD-KGEWFFD---VETALEILRKSNYL  479 (933)
T ss_pred             HHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchHHHHHHHhcCC-Ccceeee---HHHHHHHHHHhChH
Confidence            6677777888888899999999886 66777889999999999998877766555 2122222   34677788888888


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSL  212 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  212 (295)
                      ++|.. +-...    . .+......+   +-..+++++|++.+..|
T Consensus       480 ~~a~~-LA~k~----~-~he~vl~il---le~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  480 DEAEL-LATKF----K-KHEWVLDIL---LEDLHNYEEALRYISSL  516 (933)
T ss_pred             HHHHH-HHHHh----c-cCHHHHHHH---HHHhcCHHHHHHHHhcC
Confidence            88877 32221    1 123333333   35678899999988865

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.14  E-value=0.065  Score=40.28  Aligned_cols=173  Identities=13%  Similarity=0.046  Sum_probs=85.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCC--CChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRKNVV--PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  161 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (295)
                      .....+.+.|++.+|.+.|+++...-..  --....-.++.++.+.|+++.|...+++........|.. -+...+.+.+
T Consensus        10 ~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~g~~   88 (203)
T PF13525_consen   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYMLGLS   88 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHHHHH
Confidence            3344455666666666666666653211  112234445566666667777776666655542212211 1111122111


Q ss_pred             hc-------------CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHH
Q 022531          162 TA-------------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICIL  228 (295)
Q Consensus       162 ~~-------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li  228 (295)
                      ..             +...+|..                .+..++.-|-......+|...+..+.+.   .... --.+.
T Consensus        89 ~~~~~~~~~~~~~D~~~~~~A~~----------------~~~~li~~yP~S~y~~~A~~~l~~l~~~---la~~-e~~ia  148 (203)
T PF13525_consen   89 YYKQIPGILRSDRDQTSTRKAIE----------------EFEELIKRYPNSEYAEEAKKRLAELRNR---LAEH-ELYIA  148 (203)
T ss_dssp             HHHHHHHHH-TT---HHHHHHHH----------------HHHHHHHH-TTSTTHHHHHHHHHHHHHH---HHHH-HHHHH
T ss_pred             HHHhCccchhcccChHHHHHHHH----------------HHHHHHHHCcCchHHHHHHHHHHHHHHH---HHHH-HHHHH
Confidence            11             11222333                3334444444455555565555544331   1111 12367


Q ss_pred             HHHHhcCChHHHHHHHHHHhhhcCCCC-CHHHHHHHHHHHHccCChHHHH
Q 022531          229 SSYLMLGHLKEVGEIIDQWKQSATSDF-DISACNRLLGAFSDVGLTEKAN  277 (295)
Q Consensus       229 ~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~  277 (295)
                      +-|.+.|.+..|..-++.+.++....+ .......++.+|.+.|..+.+.
T Consensus       149 ~~Y~~~~~y~aA~~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  149 RFYYKRGKYKAAIIRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHCTT-HHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            788899999999999999888642111 1134567788888888877544

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.13  E-value=0.055  Score=39.24  Aligned_cols=136  Identities=10%  Similarity=-0.002  Sum_probs=105.3

Q ss_pred             CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC-Ccccc
Q 022531          110 VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQWIT  188 (295)
Q Consensus       110 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~  188 (295)
                      +.|+...-..|..+..+.|+..+|...|++.... .+.-|......+.++....++...|.. .++.+.+..+. .+..+
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qalsG-~fA~d~a~lLglA~Aqfa~~~~A~a~~-tLe~l~e~~pa~r~pd~  162 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALSG-IFAHDAAMLLGLAQAQFAIQEFAAAQQ-TLEDLMEYNPAFRSPDG  162 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhcc-ccCCCHHHHHHHHHHHHhhccHHHHHH-HHHHHhhcCCccCCCCc
Confidence            4578777788999999999999999999999874 567788888888899999999999999 88887765532 12334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      .-.+...+...|...+|+.-|+.....  -|+...-......+.+.|+.++|..-+..+.+
T Consensus       163 ~Ll~aR~laa~g~~a~Aesafe~a~~~--ypg~~ar~~Y~e~La~qgr~~ea~aq~~~v~d  221 (251)
T COG4700         163 HLLFARTLAAQGKYADAESAFEVAISY--YPGPQARIYYAEMLAKQGRLREANAQYVAVVD  221 (251)
T ss_pred             hHHHHHHHHhcCCchhHHHHHHHHHHh--CCCHHHHHHHHHHHHHhcchhHHHHHHHHHHH
Confidence            556778889999999999999988875  55555544566667788888777766555544

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.12  E-value=0.097  Score=45.78  Aligned_cols=228  Identities=10%  Similarity=0.068  Sum_probs=118.7

Q ss_pred             ChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhC-CCCCC--------HHHHHHHHHHHHhcCCHH
Q 022531           26 GIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQS-NLSFN--------ALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        26 ~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~--------~~~~~~li~~~~~~~~~~   96 (295)
                      .+++|.++.+    ..|-+..|..|...-...-.++-|...|-+.... |++.-        ...-.+=+.+|  -|+++
T Consensus       678 gledA~qfiE----dnPHprLWrllAe~Al~Kl~l~tAE~AFVrc~dY~Gik~vkrl~~i~s~~~q~aei~~~--~g~fe  751 (1189)
T KOG2041|consen  678 GLEDAIQFIE----DNPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAF--YGEFE  751 (1189)
T ss_pred             chHHHHHHHh----cCCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhh--hcchh
Confidence            3455555544    3578899999999888888889998888776543 32110        01111112222  48899


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      +|+++|-+|-+..+         .|..+.+.|+|-...++++.=-....-..-..+++.+...+.....|++|.+ ++..
T Consensus       752 eaek~yld~drrDL---------Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~-yY~~  821 (1189)
T KOG2041|consen  752 EAEKLYLDADRRDL---------AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAK-YYSY  821 (1189)
T ss_pred             Hhhhhhhccchhhh---------hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHH-HHHh
Confidence            99999988866532         3556667777766666554311100011123456666666666666666665 3332


Q ss_pred             HHH---------------------hcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcC
Q 022531          177 AEK---------------------SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLG  235 (295)
Q Consensus       177 ~~~---------------------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~  235 (295)
                      -..                     ...+-+....-.+.+++.+.|.-++|.+.+-+--    .|-     ..+..|...+
T Consensus       822 ~~~~e~~~ecly~le~f~~LE~la~~Lpe~s~llp~~a~mf~svGMC~qAV~a~Lr~s----~pk-----aAv~tCv~Ln  892 (1189)
T KOG2041|consen  822 CGDTENQIECLYRLELFGELEVLARTLPEDSELLPVMADMFTSVGMCDQAVEAYLRRS----LPK-----AAVHTCVELN  892 (1189)
T ss_pred             ccchHhHHHHHHHHHhhhhHHHHHHhcCcccchHHHHHHHHHhhchHHHHHHHHHhcc----CcH-----HHHHHHHHHH
Confidence            110                     0111233334445555555555555555443211    111     2445555666


Q ss_pred             ChHHHHHHHHHHhhhcCCCCCHHHHH-HHHHHHHccCChHHHHHHHHHH
Q 022531          236 HLKEVGEIIDQWKQSATSDFDISACN-RLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       236 ~~~~A~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                      ++.+|.++-++..     -|.+.+.- .-..-+...++..+|.+..+..
T Consensus       893 QW~~avelaq~~~-----l~qv~tliak~aaqll~~~~~~eaIe~~Rka  936 (1189)
T KOG2041|consen  893 QWGEAVELAQRFQ-----LPQVQTLIAKQAAQLLADANHMEAIEKDRKA  936 (1189)
T ss_pred             HHHHHHHHHHhcc-----chhHHHHHHHHHHHHHhhcchHHHHHHhhhc
Confidence            6666666554432     23333221 1122334456666666665544

>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=97.04  E-value=0.0034  Score=38.92  Aligned_cols=23  Identities=22%  Similarity=0.475  Sum_probs=9.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEE  104 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~  104 (295)
                      ++.+...|...|++++|+..|++
T Consensus         8 ~~~la~~~~~~~~~~~A~~~~~~   30 (78)
T PF13424_consen    8 YNNLARVYRELGRYDEALDYYEK   30 (78)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            34444444444444444444443

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.01  E-value=0.015  Score=41.23  Aligned_cols=90  Identities=8%  Similarity=-0.127  Sum_probs=63.2

Q ss_pred             HHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCC
Q 022531          157 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH  236 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  236 (295)
                      .--+-..|++++|.. +|.-+....+ -+..-|..|..++-..+++++|+..|......+. -|+..+-....++...|+
T Consensus        44 Ay~~y~~Gk~~eA~~-~F~~L~~~d~-~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~l~~  120 (165)
T PRK15331         44 AYEFYNQGRLDEAET-FFRFLCIYDF-YNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLLMRK  120 (165)
T ss_pred             HHHHHHCCCHHHHHH-HHHHHHHhCc-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHHhCC
Confidence            334457889999988 6665544332 2445566777777788889999988887655442 233344457888888899


Q ss_pred             hHHHHHHHHHHhh
Q 022531          237 LKEVGEIIDQWKQ  249 (295)
Q Consensus       237 ~~~A~~~~~~~~~  249 (295)
                      .+.|...|.....
T Consensus       121 ~~~A~~~f~~a~~  133 (165)
T PRK15331        121 AAKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999998888776

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=96.94  E-value=0.1  Score=39.22  Aligned_cols=169  Identities=12%  Similarity=0.078  Sum_probs=76.4

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           49 ALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        49 ~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                      .....+...|++.+|...|+++...-  -+--....-.++.++.+.|++++|...++++.+.-..-...-+...+.+.+.
T Consensus        10 ~~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   10 QKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSY   89 (203)
T ss_dssp             HHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHH
Confidence            34444556666667776666666531  0112234445566666667777777766666553211111112222222111


Q ss_pred             -------------cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHH
Q 022531          127 -------------TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  193 (295)
Q Consensus       127 -------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li  193 (295)
                                   .+...+|...|+.+...  . |+             .....+|.. .+..+....-.    .--.+.
T Consensus        90 ~~~~~~~~~~~~D~~~~~~A~~~~~~li~~--y-P~-------------S~y~~~A~~-~l~~l~~~la~----~e~~ia  148 (203)
T PF13525_consen   90 YKQIPGILRSDRDQTSTRKAIEEFEELIKR--Y-PN-------------SEYAEEAKK-RLAELRNRLAE----HELYIA  148 (203)
T ss_dssp             HHHHHHHH-TT---HHHHHHHHHHHHHHHH----TT-------------STTHHHHHH-HHHHHHHHHHH----HHHHHH
T ss_pred             HHhCccchhcccChHHHHHHHHHHHHHHHH--C-cC-------------chHHHHHHH-HHHHHHHHHHH----HHHHHH
Confidence                         11233455555555543  1 22             222233333 22222221111    011244


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCCHH----hHHHHHHHHHhcCChHHH
Q 022531          194 ILYAGLGNKDKIDQIWKSLRMTKQKMTSR----NYICILSSYLMLGHLKEV  240 (295)
Q Consensus       194 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----~~~~li~~~~~~~~~~~A  240 (295)
                      ..|.+.|.+..|..-++.+.+.  -|+..    ....++.+|.+.|..+.|
T Consensus       149 ~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a  197 (203)
T PF13525_consen  149 RFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAA  197 (203)
T ss_dssp             HHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHH
Confidence            5667777777777777777665  33332    234567777777776644

>PRK15331 chaperone protein SicA; Provisional

Probab=96.91  E-value=0.0083  Score=42.55  Aligned_cols=95  Identities=8%  Similarity=-0.065  Sum_probs=72.6

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                      .-....-+-..|++++|..+|.-+...+ +-+..-|..|..++-..+++++|+..|......+. -|...+--...++..
T Consensus        40 iY~~Ay~~y~~Gk~~eA~~~F~~L~~~d-~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~-~dp~p~f~agqC~l~  117 (165)
T PRK15331         40 LYAHAYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLK-NDYRPVFFTGQCQLL  117 (165)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccc-CCCCccchHHHHHHH
Confidence            3344455567899999999999887765 24566778888888888999999999987766543 244555567788889


Q ss_pred             cCCHHHHHHHHHHHhhc
Q 022531          127 TLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~~  143 (295)
                      .|+.+.|...|......
T Consensus       118 l~~~~~A~~~f~~a~~~  134 (165)
T PRK15331        118 MRKAAKARQCFELVNER  134 (165)
T ss_pred             hCCHHHHHHHHHHHHhC
Confidence            99999999999988874

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.83  E-value=0.16  Score=39.72  Aligned_cols=49  Identities=16%  Similarity=0.158  Sum_probs=22.2

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531           56 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEI  105 (295)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  105 (295)
                      ..|++.+|..+|....... +-+...--.+..+|...|+.+.|..++..+
T Consensus       146 ~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~l  194 (304)
T COG3118         146 EAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAAL  194 (304)
T ss_pred             hccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhC
Confidence            3444455555554444332 122333444444555555555555555444

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.82  E-value=0.061  Score=41.48  Aligned_cols=97  Identities=18%  Similarity=0.138  Sum_probs=49.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CC-ChHhHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VP-DIFTYNLWI  121 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p-~~~~~~~li  121 (295)
                      .|+.-+..+ +.|++..|...|...++..  -.-....+-.|..++...|++++|..+|..+.+.-. .| -+..+--|.
T Consensus       144 ~Y~~A~~~~-ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg  222 (262)
T COG1729         144 LYNAALDLY-KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHHH-HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            344444443 3455666666666655542  001122344456666666666666666665554311 11 123444555


Q ss_pred             HHHHccCCHHHHHHHHHHHhhc
Q 022531          122 SSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .+..+.|+.++|..+|+++.++
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHHH
Confidence            5556666666666666666654

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.81  E-value=0.15  Score=39.87  Aligned_cols=147  Identities=10%  Similarity=0.015  Sum_probs=98.3

Q ss_pred             HHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022531           20 LMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKV   98 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a   98 (295)
                      .....|++.+|...|+......| +...--.++.+|...|+.+.|..++..+....-.........-|..+.+.....+.
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~~  222 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPEI  222 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCCH
Confidence            34567899999999999888766 67788889999999999999999999887654222222222334445555554444


Q ss_pred             HHHHHHHHhCCCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           99 ALVVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        99 ~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      ..+-++....   | |...-..+...+...|+.+.|.+.+-.+.++.---.+...-..+++.+.-.|..+.+
T Consensus       223 ~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~  291 (304)
T COG3118         223 QDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPL  291 (304)
T ss_pred             HHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHH
Confidence            4444444442   4 556666677778888888888887666555423334455566777777666655443

>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=96.79  E-value=0.092  Score=44.42  Aligned_cols=131  Identities=17%  Similarity=0.182  Sum_probs=58.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      -.+.++..+-+.|.++.|+++-++-         .+   -.....+.|+++.|.++.       ...++...|..|.+..
T Consensus       297 ~~~~i~~fL~~~G~~e~AL~~~~D~---------~~---rFeLAl~lg~L~~A~~~a-------~~~~~~~~W~~Lg~~A  357 (443)
T PF04053_consen  297 QGQSIARFLEKKGYPELALQFVTDP---------DH---RFELALQLGNLDIALEIA-------KELDDPEKWKQLGDEA  357 (443)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHSS-H---------HH---HHHHHHHCT-HHHHHHHC-------CCCSTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHhhcCCh---------HH---HhHHHHhcCCHHHHHHHH-------HhcCcHHHHHHHHHHH
Confidence            3555555555555555555543221         11   122334455555555542       1123444555555555


Q ss_pred             HhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          161 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      .+.|+++-|++ .+.+.         .-|..|+-.|...|+.+...++.+.....|-      ++....++.-.|++++.
T Consensus       358 L~~g~~~lAe~-c~~k~---------~d~~~L~lLy~~~g~~~~L~kl~~~a~~~~~------~n~af~~~~~lgd~~~c  421 (443)
T PF04053_consen  358 LRQGNIELAEE-CYQKA---------KDFSGLLLLYSSTGDREKLSKLAKIAEERGD------INIAFQAALLLGDVEEC  421 (443)
T ss_dssp             HHTTBHHHHHH-HHHHC---------T-HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHH
T ss_pred             HHcCCHHHHHH-HHHhh---------cCccccHHHHHHhCCHHHHHHHHHHHHHccC------HHHHHHHHHHcCCHHHH
Confidence            56666655555 33321         1234444455555555555555555444431      23333444444555555


Q ss_pred             HHHHHH
Q 022531          241 GEIIDQ  246 (295)
Q Consensus       241 ~~~~~~  246 (295)
                      .+++.+
T Consensus       422 v~lL~~  427 (443)
T PF04053_consen  422 VDLLIE  427 (443)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            544443

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.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.76  E-value=0.029  Score=46.61  Aligned_cols=64  Identities=11%  Similarity=-0.065  Sum_probs=48.3

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCH----HHHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTS----ETYTALLHLYAGAKWTEKAEELFERVKQS   73 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~   73 (295)
                      +...++.+..+|.+.|++++|+..|+...+..|+.    .+|..+..+|...|++++|++.+++..+.
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            46677777888888888888888888777766642    34777888888888888888888877765

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.75  E-value=0.057  Score=44.93  Aligned_cols=64  Identities=19%  Similarity=0.036  Sum_probs=57.9

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA----LMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      +...|+.+..+|.+.|++++|+..|++.++.+  |+.    .+|..+..+|...|+.++|++.+++..+.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            67899999999999999999999999998875  553    35999999999999999999999999885

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.74  E-value=0.012  Score=47.77  Aligned_cols=230  Identities=14%  Similarity=0.040  Sum_probs=130.5

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHH--HHh--CCCCC-ChHhHHHHHH
Q 022531           52 HLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEE--IKR--KNVVP-DIFTYNLWIS  122 (295)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~--m~~--~~~~p-~~~~~~~li~  122 (295)
                      .-+|+.|+......+|+..++.|- -|    ..+|..|.++|.-.+++++|+++...  ...  .|-+. .......|..
T Consensus        25 ERLck~gdcraGv~ff~aA~qvGT-eDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGN  103 (639)
T KOG1130|consen   25 ERLCKMGDCRAGVDFFKAALQVGT-EDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGN  103 (639)
T ss_pred             HHHHhccchhhhHHHHHHHHHhcc-hHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccc
Confidence            457899999999999999999872 23    34577788888888999999987542  111  01000 1111222333


Q ss_pred             HHHccCCHHHHHHHHH----HHhhcCCCCCCHHHHHHHHHHHHhcCc--------------------hhhHHHHHHHHHH
Q 022531          123 SCAATLNIDQVKKFLD----EMSCDSGGSDDWVKYVNLVNIYITASH--------------------LVNAESSTLVEAE  178 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~----~~~~~~~~~~~~~~~~~l~~~~~~~~~--------------------~~~a~~~~~~~~~  178 (295)
                      .+--.|.+++|.-.-.    -..+.+.-.....++..+...|...|+                    ++.|.+ +|.+-.
T Consensus       104 tlKv~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~-fy~eNL  182 (639)
T KOG1130|consen  104 TLKVKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVK-FYMENL  182 (639)
T ss_pred             hhhhhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHH-HHHHHH
Confidence            3333445555543211    111111111223345556666654432                    222333 322211


Q ss_pred             H----hcCC-CccccHHHHHHHHHhcCCHHHHHHHHHHH----HhccCCC-CHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          179 K----SITQ-RQWITYDFLIILYAGLGNKDKIDQIWKSL----RMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       179 ~----~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m----~~~~~~~-~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      +    .+.. .-...|..|...|.-.|+++.|+...+.=    ++-|-+. ....+..+..++.-.|+++.|.+.|....
T Consensus       183 ~l~~~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl  262 (639)
T KOG1130|consen  183 ELSEKLGDRLAQGRAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTL  262 (639)
T ss_pred             HHHHHhhhHHhhcchhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHH
Confidence            1    1111 11245666666677789999998776542    2222111 22456678888999999999999887643


Q ss_pred             ----hhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 022531          249 ----QSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       249 ----~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                          +-+.........-+|...|.-..++++|+.++.+=
T Consensus       263 ~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rH  301 (639)
T KOG1130|consen  263 NLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRH  301 (639)
T ss_pred             HHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence                22221234456678888888889999999887753

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.73  E-value=0.26  Score=42.31  Aligned_cols=154  Identities=16%  Similarity=0.142  Sum_probs=72.3

Q ss_pred             HHhcCCHHHHHHHHHHHHhCC-CCCCh-----HhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCCHHHHH-HHH
Q 022531           89 YMSVGQVEKVALVVEEIKRKN-VVPDI-----FTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYV-NLV  157 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~-~~p~~-----~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~l~  157 (295)
                      ..=.|+-+.+++.+.+-.+.+ +.-..     -.|..++..++.    ..+.+.|.+++..+.+.   -|+...|. .-.
T Consensus       198 vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~---yP~s~lfl~~~g  274 (468)
T PF10300_consen  198 VGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR---YPNSALFLFFEG  274 (468)
T ss_pred             cCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh---CCCcHHHHHHHH
Confidence            334466666666666554422 11111     123333333332    23455666666666654   24433332 223


Q ss_pred             HHHHhcCchhhHHHHHHHHHHH---hcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHH-HHHHh
Q 022531          158 NIYITASHLVNAESSTLVEAEK---SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICIL-SSYLM  233 (295)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li-~~~~~  233 (295)
                      ..+...|+.++|.+ .++....   ...+.....+-.+.-.+.-..+|++|.+.|..+.+.. ..+..+|.-+. .++..
T Consensus       275 R~~~~~g~~~~Ai~-~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~c~~~  352 (468)
T PF10300_consen  275 RLERLKGNLEEAIE-SFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAACLLM  352 (468)
T ss_pred             HHHHHhcCHHHHHH-HHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHHHHHh
Confidence            44555666666666 5554332   1111122333344445556666666666666665542 23333343222 23334


Q ss_pred             cCCh-------HHHHHHHHHH
Q 022531          234 LGHL-------KEVGEIIDQW  247 (295)
Q Consensus       234 ~~~~-------~~A~~~~~~~  247 (295)
                      .|+.       ++|.++|.+.
T Consensus       353 l~~~~~~~~~~~~a~~l~~~v  373 (468)
T PF10300_consen  353 LGREEEAKEHKKEAEELFRKV  373 (468)
T ss_pred             hccchhhhhhHHHHHHHHHHH
Confidence            5555       5566665554

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.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.71  E-value=0.26  Score=42.34  Aligned_cols=160  Identities=15%  Similarity=0.088  Sum_probs=102.9

Q ss_pred             HHHHHccCCHHHHHHHHHHHhhcCCCCCCHH-----HHHHHHHHHHh----cCchhhHHHHHHHHHHHhcCCCccccHHH
Q 022531          121 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWV-----KYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYDF  191 (295)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  191 (295)
                      +...+=.|+-+.+++.+.+..+..++.-...     .|..++..++.    ....+.|.+ ++..+...-|  +...|..
T Consensus       195 l~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~-lL~~~~~~yP--~s~lfl~  271 (468)
T PF10300_consen  195 LSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEE-LLEEMLKRYP--NSALFLF  271 (468)
T ss_pred             HhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHH-HHHHHHHhCC--CcHHHHH
Confidence            3334456888999999988776544433222     23344433333    445677888 7777766654  4444433


Q ss_pred             H-HHHHHhcCCHHHHHHHHHHHHhccC---CCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHH-
Q 022531          192 L-IILYAGLGNKDKIDQIWKSLRMTKQ---KMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA-  266 (295)
Q Consensus       192 l-i~~~~~~g~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~-  266 (295)
                      . .+.+...|++++|++.|+.......   +.....+--+..++.-..++++|.+.|..+.+..  ..+..+|..+.-+ 
T Consensus       272 ~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s--~WSka~Y~Y~~a~c  349 (468)
T PF10300_consen  272 FEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES--KWSKAFYAYLAAAC  349 (468)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc--ccHHHHHHHHHHHH
Confidence            2 3456778999999999997553211   1122233457778888999999999999999865  3455555555443 


Q ss_pred             HHccCCh-------HHHHHHHHHHHh
Q 022531          267 FSDVGLT-------EKANEFHMLLLQ  285 (295)
Q Consensus       267 ~~~~g~~-------~~a~~~~~~m~~  285 (295)
                      +...|+.       ++|.++|.+...
T Consensus       350 ~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  350 LLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHhhccchhhhhhHHHHHHHHHHHHH
Confidence            4457777       888888887753

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.

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.66  E-value=0.098  Score=42.64  Aligned_cols=129  Identities=6%  Similarity=0.004  Sum_probs=91.8

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhC-----CC---------CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHh
Q 022531           51 LHLYAGAKWTEKAEELFERVKQS-----NL---------SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT  116 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~-----~~---------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  116 (295)
                      ...+.+.|++..|..-|++....     +.         ..-..+++.|.-+|.+.+++.+|++.-++.+..+. +|...
T Consensus       215 Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~-~N~KA  293 (397)
T KOG0543|consen  215 GNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVKA  293 (397)
T ss_pred             hhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-CchhH
Confidence            44566777777777777664321     11         11245678888899999999999999999888743 47777


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcC
Q 022531          117 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                      ..--..++...|+++.|...|+++++.  -|.|-.+-+.++.+-.+.....+..+-+|..|+....
T Consensus       294 LyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk~y~~mF~k~~  357 (397)
T KOG0543|consen  294 LYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKKMYANMFAKLA  357 (397)
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccc
Confidence            777888999999999999999999974  3455556666666666666665553337777776543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.62  E-value=0.28  Score=39.64  Aligned_cols=223  Identities=9%  Similarity=0.022  Sum_probs=106.4

Q ss_pred             hccChhHHHHHHhhcccCC----CCHHHHHHHHHHHHccCcHHHHHHHH-------HHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           23 KVFGIHSGERYFEGLPLSA----KTSETYTALLHLYAGAKWTEKAEELF-------ERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~----p~~~~~~~li~~~~~~~~~~~a~~~~-------~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      ..++.++|+..+..-..+-    .-..++..+..+.++.|.+++++..-       .+..+..  .--..|..+.+++-+
T Consensus        18 ~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   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSD--FLLEAYLNLARSNEK   95 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHH
Confidence            3455666666655444431    12345666666777777766654421       1111111  012344555555555


Q ss_pred             cCCHHHHHHHHHHHHhC-CCCC---ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCC----CCCCHHHHHHHHHHHHhc
Q 022531           92 VGQVEKVALVVEEIKRK-NVVP---DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSG----GSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~-~~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~  163 (295)
                      .-++.+++.+-..-... |..|   ......++..++...+.++++++.|+...+-..    -.....+|..+-+.|.+.
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            55555555554433321 2222   112333455556666667777777766544211    112234566677777777


Q ss_pred             CchhhHHHHHHHHHHHhcCC---Cccc-cHHH-----HHHHHHhcCCHHHHHHHHHHHH----hccCCCC-HHhHHHHHH
Q 022531          164 SHLVNAESSTLVEAEKSITQ---RQWI-TYDF-----LIILYAGLGNKDKIDQIWKSLR----MTKQKMT-SRNYICILS  229 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~---~~~~-~~~~-----li~~~~~~g~~~~a~~~~~~m~----~~~~~~~-~~~~~~li~  229 (295)
                      .++++|.- +.....+-...   .|.. -|..     |..++...|....|.+.-++..    ..|-++. ......+.+
T Consensus       176 ~D~~Kal~-f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aD  254 (518)
T KOG1941|consen  176 KDYEKALF-FPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFAD  254 (518)
T ss_pred             HhhhHHhh-hhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            77777666 44443332111   1221 1211     2234445566666655555432    2221211 112234555


Q ss_pred             HHHhcCChHHHHHHHHHHh
Q 022531          230 SYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       230 ~~~~~~~~~~A~~~~~~~~  248 (295)
                      .|-..|+.+.|+.-|+...
T Consensus       255 IyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  255 IYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHhcccHhHHHHHHHHHH
Confidence            5666666666666665543

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.61  E-value=0.2  Score=41.11  Aligned_cols=260  Identities=11%  Similarity=-0.102  Sum_probs=123.7

Q ss_pred             HHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHhcCCH
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF-NALMYNEMMTLYMSVGQV   95 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~   95 (295)
                      -..+-+...+..|+..+....+..| +..-|..-...+..-|++++|+--.+.-.+..  | ....+.-.-+++...++.
T Consensus        56 gn~~yk~k~Y~nal~~yt~Ai~~~pd~a~yy~nRAa~~m~~~~~~~a~~dar~~~r~k--d~~~k~~~r~~~c~~a~~~~  133 (486)
T KOG0550|consen   56 GNAFYKQKTYGNALKNYTFAIDMCPDNASYYSNRAATLMMLGRFEEALGDARQSVRLK--DGFSKGQLREGQCHLALSDL  133 (486)
T ss_pred             cchHHHHhhHHHHHHHHHHHHHhCccchhhhchhHHHHHHHHhHhhcccchhhheecC--CCccccccchhhhhhhhHHH
Confidence            3444555566677776666666555 44445444555555555555554443322211  1 111222222333333333


Q ss_pred             HHHHHHHH---------------HHHhCC-CCCChHhHHHHHH-HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           96 EKVALVVE---------------EIKRKN-VVPDIFTYNLWIS-SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        96 ~~a~~~~~---------------~m~~~~-~~p~~~~~~~li~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      .+|...++               ...... -+|...+|..+-. ++.-.|++++|...-....+..    ....+..+++
T Consensus       134 i~A~~~~~~~~~~~~anal~~~~~~~~s~s~~pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld----~~n~~al~vr  209 (486)
T KOG0550|consen  134 IEAEEKLKSKQAYKAANALPTLEKLAPSHSREPACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD----ATNAEALYVR  209 (486)
T ss_pred             HHHHHHhhhhhhhHHhhhhhhhhcccccccCCchhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc----cchhHHHHhc
Confidence            33333322               111111 1233344444322 3456677777777666655531    1122222222


Q ss_pred             H--HHhcCchhhHHHHHHHHHHHhcCCCcc-----------ccHHHHHHHHHhcCCHHHHHHHHHHHHhc---cCCCCHH
Q 022531          159 I--YITASHLVNAESSTLVEAEKSITQRQW-----------ITYDFLIILYAGLGNKDKIDQIWKSLRMT---KQKMTSR  222 (295)
Q Consensus       159 ~--~~~~~~~~~a~~~~~~~~~~~~~~~~~-----------~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~  222 (295)
                      .  +--.++.+.|.. .+++....++....           ..|..=..-..+.|++.+|.+.|.+....   +..|+..
T Consensus       210 g~~~yy~~~~~ka~~-hf~qal~ldpdh~~sk~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~nak  288 (486)
T KOG0550|consen  210 GLCLYYNDNADKAIN-HFQQALRLDPDHQKSKSASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAK  288 (486)
T ss_pred             ccccccccchHHHHH-HHhhhhccChhhhhHHhHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHH
Confidence            2  223455555655 55554443322110           01111112235678888888888776543   2344445


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          223 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       223 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      .|........+.|+.++|+.--++..+-.  ..-+..|..=..++...++|++|.+-++...+.
T Consensus       289 lY~nra~v~~rLgrl~eaisdc~~Al~iD--~syikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  289 LYGNRALVNIRLGRLREAISDCNEALKID--SSYIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHhHhhhcccCCchhhhhhhhhhhhcC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            56556666677788888777766655411  111122222233455567777777777776554

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.59  E-value=0.12  Score=42.12  Aligned_cols=96  Identities=9%  Similarity=-0.020  Sum_probs=71.2

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  266 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (295)
                      .+++.+..+|.+.+++.+|++.-++....+ ++|....-.=.++|...|+++.|+..|+.+.+..  +-|-.+-+.|+.+
T Consensus       258 ~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~-~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~--P~Nka~~~el~~l  334 (397)
T KOG0543|consen  258 ACHLNLAACYLKLKEYKEAIESCNKVLELD-PNNVKALYRRGQALLALGEYDLARDDFQKALKLE--PSNKAARAELIKL  334 (397)
T ss_pred             HHhhHHHHHHHhhhhHHHHHHHHHHHHhcC-CCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhC--CCcHHHHHHHHHH
Confidence            466778888889999999999888887775 5666666667888999999999999999998854  3455555566655


Q ss_pred             HHccCChHH-HHHHHHHHHh
Q 022531          267 FSDVGLTEK-ANEFHMLLLQ  285 (295)
Q Consensus       267 ~~~~g~~~~-a~~~~~~m~~  285 (295)
                      -.+..+... ..++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            555544443 4678888864

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.54  E-value=0.3  Score=39.03  Aligned_cols=160  Identities=9%  Similarity=-0.076  Sum_probs=97.2

Q ss_pred             ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHHHhcCCHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS---NLSFNALMYNEMMTLYMSVGQVEKVA   99 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~~~~~~a~   99 (295)
                      .|+..+|-..++++.+..| |...+..-=.+|...|+.......++++...   ++|-.+.+.....-++...|-+++|+
T Consensus       116 ~g~~h~a~~~wdklL~d~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~wn~dlp~~sYv~GmyaFgL~E~g~y~dAE  195 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPKWNADLPCYSYVHGMYAFGLEECGIYDDAE  195 (491)
T ss_pred             cccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccccCCCCcHHHHHHHHHHhhHHHhccchhHH
Confidence            4556666666777776666 6777777777888888888888888877644   33323333344455566778888888


Q ss_pred             HHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHhcCchhhHHHHHHH
Q 022531          100 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYITASHLVNAESSTLV  175 (295)
Q Consensus       100 ~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (295)
                      +.-++..+.+. .|...-.++...+-..|++.++.++..+-...  ...+    .+-|-...-.+...+.++.|++++-.
T Consensus       196 k~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~--Wr~s~mlasHNyWH~Al~~iE~aeye~aleIyD~  272 (491)
T KOG2610|consen  196 KQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYKTEDD--WRQSWMLASHNYWHTALFHIEGAEYEKALEIYDR  272 (491)
T ss_pred             HHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHhcccc--hhhhhHHHhhhhHHHHHhhhcccchhHHHHHHHH
Confidence            87777776532 35555566666667777888887776543321  1111    12233334455566788888883333


Q ss_pred             HHHHhcCCCcc
Q 022531          176 EAEKSITQRQW  186 (295)
Q Consensus       176 ~~~~~~~~~~~  186 (295)
                      ++.....+.|.
T Consensus       273 ei~k~l~k~Da  283 (491)
T KOG2610|consen  273 EIWKRLEKDDA  283 (491)
T ss_pred             HHHHHhhccch
Confidence            34444444444

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.53  E-value=0.032  Score=43.62  Aligned_cols=80  Identities=15%  Similarity=0.210  Sum_probs=66.8

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCChHhHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR-----KNVVPDIFTYN  118 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~~  118 (295)
                      ..++..++..+...|+++.+.+.++++.... +-+...|..+|.+|.+.|+...|+..|+++.+     .|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            4578888888889999999999999998875 56788899999999999999999999888765     58888888877


Q ss_pred             HHHHHH
Q 022531          119 LWISSC  124 (295)
Q Consensus       119 ~li~~~  124 (295)
                      ......
T Consensus       232 ~y~~~~  237 (280)
T COG3629         232 LYEEIL  237 (280)
T ss_pred             HHHHHh
Confidence            776663

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.51  E-value=0.16  Score=35.53  Aligned_cols=127  Identities=9%  Similarity=0.058  Sum_probs=79.0

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHH
Q 022531          117 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILY  196 (295)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  196 (295)
                      ...++..+.+.+.+.....+++.+... + +.+....+.++..|++.+.- ...+ .+..      ..+.......+..|
T Consensus        10 ~~~vv~~~~~~~~~~~l~~yLe~~~~~-~-~~~~~~~~~li~ly~~~~~~-~ll~-~l~~------~~~~yd~~~~~~~c   79 (140)
T smart00299       10 VSEVVELFEKRNLLEELIPYLESALKL-N-SENPALQTKLIELYAKYDPQ-KEIE-RLDN------KSNHYDIEKVGKLC   79 (140)
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHcc-C-ccchhHHHHHHHHHHHHCHH-HHHH-HHHh------ccccCCHHHHHHHH
Confidence            345666666677788888888887775 3 35666778888888766432 2233 2221      12344555677777


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhc-CChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHc
Q 022531          197 AGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML-GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  269 (295)
Q Consensus       197 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  269 (295)
                      .+.+.++++..++.++..         +...+..+... ++++.|.+++.+       ..+...|..++..+..
T Consensus        80 ~~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~-------~~~~~lw~~~~~~~l~  137 (140)
T smart00299       80 EKAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK-------QNNPELWAEVLKALLD  137 (140)
T ss_pred             HHcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh-------CCCHHHHHHHHHHHHc
Confidence            788888888888776532         22244444444 778888887764       1355577777766654

>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=96.47  E-value=0.31  Score=41.37  Aligned_cols=157  Identities=12%  Similarity=0.077  Sum_probs=101.0

Q ss_pred             HHHHhcCCHHHHHHHHH--HHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 022531           87 TLYMSVGQVEKVALVVE--EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  164 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~--~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (295)
                      ....-.++++++.++.+  ++.. .+ | ..-.+.++.-+-+.|.++.|+++-..-.             .-.+...+.|
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~-~i-~-~~~~~~i~~fL~~~G~~e~AL~~~~D~~-------------~rFeLAl~lg  332 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLP-NI-P-KDQGQSIARFLEKKGYPELALQFVTDPD-------------HRFELALQLG  332 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH-------------HHHHHHHHCT
T ss_pred             HHHHHcCChhhhhhhhhhhhhcc-cC-C-hhHHHHHHHHHHHCCCHHHHHhhcCChH-------------HHhHHHHhcC
Confidence            34455678888777765  2221 12 2 4457888888889999999998733322             2346667899


Q ss_pred             chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 022531          165 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII  244 (295)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  244 (295)
                      +++.|.+       ......+...|..|.....+.|+++-|++.|.+..         -|..|+-.|.-.|+.+.-.++.
T Consensus       333 ~L~~A~~-------~a~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~  396 (443)
T PF04053_consen  333 NLDIALE-------IAKELDDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLA  396 (443)
T ss_dssp             -HHHHHH-------HCCCCSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHH
T ss_pred             CHHHHHH-------HHHhcCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHH
Confidence            9999999       22333467799999999999999999999998643         3566777888899988877777


Q ss_pred             HHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          245 DQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       245 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      +.....+  .     ++.-..++.-.|+.++..+++.+
T Consensus       397 ~~a~~~~--~-----~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  397 KIAEERG--D-----INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHHTT--------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHHcc--C-----HHHHHHHHHHcCCHHHHHHHHHH
Confidence            7666654  2     33445555566777777777654

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.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.44  E-value=0.0072  Score=32.68  Aligned_cols=28  Identities=25%  Similarity=0.316  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQS   73 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~   73 (295)
                      +|..+..+|.+.|++++|.++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555555555555555555555544

>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=96.42  E-value=0.35  Score=38.42  Aligned_cols=225  Identities=12%  Similarity=0.095  Sum_probs=113.7

Q ss_pred             HccCcHHHHHHHHHHHHhCC--CCCCHH------HHHHHHHHHHhcC-CHHHHHHHHHHHHhC--------CCCCCh---
Q 022531           55 AGAKWTEKAEELFERVKQSN--LSFNAL------MYNEMMTLYMSVG-QVEKVALVVEEIKRK--------NVVPDI---  114 (295)
Q Consensus        55 ~~~~~~~~a~~~~~~m~~~~--~~p~~~------~~~~li~~~~~~~-~~~~a~~~~~~m~~~--------~~~p~~---  114 (295)
                      .+.|+++.|..++.+.....  ..|+..      .||.-.. ....+ +++.|..++++..+.        ...|+.   
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~-l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~el   82 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKS-LLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSEL   82 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHH-HHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHH
Confidence            35667777777777665432  122211      2222222 23344 777766666554322        122332   


Q ss_pred             --HhHHHHHHHHHccCCH---HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccH
Q 022531          115 --FTYNLWISSCAATLNI---DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY  189 (295)
Q Consensus       115 --~~~~~li~~~~~~~~~---~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (295)
                        .++..++.++...+..   ++|..+++.+....+.+  +.++..-+..+.+.++.+.+.+ .+.+|......+ ...+
T Consensus        83 r~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~~--~~~~~L~l~il~~~~~~~~~~~-~L~~mi~~~~~~-e~~~  158 (278)
T PF08631_consen   83 RLSILRLLANAYLEWDTYESVEKALNALRLLESEYGNK--PEVFLLKLEILLKSFDEEEYEE-ILMRMIRSVDHS-ESNF  158 (278)
T ss_pred             HHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCCC--cHHHHHHHHHHhccCChhHHHH-HHHHHHHhcccc-cchH
Confidence              3556667777766654   45666666676543322  3444455666666777888888 777776655432 2344


Q ss_pred             HHHHHHHHh--cCCHHHHHHHHHHHHhccCCCCHHhHH--HHHH---HHHhcCC------hHHHHHHHHHHhhhcCCCCC
Q 022531          190 DFLIILYAG--LGNKDKIDQIWKSLRMTKQKMTSRNYI--CILS---SYLMLGH------LKEVGEIIDQWKQSATSDFD  256 (295)
Q Consensus       190 ~~li~~~~~--~g~~~~a~~~~~~m~~~~~~~~~~~~~--~li~---~~~~~~~------~~~A~~~~~~~~~~~~~~~~  256 (295)
                      ...+..+..  ......+...+..+....+.|....+.  .++.   ...+.++      ++...++++...+....+.+
T Consensus       159 ~~~l~~i~~l~~~~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls  238 (278)
T PF08631_consen  159 DSILHHIKQLAEKSPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLS  238 (278)
T ss_pred             HHHHHHHHHHHhhCcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence            444444321  223345556665555555555553111  1111   1112211      44555555544333222233


Q ss_pred             HHHHHHH-------HHHHHccCChHHHHHHHHHHH
Q 022531          257 ISACNRL-------LGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       257 ~~~~~~l-------~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      ..+-.++       ...+-+.++++.|.+.|+-..
T Consensus       239 ~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  239 AEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            3332222       234556889999999987544

It is also involved in sporulation [].

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.34  E-value=0.079  Score=41.46  Aligned_cols=82  Identities=9%  Similarity=0.001  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhh----cCCCCCCHHHHH
Q 022531           79 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVKYV  154 (295)
Q Consensus        79 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~  154 (295)
                      ..++..++..+...|+.+.+...++++..... -+...|..+|.+|.+.|+...|+..|+++.+    .-|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp-~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDP-YDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            56788899999999999999999999998744 3788999999999999999999999998765    248899988887


Q ss_pred             HHHHHHH
Q 022531          155 NLVNIYI  161 (295)
Q Consensus       155 ~l~~~~~  161 (295)
                      .......
T Consensus       232 ~y~~~~~  238 (280)
T COG3629         232 LYEEILR  238 (280)
T ss_pred             HHHHHhc
Confidence            7777643

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.29  E-value=0.46  Score=38.45  Aligned_cols=110  Identities=17%  Similarity=0.104  Sum_probs=85.2

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHH
Q 022531          115 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  194 (295)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  194 (295)
                      .+.+..|.-+...|+...|.++-.+..     .|+..-|...+.+++..++|++-.. +.    ..  +.+++-|-.++.
T Consensus       178 ~Sl~~Ti~~li~~~~~k~A~kl~k~Fk-----v~dkrfw~lki~aLa~~~~w~eL~~-fa----~s--kKsPIGyepFv~  245 (319)
T PF04840_consen  178 LSLNDTIRKLIEMGQEKQAEKLKKEFK-----VPDKRFWWLKIKALAENKDWDELEK-FA----KS--KKSPIGYEPFVE  245 (319)
T ss_pred             CCHHHHHHHHHHCCCHHHHHHHHHHcC-----CcHHHHHHHHHHHHHhcCCHHHHHH-HH----hC--CCCCCChHHHHH
Confidence            455556777788898888877755442     4788899999999999999998777 32    22  345688999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          195 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       195 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      +|...|+..+|..+...+          ++..-+..|.+.|++.+|.+.-.+
T Consensus       246 ~~~~~~~~~eA~~yI~k~----------~~~~rv~~y~~~~~~~~A~~~A~~  287 (319)
T PF04840_consen  246 ACLKYGNKKEASKYIPKI----------PDEERVEMYLKCGDYKEAAQEAFK  287 (319)
T ss_pred             HHHHCCCHHHHHHHHHhC----------ChHHHHHHHHHCCCHHHHHHHHHH
Confidence            999999999999998861          224578888999999998776443

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

>PRK11906 transcriptional regulator; Provisional

Probab=96.27  E-value=0.57  Score=39.34  Aligned_cols=157  Identities=16%  Similarity=0.117  Sum_probs=102.3

Q ss_pred             HHHHHHHHhcc-----ChhHHHHHHhhcc---cCCC-CHHHHHHHHHHHHc---------cCcHHHHHHHHHHHHhCCCC
Q 022531           15 ATRIDLMTKVF-----GIHSGERYFEGLP---LSAK-TSETYTALLHLYAG---------AKWTEKAEELFERVKQSNLS   76 (295)
Q Consensus        15 ~~li~~~~~~~-----~~~~A~~~~~~~~---~~~p-~~~~~~~li~~~~~---------~~~~~~a~~~~~~m~~~~~~   76 (295)
                      ...+.+.....     ..+.|..+|.+..   +..| ....|..+..++..         .....+|.++-++..+.+ +
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~  335 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-T  335 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-C
Confidence            45555554422     3677888999888   5556 35555555443322         234667788888888876 5


Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHH
Q 022531           77 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN  155 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  155 (295)
                      -|+.+...+..+..-.++++.|..+|++....  .|| ..+|....-.+.-.|+.++|.+.+++..+.....--..+...
T Consensus       336 ~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~  413 (458)
T PRK11906        336 VDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKE  413 (458)
T ss_pred             CCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHH
Confidence            67888888888888888899999999998885  444 445555555566779999999999987664222223333334


Q ss_pred             HHHHHHhcCchhhHHHHHHH
Q 022531          156 LVNIYITASHLVNAESSTLV  175 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~  175 (295)
                      .+..|+.. .+++|.++++.
T Consensus       414 ~~~~~~~~-~~~~~~~~~~~  432 (458)
T PRK11906        414 CVDMYVPN-PLKNNIKLYYK  432 (458)
T ss_pred             HHHHHcCC-chhhhHHHHhh
Confidence            44455544 46677773333

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.25  E-value=0.15  Score=39.34  Aligned_cols=90  Identities=13%  Similarity=-0.032  Sum_probs=40.8

Q ss_pred             hcCCHHHHHHHHHHHHhCCCC--CChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC-CHHHHHHHHHHHHhcCchh
Q 022531           91 SVGQVEKVALVVEEIKRKNVV--PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD-DWVKYVNLVNIYITASHLV  167 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  167 (295)
                      +.|++.+|...|....+....  -....+.-|..++...|+++.|..+|..+.+..+..| -+..+-.+..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            344455555555555543211  0112233445555555555555555555544322212 1233444445555555555


Q ss_pred             hHHHHHHHHHHHhc
Q 022531          168 NAESSTLVEAEKSI  181 (295)
Q Consensus       168 ~a~~~~~~~~~~~~  181 (295)
                      +|.. .+..+.+.-
T Consensus       233 ~A~a-tl~qv~k~Y  245 (262)
T COG1729         233 EACA-TLQQVIKRY  245 (262)
T ss_pred             HHHH-HHHHHHHHC
Confidence            5555 555444444

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.22  E-value=0.55  Score=38.63  Aligned_cols=32  Identities=25%  Similarity=0.013  Sum_probs=23.0

Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          255 FDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       255 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      .+--.+..++.++.-.|+.++|.+..++|...
T Consensus       303 ~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  303 QDYWDVATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             ccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            34445566777788888888888888887764

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.19  E-value=0.65  Score=39.28  Aligned_cols=79  Identities=10%  Similarity=0.061  Sum_probs=52.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCC-CCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHH
Q 022531          190 DFLIILYAGLGNKDKIDQIWKSLRMTKQK-MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFS  268 (295)
Q Consensus       190 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  268 (295)
                      ..+..++-+.|+.++|++.+++|.+..-. -+......|+.++...+.+.++..++.+..+...++.-...|+..+-.+.
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhccccCCchHHHHHHHHHHHHH
Confidence            34666667889999999999988754211 12233446899999999999999999887654433333455666554333

The molecular function of this protein is uncertain.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.15  E-value=0.64  Score=38.81  Aligned_cols=130  Identities=10%  Similarity=0.199  Sum_probs=67.8

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccH-HHHH
Q 022531          115 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY-DFLI  193 (295)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-~~li  193 (295)
                      .+|...++.-.+..-.+.|..+|-++.+.+-..+++.++++++..++. |+...|.. +|+.-....  ||...| +..+
T Consensus       398 ~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         398 FVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYN-IFELGLLKF--PDSTLYKEKYL  473 (660)
T ss_pred             hHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHH-HHHHHHHhC--CCchHHHHHHH
Confidence            445555666555556666666666666653355566666666665543 44555555 444332322  222222 2344


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCC--CHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          194 ILYAGLGNKDKIDQIWKSLRMTKQKM--TSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       194 ~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      ..+.+.++-+.|..+|+.-.+. +.-  -...|..+|.-=..-|++..+..+=++|..
T Consensus       474 ~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         474 LFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            4445566666666666632221 011  123566666666666666666555555544

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.14  E-value=0.51  Score=41.18  Aligned_cols=218  Identities=11%  Similarity=0.073  Sum_probs=110.5

Q ss_pred             CHHHHHHHHHHHHhccChhH--HHHHHhhcccCC--CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH--
Q 022531           10 SDSDYATRIDLMTKVFGIHS--GERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYN--   83 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~--A~~~~~~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--   83 (295)
                      +.-.++..=.+|.+-++..-  ...-+++++.++  |+..   .+...|+-.|++.+|-++|.+--..+  .-...|+  
T Consensus       597 eAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~i---LlA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDl  671 (1081)
T KOG1538|consen  597 EALDFETARKAYIRVRDLRYLELISELEERKKRGETPNDL---LLADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDL  671 (1081)
T ss_pred             hhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHH---HHHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHH
Confidence            34456677778877776443  333344555442  4433   23455666788888888775432111  0011111  


Q ss_pred             ---HHHHHHHhcCCHHHHHHHHHHHHh--CCC-CCChHhHHHHHHHHHccCCHHHHHHHHHH---------HhhcCCCCC
Q 022531           84 ---EMMTLYMSVGQVEKVALVVEEIKR--KNV-VPDIFTYNLWISSCAATLNIDQVKKFLDE---------MSCDSGGSD  148 (295)
Q Consensus        84 ---~li~~~~~~~~~~~a~~~~~~m~~--~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~---------~~~~~~~~~  148 (295)
                         ....-+...|..++-..+.++-.+  .++ +|.     +....+...|+.++|..+..+         +-.+ -...
T Consensus       672 RMFD~aQE~~~~g~~~eKKmL~RKRA~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rk-ld~~  745 (1081)
T KOG1538|consen  672 RMFDYAQEFLGSGDPKEKKMLIRKRADWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARK-LDKA  745 (1081)
T ss_pred             HHHHHHHHHhhcCChHHHHHHHHHHHHHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhh-cchh
Confidence               122233344444433333322111  111 121     123334455666666544211         1111 1122


Q ss_pred             CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHh-----
Q 022531          149 DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN-----  223 (295)
Q Consensus       149 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~-----  223 (295)
                      +..+...+..-+.+...+.-|-+ +|..+-+         ...+++.....++|.+|..+-+..-+  ..|+...     
T Consensus       746 ere~l~~~a~ylk~l~~~gLAae-IF~k~gD---------~ksiVqlHve~~~W~eAFalAe~hPe--~~~dVy~pyaqw  813 (1081)
T KOG1538|consen  746 EREPLLLCATYLKKLDSPGLAAE-IFLKMGD---------LKSLVQLHVETQRWDEAFALAEKHPE--FKDDVYMPYAQW  813 (1081)
T ss_pred             hhhHHHHHHHHHhhccccchHHH-HHHHhcc---------HHHHhhheeecccchHhHhhhhhCcc--ccccccchHHHH
Confidence            33344444455555666666666 5554422         23456667788888888888775433  2333221     


Q ss_pred             ------HHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          224 ------YICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       224 ------~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                            |...-++|.++|+-.+|.++++++...
T Consensus       814 LAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  814 LAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             hhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence                  344566788888888888888887553

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.13  E-value=0.65  Score=38.76  Aligned_cols=148  Identities=11%  Similarity=0.105  Sum_probs=104.1

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC-CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 022531           79 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKN-VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  157 (295)
Q Consensus        79 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  157 (295)
                      ..+|...|+...+...++.|.++|-+..+.| +.+++..+++.|..++ .|++..|..+|+-=...  ++.+..--+..+
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 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            4567778888888888999999999999988 6778888888887765 46788888888874442  233334345677


Q ss_pred             HHHHhcCchhhHHHHHHHHHHHhcCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHH
Q 022531          158 NIYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL  232 (295)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~  232 (295)
                      ..+.+.++-+.|.. +|+......... -...|..+|.--...|+...+..+=++|.+.  -|...+......-|.
T Consensus       474 ~fLi~inde~nara-LFetsv~r~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~--~pQen~~evF~Sry~  546 (660)
T COG5107         474 LFLIRINDEENARA-LFETSVERLEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL--VPQENLIEVFTSRYA  546 (660)
T ss_pred             HHHHHhCcHHHHHH-HHHHhHHHHHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH--cCcHhHHHHHHHHHh
Confidence            78888888888888 777544433221 1357888888888888888888777777664  444444433444443

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.12  E-value=0.25  Score=33.76  Aligned_cols=140  Identities=19%  Similarity=0.271  Sum_probs=81.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      ..-.|..++..++..+...+   .+..-+|-+|--....-+-+-..++++.+-+-..+.+-. -...++.+|++.|...+
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis~C~-NlKrVi~C~~~~n~~se   87 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDISKCG-NLKRVIECYAKRNKLSE   87 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GGG-S--THHHHHHHHHTT---H
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhhcCchhhc-chHHHHHHHHHhcchHH
Confidence            34467788888888887764   244445555544445555566667776665532111111 12345566666555443


Q ss_pred             HHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          169 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      -..                   .-+......|+-+...+++..+.+.+ ++++.....+..+|.+.|+..++.+++.+.-
T Consensus        88 ~vD-------------------~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~AC  147 (161)
T PF09205_consen   88 YVD-------------------LALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEAC  147 (161)
T ss_dssp             HHH-------------------HHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHH-------------------HHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence            322                   33445577888888888888887543 7788888889999999999999999999888


Q ss_pred             hhcC
Q 022531          249 QSAT  252 (295)
Q Consensus       249 ~~~~  252 (295)
                      +.|.
T Consensus       148 ekG~  151 (161)
T PF09205_consen  148 EKGL  151 (161)
T ss_dssp             HTT-
T ss_pred             Hhch
Confidence            8764

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.03  E-value=0.67  Score=37.95  Aligned_cols=253  Identities=13%  Similarity=0.049  Sum_probs=138.7

Q ss_pred             ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV  102 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  102 (295)
                      .|+.+.|.+-|+-|....- -.--...|.-.--+.|.-+.|.+.-++.-..- +--.-.+...+...+..|+|+.|+++.
T Consensus       133 eG~~~~Ar~kfeAMl~dPEtRllGLRgLyleAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLv  211 (531)
T COG3898         133 EGDYEDARKKFEAMLDDPETRLLGLRGLYLEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLV  211 (531)
T ss_pred             cCchHHHHHHHHHHhcChHHHHHhHHHHHHHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHH
Confidence            4667777777776665311 11112222222334566666666655554432 122446677777777888888888877


Q ss_pred             HHHHhCC-CCCChH--hHHHHHHHHH---ccCCHHHHHHHHHHHhhcCCCCCCHH-HHHHHHHHHHhcCchhhHHHHHHH
Q 022531          103 EEIKRKN-VVPDIF--TYNLWISSCA---ATLNIDQVKKFLDEMSCDSGGSDDWV-KYVNLVNIYITASHLVNAESSTLV  175 (295)
Q Consensus       103 ~~m~~~~-~~p~~~--~~~~li~~~~---~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~  175 (295)
                      +.-++.. +.++..  .-..|+.+-.   -..+...|...-.+..+   ..|+.. .-..-..++.+.|+..++-. +++
T Consensus       212 d~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~~A~~a~K---L~pdlvPaav~AAralf~d~~~rKg~~-ilE  287 (531)
T COG3898         212 DAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARDDALEANK---LAPDLVPAAVVAARALFRDGNLRKGSK-ILE  287 (531)
T ss_pred             HHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHhh---cCCccchHHHHHHHHHHhccchhhhhh-HHH
Confidence            7655433 333322  1222332211   11244555554444333   223322 22244567788888888888 788


Q ss_pred             HHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc-cCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCC
Q 022531          176 EAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT-KQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSATS  253 (295)
Q Consensus       176 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~  253 (295)
                      .+-+..+.|+..    ++..+.+.|+  .+..-+++.... .++|| ....-.+..+-...|++..|..--+.....   
T Consensus       288 ~aWK~ePHP~ia----~lY~~ar~gd--ta~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~---  358 (531)
T COG3898         288 TAWKAEPHPDIA----LLYVRARSGD--TALDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAARE---  358 (531)
T ss_pred             HHHhcCCChHHH----HHHHHhcCCC--cHHHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhh---
Confidence            777777776632    2222344444  333333333221 13444 344456777778888888777665555442   


Q ss_pred             CCCHHHHHHHHHHHHc-cCChHHHHHHHHHHHhcCCCC
Q 022531          254 DFDISACNRLLGAFSD-VGLTEKANEFHMLLLQKNCAP  290 (295)
Q Consensus       254 ~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~m~~~g~~p  290 (295)
                      .|....|..|.+.-.. .|+-.++...+.+.+..--.|
T Consensus       359 ~pres~~lLlAdIeeAetGDqg~vR~wlAqav~APrdP  396 (531)
T COG3898         359 APRESAYLLLADIEEAETGDQGKVRQWLAQAVKAPRDP  396 (531)
T ss_pred             CchhhHHHHHHHHHhhccCchHHHHHHHHHHhcCCCCC
Confidence            4777777766665543 488888888888877654444

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.01  E-value=0.31  Score=34.03  Aligned_cols=43  Identities=19%  Similarity=0.284  Sum_probs=21.6

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 022531           49 ALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   92 (295)
Q Consensus        49 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~   92 (295)
                      .++..+...+........++.+...+ +.+...++.++..|++.
T Consensus        12 ~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~   54 (140)
T smart00299       12 EVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKY   54 (140)
T ss_pred             HHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHH
Confidence            34444444455555555555555444 24444555555555543

>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=95.99  E-value=0.33  Score=35.55  Aligned_cols=98  Identities=11%  Similarity=0.010  Sum_probs=59.5

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCChHhHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN--ALMYNEMMTLYMSVGQVEKVALVVEEIKRK---NVVPDIFTYNL  119 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~  119 (295)
                      ..+..+...|++.|+.+.|++.|.++.+....|.  ...+-.+|+.....+++..+...+.+....   |-.++...--.
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4667777888888888888888888777654433  234566777777778888777777665543   22122111111


Q ss_pred             HHHH--HHccCCHHHHHHHHHHHhh
Q 022531          120 WISS--CAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       120 li~~--~~~~~~~~~a~~~~~~~~~  142 (295)
                      ...+  +...+++..|-+.|-+...
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHccCc
Confidence            1111  3345677777777666544

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.

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=95.99  E-value=0.56  Score=37.52  Aligned_cols=129  Identities=12%  Similarity=0.139  Sum_probs=63.0

Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHc--cC----CHHHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHHhcCch-
Q 022531           96 EKVALVVEEIKRKNVVPDIFTYNLWISSCAA--TL----NIDQVKKFLDEMSCDSGG--SDDWVKYVNLVNIYITASHL-  166 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~--~~----~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~-  166 (295)
                      ++.+.+++.|.+.|..-+..+|-+..-....  ..    ...+|..+|+.|++...+  .++-..+..++..  ...+. 
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            4455666677777776666555543332222  11    245667777777764222  2222333333322  22222 


Q ss_pred             ---hhHHHHHHHHHHHhcCCC-ccccHHHHHHHHHh-cCC--HHHHHHHHHHHHhccCCCCHHhHHHH
Q 022531          167 ---VNAESSTLVEAEKSITQR-QWITYDFLIILYAG-LGN--KDKIDQIWKSLRMTKQKMTSRNYICI  227 (295)
Q Consensus       167 ---~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~-~g~--~~~a~~~~~~m~~~~~~~~~~~~~~l  227 (295)
                         +.++. .++.+.+.+... |..-+.+-+-++.. ...  ..++.++++.+.+.|+++....|..+
T Consensus       157 ~l~~~~E~-~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~l  223 (297)
T PF13170_consen  157 ELAERMEQ-CYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTL  223 (297)
T ss_pred             HHHHHHHH-HHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHH
Confidence               33444 555555534332 22222222222221 111  44677788888888887777666543

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.99  E-value=0.66  Score=37.59  Aligned_cols=198  Identities=12%  Similarity=0.028  Sum_probs=98.6

Q ss_pred             HHHHHHHHHHhccChhHHHHH----HhhcccCCC---CHHHHHHHHHHHHccCcHHHHHHHHHHHHh-CCCCC---CHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERY----FEGLPLSAK---TSETYTALLHLYAGAKWTEKAEELFERVKQ-SNLSF---NALM   81 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~----~~~~~~~~p---~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-~~~~p---~~~~   81 (295)
                      +|..+..+.++.|.+++++..    .+...+...   -...|-.+.+++-+--++.+++.+-..-.. .|..|   -...
T Consensus        45 ~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~  124 (518)
T KOG1941|consen   45 VLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQV  124 (518)
T ss_pred             HhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchh
Confidence            344555566666666655432    111111111   233444444454444445555444433221 12222   1233


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCC-----CCChHhHHHHHHHHHccCCHHHHHHHHHHHhh---cCCCCCCHH-H
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIKRKNV-----VPDIFTYNLWISSCAATLNIDQVKKFLDEMSC---DSGGSDDWV-K  152 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-----~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~~-~  152 (295)
                      ..++..++...+.++++++.|+...+-..     ......|..|...|.+..|+++|.-+.....+   ..++ .++. -
T Consensus       125 ~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l-~d~~~k  203 (518)
T KOG1941|consen  125 SLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGL-KDWSLK  203 (518)
T ss_pred             hhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCc-CchhHH
Confidence            44556666666777777777776654211     11234677777777777788877777665443   2122 2232 2


Q ss_pred             HHH-----HHHHHHhcCchhhHHHHHHHHHHH-hcCCCccccH----HHHHHHHHhcCCHHHHHHHHHHH
Q 022531          153 YVN-----LVNIYITASHLVNAESSTLVEAEK-SITQRQWITY----DFLIILYAGLGNKDKIDQIWKSL  212 (295)
Q Consensus       153 ~~~-----l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~----~~li~~~~~~g~~~~a~~~~~~m  212 (295)
                      |..     +.-++-..|++-+|.+ .-++..+ .....|..++    ..+.+.|...|+.+.|+.-|+..
T Consensus       204 yr~~~lyhmaValR~~G~LgdA~e-~C~Ea~klal~~Gdra~~arc~~~~aDIyR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  204 YRAMSLYHMAVALRLLGRLGDAME-CCEEAMKLALQHGDRALQARCLLCFADIYRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHHHHHHHHHHHHHHhcccccHHH-HHHHHHHHHHHhCChHHHHHHHHHHHHHHHhcccHhHHHHHHHHH
Confidence            322     2334555666666666 4443322 2222233333    24555666777777777666654

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.98  E-value=0.1  Score=40.56  Aligned_cols=89  Identities=16%  Similarity=0.075  Sum_probs=69.5

Q ss_pred             CCHHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC----------------CHHHHHH
Q 022531           77 FNALMYNEMMTLYMSV-----GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL----------------NIDQVKK  135 (295)
Q Consensus        77 p~~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~----------------~~~~a~~  135 (295)
                      -|-.+|-..+..+...     +..+=.-..++.|.+-|+.-|..+|+.|++.+-+-.                +-+-+++
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            3556666666665433     456666677888999999999999999998875532                2356889


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531          136 FLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      ++++|... |+-||..+-..+++++++.+..
T Consensus       145 vLeqME~h-GVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  145 VLEQMEWH-GVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHc-CCCCchHHHHHHHHHhcccccc
Confidence            99999998 9999999999999999888764

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.95  E-value=0.036  Score=29.88  Aligned_cols=28  Identities=11%  Similarity=0.203  Sum_probs=14.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      +|..+...|.+.|++++|+++|++..+.
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~   30 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALAL   30 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555555555555555555555543

>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=95.79  E-value=0.46  Score=34.20  Aligned_cols=51  Identities=18%  Similarity=0.336  Sum_probs=24.4

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH
Q 022531           66 LFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  120 (295)
Q Consensus        66 ~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  120 (295)
                      .++.+.+.+++|+...+..++..+.+.|++.    .+.++.+.++-+|.......
T Consensus        16 YirSl~~~~i~~~~~L~~lli~lLi~~~~~~----~L~qllq~~Vi~DSk~lA~~   66 (167)
T PF07035_consen   16 YIRSLNQHNIPVQHELYELLIDLLIRNGQFS----QLHQLLQYHVIPDSKPLACQ   66 (167)
T ss_pred             HHHHHHHcCCCCCHHHHHHHHHHHHHcCCHH----HHHHHHhhcccCCcHHHHHH
Confidence            3334444555555555555555555555533    23334444444444444333

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.78  E-value=0.29  Score=33.37  Aligned_cols=90  Identities=17%  Similarity=0.132  Sum_probs=51.4

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH-hcCCCccccHHHH---HHHHHh
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK-SITQRQWITYDFL---IILYAG  198 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l---i~~~~~  198 (295)
                      +.+..|+.+.|++.|.+...  -.+....+||.-..++--.|+.++|.+ -+++..+ .+.+ ....+.+.   ...|..
T Consensus        52 alaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALd-DLn~AleLag~~-trtacqa~vQRg~lyRl  127 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALD-DLNKALELAGDQ-TRTACQAFVQRGLLYRL  127 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHH-HHHHHHHhcCcc-chHHHHHHHHHHHHHHH
Confidence            34566777777777777665  345566677777777777777777766 4554443 2222 22222222   223455


Q ss_pred             cCCHHHHHHHHHHHHhcc
Q 022531          199 LGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       199 ~g~~~~a~~~~~~m~~~~  216 (295)
                      .|+-+.|..=|+.....|
T Consensus       128 ~g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  128 LGNDDAARADFEAAAQLG  145 (175)
T ss_pred             hCchHHHHHhHHHHHHhC
Confidence            666666666666555544

>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=95.77  E-value=0.27  Score=35.97  Aligned_cols=96  Identities=11%  Similarity=0.197  Sum_probs=63.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHH--
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD--IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN--  155 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~--  155 (295)
                      ..+..+...|.+.|+.++|++.|.++.+....|.  ...+-.+|+...-.+++..+.....+.........++..-+-  
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            4677888999999999999999999888755444  345677888888889999988888776653211122222221  


Q ss_pred             HHH--HHHhcCchhhHHHHHHHH
Q 022531          156 LVN--IYITASHLVNAESSTLVE  176 (295)
Q Consensus       156 l~~--~~~~~~~~~~a~~~~~~~  176 (295)
                      ...  .+...+++..|-+ .|-.
T Consensus       117 ~~~gL~~l~~r~f~~AA~-~fl~  138 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAE-LFLD  138 (177)
T ss_pred             HHHHHHHHHhchHHHHHH-HHHc
Confidence            111  1234567777777 4443

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.

>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=95.68  E-value=0.49  Score=33.66  Aligned_cols=52  Identities=12%  Similarity=0.036  Sum_probs=24.0

Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           55 AGAKWTEKAEELFERVKQSNLSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        55 ~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      .+.++.+++..++.-+....  |... .-..-...+.+.|+|.+|+.+|+++.+.
T Consensus        21 l~~~~~~D~e~lL~ALrvLR--P~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~   73 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRVLR--PEFPELDLFDGWLHIVRGDWDDALRLLRELEER   73 (160)
T ss_pred             HccCChHHHHHHHHHHHHhC--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc
Confidence            34455555555555554432  2221 1112222344555666666666655443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.66  E-value=0.24  Score=33.78  Aligned_cols=92  Identities=14%  Similarity=-0.089  Sum_probs=68.5

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHh---HHHHHHHHHcc
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT---YNLWISSCAAT  127 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~~~  127 (295)
                      .-+.+..|+++.|++.|.+.+.. .+-....||.-..++.-.|+.++|+.=+++..+..-..+-..   |..-...|-..
T Consensus        50 ~valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   50 AIALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHh
Confidence            45678889999999999988876 355788999999999999999999998888876432223222   33334456778


Q ss_pred             CCHHHHHHHHHHHhhc
Q 022531          128 LNIDQVKKFLDEMSCD  143 (295)
Q Consensus       128 ~~~~~a~~~~~~~~~~  143 (295)
                      |+-+.|..=|+..-+.
T Consensus       129 g~dd~AR~DFe~AA~L  144 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQL  144 (175)
T ss_pred             CchHHHHHhHHHHHHh
Confidence            8888888888876665

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=95.54  E-value=0.68  Score=39.19  Aligned_cols=59  Identities=10%  Similarity=0.066  Sum_probs=49.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          226 CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       226 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      .+..++-+.|+.++|.+.+++|.+......+......|+.++...+.+.++..++.+--
T Consensus       264 RLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYd  322 (539)
T PF04184_consen  264 RLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYD  322 (539)
T ss_pred             HHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhc
Confidence            57778889999999999999998765322345578889999999999999999998864

The molecular function of this protein is uncertain.

>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=95.52  E-value=0.96  Score=35.94  Aligned_cols=222  Identities=10%  Similarity=0.006  Sum_probs=126.6

Q ss_pred             HHhccChhHHHHHHhhcccCC----CC------HHHHHHHHHHHHccC-cHHHHHHHHHHHHhC--------CCCCCH--
Q 022531           21 MTKVFGIHSGERYFEGLPLSA----KT------SETYTALLHLYAGAK-WTEKAEELFERVKQS--------NLSFNA--   79 (295)
Q Consensus        21 ~~~~~~~~~A~~~~~~~~~~~----p~------~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~--------~~~p~~--   79 (295)
                      ..+.|+++.|..++.+.+...    |+      ...|+.=... ...+ +++.|...+++..+.        ...|+.  
T Consensus         3 A~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l-~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~e   81 (278)
T PF08631_consen    3 AWKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSL-LSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSE   81 (278)
T ss_pred             chhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHH-HHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHH
Confidence            357899999999998887642    32      2234433334 4455 888887777654332        122333  


Q ss_pred             ---HHHHHHHHHHHhcCCHH---HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHH
Q 022531           80 ---LMYNEMMTLYMSVGQVE---KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKY  153 (295)
Q Consensus        80 ---~~~~~li~~~~~~~~~~---~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (295)
                         .+...++.+|...+..+   +|..+++.+...... ....+..-+..+.+.++.+.+.+.+.+|....  .-....+
T Consensus        82 lr~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~~--~~~e~~~  158 (278)
T PF08631_consen   82 LRLSILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRSV--DHSESNF  158 (278)
T ss_pred             HHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHhc--ccccchH
Confidence               46778888888887654   566677777554222 35566667788888999999999999999852  2233445


Q ss_pred             HHHHHHH---HhcCchhhHHHHHHHHHHHhcCCCccccHHH--HHH---HHHhcCC------HHHHHHHHHHHHh-ccCC
Q 022531          154 VNLVNIY---ITASHLVNAESSTLVEAEKSITQRQWITYDF--LII---LYAGLGN------KDKIDQIWKSLRM-TKQK  218 (295)
Q Consensus       154 ~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~--li~---~~~~~g~------~~~a~~~~~~m~~-~~~~  218 (295)
                      ..++..+   .... ...+.. .+..+......|....|-.  ++.   ...+.++      .+.+.+++..+.. .+.+
T Consensus       159 ~~~l~~i~~l~~~~-~~~a~~-~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~  236 (278)
T PF08631_consen  159 DSILHHIKQLAEKS-PELAAF-CLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQ  236 (278)
T ss_pred             HHHHHHHHHHHhhC-cHHHHH-HHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCC
Confidence            5555554   3333 334555 4555554444444321211  111   1112111      4445555554332 2334


Q ss_pred             CCHHhHHHH-------HHHHHhcCChHHHHHHHHHHh
Q 022531          219 MTSRNYICI-------LSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       219 ~~~~~~~~l-------i~~~~~~~~~~~A~~~~~~~~  248 (295)
                      .+..+-.++       ...+.+.++++.|.+.|+-..
T Consensus       237 ls~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  237 LSAEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             CCHHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            444443332       223457889999999988543

It is also involved in sporulation [].

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=95.45  E-value=1.3  Score=37.09  Aligned_cols=257  Identities=12%  Similarity=0.010  Sum_probs=140.5

Q ss_pred             HHhccChhHHHHHHhhcccCCC-C------HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HHh
Q 022531           21 MTKVFGIHSGERYFEGLPLSAK-T------SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL--YMS   91 (295)
Q Consensus        21 ~~~~~~~~~A~~~~~~~~~~~p-~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~--~~~   91 (295)
                      +-+.+++++|..+|.++.+... +      ...-+.++++|.. .+++.....+....+.-  | ...|-.|..+  +.+
T Consensus        16 Lqkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y~   91 (549)
T PF07079_consen   16 LQKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQF--G-KSAYLPLFKALVAYK   91 (549)
T ss_pred             HHHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHHH
Confidence            3577899999999998877521 2      3344567777754 55666666666665542  2 3344444444  356


Q ss_pred             cCCHHHHHHHHHHHHhC--CCCC------------ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC----CCHHHH
Q 022531           92 VGQVEKVALVVEEIKRK--NVVP------------DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGS----DDWVKY  153 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~--~~~p------------~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~  153 (295)
                      .+++.+|.+.+....+.  +..|            |...=+..+.++...|++.++..+++++... -.+    -+..+|
T Consensus        92 ~k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~-llkrE~~w~~d~y  170 (549)
T PF07079_consen   92 QKEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIER-LLKRECEWNSDMY  170 (549)
T ss_pred             hhhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHH-HhhhhhcccHHHH
Confidence            78899998888776654  3222            2222344567788999999999999998774 333    678888


Q ss_pred             HHHHHHHHhcCch--------hhHHHHHHHHHH---Hhc----------CCCccccHHHHHHHHHhc--CCHHHHHHHHH
Q 022531          154 VNLVNIYITASHL--------VNAESSTLVEAE---KSI----------TQRQWITYDFLIILYAGL--GNKDKIDQIWK  210 (295)
Q Consensus       154 ~~l~~~~~~~~~~--------~~a~~~~~~~~~---~~~----------~~~~~~~~~~li~~~~~~--g~~~~a~~~~~  210 (295)
                      +-++-++++.=-.        +-+-+ .++++.   +..          ..|-......++....-.  .+..--.++++
T Consensus       171 d~~vlmlsrSYfLEl~e~~s~dl~pd-yYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~  249 (549)
T PF07079_consen  171 DRAVLMLSRSYFLELKESMSSDLYPD-YYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILE  249 (549)
T ss_pred             HHHHHHHhHHHHHHHHHhcccccChH-HHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHH
Confidence            8877666653211        11111 222111   000          111111122222211110  11111222222


Q ss_pred             HHHhccCCCCHHhH-HHHHHHHHhcCChHHHHHHHHHHhhhc---CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          211 SLRMTKQKMTSRNY-ICILSSYLMLGHLKEVGEIIDQWKQSA---TSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       211 ~m~~~~~~~~~~~~-~~li~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .-...-+.|+.... ..++..+..  +.+++..+-+.+....   ..+.=+.++..++....+.++...|.+.+.-+.-
T Consensus       250 ~We~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~  326 (549)
T PF07079_consen  250 NWENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI  326 (549)
T ss_pred             HHHhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh
Confidence            22334456654332 234444443  4444444433332211   1112345788889999999999999999887764

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.41  E-value=0.8  Score=34.37  Aligned_cols=220  Identities=14%  Similarity=0.020  Sum_probs=101.3

Q ss_pred             cChhHHHHHHhhcccCCCC---HHHHHHHHHHHHccCcHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 022531           25 FGIHSGERYFEGLPLSAKT---SETYTALLHLYAGAKWTEKAEELFERVKQS-NLSFNALMYNEMMTLYMSVGQVEKVAL  100 (295)
Q Consensus        25 ~~~~~A~~~~~~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~~a~~  100 (295)
                      +....+...+.......+.   ...+......+...+.+..+...+...... ........+......+...+++..+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            3444444444444443332   355555555566666666666666555431 122334455555555555555666666


Q ss_pred             HHHHHHhCCCCCChHhHHHHHH-HHHccCCHHHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHHhcCchhhHHHHHHHHH
Q 022531          101 VVEEIKRKNVVPDIFTYNLWIS-SCAATLNIDQVKKFLDEMSCDSGG--SDDWVKYVNLVNIYITASHLVNAESSTLVEA  177 (295)
Q Consensus       101 ~~~~m~~~~~~p~~~~~~~li~-~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (295)
                      .+.........+ ......... .+...|+++.+...+.+.... ..  ......+......+...++.+.+.. .+...
T Consensus       117 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~~~~  193 (291)
T COG0457         117 LLEKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALE-LLEKA  193 (291)
T ss_pred             HHHHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHH-HHHHH
Confidence            666555533222 111222222 455556666666666655331 11  1122233333333445555555555 44444


Q ss_pred             HHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          178 EKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       178 ~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      ...........+..+...+...++.+.+...+......  .|+ ...+..+...+...+..+.+...+.....
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            43332212334444555555555555555555554443  222 22222333333344445555555555444

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.33  E-value=0.85  Score=34.22  Aligned_cols=224  Identities=13%  Similarity=-0.028  Sum_probs=157.1

Q ss_pred             cCcHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCChHhHHHHHHHHHccCCHHHHH
Q 022531           57 AKWTEKAEELFERVKQSNLS-FNALMYNEMMTLYMSVGQVEKVALVVEEIKRK-NVVPDIFTYNLWISSCAATLNIDQVK  134 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~~~~~~a~  134 (295)
                      .+....+...+......... .....+......+...+.+..+...+...... ........+......+...+++..+.
T Consensus        36 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  115 (291)
T COG0457          36 LGELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEAL  115 (291)
T ss_pred             HhhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHH
Confidence            46667777777777665422 13677888888899999999999998887752 23345666777778888888899999


Q ss_pred             HHHHHHhhcCCCCCCHHHHHHHHH-HHHhcCchhhHHHHHHHHHHHhcC--CCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 022531          135 KFLDEMSCDSGGSDDWVKYVNLVN-IYITASHLVNAESSTLVEAEKSIT--QRQWITYDFLIILYAGLGNKDKIDQIWKS  211 (295)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~  211 (295)
                      ..+...... ...+ ......... .+...|+++.|.. .+.......+  ......+......+...++.+.+...+..
T Consensus       116 ~~~~~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  192 (291)
T COG0457         116 ELLEKALAL-DPDP-DLAEALLALGALYELGDYEEALE-LYEKALELDPELNELAEALLALGALLEALGRYEEALELLEK  192 (291)
T ss_pred             HHHHHHHcC-CCCc-chHHHHHHHHHHHHcCCHHHHHH-HHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHH
Confidence            999988874 2222 222223333 7889999999999 8888755322  12334444444556778999999999998


Q ss_pred             HHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          212 LRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       212 m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ............+..+...+...++.+.|...+.......  +.....+..+...+...|..+.+...+.+...
T Consensus       193 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  264 (291)
T COG0457         193 ALKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKALE  264 (291)
T ss_pred             HHhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHHH
Confidence            8776322135667778888888999999999999888743  22244455555555577778998888887765

>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=95.30  E-value=0.72  Score=33.21  Aligned_cols=55  Identities=13%  Similarity=0.122  Sum_probs=25.2

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          226 CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       226 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+++.+...|++-+|+++.+......  .++.   ..++++..+.++...-..+++-..+
T Consensus        94 ~iievLL~~g~vl~ALr~ar~~~~~~--~~~~---~~fLeAA~~~~D~~lf~~V~~ff~~  148 (167)
T PF07035_consen   94 EIIEVLLSKGQVLEALRYARQYHKVD--SVPA---RKFLEAAANSNDDQLFYAVFRFFEE  148 (167)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHcCCcc--cCCH---HHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45555555566655555555432211  1111   2345555555554444444444433

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=95.29  E-value=1.1  Score=35.24  Aligned_cols=117  Identities=13%  Similarity=0.034  Sum_probs=58.4

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh-cCc-hhhHHHHHHHHHHH-hcCCCccccHHHHHHHHHhcCCHHHH
Q 022531          129 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT-ASH-LVNAESSTLVEAEK-SITQRQWITYDFLIILYAGLGNKDKI  205 (295)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~-~~~a~~~~~~~~~~-~~~~~~~~~~~~li~~~~~~g~~~~a  205 (295)
                      ...+|+.+|+.......+.-|..+...+++.... .+. ...-.+ +.+.+.. .+..++..+....+..++..+++.+.
T Consensus       143 ~Vv~aL~L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYE-vV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~kl  221 (292)
T PF13929_consen  143 IVVEALKLYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYE-VVDFLVSTFSKSLTRNVIISILEILAESRDWNKL  221 (292)
T ss_pred             HHHHHHHHhhccCcccceeeChHHHHHHHHHHHhccccchhhHHH-HHHHHHhccccCCChhHHHHHHHHHHhcccHHHH
Confidence            3455666655322211344455555555555444 111 111122 2222222 12344455555666666666666666


Q ss_pred             HHHHHHHHhc-cCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          206 DQIWKSLRMT-KQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       206 ~~~~~~m~~~-~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      .++++..... +..-|...|..+|+.....|+..-..+++++
T Consensus       222 ~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  222 FQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            6666655433 3344555666666666666666665555543

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.22  E-value=0.67  Score=32.31  Aligned_cols=76  Identities=9%  Similarity=0.010  Sum_probs=44.6

Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCC-CCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh
Q 022531          122 SSCAATLNIDQVKKFLDEMSCDSGGS-DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG  198 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  198 (295)
                      ....+.|++++|.+.|+.+..+.... -...+--.++.+|-+.+++++|.. .+++..+..+...-+.|-..+.+++.
T Consensus        18 ~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a-~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   18 QEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIA-AYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHH-HHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            34456677777777777776642111 123445566677777777777777 66666666555444555555555443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.20  E-value=0.67  Score=32.29  Aligned_cols=53  Identities=13%  Similarity=0.104  Sum_probs=24.3

Q ss_pred             ccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           56 GAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      +.|++++|.+.|+.+..+-  -+-...+--.|+.+|.+.+++++|...+++..+.
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirL   76 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRL   76 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence            4455555555555554431  0112233344455555555555555555555543

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.13  E-value=0.064  Score=27.41  Aligned_cols=23  Identities=26%  Similarity=0.352  Sum_probs=12.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEE  104 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~  104 (295)
                      |+.|...|.+.|++++|+++|++
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~   24 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQ   24 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44555555555555555555555

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=95.07  E-value=0.028  Score=28.75  Aligned_cols=25  Identities=32%  Similarity=0.235  Sum_probs=15.2

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHH
Q 022531          260 CNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       260 ~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      |..|...|.+.|++++|.+++++.+
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4556666666666666666666644

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=94.95  E-value=1.8  Score=35.84  Aligned_cols=154  Identities=12%  Similarity=0.006  Sum_probs=79.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH--HHccCCHHHHHHHHHHHhhcCCCCCCHHHHH---HH------
Q 022531           88 LYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS--CAATLNIDQVKKFLDEMSCDSGGSDDWVKYV---NL------  156 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~l------  156 (295)
                      ++...|+.++|.+.--..++..-   ...+...+++  +--.++.+.|...|++....   .|+...-.   ..      
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld~---~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l---dpdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLDA---TNAEALYVRGLCLYYNDNADKAINHFQQALRL---DPDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhccc---chhHHHHhcccccccccchHHHHHHHhhhhcc---ChhhhhHHhHhhhHHHHHH
Confidence            34556777777666555554321   1223333333  23445666777777666653   23322111   11      


Q ss_pred             ----HHHHHhcCchhhHHHHHHHHHHHhcC---CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-HHhHHHHH
Q 022531          157 ----VNIYITASHLVNAESSTLVEAEKSIT---QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICIL  228 (295)
Q Consensus       157 ----~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li  228 (295)
                          .+-..+.|++..|.+ .+.+.....+   .++...|.....+..+.|+..+|+.--++..+.  .|. ...|..-.
T Consensus       252 ~k~~gN~~fk~G~y~~A~E-~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~i--D~syikall~ra  328 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYE-CYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKI--DSSYIKALLRRA  328 (486)
T ss_pred             HHhhhhhHhhccchhHHHH-HHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhc--CHHHHHHHHHHH
Confidence                123346677777777 6665554322   334445555555666777777777766655432  111 11122233


Q ss_pred             HHHHhcCChHHHHHHHHHHhhh
Q 022531          229 SSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       229 ~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      .++...+++++|.+-|+...+.
T Consensus       329 ~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  329 NCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhh
Confidence            3455566777777777666553

>PRK11906 transcriptional regulator; Provisional

Probab=94.45  E-value=2.7  Score=35.56  Aligned_cols=158  Identities=8%  Similarity=-0.019  Sum_probs=81.2

Q ss_pred             HHHHHHHHccC-----CHHHHHHHHHHHhhcCCCCCC-HHHHHHHHHHHHhc---------CchhhHHHHHHHHHHHhcC
Q 022531          118 NLWISSCAATL-----NIDQVKKFLDEMSCDSGGSDD-WVKYVNLVNIYITA---------SHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       118 ~~li~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~  182 (295)
                      ...+++.....     ..+.|+.+|.+........|+ ...|..+..++...         ....+|.+ ..++..+.. 
T Consensus       257 d~ylrg~~~~~~~t~~~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~-~A~rAveld-  334 (458)
T PRK11906        257 DEMLAGKKELYDFTPESIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALE-LLDYVSDIT-  334 (458)
T ss_pred             HHHHHHHHHhhccCHHHHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHH-HHHHHHhcC-
Confidence            55555544321     245677777777732222333 34444444333221         12233444 333333333 


Q ss_pred             CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHH
Q 022531          183 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN  261 (295)
Q Consensus       183 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  261 (295)
                      ..|......+..+....++++.+..+|++....  .||. ..|......+.-.|+.++|.+.+++..+....+.-.....
T Consensus       335 ~~Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~  412 (458)
T PRK11906        335 TVDGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIK  412 (458)
T ss_pred             CCCHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHH
Confidence            235555556666666677788888888877664  4554 3344444455567888888888887665432222223333


Q ss_pred             HHHHHHHccCChHHHHHHH
Q 022531          262 RLLGAFSDVGLTEKANEFH  280 (295)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~  280 (295)
                      ..++.|+..+ .+.|..++
T Consensus       413 ~~~~~~~~~~-~~~~~~~~  430 (458)
T PRK11906        413 ECVDMYVPNP-LKNNIKLY  430 (458)
T ss_pred             HHHHHHcCCc-hhhhHHHH
Confidence            3344555444 34444444

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=94.37  E-value=1.2  Score=31.24  Aligned_cols=50  Identities=10%  Similarity=-0.000  Sum_probs=22.4

Q ss_pred             ccChhHHHHHHhhcccCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 022531           24 VFGIHSGERYFEGLPLSAKT-SETYTALLHLYAGAKWTEKAEELFERVKQS   73 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   73 (295)
                      .++++++..+++-|.-..|+ ...-..-...+...|++.+|.++|+++.+.
T Consensus        23 ~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        23 SADPYDAQAMLDALRVLRPNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             cCCHHHHHHHHHHHHHhCCCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            45555555555554444331 111111222333455555555555555544

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.32  E-value=0.14  Score=25.59  Aligned_cols=27  Identities=30%  Similarity=0.260  Sum_probs=16.1

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          259 ACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +|..+..+|...|++++|...|++.++
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALE   29 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHH
Confidence            455566666666666666666666655

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=94.30  E-value=1.3  Score=31.51  Aligned_cols=117  Identities=16%  Similarity=0.021  Sum_probs=61.1

Q ss_pred             HHHHHHH---HHHhcCchhhHHHHHHHHHHHhcCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHH
Q 022531          152 KYVNLVN---IYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICI  227 (295)
Q Consensus       152 ~~~~l~~---~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l  227 (295)
                      +.+.|+.   .-.+.++.+++.. ++..+.--.+.. ...++..  ..+...|++.+|+++|+++.+..  |....-..|
T Consensus         9 iv~gLie~~~~al~~~~~~D~e~-lL~ALrvLRP~~~e~~~~~~--~l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kAL   83 (160)
T PF09613_consen    9 IVGGLIEVLSVALRLGDPDDAEA-LLDALRVLRPEFPELDLFDG--WLHIVRGDWDDALRLLRELEERA--PGFPYAKAL   83 (160)
T ss_pred             HHHHHHHHHHHHHccCChHHHHH-HHHHHHHhCCCchHHHHHHH--HHHHHhCCHHHHHHHHHHHhccC--CCChHHHHH
Confidence            4444444   3456778888888 777665444331 2222322  34578899999999999986653  333233344


Q ss_pred             HHHHHhcCChHHHHHHHH-HHhhhcCCCCCHHHHHHHHHHHHccCChHHHHH
Q 022531          228 LSSYLMLGHLKEVGEIID-QWKQSATSDFDISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       228 i~~~~~~~~~~~A~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      +..|....+ +-.++.+- ++.+.+. .|+..   .++..+....+...|..
T Consensus        84 lA~CL~~~~-D~~Wr~~A~evle~~~-d~~a~---~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   84 LALCLYALG-DPSWRRYADEVLESGA-DPDAR---ALVRALLARADLEPAHE  130 (160)
T ss_pred             HHHHHHHcC-ChHHHHHHHHHHhcCC-ChHHH---HHHHHHHHhccccchhh
Confidence            444433222 22344443 3444332 23332   35556655555544443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.30  E-value=0.58  Score=30.29  Aligned_cols=60  Identities=8%  Similarity=-0.002  Sum_probs=42.7

Q ss_pred             HHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHH
Q 022531          204 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  265 (295)
Q Consensus       204 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  265 (295)
                      +..+-++.+....+-|++....+.+++|.|.+++..|.++|+..+.+...  ....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~--~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGN--KKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT---TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--hHHHHHHHHH
Confidence            55666667777778899999999999999999999999999988776543  2336777764

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 ....

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=94.25  E-value=0.032  Score=28.16  Aligned_cols=21  Identities=33%  Similarity=0.439  Sum_probs=10.1

Q ss_pred             CHHHHHHHHHHHHccCcHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKA   63 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a   63 (295)
                      +...|+.+...+...|++++|
T Consensus        12 n~~a~~nla~~~~~~g~~~~A   32 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEA   32 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhh
Confidence            444444444444444444444

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=94.24  E-value=2.6  Score=34.71  Aligned_cols=220  Identities=10%  Similarity=-0.020  Sum_probs=143.5

Q ss_pred             HHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC-CCCCHHH--HHHHHHHHHh---cC
Q 022531           21 MTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNALM--YNEMMTLYMS---VG   93 (295)
Q Consensus        21 ~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~~~--~~~li~~~~~---~~   93 (295)
                      .-+.|..+.|..+-+......| -...+.+.+...+..|+|+.|+++++.-++.. +.++..-  --.|+.+-..   ..
T Consensus       164 Aqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~lda  243 (531)
T COG3898         164 AQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDA  243 (531)
T ss_pred             HHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcC
Confidence            3567888899998888887767 57799999999999999999999999766543 3444331  2233333221   13


Q ss_pred             CHHHHHHHHHHHHhCCCCCChHh-HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHH
Q 022531           94 QVEKVALVVEEIKRKNVVPDIFT-YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  172 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  172 (295)
                      +...|...-.+..+  +.||..- -..-..++.+.|+..++-.+++.+.+.   .|.+.+.  .+-.+.+.|+.....--
T Consensus       244 dp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~---ePHP~ia--~lY~~ar~gdta~dRlk  316 (531)
T COG3898         244 DPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKA---EPHPDIA--LLYVRARSGDTALDRLK  316 (531)
T ss_pred             ChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhc---CCChHHH--HHHHHhcCCCcHHHHHH
Confidence            45556555544444  4566433 333456789999999999999999986   3555442  23334555554322210


Q ss_pred             HHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHH-hcCChHHHHHHHHHHhhh
Q 022531          173 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL-MLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~-~~~~~~~A~~~~~~~~~~  250 (295)
                      -...+ ....+.+...-..+..+-...|++..|..--+....  ..|....|..|.+.-. ..||-.++.+.+.+..+.
T Consensus       317 Ra~~L-~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r--~~pres~~lLlAdIeeAetGDqg~vR~wlAqav~A  392 (531)
T COG3898         317 RAKKL-ESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAR--EAPRESAYLLLADIEEAETGDQGKVRQWLAQAVKA  392 (531)
T ss_pred             HHHHH-HhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhh--hCchhhHHHHHHHHHhhccCchHHHHHHHHHHhcC
Confidence            12222 223333555556667777788888888776665544  3788888888877654 459999999998887763

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.24  E-value=2.6  Score=34.61  Aligned_cols=193  Identities=12%  Similarity=0.035  Sum_probs=92.4

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC---CC-CCHHHHHHHHHHHHhc
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN---LS-FNALMYNEMMTLYMSV   92 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~-p~~~~~~~li~~~~~~   92 (295)
                      ..++.-+.|+++...+.........++...+.++...  +.++++++....+.....-   +. .....|...-....+.
T Consensus         4 ~~eaaWrl~~Wd~l~~~~~~~~~~~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~~~~~~l~~~~~~s~~~~y~~l~~l   81 (352)
T PF02259_consen    4 AAEAAWRLGDWDLLEEYLSQSNEDSPEYSFYRALLAL--RQGDYDEAKKYIEKARQLLLDELSALSSESYQRAYPSLVKL   81 (352)
T ss_pred             HHHHHHhcCChhhHHHHHhhccCCChhHHHHHHHHHH--hCccHHHHHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHH
Confidence            4567778888888777777776655566666666555  7788888888877665431   00 0112222222222222


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc-----cCCHHHHHHHH---HHHhhc-CCCCCCHHHHHHHHHHHHhc
Q 022531           93 GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA-----TLNIDQVKKFL---DEMSCD-SGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-----~~~~~~a~~~~---~~~~~~-~~~~~~~~~~~~l~~~~~~~  163 (295)
                      ..+.+..++.+-.....  .+......++.....     ..+++.-..++   ..+... ........++..++..+.+.
T Consensus        82 q~L~Elee~~~~~~~~~--~~~~~~~~l~~~W~~Rl~~~~~~~~~~~~il~~R~~~l~~~~~~~~~~~~~l~~a~~aRk~  159 (352)
T PF02259_consen   82 QQLVELEEIIELKSNLS--QNPQDLKSLLKRWRSRLPNMQDDFSVWEPILSLRRLVLSLILLPEELAETWLKFAKLARKA  159 (352)
T ss_pred             hHHHHHHHHHHHHHhhc--ccHHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHC
Confidence            22222222222111100  001111111111110     11111111111   111110 01234445677777777788


Q ss_pred             CchhhHHHHHHHHHHHhcCCC---ccccHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          164 SHLVNAESSTLVEAEKSITQR---QWITYDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      |+++.|.. .+..+.......   .....-.-+...-..|+..+|+..++...+
T Consensus       160 g~~~~A~~-~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  160 GNFQLALS-ALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             CCcHHHHH-HHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            88888877 666665533221   222333344455667777777777777665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.23  E-value=3.2  Score=37.63  Aligned_cols=246  Identities=11%  Similarity=0.053  Sum_probs=143.6

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccC------------------CCCHHHHHHHHHHHHccCcHHHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLS------------------AKTSETYTALLHLYAGAKWTEKAEELFERVK   71 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~------------------~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~   71 (295)
                      +..+.+.++.+|...+++-.-.-+++.+.+.                  .-.......-+..+.+...++.|+.+-+   
T Consensus       282 s~ss~~~i~~~~d~~n~~v~ys~vl~~l~d~l~~w~~~~~vltsdg~~~~L~ek~le~kL~iL~kK~ly~~Ai~LAk---  358 (933)
T KOG2114|consen  282 SNSSSNRIFKAYDLRNRYVLYSSVLEDLSDNLIEWSFDCLVLTSDGVVHELIEKDLETKLDILFKKNLYKVAINLAK---  358 (933)
T ss_pred             CccchhheeehhhhcCcccchHHhHHHHHHHHHhcCCcEEEEecCCceeeeeeccHHHHHHHHHHhhhHHHHHHHHH---
Confidence            4455677777777777744333333322111                  0123344556777777788888877654   


Q ss_pred             hCCCCCCHHHHHHHHHH----HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC
Q 022531           72 QSNLSFNALMYNEMMTL----YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGS  147 (295)
Q Consensus        72 ~~~~~p~~~~~~~li~~----~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  147 (295)
                      ..+.  |..+...+...    +.+.|++++|...|-+-... +.|.     .+|.-|....+..+--.+++.+.+. |..
T Consensus       359 ~~~~--d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~-gla  429 (933)
T KOG2114|consen  359 SQHL--DEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKK-GLA  429 (933)
T ss_pred             hcCC--CHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHc-ccc
Confidence            3333  34444444444    45789999999888766543 3333     3566667777788888888888886 543


Q ss_pred             CCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc-cccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHH
Q 022531          148 DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ-WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYIC  226 (295)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~  226 (295)
                       +...-+.|+.+|.+.++.+.-.+ +..    .+.... ..-....+..+.+.+-.++|..+-.....     +...   
T Consensus       430 -~~dhttlLLncYiKlkd~~kL~e-fI~----~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~v---  495 (933)
T KOG2114|consen  430 -NSDHTTLLLNCYIKLKDVEKLTE-FIS----KCDKGEWFFDVETALEILRKSNYLDEAELLATKFKK-----HEWV---  495 (933)
T ss_pred             -cchhHHHHHHHHHHhcchHHHHH-HHh----cCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHH---
Confidence             44555789999999999988777 433    232111 11244556666777777777766554332     2333   


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          227 ILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       227 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      +--.+-..+++++|++++..+.-.... +....|..   .+. ....++...++-+....
T Consensus       496 l~ille~~~ny~eAl~yi~slp~~e~l-~~l~kyGk---~Ll-~h~P~~t~~ili~~~t~  550 (933)
T KOG2114|consen  496 LDILLEDLHNYEEALRYISSLPISELL-RTLNKYGK---ILL-EHDPEETMKILIELITE  550 (933)
T ss_pred             HHHHHHHhcCHHHHHHHHhcCCHHHHH-HHHHHHHH---HHH-hhChHHHHHHHHHHHhh
Confidence            333345678899999999875322211 22223322   222 23455666666555443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.20  E-value=0.52  Score=30.19  Aligned_cols=46  Identities=9%  Similarity=0.180  Sum_probs=25.2

Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      ++.+-++.+....+.|++....+.+++|-+.+++..|..+|+.++.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3444444455555555555555555555555555555555555553

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.

>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=94.18  E-value=1.1  Score=33.26  Aligned_cols=81  Identities=7%  Similarity=-0.034  Sum_probs=60.1

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc--CCCCCCHHHHHHHHHHHHhcCch
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD--SGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      ..+.|+ ++|.+.|-++...+.--++.....|...|. ..+.++++.++.+....  .+-.+|+.++.+|+..|-+.|++
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~  194 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNY  194 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcch
Confidence            444454 678888888888776656666666666665 56889999988887653  13367888999999999999999


Q ss_pred             hhHHH
Q 022531          167 VNAES  171 (295)
Q Consensus       167 ~~a~~  171 (295)
                      +.|.-
T Consensus       195 e~AYi  199 (203)
T PF11207_consen  195 EQAYI  199 (203)
T ss_pred             hhhhh
Confidence            98854

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.11  E-value=2.5  Score=34.05  Aligned_cols=150  Identities=11%  Similarity=-0.012  Sum_probs=80.5

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH----HHHHHccCCHHH
Q 022531           57 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW----ISSCAATLNIDQ  132 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l----i~~~~~~~~~~~  132 (295)
                      .|++.+|-..++++.+. .|.|..+++..=.+|.-.|+.+.-...+++.... ..||...|..+    .-++...|-+++
T Consensus       116 ~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~d  193 (491)
T KOG2610|consen  116 RGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYDD  193 (491)
T ss_pred             cccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccchh
Confidence            45556666666666654 4556666666666777777776666666666543 23343333222    222345667777


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc---cccHHHHHHHHHhcCCHHHHHHHH
Q 022531          133 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ---WITYDFLIILYAGLGNKDKIDQIW  209 (295)
Q Consensus       133 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~  209 (295)
                      |.+.-++..+-  .+.|...-.+....+.-.|+..++.+ +..+-...-...+   ..-|-...-.+...+.++.|+++|
T Consensus       194 AEk~A~ralqi--N~~D~Wa~Ha~aHVlem~~r~Keg~e-FM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  194 AEKQADRALQI--NRFDCWASHAKAHVLEMNGRHKEGKE-FMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             HHHHHHhhccC--CCcchHHHHHHHHHHHhcchhhhHHH-HHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            77766666552  34555555666666667777777766 4333221111000   011112222334456777777777


Q ss_pred             HH
Q 022531          210 KS  211 (295)
Q Consensus       210 ~~  211 (295)
                      ++
T Consensus       271 D~  272 (491)
T KOG2610|consen  271 DR  272 (491)
T ss_pred             HH
Confidence            54

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.08  E-value=2.1  Score=33.02  Aligned_cols=54  Identities=9%  Similarity=-0.012  Sum_probs=23.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCC--CCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           90 MSVGQVEKVALVVEEIKRKNV--VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~--~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .+.|++++|.+.|+.+...-+  +-...+.-.++.++-+.++++.|+..+++....
T Consensus        45 L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~l  100 (254)
T COG4105          45 LQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRL  100 (254)
T ss_pred             HhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHh
Confidence            344555555555555543311  001222333344444555555555555554443

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=94.05  E-value=0.5  Score=37.44  Aligned_cols=99  Identities=18%  Similarity=0.181  Sum_probs=68.7

Q ss_pred             CCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCC-----C--CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC
Q 022531            6 EFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSA-----K--TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN   78 (295)
Q Consensus         6 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-----p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~   78 (295)
                      |...+..+...++..-....+++.+...+-.++...     |  +.++|   ++.|. .-+.++++-++..=++.|+-||
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~~~~---irlll-ky~pq~~i~~l~npIqYGiF~d  134 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTIHTW---IRLLL-KYDPQKAIYTLVNPIQYGIFPD  134 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccHHHH---HHHHH-ccChHHHHHHHhCcchhccccc
Confidence            444455555566666666777888888777776651     2  23333   33332 2456688888888888888889


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           79 ALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        79 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      ..+++.+|..+.+.+++.+|.++...|...
T Consensus       135 qf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  135 QFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            999999999999998888888887776654

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.01  E-value=2.4  Score=33.41  Aligned_cols=64  Identities=9%  Similarity=0.059  Sum_probs=35.7

Q ss_pred             CCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh-cCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          146 GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS-ITQRQWITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       146 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      ..++..+...++..++..+++..-.+ +++..... ++..|...|..+|..-...|+..-...+.+
T Consensus       198 ~~l~~~vi~~Il~~L~~~~dW~kl~~-fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~  262 (292)
T PF13929_consen  198 KSLTRNVIISILEILAESRDWNKLFQ-FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIID  262 (292)
T ss_pred             cCCChhHHHHHHHHHHhcccHHHHHH-HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhh
Confidence            44555555566666666666666666 44444333 344456666666666666666555444443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.98  E-value=0.7  Score=29.60  Aligned_cols=63  Identities=8%  Similarity=-0.034  Sum_probs=47.3

Q ss_pred             CHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHH
Q 022531          201 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  265 (295)
Q Consensus       201 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  265 (295)
                      +.-++.+-++.+....+-|++....+.+++|-|.+|+..|.++|+..+.+..  .+...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            3345666667777777889999999999999999999999999998775542  24446766664

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.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.95  E-value=2.9  Score=36.93  Aligned_cols=124  Identities=14%  Similarity=-0.078  Sum_probs=51.8

Q ss_pred             HHhcCchhhHHHHHHHHHHHh----cCCCccccHHHHHHHHHhcC-----CHHHHHHHHHHHHhccCCCCHHhHHHHHHH
Q 022531          160 YITASHLVNAESSTLVEAEKS----ITQRQWITYDFLIILYAGLG-----NKDKIDQIWKSLRMTKQKMTSRNYICILSS  230 (295)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  230 (295)
                      ++...+.+.|.. ++......    -..-......-+..+|.+..     +.+.|..++....+.| .|+...+...+..
T Consensus       259 ~g~~~d~e~a~~-~l~~aa~~~~~~a~~~~~~a~~~lg~~Y~~g~~~~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~  336 (552)
T KOG1550|consen  259 YGVTQDLESAIE-YLKLAAESFKKAATKGLPPAQYGLGRLYLQGLGVEKIDYEKALKLYTKAAELG-NPDAQYLLGVLYE  336 (552)
T ss_pred             ccccccHHHHHH-HHHHHHHHHHHHHhhcCCccccHHHHHHhcCCCCccccHHHHHHHHHHHHhcC-CchHHHHHHHHHH
Confidence            334455566666 55544430    00002223344444444422     3445666665555554 3333332222211


Q ss_pred             HHh-cCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHH--ccCChHHHHHHHHHHHhcC
Q 022531          231 YLM-LGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFS--DVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       231 ~~~-~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~a~~~~~~m~~~g  287 (295)
                      ... ..+...|.++|....+.|.  +....+-.+.....  ...+.+.|..++++..++|
T Consensus       337 ~g~~~~d~~~A~~yy~~Aa~~G~--~~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g  394 (552)
T KOG1550|consen  337 TGTKERDYRRAFEYYSLAAKAGH--ILAIYRLALCYELGLGVERNLELAFAYYKKAAEKG  394 (552)
T ss_pred             cCCccccHHHHHHHHHHHHHcCC--hHHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc
Confidence            111 1344556666665555442  22322222111111  2234555555555555555

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.94  E-value=0.082  Score=26.62  Aligned_cols=31  Identities=29%  Similarity=0.484  Sum_probs=19.3

Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 022531           68 ERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   99 (295)
Q Consensus        68 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~   99 (295)
                      ++.++.. |-+..+|+.+...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444443 345667777777777777777764

>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=93.83  E-value=0.058  Score=37.90  Aligned_cols=129  Identities=15%  Similarity=0.075  Sum_probs=77.5

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc
Q 022531          120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL  199 (295)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  199 (295)
                      ++..+.+.+.++....+++.+... +...+....+.++..|++.+..+...+ ++.       ..+..-...++..|.+.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~-~L~-------~~~~yd~~~~~~~c~~~   83 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLE-FLK-------TSNNYDLDKALRLCEKH   83 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHH-TTT-------SSSSS-CTHHHHHHHTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHH-Hcc-------cccccCHHHHHHHHHhc
Confidence            566777777888888888888865 445667778888888888877777777 333       11223334566667777


Q ss_pred             CCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCCh
Q 022531          200 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLT  273 (295)
Q Consensus       200 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  273 (295)
                      |.++++.-++.++....-         .+..+...++++.|.++..+       .++...|..++..|...+..
T Consensus        84 ~l~~~a~~Ly~~~~~~~~---------al~i~~~~~~~~~a~e~~~~-------~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   84 GLYEEAVYLYSKLGNHDE---------ALEILHKLKDYEEAIEYAKK-------VDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             TSHHHHHHHHHCCTTHTT---------CSSTSSSTHCSCCCTTTGGG-------CSSSHHHHHHHHHHCTSTCT
T ss_pred             chHHHHHHHHHHcccHHH---------HHHHHHHHccHHHHHHHHHh-------cCcHHHHHHHHHHHHhcCcc
Confidence            777777776665432211         11113344555555533322       24567788888877766653

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.80  E-value=1.8  Score=31.28  Aligned_cols=122  Identities=16%  Similarity=0.126  Sum_probs=52.4

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChH-hHHHHH--HHHHccCCHH
Q 022531           56 GAKWTEKAEELFERVKQSNLSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF-TYNLWI--SSCAATLNID  131 (295)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li--~~~~~~~~~~  131 (295)
                      +.+..++|+.-|.++.+.|..--+. .---+.....+.|+...|...|++.-.....|-+. -..-|=  -.+...|.++
T Consensus        70 ~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARlraa~lLvD~gsy~  149 (221)
T COG4649          70 QENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARLRAAYLLVDNGSYD  149 (221)
T ss_pred             HcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHHHHHHHHhccccHH
Confidence            3444555555555555544211110 11111222344555555555555554433333222 111111  1133455555


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Q 022531          132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                      ....-.+.+-.. +.+.-...-.+|.-+-.+.|++.+|.+ +|..+..
T Consensus       150 dV~srvepLa~d-~n~mR~sArEALglAa~kagd~a~A~~-~F~qia~  195 (221)
T COG4649         150 DVSSRVEPLAGD-GNPMRHSAREALGLAAYKAGDFAKAKS-WFVQIAN  195 (221)
T ss_pred             HHHHHhhhccCC-CChhHHHHHHHHhHHHHhccchHHHHH-HHHHHHc
Confidence            555554444433 333333344445555555555555555 5554444

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.76  E-value=1.2  Score=32.79  Aligned_cols=126  Identities=11%  Similarity=0.045  Sum_probs=86.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCC-CCHH-HHH--HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHH---
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSA-KTSE-TYT--ALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYN---   83 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~-p~~~-~~~--~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~---   83 (295)
                      ...|..++.... .+.. +.....+.+.... .+.. ++.  .+...+..++++++|..-++.....   |....+.   
T Consensus        54 S~~Y~~~i~~~~-ak~~-~~~~~~ekf~~~n~~t~Ya~laaL~lAk~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~  128 (207)
T COG2976          54 SAQYQNAIKAVQ-AKKP-KSIAAAEKFVQANGKTIYAVLAALELAKAEVEANNLDKAEAQLKQALAQ---TKDENLKALA  128 (207)
T ss_pred             HHHHHHHHHHHh-cCCc-hhHHHHHHHHhhccccHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHcc---chhHHHHHHH
Confidence            346777777764 3333 4444555555543 3443 333  3456788999999999999877654   2223333   


Q ss_pred             --HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           84 --EMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        84 --~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                        .|.+.....|.+++|+++++.....+..  ......-.+.+...|+-++|..-|++....
T Consensus       129 ~lRLArvq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         129 ALRLARVQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCchHHHHHHHHHHHHc
Confidence              4555677889999999999988776543  334555677789999999999999998886

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=93.70  E-value=6.5  Score=37.29  Aligned_cols=219  Identities=11%  Similarity=0.028  Sum_probs=116.8

Q ss_pred             CCHHHHHHHHHHHHccC--cHHHHHHHHHHHHhCCCCC--------------CHHHHHHHHH----------HHHhcCCH
Q 022531           42 KTSETYTALLHLYAGAK--WTEKAEELFERVKQSNLSF--------------NALMYNEMMT----------LYMSVGQV   95 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p--------------~~~~~~~li~----------~~~~~~~~   95 (295)
                      |+ .-.-.+|.+|++.+  .++.++....+.......+              ....||..+.          +-....++
T Consensus       789 ~~-~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~~~~~~~ad~al~hll~Lvdvn~lfn~ALgtYDl~Lal~VAq~SqkDP  867 (1265)
T KOG1920|consen  789 PD-KFNLFILTSYVKSNPPEIEEALQKIKELQLAQVAVSADEALKHLLFLVDVNELFNSALGTYDLDLALLVAQKSQKDP  867 (1265)
T ss_pred             cc-hhhHHHHHHHHhcCcHHHHHHHHHHHHHHhcccchhHHHHHHHHHhhccHHHHHHhhhcccchHHHHHHHHHhccCh
Confidence            44 44556777888777  6777777766666421111              1223333222          22344567


Q ss_pred             HHHHHHHHHHHhC-----CCCCCh--HhHHHHHHHHHccC--CHHHHHHHHHH------HhhcCCCCCCHHHHHHH----
Q 022531           96 EKVALVVEEIKRK-----NVVPDI--FTYNLWISSCAATL--NIDQVKKFLDE------MSCDSGGSDDWVKYVNL----  156 (295)
Q Consensus        96 ~~a~~~~~~m~~~-----~~~p~~--~~~~~li~~~~~~~--~~~~a~~~~~~------~~~~~~~~~~~~~~~~l----  156 (295)
                      .+-+.+++++++.     ....|.  .-|...+......|  -+++++.+.++      ...  -..|+...+..+    
T Consensus       868 kEyLP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~--ly~~~~e~~k~i~~~y  945 (1265)
T KOG1920|consen  868 KEYLPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALA--LYKPDSEKQKVIYEAY  945 (1265)
T ss_pred             HHHHHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhh--eeccCHHHHHHHHHHH
Confidence            7777777776632     111121  22444444444444  34555544332      111  134555444433    


Q ss_pred             HHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCC
Q 022531          157 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH  236 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~  236 (295)
                      ...+...+.+++|.- .|+..-    +     ...-+.+|...|+|.+|..+..++....-+ -..+-..|+.-+...++
T Consensus       946 a~hL~~~~~~~~Aal-~Ye~~G----k-----lekAl~a~~~~~dWr~~l~~a~ql~~~~de-~~~~a~~L~s~L~e~~k 1014 (1265)
T KOG1920|consen  946 ADHLREELMSDEAAL-MYERCG----K-----LEKALKAYKECGDWREALSLAAQLSEGKDE-LVILAEELVSRLVEQRK 1014 (1265)
T ss_pred             HHHHHHhccccHHHH-HHHHhc----c-----HHHHHHHHHHhccHHHHHHHHHhhcCCHHH-HHHHHHHHHHHHHHccc
Confidence            344445666776666 444321    1     123456677788888888877766432100 01112457777888888


Q ss_pred             hHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 022531          237 LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       237 ~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                      .-+|-++..+...    .|..     .+..|++...+++|.++....
T Consensus      1015 h~eAa~il~e~~s----d~~~-----av~ll~ka~~~~eAlrva~~~ 1052 (1265)
T KOG1920|consen 1015 HYEAAKILLEYLS----DPEE-----AVALLCKAKEWEEALRVASKA 1052 (1265)
T ss_pred             chhHHHHHHHHhc----CHHH-----HHHHHhhHhHHHHHHHHHHhc
Confidence            8888888877644    2222     355677777788887765543

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.59  E-value=0.25  Score=24.59  Aligned_cols=25  Identities=16%  Similarity=0.290  Sum_probs=10.2

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      |..+..+|...|++++|+..|++..
T Consensus         4 ~~~~g~~~~~~~~~~~A~~~~~~al   28 (34)
T PF00515_consen    4 YYNLGNAYFQLGDYEEALEYYQRAL   28 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHH
Confidence            3344444444444444444444433

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 ....

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.32  E-value=2.3  Score=30.84  Aligned_cols=137  Identities=12%  Similarity=0.012  Sum_probs=74.0

Q ss_pred             hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHH-HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccc-cHHH
Q 022531          114 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV-KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI-TYDF  191 (295)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~  191 (295)
                      ..+|...++ +++.+..++|+.-|.++.+. |...-+. .---........|+...|.. .|.++-.....|-.. -..-
T Consensus        59 gd~flaAL~-lA~~~k~d~Alaaf~~lekt-g~g~YpvLA~mr~at~~a~kgdta~AV~-aFdeia~dt~~P~~~rd~AR  135 (221)
T COG4649          59 GDAFLAALK-LAQENKTDDALAAFTDLEKT-GYGSYPVLARMRAATLLAQKGDTAAAVA-AFDEIAADTSIPQIGRDLAR  135 (221)
T ss_pred             hHHHHHHHH-HHHcCCchHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhhcccHHHHHH-HHHHHhccCCCcchhhHHHH
Confidence            344444443 24556677777777777765 3322221 12223344556677777777 777665544444322 1111


Q ss_pred             HHH--HHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCC
Q 022531          192 LII--LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS  253 (295)
Q Consensus       192 li~--~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~  253 (295)
                      |=.  .+..+|.++++....+-+...+-..-...-..|.-+-.+.|++.+|.+.|..+..+...
T Consensus       136 lraa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da~a  199 (221)
T COG4649         136 LRAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDAQA  199 (221)
T ss_pred             HHHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccccC
Confidence            111  23456777777776666554432221222234555666788888888888887765543

>PRK09687 putative lyase; Provisional

Probab=93.30  E-value=3.4  Score=32.86  Aligned_cols=218  Identities=8%  Similarity=-0.011  Sum_probs=118.1

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH----HHHHHHHHHHHhCCCCCChHhH
Q 022531           42 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV----EKVALVVEEIKRKNVVPDIFTY  117 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~----~~a~~~~~~m~~~~~~p~~~~~  117 (295)
                      +|..+....+.++...|. +.+...+..+...   +|...-...+.++.+.|+.    +++...+..+...  .|+...-
T Consensus        35 ~d~~vR~~A~~aL~~~~~-~~~~~~l~~ll~~---~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~--D~d~~VR  108 (280)
T PRK09687         35 HNSLKRISSIRVLQLRGG-QDVFRLAIELCSS---KNPIERDIGADILSQLGMAKRCQDNVFNILNNLALE--DKSACVR  108 (280)
T ss_pred             CCHHHHHHHHHHHHhcCc-chHHHHHHHHHhC---CCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhc--CCCHHHH
Confidence            666677777777777665 3444444444433   3566666667777777653    4567777666332  3555555


Q ss_pred             HHHHHHHHccCCH-----HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHH
Q 022531          118 NLWISSCAATLNI-----DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFL  192 (295)
Q Consensus       118 ~~li~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  192 (295)
                      ...+.+++..+..     ..+...+......    ++..+-...+.++++.++ +.+.. .+..+.+   .++...-..-
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D----~~~~VR~~a~~aLg~~~~-~~ai~-~L~~~L~---d~~~~VR~~A  179 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAFD----KSTNVRFAVAFALSVIND-EAAIP-LLINLLK---DPNGDVRNWA  179 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhhC----CCHHHHHHHHHHHhccCC-HHHHH-HHHHHhc---CCCHHHHHHH
Confidence            5555565554321     2233333333332    355565666777776665 34445 3333333   2333333444


Q ss_pred             HHHHHhcC-CHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccC
Q 022531          193 IILYAGLG-NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG  271 (295)
Q Consensus       193 i~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  271 (295)
                      +.++++.+ ....+...+..+..   .++..+-...+.++.+.|+. .|...+-...+.+    +.  ....+.++...|
T Consensus       180 ~~aLg~~~~~~~~~~~~L~~~L~---D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~----~~--~~~a~~ALg~ig  249 (280)
T PRK09687        180 AFALNSNKYDNPDIREAFVAMLQ---DKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG----TV--GDLIIEAAGELG  249 (280)
T ss_pred             HHHHhcCCCCCHHHHHHHHHHhc---CCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC----ch--HHHHHHHHHhcC
Confidence            44444432 13345555554443   44556666677777777774 4555554444422    22  235667777777


Q ss_pred             ChHHHHHHHHHHHh
Q 022531          272 LTEKANEFHMLLLQ  285 (295)
Q Consensus       272 ~~~~a~~~~~~m~~  285 (295)
                      .. +|...+..+.+
T Consensus       250 ~~-~a~p~L~~l~~  262 (280)
T PRK09687        250 DK-TLLPVLDTLLY  262 (280)
T ss_pred             CH-hHHHHHHHHHh
Confidence            74 56777766665

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=93.24  E-value=0.29  Score=24.21  Aligned_cols=26  Identities=27%  Similarity=0.230  Sum_probs=14.0

Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          260 CNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       260 ~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      |..+..++...|++++|.+.|++.++
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            44455555555666666655555554

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 ....

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=93.17  E-value=2.9  Score=31.58  Aligned_cols=30  Identities=23%  Similarity=0.358  Sum_probs=20.7

Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          222 RNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       222 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      .||=-+..-+...|+.++|..+|+-.....
T Consensus       238 EtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         238 ETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            455567777777777777777777666544

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=93.16  E-value=5  Score=34.41  Aligned_cols=180  Identities=12%  Similarity=0.057  Sum_probs=101.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 022531           77 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  156 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  156 (295)
                      .|....-+++..+.....+.-++.+..+|..-|  -+-..|..++.+|... ..++-..+++++.+-  .-.+...-..+
T Consensus        64 l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~--dfnDvv~~ReL  138 (711)
T COG1747          64 LDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEY--DFNDVVIGREL  138 (711)
T ss_pred             ccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHh--cchhHHHHHHH
Confidence            355556667777777777777777777777643  3556677777777766 456666677766653  23344444555


Q ss_pred             HHHHHhcCchhhHHHHHHHHHHHhcCCCc-----cccHHHHHHHHHhcCCHHHHHHHHHHHHh-ccCCCCHHhHHHHHHH
Q 022531          157 VNIYITASHLVNAESSTLVEAEKSITQRQ-----WITYDFLIILYAGLGNKDKIDQIWKSLRM-TKQKMTSRNYICILSS  230 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~~~~li~~  230 (295)
                      ...|.+ ++.+.+.. +|..+.....+..     ...|..|+..  -..+.+....+...+.. .|...-...+.-+-.-
T Consensus       139 a~~yEk-ik~sk~a~-~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~~  214 (711)
T COG1747         139 ADKYEK-IKKSKAAE-FFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYKK  214 (711)
T ss_pred             HHHHHH-hchhhHHH-HHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHHH
Confidence            555555 66666666 5665555443311     1234444321  13455555555555533 2333333444455566


Q ss_pred             HHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHH
Q 022531          231 YLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  267 (295)
Q Consensus       231 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  267 (295)
                      |....++++|++++....+..  ..|+.+-..++.-+
T Consensus       215 Ys~~eN~~eai~Ilk~il~~d--~k~~~ar~~~i~~l  249 (711)
T COG1747         215 YSENENWTEAIRILKHILEHD--EKDVWARKEIIENL  249 (711)
T ss_pred             hccccCHHHHHHHHHHHhhhc--chhhhHHHHHHHHH
Confidence            667777777777777666644  34555555555443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=93.10  E-value=3.8  Score=32.87  Aligned_cols=132  Identities=9%  Similarity=0.220  Sum_probs=83.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--cC----CHHHHHHHHHHHHhCCC---CCChHhHHHHHHHHHccCC-
Q 022531           60 TEKAEELFERVKQSNLSFNALMYNEMMTLYMS--VG----QVEKVALVVEEIKRKNV---VPDIFTYNLWISSCAATLN-  129 (295)
Q Consensus        60 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~--~~----~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~~~-  129 (295)
                      +++.+.+++.|++.|++-+..+|-+.......  ..    ...+|..+|+.|++...   .++...+..++..  ..++ 
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            56678889999999998888777653333332  22    35679999999998752   3455666666554  3333 


Q ss_pred             ---HHHHHHHHHHHhhcCCCCCCHH--HHHHHHHHHHhcCc--hhhHHHHHHHHHHHhcCCCccccHHHHHHH
Q 022531          130 ---IDQVKKFLDEMSCDSGGSDDWV--KYVNLVNIYITASH--LVNAESSTLVEAEKSITQRQWITYDFLIIL  195 (295)
Q Consensus       130 ---~~~a~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  195 (295)
                         .+.+..+|+.+... |+..+-.  ..+.++........  ...+.+ +++.+.+.+.+.....|..+.-.
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 EELAERMEQCYQKLADA-GFKKGNDLQFLSHILALSEGDDQEKVARVIE-LYNALKKNGVKIKYMHYPTLGLL  226 (297)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCCcHHHHHHHHHHhccccchHHHHHHHH-HHHHHHHcCCccccccccHHHHH
Confidence               36677888888885 5544332  33333333222222  346667 78888888888877777665443

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.99  E-value=3.4  Score=31.96  Aligned_cols=184  Identities=13%  Similarity=0.089  Sum_probs=108.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  120 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  120 (295)
                      -...|+.-+ .-.+.|++++|.+.|+.+...-  -+-...+--.++.++.+.+++++|+..+++....-......-|..-
T Consensus        34 ~~~LY~~g~-~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Y  112 (254)
T COG4105          34 ASELYNEGL-TELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYY  112 (254)
T ss_pred             HHHHHHHHH-HHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHH
Confidence            334455444 4457899999999999998653  1223456667788899999999999999998875332223345555


Q ss_pred             HHHHHcc-------CCH---HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHH
Q 022531          121 ISSCAAT-------LNI---DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYD  190 (295)
Q Consensus       121 i~~~~~~-------~~~---~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (295)
                      |.+.+..       .|.   ..|..-|++....  .|.+..+              .+|.. ....+....-.    -=.
T Consensus       113 lkgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~Ya--------------~dA~~-~i~~~~d~LA~----~Em  171 (254)
T COG4105         113 LKGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNSRYA--------------PDAKA-RIVKLNDALAG----HEM  171 (254)
T ss_pred             HHHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCCcch--------------hhHHH-HHHHHHHHHHH----HHH
Confidence            5554432       233   3344444455543  2222221              11111 11111110000    001


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhccCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          191 FLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR---NYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       191 ~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      .+...|.+.|.+..|..-+++|.+. .+-+..   .+-.+..+|...|-.++|.+.-.-+..
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~  232 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGA  232 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHh
Confidence            3456788888888888888888876 222222   244577788888888888876665544

>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=92.93  E-value=1.9  Score=31.99  Aligned_cols=80  Identities=10%  Similarity=-0.020  Sum_probs=60.0

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH---hcCCCccccHHHHHHHHHhc
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK---SITQRQWITYDFLIILYAGL  199 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~li~~~~~~  199 (295)
                      -..+.|+ +.|...|-++... +.-.++.....+...|. ..+.+++.. ++....+   .+..+|+..+.+|+..|.+.
T Consensus       116 ~Wsr~~d-~~A~~~fL~~E~~-~~l~t~elq~aLAtyY~-krD~~Kt~~-ll~~~L~l~~~~~~~n~eil~sLas~~~~~  191 (203)
T PF11207_consen  116 HWSRFGD-QEALRRFLQLEGT-PELETAELQYALATYYT-KRDPEKTIQ-LLLRALELSNPDDNFNPEILKSLASIYQKL  191 (203)
T ss_pred             HhhccCc-HHHHHHHHHHcCC-CCCCCHHHHHHHHHHHH-ccCHHHHHH-HHHHHHHhcCCCCCCCHHHHHHHHHHHHHh
Confidence            3456666 5688888888876 55567777777777776 567888888 5555554   23357888999999999999


Q ss_pred             CCHHHHH
Q 022531          200 GNKDKID  206 (295)
Q Consensus       200 g~~~~a~  206 (295)
                      |+.+.|.
T Consensus       192 ~~~e~AY  198 (203)
T PF11207_consen  192 KNYEQAY  198 (203)
T ss_pred             cchhhhh
Confidence            9999885

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=92.87  E-value=1.7  Score=28.23  Aligned_cols=60  Identities=10%  Similarity=0.199  Sum_probs=34.3

Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      +..+-++.+....+.|++....+.+++|-+.+++..|..+|+.++.+.+  +...+|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            4455556666666677777777777777777777777777777666533  22225555543

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 ....

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.79  E-value=0.37  Score=25.14  Aligned_cols=27  Identities=22%  Similarity=0.308  Sum_probs=14.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      .+++.|...|...|++++|..++++..
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al   29 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEAL   29 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHH
Confidence            345555555555666666655555543

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=92.57  E-value=2.3  Score=31.36  Aligned_cols=88  Identities=13%  Similarity=0.020  Sum_probs=49.9

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCCHHhHH-----HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHH
Q 022531          194 ILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI-----CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFS  268 (295)
Q Consensus       194 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-----~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  268 (295)
                      ..+...|++++|+.-++.....   |....+.     .|.+.....|.+|+|+..++.....+   ........-.+.+.
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~---w~~~~~elrGDill  170 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEES---WAAIVAELRGDILL  170 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccccc---HHHHHHHHhhhHHH
Confidence            3455666677776666654432   2222222     24455566777777777776654432   12223334456677


Q ss_pred             ccCChHHHHHHHHHHHhcC
Q 022531          269 DVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       269 ~~g~~~~a~~~~~~m~~~g  287 (295)
                      ..|+-++|+.-|...++.+
T Consensus       171 ~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         171 AKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HcCchHHHHHHHHHHHHcc
Confidence            7777777777777776655

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.54  E-value=0.34  Score=25.27  Aligned_cols=28  Identities=36%  Similarity=0.311  Sum_probs=20.2

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          258 SACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+++.|...|...|++++|..++++..+
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~   30 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALE   30 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHH
Confidence            4667777788888888888888777654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=92.39  E-value=1  Score=33.85  Aligned_cols=76  Identities=12%  Similarity=0.021  Sum_probs=49.1

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC--CCCCCHHHHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS--NLSFNALMYNEMMTL   88 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--~~~p~~~~~~~li~~   88 (295)
                      +.+..++.+.+.+.+++|+...+.-.+..| |...-..++..+|-.|++++|..-++-.-..  ...+-...|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            345556677777777777777666555555 6667777777777888888877766654432  223445566666665

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=92.37  E-value=4.1  Score=31.38  Aligned_cols=90  Identities=12%  Similarity=0.242  Sum_probs=44.8

Q ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhcC----CCc-cccHHHHHHHHHhcCCHHHHHHHHHHHHhccC---CCCHHhH
Q 022531          153 YVNLVNIYITASHLVNAESSTLVEAEKSIT----QRQ-WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ---KMTSRNY  224 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---~~~~~~~  224 (295)
                      +......+.+...+++|-. .+.+-.....    -++ ...|-..|-.|....++..|...++.--..+-   .-+..+.
T Consensus       153 ~gk~sr~lVrl~kf~Eaa~-a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~l  231 (308)
T KOG1585|consen  153 YGKCSRVLVRLEKFTEAAT-AFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSL  231 (308)
T ss_pred             HHHhhhHhhhhHHhhHHHH-HHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHH
Confidence            4444555666666666555 3322111000    011 12234445555666677777777776332221   1233455


Q ss_pred             HHHHHHHHhcCChHHHHHHH
Q 022531          225 ICILSSYLMLGHLKEVGEII  244 (295)
Q Consensus       225 ~~li~~~~~~~~~~~A~~~~  244 (295)
                      ..|+.+|- .|+.+++.+++
T Consensus       232 enLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  232 ENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHhc-cCCHHHHHHHH
Confidence            66777763 56776665554

>KOG2582 consensus COP9 signalosome, subunit CSN3 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=92.23  E-value=5.5  Score=32.52  Aligned_cols=128  Identities=7%  Similarity=0.043  Sum_probs=64.1

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNE   84 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~   84 (295)
                      |++.+.-.++.-|...++.+.....=..+      ..+.+.+..++.+.+.....+++..+.... +.|.    ....-.
T Consensus        73 ~~~~~li~~~~~FV~~~n~eqlr~as~~f------~~lc~~l~~~~~~~~~p~~gi~ii~~av~k-~~~~~~qlT~~H~~  145 (422)
T KOG2582|consen   73 PDPETLIELLNDFVDENNGEQLRLASEIF------FPLCHDLTEAVVKKNKPLRGIRIIMQAVDK-MQPSNGQLTSIHAD  145 (422)
T ss_pred             CCHHHHHHHHHHHHHhcChHHHhhHHHHH------HHHHHHHHHHHHhcCCccccchHHHHHHHH-hccCccchhhhHHH
Confidence            55555555555555554432222111111      235566667777666655544444433322 1111    233445


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC------CCCCChHhHHHHHHH--HHccCCHHHHHHHHHHHhhc
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRK------NVVPDIFTYNLWISS--CAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~------~~~p~~~~~~~li~~--~~~~~~~~~a~~~~~~~~~~  143 (295)
                      ++..+.+.+++..++..++.-...      .++|........-.+  |...++++.|+-+|......
T Consensus       146 l~~~~L~ak~y~~~~p~ld~divei~~~n~h~~~k~fL~Y~yYgg~iciglk~fe~Al~~~e~~v~~  212 (422)
T KOG2582|consen  146 LLQLCLEAKDYASVLPYLDDDIVEICKANPHLDPKYFLLYLYYGGMICIGLKRFERALYLLEICVTT  212 (422)
T ss_pred             HHHHHHHhhcccccCCccchhHHHHhccCCCCCHHHHHHHHHhcceeeeccccHHHHHHHHHHHHhc
Confidence            666777777777666655432211      122222211111111  45678999999999988854

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.19  E-value=0.5  Score=23.28  Aligned_cols=24  Identities=17%  Similarity=0.169  Sum_probs=9.7

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           83 NEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        83 ~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      ..+...+...|++++|++.|++..
T Consensus         5 ~~lg~~~~~~~~~~~A~~~~~~al   28 (34)
T PF07719_consen    5 YYLGQAYYQLGNYEEAIEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHH
Confidence            333444444444444444444433

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 ....

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.78  E-value=3.2  Score=36.22  Aligned_cols=132  Identities=7%  Similarity=0.014  Sum_probs=83.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      ...-+.+..++.+.|..++|+++-       +|..-..   ....+.|+++.|.++-.+..      +..-|..|..+..
T Consensus       614 k~~rt~va~Fle~~g~~e~AL~~s-------~D~d~rF---elal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al  677 (794)
T KOG0276|consen  614 KEIRTKVAHFLESQGMKEQALELS-------TDPDQRF---ELALKLGRLDIAFDLAVEAN------SEVKWRQLGDAAL  677 (794)
T ss_pred             hhhhhhHHhHhhhccchHhhhhcC-------CChhhhh---hhhhhcCcHHHHHHHHHhhc------chHHHHHHHHHHh
Confidence            345677888888888888888764       2222111   12235677777777664432      4567888888888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      ..+++..|.+.|.....         |..|+-.+...|+-+....+-....+. | +.|.     ...+|...|+++++.
T Consensus       678 ~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~-g-~~N~-----AF~~~~l~g~~~~C~  741 (794)
T KOG0276|consen  678 SAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQ-G-KNNL-----AFLAYFLSGDYEECL  741 (794)
T ss_pred             hcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhh-c-ccch-----HHHHHHHcCCHHHHH
Confidence            88888888888776543         455666666777766555555555554 3 2222     234566678888877


Q ss_pred             HHHHH
Q 022531          171 SSTLV  175 (295)
Q Consensus       171 ~~~~~  175 (295)
                      + ++.
T Consensus       742 ~-lLi  745 (794)
T KOG0276|consen  742 E-LLI  745 (794)
T ss_pred             H-HHH
Confidence            7 443

>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=91.78  E-value=0.047  Score=38.40  Aligned_cols=53  Identities=17%  Similarity=0.235  Sum_probs=25.1

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE  103 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  103 (295)
                      +..+.+.+.+.....+++.+...+-..+....+.++..|++.++.++..++++
T Consensus        14 i~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~   66 (143)
T PF00637_consen   14 ISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLK   66 (143)
T ss_dssp             HHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTT
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcc
Confidence            33344444555555555555544333345555555555555554445444444

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.

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.65  E-value=5.7  Score=34.82  Aligned_cols=150  Identities=12%  Similarity=0.085  Sum_probs=94.8

Q ss_pred             HhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 022531           22 TKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV  101 (295)
Q Consensus        22 ~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  101 (295)
                      .-.|+++.|..++..+++     ...+.++..+-+.|-.++|+++-         +|+..-   .....+.|+++.|.++
T Consensus       597 vmrrd~~~a~~vLp~I~k-----~~rt~va~Fle~~g~~e~AL~~s---------~D~d~r---Felal~lgrl~iA~~l  659 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPK-----EIRTKVAHFLESQGMKEQALELS---------TDPDQR---FELALKLGRLDIAFDL  659 (794)
T ss_pred             hhhccccccccccccCch-----hhhhhHHhHhhhccchHhhhhcC---------CChhhh---hhhhhhcCcHHHHHHH
Confidence            445777777776655543     34455666666777777776543         232211   2234467888888877


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhc
Q 022531          102 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  181 (295)
Q Consensus       102 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (295)
                      ..+.      -+..-|..|.++..+.+++..|.+.|.....-          ..|+-.+...|+.+.... +-....+.+
T Consensus       660 a~e~------~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~----------~~LlLl~t~~g~~~~l~~-la~~~~~~g  722 (794)
T KOG0276|consen  660 AVEA------NSEVKWRQLGDAALSAGELPLASECFLRARDL----------GSLLLLYTSSGNAEGLAV-LASLAKKQG  722 (794)
T ss_pred             HHhh------cchHHHHHHHHHHhhcccchhHHHHHHhhcch----------hhhhhhhhhcCChhHHHH-HHHHHHhhc
Confidence            6554      25566888999989999999988888776643          356666777777765555 444444444


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 022531          182 TQRQWITYDFLIILYAGLGNKDKIDQIWKS  211 (295)
Q Consensus       182 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  211 (295)
                      .. |     .-..+|...|+++++.+++..
T Consensus       723 ~~-N-----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  723 KN-N-----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             cc-c-----hHHHHHHHcCCHHHHHHHHHh
Confidence            32 2     223355678888888887753

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.63  E-value=9.9  Score=34.24  Aligned_cols=86  Identities=9%  Similarity=0.099  Sum_probs=60.7

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  266 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (295)
                      .+.+--+.-+...|+..+|.++-.+.+    -|+...|-.=+.+++..+++++-+++-+..       ..+.-|.-.+.+
T Consensus       685 lSl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAksk-------ksPIGy~PFVe~  753 (829)
T KOG2280|consen  685 LSLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSK-------KSPIGYLPFVEA  753 (829)
T ss_pred             CcHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhcc-------CCCCCchhHHHH
Confidence            344455555667777777777766554    577777877888888888888755544332       124567788999


Q ss_pred             HHccCChHHHHHHHHHH
Q 022531          267 FSDVGLTEKANEFHMLL  283 (295)
Q Consensus       267 ~~~~g~~~~a~~~~~~m  283 (295)
                      |.+.|+.++|.+++.+.
T Consensus       754 c~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  754 CLKQGNKDEAKKYIPRV  770 (829)
T ss_pred             HHhcccHHHHhhhhhcc
Confidence            99999999999888654

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.51  E-value=6.8  Score=32.13  Aligned_cols=65  Identities=12%  Similarity=0.008  Sum_probs=37.6

Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCC--CCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          221 SRNYICILSSYLMLGHLKEVGEIIDQWKQSATS--DFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       221 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..++..+++.+.+.|.++.|...+..+......  .......-.-.......|+..+|...+++..+
T Consensus       146 ~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~  212 (352)
T PF02259_consen  146 AETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLK  212 (352)
T ss_pred             HHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            345666677777777777777777766552210  00222233345556666777777777766665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=91.11  E-value=9.3  Score=32.92  Aligned_cols=164  Identities=11%  Similarity=0.046  Sum_probs=106.5

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      |....-+++..+.....+.-+..+..+|...|  -+-..|..++.+|... ..++-..+|+++.+..+. |.+.-..|..
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-Dvv~~ReLa~  140 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-DVVIGRELAD  140 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-hHHHHHHHHH
Confidence            55566677788888888888888888888877  3677888899999888 667778888888886553 4444444555


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCC------HHHHHHHHHHHHhcCchhhHHHHHHHHHHH-hcCCCccccHHHHHHH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDD------WVKYVNLVNIYITASHLVNAESSTLVEAEK-SITQRQWITYDFLIIL  195 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~li~~  195 (295)
                      -|-+ ++.+.+..+|..+..+  +.|-      ...|..+....  ..+.|.... +...+.. .+...-.+.+.-+-.-
T Consensus       141 ~yEk-ik~sk~a~~f~Ka~yr--fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~-l~~kiqt~lg~~~~~Vl~qdv~~~  214 (711)
T COG1747         141 KYEK-IKKSKAAEFFGKALYR--FIPRRQNAAIKEVWEKLPELI--GDDKDFFLR-LQKKIQTKLGEGRGSVLMQDVYKK  214 (711)
T ss_pred             HHHH-hchhhHHHHHHHHHHH--hcchhhhhhHHHHHHHHHHhc--cccHHHHHH-HHHHHHHhhccchHHHHHHHHHHH
Confidence            5554 7778888888887764  2221      12333333311  334555555 3444433 2333334455555566


Q ss_pred             HHhcCCHHHHHHHHHHHHhcc
Q 022531          196 YAGLGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       196 ~~~~g~~~~a~~~~~~m~~~~  216 (295)
                      |....++.+|++++..+.+..
T Consensus       215 Ys~~eN~~eai~Ilk~il~~d  235 (711)
T COG1747         215 YSENENWTEAIRILKHILEHD  235 (711)
T ss_pred             hccccCHHHHHHHHHHHhhhc
Confidence            778888999999988776654

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.04  E-value=5.9  Score=30.56  Aligned_cols=210  Identities=13%  Similarity=0.107  Sum_probs=117.5

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      ...|..-..+|-...++++|...+.+..+- .+-+...|++       .+.++.|.-+.++|.+.  .--...|.-....
T Consensus        31 as~yekAAvafRnAk~feKakdcLlkA~~~-yEnnrslfhA-------AKayEqaamLake~~kl--sEvvdl~eKAs~l  100 (308)
T KOG1585|consen   31 ASLYEKAAVAFRNAKKFEKAKDCLLKASKG-YENNRSLFHA-------AKAYEQAAMLAKELSKL--SEVVDLYEKASEL  100 (308)
T ss_pred             HHHHHHHHHHHHhhccHHHHHHHHHHHHHH-HHhcccHHHH-------HHHHHHHHHHHHHHHHh--HHHHHHHHHHHHH
Confidence            445666667777788888888877766532 1122222221       23356666666666653  1122346666777


Q ss_pred             HHccCCHHHHHHHHHHHhhc-CCCCCCHH--HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcC
Q 022531          124 CAATLNIDQVKKFLDEMSCD-SGGSDDWV--KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG  200 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~-~~~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  200 (295)
                      |...|.++.|-..+++.-+. .++.|+..  .|.--+......++...|.+ +               +......+.+..
T Consensus       101 Y~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~e-l---------------~gk~sr~lVrl~  164 (308)
T KOG1585|consen  101 YVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAFE-L---------------YGKCSRVLVRLE  164 (308)
T ss_pred             HHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHHH-H---------------HHHhhhHhhhhH
Confidence            88888887777766653321 13445432  33333344444444444444 2               233334556666


Q ss_pred             CHHHHHHHHHHHHhcc----CCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhhc--CCCCCHHHHHHHHHHHHccCCh
Q 022531          201 NKDKIDQIWKSLRMTK----QKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA--TSDFDISACNRLLGAFSDVGLT  273 (295)
Q Consensus       201 ~~~~a~~~~~~m~~~~----~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~  273 (295)
                      .+++|-..+.+-....    -.++. ..|...|-.+.-..++..|.+.++.--.-+  ....+..+...|+.+|- .|+.
T Consensus       165 kf~Eaa~a~lKe~~~~~~~~~y~~~~k~~va~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ayd-~gD~  243 (308)
T KOG1585|consen  165 KFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDI  243 (308)
T ss_pred             HhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhc-cCCH
Confidence            6666665554332111    11222 235667777778889999999998754322  11346678888888774 5777


Q ss_pred             HHHHHHH
Q 022531          274 EKANEFH  280 (295)
Q Consensus       274 ~~a~~~~  280 (295)
                      +.+..++
T Consensus       244 E~~~kvl  250 (308)
T KOG1585|consen  244 EEIKKVL  250 (308)
T ss_pred             HHHHHHH
Confidence            7766554

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.00  E-value=6.3  Score=31.62  Aligned_cols=103  Identities=12%  Similarity=0.147  Sum_probs=64.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC---CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH
Q 022531           74 NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKN---VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW  150 (295)
Q Consensus        74 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  150 (295)
                      |.+....+...++..-....+++.++.++-+++...   ..|+. +-.++++.|.+. ++++++.++..=..- |+-||.
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~-~~~~~irlllky-~pq~~i~~l~npIqY-GiF~dq  135 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNW-TIHTWIRLLLKY-DPQKAIYTLVNPIQY-GIFPDQ  135 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccc-cHHHHHHHHHcc-ChHHHHHHHhCcchh-ccccch
Confidence            344445555566655556677888888777776541   22332 222234444332 566777777766654 788888


Q ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHH
Q 022531          151 VKYVNLVNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                      .++..+++.+.+.+++.+|..++...|..
T Consensus       136 f~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  136 FTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             hhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            88888888888888888888844444433

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=90.93  E-value=15  Score=35.06  Aligned_cols=217  Identities=10%  Similarity=0.040  Sum_probs=122.5

Q ss_pred             HHHHHHHHHHHhcc--ChhHHHHHHhhcccC----------------CCCHHHHHHH----------HHHHHccCcHHHH
Q 022531           12 SDYATRIDLMTKVF--GIHSGERYFEGLPLS----------------AKTSETYTAL----------LHLYAGAKWTEKA   63 (295)
Q Consensus        12 ~~~~~li~~~~~~~--~~~~A~~~~~~~~~~----------------~p~~~~~~~l----------i~~~~~~~~~~~a   63 (295)
                      .-.-.+|.+|.+.+  .+++|+.........                .+....|++-          +-+-..+.++.+-
T Consensus       791 ~~~~~ilTs~vk~~~~~ie~aL~kI~~l~~~~~~~~ad~al~hll~Lvdvn~lfn~ALgtYDl~Lal~VAq~SqkDPkEy  870 (1265)
T KOG1920|consen  791 KFNLFILTSYVKSNPPEIEEALQKIKELQLAQVAVSADEALKHLLFLVDVNELFNSALGTYDLDLALLVAQKSQKDPKEY  870 (1265)
T ss_pred             hhhHHHHHHHHhcCcHHHHHHHHHHHHHHhcccchhHHHHHHHHHhhccHHHHHHhhhcccchHHHHHHHHHhccChHHH
Confidence            33456888888887  677777766665531                1122334432          3334456777777


Q ss_pred             HHHHHHHHhC-----CCCCCH--HHHHHHHHHHHhcC--CHHHHHHHHHHHH--hCC---CCCChHhHHHHHHHH----H
Q 022531           64 EELFERVKQS-----NLSFNA--LMYNEMMTLYMSVG--QVEKVALVVEEIK--RKN---VVPDIFTYNLWISSC----A  125 (295)
Q Consensus        64 ~~~~~~m~~~-----~~~p~~--~~~~~li~~~~~~~--~~~~a~~~~~~m~--~~~---~~p~~~~~~~li~~~----~  125 (295)
                      +-+++++++.     .++.|.  .-|...+......|  -++++..+.++=.  ..+   ..|+...+..+..+|    .
T Consensus       871 LP~L~el~~m~~~~rkF~ID~~L~ry~~AL~hLs~~~~~~~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~  950 (1265)
T KOG1920|consen  871 LPFLNELKKMETLLRKFKIDDYLKRYEDALSHLSECGETYFPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLR  950 (1265)
T ss_pred             HHHHHHHhhchhhhhheeHHHHHHHHHHHHHHHHHcCccccHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHH
Confidence            7777777632     111121  23445555555555  4555555543311  011   356666655555443    4


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHH
Q 022531          126 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKI  205 (295)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  205 (295)
                      ....+++|.-.|+..-+.          ...+.+|..+|+|++|.. +..++...... -..+--.|+.-+...++.-+|
T Consensus       951 ~~~~~~~Aal~Ye~~Gkl----------ekAl~a~~~~~dWr~~l~-~a~ql~~~~de-~~~~a~~L~s~L~e~~kh~eA 1018 (1265)
T KOG1920|consen  951 EELMSDEAALMYERCGKL----------EKALKAYKECGDWREALS-LAAQLSEGKDE-LVILAEELVSRLVEQRKHYEA 1018 (1265)
T ss_pred             HhccccHHHHHHHHhccH----------HHHHHHHHHhccHHHHHH-HHHhhcCCHHH-HHHHHHHHHHHHHHcccchhH
Confidence            556677776666554331          245678888888888888 55444221111 111224566677778888888


Q ss_pred             HHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          206 DQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       206 ~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      -++..+-..   .     ....+..|++...+++|.++-....
T Consensus      1019 a~il~e~~s---d-----~~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen 1019 AKILLEYLS---D-----PEEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHhc---C-----HHHHHHHHhhHhHHHHHHHHHHhcc
Confidence            777765443   2     2235667778888999988876544

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=90.61  E-value=7.3  Score=30.89  Aligned_cols=53  Identities=15%  Similarity=0.134  Sum_probs=25.5

Q ss_pred             HHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531           52 HLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEI  105 (295)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m  105 (295)
                      +.|..+|.+.+|.++.++....+ +.+...|-.|+..+...|+--.|.+-++.+
T Consensus       287 ~~yle~g~~neAi~l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyery  339 (361)
T COG3947         287 RAYLEAGKPNEAIQLHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERY  339 (361)
T ss_pred             HHHHHcCChHHHHHHHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHH
Confidence            34444555555555555544443 334444445555555555544444444443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.40  E-value=6.6  Score=30.07  Aligned_cols=29  Identities=10%  Similarity=0.119  Sum_probs=15.6

Q ss_pred             HHhcCchhhHHHHHHHHHHHhcCCCccccH
Q 022531          160 YITASHLVNAESSTLVEAEKSITQRQWITY  189 (295)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (295)
                      -+..+++..|.+ +|+++.......+..-|
T Consensus       164 aa~leqY~~Ai~-iyeqva~~s~~n~LLKy  192 (288)
T KOG1586|consen  164 AAQLEQYSKAID-IYEQVARSSLDNNLLKY  192 (288)
T ss_pred             HHHHHHHHHHHH-HHHHHHHHhccchHHHh
Confidence            345566666666 66665554444343333

>PRK09687 putative lyase; Provisional

Probab=90.40  E-value=7.8  Score=30.87  Aligned_cols=236  Identities=8%  Similarity=-0.089  Sum_probs=153.6

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcH----HHHHHHHHHHHhCCCCCCHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT----EKAEELFERVKQSNLSFNALMYN   83 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~----~~a~~~~~~m~~~~~~p~~~~~~   83 (295)
                      .+|.......+..+...|..+-...+.. +.. .+|...-...+.+++..|+.    .++...+..+...+  |+..+-.
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~~~~~l~~-ll~-~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D--~d~~VR~  109 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQDVFRLAIE-LCS-SKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALED--KSACVRA  109 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcchHHHHHHH-HHh-CCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcC--CCHHHHH
Confidence            4566677778888888886444444443 332 36777777778888888763    56888888775543  5677776


Q ss_pred             HHHHHHHhcCC-----HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           84 EMMTLYMSVGQ-----VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        84 ~li~~~~~~~~-----~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      ..+.++...+.     ...+...+......   ++..+-...+.++++.++ +.+...+..+...    ++..+-...+.
T Consensus       110 ~A~~aLG~~~~~~~~~~~~a~~~l~~~~~D---~~~~VR~~a~~aLg~~~~-~~ai~~L~~~L~d----~~~~VR~~A~~  181 (280)
T PRK09687        110 SAINATGHRCKKNPLYSPKIVEQSQITAFD---KSTNVRFAVAFALSVIND-EAAIPLLINLLKD----PNGDVRNWAAF  181 (280)
T ss_pred             HHHHHHhcccccccccchHHHHHHHHHhhC---CCHHHHHHHHHHHhccCC-HHHHHHHHHHhcC----CCHHHHHHHHH
Confidence            77777666542     13344444444443   466777778888888887 4577777777753    45566667777


Q ss_pred             HHHhcC-chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCCh
Q 022531          159 IYITAS-HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  237 (295)
Q Consensus       159 ~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  237 (295)
                      ++++.+ +...+.. .+..+.   ..++..+-..-+.++++.|+. .++..+-...+.+   +  .....+.++...|+.
T Consensus       182 aLg~~~~~~~~~~~-~L~~~L---~D~~~~VR~~A~~aLg~~~~~-~av~~Li~~L~~~---~--~~~~a~~ALg~ig~~  251 (280)
T PRK09687        182 ALNSNKYDNPDIRE-AFVAML---QDKNEEIRIEAIIGLALRKDK-RVLSVLIKELKKG---T--VGDLIIEAAGELGDK  251 (280)
T ss_pred             HHhcCCCCCHHHHH-HHHHHh---cCCChHHHHHHHHHHHccCCh-hHHHHHHHHHcCC---c--hHHHHHHHHHhcCCH
Confidence            777763 2335555 343333   445667777888888999885 4555555554432   2  234688899999996


Q ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHc
Q 022531          238 KEVGEIIDQWKQSATSDFDISACNRLLGAFSD  269 (295)
Q Consensus       238 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  269 (295)
                       +|...+..+....   ||..+-...+.+|.+
T Consensus       252 -~a~p~L~~l~~~~---~d~~v~~~a~~a~~~  279 (280)
T PRK09687        252 -TLLPVLDTLLYKF---DDNEIITKAIDKLKR  279 (280)
T ss_pred             -hHHHHHHHHHhhC---CChhHHHHHHHHHhc
Confidence             6888888887643   577776667776654

>PHA02875 ankyrin repeat protein; Provisional

Probab=90.23  E-value=8.5  Score=32.56  Aligned_cols=80  Identities=8%  Similarity=-0.066  Sum_probs=37.8

Q ss_pred             HHHHHhccChhHHHHHHhhcccC-CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHhcCC
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLS-AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL--MYNEMMTLYMSVGQ   94 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~li~~~~~~~~   94 (295)
                      +...++.|+.+-+..+++.-... ..+.. ..+.+...+..|+.+-    .+.+.+.|..|+..  .....+...+..|+
T Consensus         6 L~~A~~~g~~~iv~~Ll~~g~~~n~~~~~-g~tpL~~A~~~~~~~~----v~~Ll~~ga~~~~~~~~~~t~L~~A~~~g~   80 (413)
T PHA02875          6 LCDAILFGELDIARRLLDIGINPNFEIYD-GISPIKLAMKFRDSEA----IKLLMKHGAIPDVKYPDIESELHDAVEEGD   80 (413)
T ss_pred             HHHHHHhCCHHHHHHHHHCCCCCCccCCC-CCCHHHHHHHcCCHHH----HHHHHhCCCCccccCCCcccHHHHHHHCCC
Confidence            34445667777777766542211 11212 2333444455666543    33334455444322  12234455556677


Q ss_pred             HHHHHHHH
Q 022531           95 VEKVALVV  102 (295)
Q Consensus        95 ~~~a~~~~  102 (295)
                      .+.+..++
T Consensus        81 ~~~v~~Ll   88 (413)
T PHA02875         81 VKAVEELL   88 (413)
T ss_pred             HHHHHHHH
Confidence            66554444

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=90.01  E-value=5.2  Score=28.20  Aligned_cols=64  Identities=16%  Similarity=0.164  Sum_probs=39.1

Q ss_pred             HHHHHHHHHHH---HhcCchhhHHHHHHHHHHHhcCC-CccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 022531          150 WVKYVNLVNIY---ITASHLVNAESSTLVEAEKSITQ-RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       150 ~~~~~~l~~~~---~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  216 (295)
                      ..+.+.|++..   ...++.+++.. ++..+.--.++ +...++...  .+...|++++|.++|+++.+.+
T Consensus         7 ~~iv~gLi~~~~~aL~~~d~~D~e~-lLdALrvLrP~~~e~d~~dg~--l~i~rg~w~eA~rvlr~l~~~~   74 (153)
T TIGR02561         7 NRLLGGLIEVLMYALRSADPYDAQA-MLDALRVLRPNLKELDMFDGW--LLIARGNYDEAARILRELLSSA   74 (153)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHHhCCCccccchhHHH--HHHHcCCHHHHHHHHHhhhccC
Confidence            33444444433   35778888888 77766544333 123333333  3577888999999998887764

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>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=89.88  E-value=1  Score=22.15  Aligned_cols=27  Identities=26%  Similarity=0.254  Sum_probs=21.3

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          259 ACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +|..+...|...|++++|...|++.++
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~   29 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            566777788888888888888888765

...

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=89.16  E-value=0.8  Score=24.64  Aligned_cols=25  Identities=24%  Similarity=0.336  Sum_probs=17.2

Q ss_pred             HHHHHHccCChHHHHHHHHHHHhcC
Q 022531          263 LLGAFSDVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       263 l~~~~~~~g~~~~a~~~~~~m~~~g  287 (295)
                      +..+|...|+.+.|.+++++....|
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHcC
Confidence            5567777777777777777776543

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=88.98  E-value=9.8  Score=29.99  Aligned_cols=87  Identities=8%  Similarity=0.011  Sum_probs=60.6

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc----
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----  126 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----  126 (295)
                      |.+++..++|.+++...-+--+.--+..+.+...-|-.|.+.+++..+.++-....+..-.-+...|.+++..|..    
T Consensus        90 IQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VLl  169 (309)
T PF07163_consen   90 IQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVLL  169 (309)
T ss_pred             HHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHHh
Confidence            6788889999998887665543322233456666777788999998888888877765322334457777666554    


Q ss_pred             -cCCHHHHHHHH
Q 022531          127 -TLNIDQVKKFL  137 (295)
Q Consensus       127 -~~~~~~a~~~~  137 (295)
                       .|.+++|+++.
T Consensus       170 PLG~~~eAeelv  181 (309)
T PF07163_consen  170 PLGHFSEAEELV  181 (309)
T ss_pred             ccccHHHHHHHH
Confidence             58888888876

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=88.55  E-value=1.6  Score=26.84  Aligned_cols=47  Identities=13%  Similarity=0.042  Sum_probs=26.0

Q ss_pred             hcCChHHHHHHHHHHhhhcCCCCC-HHHHHHHHHHHHccCChHHHHHH
Q 022531          233 MLGHLKEVGEIIDQWKQSATSDFD-ISACNRLLGAFSDVGLTEKANEF  279 (295)
Q Consensus       233 ~~~~~~~A~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~a~~~  279 (295)
                      ..++.+.|+..|....+.....|+ ..++..++.+|+..|++++++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~f   65 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAF   65 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455566666666666554332222 12455566666666666666554

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>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=88.26  E-value=1.9  Score=21.17  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=12.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      |..+...|...|++++|.+.|++..
T Consensus         4 ~~~lg~~y~~~~~~~~A~~~~~~a~   28 (34)
T PF13181_consen    4 YYNLGKIYEQLGDYEEALEYFEKAL   28 (34)
T ss_dssp             HHHHHHHHHHTTSHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4444445555555555555555443

...

>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=87.90  E-value=5.8  Score=26.10  Aligned_cols=85  Identities=9%  Similarity=0.009  Sum_probs=46.5

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHH
Q 022531          129 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  208 (295)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  208 (295)
                      ..++|..+.+.+... +. ....+--.-+..+.+.|++++|..     .-.....||...|-+|..  .+.|-.+++...
T Consensus        21 cH~EA~tIa~wL~~~-~~-~~E~v~lIr~~sLmNrG~Yq~ALl-----~~~~~~~pdL~p~~AL~a--~klGL~~~~e~~   91 (116)
T PF09477_consen   21 CHQEANTIADWLEQE-GE-MEEVVALIRLSSLMNRGDYQEALL-----LPQCHCYPDLEPWAALCA--WKLGLASALESR   91 (116)
T ss_dssp             -HHHHHHHHHHHHHT-TT-THHHHHHHHHHHHHHTT-HHHHHH-----HHTTS--GGGHHHHHHHH--HHCT-HHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-Cc-HHHHHHHHHHHHHHhhHHHHHHHH-----hcccCCCccHHHHHHHHH--HhhccHHHHHHH
Confidence            457777777777765 22 222333334455667777777755     334455667776655543  567777777777


Q ss_pred             HHHHHhccCCCCHHh
Q 022531          209 WKSLRMTKQKMTSRN  223 (295)
Q Consensus       209 ~~~m~~~~~~~~~~~  223 (295)
                      +.++..+| .|....
T Consensus        92 l~rla~~g-~~~~q~  105 (116)
T PF09477_consen   92 LTRLASSG-SPELQA  105 (116)
T ss_dssp             HHHHCT-S-SHHHHH
T ss_pred             HHHHHhCC-CHHHHH
Confidence            77776655 343333

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.

>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=87.77  E-value=0.99  Score=20.92  Aligned_cols=11  Identities=18%  Similarity=0.087  Sum_probs=4.0

Q ss_pred             HHccCcHHHHH
Q 022531           54 YAGAKWTEKAE   64 (295)
Q Consensus        54 ~~~~~~~~~a~   64 (295)
                      +...|++++|.
T Consensus        11 ~~~~G~~~eA~   21 (26)
T PF07721_consen   11 LLAQGDPDEAE   21 (26)
T ss_pred             HHHcCCHHHHH
Confidence            33333333333

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

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=87.77  E-value=23  Score=32.79  Aligned_cols=199  Identities=13%  Similarity=0.018  Sum_probs=101.6

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCh----H---hHHHHHHH-HHccCCHHHHHHHHHHHhhcC---CCCCCHHHHHHHHH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDI----F---TYNLWISS-CAATLNIDQVKKFLDEMSCDS---GGSDDWVKYVNLVN  158 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~----~---~~~~li~~-~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~  158 (295)
                      .-..++.+|..++.++...-..|+.    .   .|+.+-.. ....|+++++.++-+.....-   -..+....+..+..
T Consensus       426 ~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~~~  505 (894)
T COG2909         426 ASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVLGE  505 (894)
T ss_pred             HHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhhhH
Confidence            4457788888888877553222221    1   23333222 235678888888877765531   22344556667777


Q ss_pred             HHHhcCchhhHHHHHHHHHHHhcCCCccccH---HHHHH--HHHhcCC--HHHHHHHHHHHHhcc--C----CCCHHhHH
Q 022531          159 IYITASHLVNAESSTLVEAEKSITQRQWITY---DFLII--LYAGLGN--KDKIDQIWKSLRMTK--Q----KMTSRNYI  225 (295)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~li~--~~~~~g~--~~~a~~~~~~m~~~~--~----~~~~~~~~  225 (295)
                      +..-.|++++|.. +.....+.-..-+...+   ..+..  .+...|+  ..+.+..|.......  -    .+-..+..
T Consensus       506 a~~~~G~~~~Al~-~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~r~  584 (894)
T COG2909         506 AAHIRGELTQALA-LMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRIRA  584 (894)
T ss_pred             HHHHhchHHHHHH-HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHHHH
Confidence            7888899999888 65555443333343332   22222  2344563  223333333332221  0    12223444


Q ss_pred             HHHHHHHhcC-ChHHHHHHHHHHhhhcCCCCCHHHH--HHHHHHHHccCChHHHHHHHHHHHhcCCCC
Q 022531          226 CILSSYLMLG-HLKEVGEIIDQWKQSATSDFDISAC--NRLLGAFSDVGLTEKANEFHMLLLQKNCAP  290 (295)
Q Consensus       226 ~li~~~~~~~-~~~~A~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p  290 (295)
                      .+..++.+.. ...++..-+.--.... ..|-....  ..|+.+....|+.++|...++++......+
T Consensus       585 ~ll~~~~r~~~~~~ear~~~~~~~~~~-~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~  651 (894)
T COG2909         585 QLLRAWLRLDLAEAEARLGIEVGSVYT-PQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNG  651 (894)
T ss_pred             HHHHHHHHHhhhhHHhhhcchhhhhcc-cchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCC
Confidence            5555555521 1122222222222211 12222222  256777788899999998888886644433

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=87.52  E-value=1.3  Score=21.54  Aligned_cols=24  Identities=21%  Similarity=0.326  Sum_probs=13.6

Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhh
Q 022531          227 ILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       227 li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      +..++.+.|+.++|.+.|+++.+.
T Consensus         6 ~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    6 LARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHH
Confidence            444555556666666666655553

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.37  E-value=7.2  Score=33.25  Aligned_cols=119  Identities=8%  Similarity=-0.028  Sum_probs=64.7

Q ss_pred             ccCcHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHH
Q 022531           56 GAKWTEKAE-ELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVK  134 (295)
Q Consensus        56 ~~~~~~~a~-~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~  134 (295)
                      ..|++..|- ++|.-+....--|+.....  .......|+++.+.+.+...... +-....+..++++...+.|+++.|.
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~--~~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~  377 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLR--SVIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREAL  377 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHH--HHHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHH
Confidence            456655443 3444444332233333322  33345567777777777655432 3345567777777777778888877


Q ss_pred             HHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Q 022531          135 KFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (295)
                      .+-.-|... . ..++.+........-..|-+|++.. .+.+++.-
T Consensus       378 s~a~~~l~~-e-ie~~ei~~iaa~sa~~l~~~d~~~~-~wk~~~~~  420 (831)
T PRK15180        378 STAEMMLSN-E-IEDEEVLTVAAGSADALQLFDKSYH-YWKRVLLL  420 (831)
T ss_pred             HHHHHHhcc-c-cCChhheeeecccHHHHhHHHHHHH-HHHHHhcc
Confidence            777766653 2 2233333333333344556667766 66665543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=87.35  E-value=18  Score=31.06  Aligned_cols=119  Identities=9%  Similarity=-0.048  Sum_probs=75.6

Q ss_pred             hcCCHHHH-HHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           91 SVGQVEKV-ALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        91 ~~~~~~~a-~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      ..|++-.| .+++..+....-.|+.....+.  .+...|+++.+...+......  +.....+..+++...-+.|++++|
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l~~~--i~~~lg~ye~~~~~~s~~~~~--~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQLRSV--IFSHLGYYEQAYQDISDVEKI--IGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHHHHH--HHHHhhhHHHHHHHhhchhhh--hcCCchHHHHHHHhhhchhhHHHH
Confidence            34555444 3455555554444554443333  456789999999988877652  345566778889999999999999


Q ss_pred             HHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          170 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      .. ..+.|...... +......-....-..|-++++...|+++...
T Consensus       377 ~s-~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~  420 (831)
T PRK15180        377 LS-TAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLL  420 (831)
T ss_pred             HH-HHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhcc
Confidence            99 77766654443 2222222222234567889999999887654

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.96  E-value=2  Score=23.13  Aligned_cols=20  Identities=25%  Similarity=0.517  Sum_probs=8.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHH
Q 022531           87 TLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~  106 (295)
                      .+|...|+.+.|.+++++..
T Consensus         7 ~ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         7 RAYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHHcCChHHHHHHHHHHH
Confidence            34444444444444444443

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.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=86.88  E-value=7.1  Score=26.60  Aligned_cols=46  Identities=11%  Similarity=0.188  Sum_probs=27.5

Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           98 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        98 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      ..+-++.+..-.+.|++......+++|-+.+|+..|..+|+.++.+
T Consensus        68 vrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   68 VRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            3444555555556666666666666666666666666666666553

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=86.66  E-value=6.8  Score=26.70  Aligned_cols=47  Identities=13%  Similarity=0.153  Sum_probs=35.4

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           62 KAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        62 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      +..+-++.+...++.|++.+...-++++-+.+++..|.++|+-.+.+
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K  113 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK  113 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            34555666667778888888888888888888888888888777654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=86.66  E-value=6.3  Score=32.00  Aligned_cols=92  Identities=14%  Similarity=0.015  Sum_probs=57.0

Q ss_pred             HHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 022531           19 DLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   97 (295)
Q Consensus        19 ~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~   97 (295)
                      +-|.+.|.+++|++.|..-....| |.+++..-..+|.+..++..|..=.+.....+ ..-.-.|..-+.+-...|...+
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~~~E  183 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAVYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALD-KLYVKAYSRRMQARESLGNNME  183 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhccCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhh-HHHHHHHHHHHHHHHHHhhHHH
Confidence            456788889999999988777767 88888888888888888887776666655543 0011223333333333344444


Q ss_pred             HHHHHHHHHhCCCCCC
Q 022531           98 VALVVEEIKRKNVVPD  113 (295)
Q Consensus        98 a~~~~~~m~~~~~~p~  113 (295)
                      |.+=++..++  +.|+
T Consensus       184 AKkD~E~vL~--LEP~  197 (536)
T KOG4648|consen  184 AKKDCETVLA--LEPK  197 (536)
T ss_pred             HHHhHHHHHh--hCcc
Confidence            4444444444  3454

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=86.24  E-value=15  Score=29.05  Aligned_cols=88  Identities=11%  Similarity=0.049  Sum_probs=59.6

Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 022531           83 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  162 (295)
Q Consensus        83 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (295)
                      ..=|.+++..++|.+++...-+--+.--+........-|-.|.+.+.+..+.++-..-.+..+. -+..-|..+++.|..
T Consensus        87 vvGIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~N-q~lp~y~~vaELyLl  165 (309)
T PF07163_consen   87 VVGIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSN-QSLPEYGTVAELYLL  165 (309)
T ss_pred             hhhHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCccc-CCchhhHHHHHHHHH
Confidence            3457788899999998887766555433333445555666788999999888887776554222 233347777666654


Q ss_pred             -----cCchhhHHH
Q 022531          163 -----ASHLVNAES  171 (295)
Q Consensus       163 -----~~~~~~a~~  171 (295)
                           .|.+++|++
T Consensus       166 ~VLlPLG~~~eAee  179 (309)
T PF07163_consen  166 HVLLPLGHFSEAEE  179 (309)
T ss_pred             HHHhccccHHHHHH
Confidence                 689999998

Pex26 is a type II peroxisomal membrane protein that recruits Pex6-Pex1 complexes to peroxisomes []. Mutations in Pex26 can lead to human disorders [].; GO: 0032403 protein complex binding, 0045046 protein import into peroxisome membrane, 0005779 integral to peroxisomal membrane

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=86.19  E-value=10  Score=28.36  Aligned_cols=91  Identities=7%  Similarity=-0.036  Sum_probs=60.2

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFN-----ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  125 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  125 (295)
                      ..-+.+.|++++|..-|.+.+..- ++.     ...|..-..++.+.+.++.|+.-..+..+.+.. ......--..+|.
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~c-p~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pt-y~kAl~RRAeaye  179 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALESC-PSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPT-YEKALERRAEAYE  179 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHhC-ccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCch-hHHHHHHHHHHHH
Confidence            334456788888888888877652 332     234555556778888888888888777775322 2222333344677


Q ss_pred             ccCCHHHHHHHHHHHhhc
Q 022531          126 ATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~  143 (295)
                      +..++++|+.=|+++...
T Consensus       180 k~ek~eealeDyKki~E~  197 (271)
T KOG4234|consen  180 KMEKYEEALEDYKKILES  197 (271)
T ss_pred             hhhhHHHHHHHHHHHHHh
Confidence            888888888888888874

>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=86.09  E-value=11  Score=27.54  Aligned_cols=29  Identities=3%  Similarity=0.171  Sum_probs=14.8

Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 022531          130 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  161 (295)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (295)
                      +++|...|++....   .|+..+|+.-+.+..
T Consensus        96 F~kA~~~FqkAv~~---~P~ne~Y~ksLe~~~  124 (186)
T PF06552_consen   96 FEKATEYFQKAVDE---DPNNELYRKSLEMAA  124 (186)
T ss_dssp             HHHHHHHHHHHHHH----TT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhc---CCCcHHHHHHHHHHH
Confidence            44455555555543   466666666666553

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.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.06  E-value=7.3  Score=25.35  Aligned_cols=85  Identities=9%  Similarity=0.049  Sum_probs=46.9

Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHH
Q 022531          130 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIW  209 (295)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  209 (295)
                      .++|..+-+.+... +.. ...+--.-+..+...|++++|..     +....+.||...|-+|..  .+.|-.+++..-+
T Consensus        21 HqEA~tIAdwL~~~-~~~-~E~v~lIRlsSLmNrG~Yq~Al~-----l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl   91 (115)
T TIGR02508        21 HQEANTIADWLHLK-GES-EEAVQLIRLSSLMNRGDYQSALQ-----LGNKLCYPDLEPWLALCE--WRLGLGSALESRL   91 (115)
T ss_pred             HHHHHHHHHHHhcC-Cch-HHHHHHHHHHHHHccchHHHHHH-----hcCCCCCchHHHHHHHHH--HhhccHHHHHHHH
Confidence            45666666655543 211 22222233345666777777777     333445677777766644  4566666666666


Q ss_pred             HHHHhccCCCCHHhH
Q 022531          210 KSLRMTKQKMTSRNY  224 (295)
Q Consensus       210 ~~m~~~~~~~~~~~~  224 (295)
                      .+|..+| .|....|
T Consensus        92 ~rla~sg-~p~lq~F  105 (115)
T TIGR02508        92 NRLAASG-DPRLQTF  105 (115)
T ss_pred             HHHHhCC-CHHHHHH
Confidence            6666665 4444444

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.

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=85.70  E-value=27  Score=31.53  Aligned_cols=65  Identities=9%  Similarity=0.037  Sum_probs=42.7

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccC-CCCHHHHHHHHHHHHccCc-------HHHHHHHHHHHHhC
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLS-AKTSETYTALLHLYAGAKW-------TEKAEELFERVKQS   73 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-~p~~~~~~~li~~~~~~~~-------~~~a~~~~~~m~~~   73 (295)
                      ++......+|-.|.|+|++++|.++....... ......+-..+..|....+       -+....-|++....
T Consensus       109 ~~~~p~Wa~Iyy~LR~G~~~~A~~~~~~~~~~~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~  181 (613)
T PF04097_consen  109 VNGDPIWALIYYCLRCGDYDEALEVANENRNQFQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRN  181 (613)
T ss_dssp             ETTEEHHHHHHHHHTTT-HHHHHHHHHHTGGGS-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT
T ss_pred             CCCCccHHHHHHHHhcCCHHHHHHHHHHhhhhhcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcC
Confidence            35556778899999999999999999555554 2455667777777766422       23455556655544

It is required for the correct assembly of the nuclear pore complex []. In Saccharomyces cerevisiae, Nic96 has been shown to be involved in the distribution and cellular concentration of the GTPase Gsp1 []. The structure of Nic96 has revealed a mostly alpha helical structure [].; GO: 0006810 transport, 0005643 nuclear pore; PDB: 2QX5_B 2RFO_A.

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=84.88  E-value=17  Score=28.59  Aligned_cols=188  Identities=12%  Similarity=0.027  Sum_probs=97.1

Q ss_pred             CCHHHHHHHHHHHHhCCCCCC---hHhHHHHHHHHHccCCHHHHHHHHHHHhhc----CCCCCCHHHHHHHHHHHHhcCc
Q 022531           93 GQVEKVALVVEEIKRKNVVPD---IFTYNLWISSCAATLNIDQVKKFLDEMSCD----SGGSDDWVKYVNLVNIYITASH  165 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~  165 (295)
                      .++++|+.-|++..+......   ..+...++....+.+++++....|.++..-    .--.-+....|+++.......+
T Consensus        41 ~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~~  120 (440)
T KOG1464|consen   41 DEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSKN  120 (440)
T ss_pred             cCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhhh
Confidence            355666666665554321111   223334555666666666666666655431    0011234455666665555555


Q ss_pred             hhhHHHHHHHHHHHhcC-CCcc----ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-----------CCHHhHHHHHH
Q 022531          166 LVNAESSTLVEAEKSIT-QRQW----ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-----------MTSRNYICILS  229 (295)
Q Consensus       166 ~~~a~~~~~~~~~~~~~-~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-----------~~~~~~~~li~  229 (295)
                      .+--.+ +++...+... ..|.    .|-+.|...|...+.+.+...+++++..+-..           .-...|..=|+
T Consensus       121 m~LLQ~-FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  121 MDLLQE-FYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hHHHHH-HHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            554444 4443332111 1122    22245666677777777777777777543111           11234666677


Q ss_pred             HHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHH-----HccCChHHHH-HHHHH
Q 022531          230 SYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF-----SDVGLTEKAN-EFHML  282 (295)
Q Consensus       230 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~-----~~~g~~~~a~-~~~~~  282 (295)
                      .|....+-..-..++++...-...-|.+.... +|+-|     .+.|++++|. ++|+.
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEA  257 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEA  257 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHH
Confidence            78777777777777777654332234444333 33333     3567777766 34433

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=84.66  E-value=15  Score=27.87  Aligned_cols=183  Identities=14%  Similarity=0.036  Sum_probs=107.6

Q ss_pred             HHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHH
Q 022531           21 MTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   99 (295)
Q Consensus        21 ~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~   99 (295)
                      |-..|-..-|+-=|.+.....| -+.+||-|.-.+...|+++.|.+.|+...+.+- ....++-.-.-++.--|+++-|.
T Consensus        75 YDSlGL~~LAR~DftQaLai~P~m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp-~y~Ya~lNRgi~~YY~gR~~LAq  153 (297)
T COG4785          75 YDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRYKLAQ  153 (297)
T ss_pred             hhhhhHHHHHhhhhhhhhhcCCCcHHHHHHHHHHHHhcccchHHHHHhhhHhccCC-cchHHHhccceeeeecCchHhhH
Confidence            3444556666666666655556 467999999999999999999999999998862 22223222222344568899998


Q ss_pred             HHHHHHHhCCC-CCChHhHHHHHHHHHccCCHHHHHHHHHH-HhhcCCCCCCHHHHHH-HHHHHHhcCchhhHHHHHHHH
Q 022531          100 LVVEEIKRKNV-VPDIFTYNLWISSCAATLNIDQVKKFLDE-MSCDSGGSDDWVKYVN-LVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus       100 ~~~~~m~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~-~~~~~~~~~~~~~~~~-l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      +=|.+.-+... .|--..|--+.   -+.-++.+|..-+.+ ....     +..-|.. ++..|...-..+.+    +++
T Consensus       154 ~d~~~fYQ~D~~DPfR~LWLYl~---E~k~dP~~A~tnL~qR~~~~-----d~e~WG~~iV~~yLgkiS~e~l----~~~  221 (297)
T COG4785         154 DDLLAFYQDDPNDPFRSLWLYLN---EQKLDPKQAKTNLKQRAEKS-----DKEQWGWNIVEFYLGKISEETL----MER  221 (297)
T ss_pred             HHHHHHHhcCCCChHHHHHHHHH---HhhCCHHHHHHHHHHHHHhc-----cHhhhhHHHHHHHHhhccHHHH----HHH
Confidence            88877766532 22222333333   233467777654443 3332     2222222 22333222222222    222


Q ss_pred             HHHhcC------CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 022531          177 AEKSIT------QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       177 ~~~~~~------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  216 (295)
                      +...-.      ..-..||--|..-+...|+.++|..+|+-....+
T Consensus       222 ~~a~a~~n~~~Ae~LTEtyFYL~K~~l~~G~~~~A~~LfKLaiann  267 (297)
T COG4785         222 LKADATDNTSLAEHLTETYFYLGKYYLSLGDLDEATALFKLAVANN  267 (297)
T ss_pred             HHhhccchHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHh
Confidence            221111      1123678889999999999999999999876653

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.42  E-value=9  Score=24.96  Aligned_cols=88  Identities=9%  Similarity=0.017  Sum_probs=59.4

Q ss_pred             cChhHHHHHHhhcccCCCC-HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022531           25 FGIHSGERYFEGLPLSAKT-SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE  103 (295)
Q Consensus        25 ~~~~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  103 (295)
                      ..-++|..+-+.+...+.. ..+--+-+..+...|++++|+.+.+.+    ..||...|-+|..  .+.|-.++...-+.
T Consensus        19 HcHqEA~tIAdwL~~~~~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~   92 (115)
T TIGR02508        19 HCHQEANTIADWLHLKGESEEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLN   92 (115)
T ss_pred             hHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHH
Confidence            3467888887777665322 223333355778899999999988776    3688888877655  46677777777787


Q ss_pred             HHHhCCCCCChHhHHH
Q 022531          104 EIKRKNVVPDIFTYNL  119 (295)
Q Consensus       104 ~m~~~~~~p~~~~~~~  119 (295)
                      +|..+|- |....|..
T Consensus        93 rla~sg~-p~lq~Faa  107 (115)
T TIGR02508        93 RLAASGD-PRLQTFVA  107 (115)
T ss_pred             HHHhCCC-HHHHHHHH
Confidence            8877753 45555543

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.

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=84.39  E-value=6.6  Score=29.17  Aligned_cols=33  Identities=12%  Similarity=0.202  Sum_probs=24.4

Q ss_pred             CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          217 QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       217 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      ..|++.+|..++.++...|+.++|.+...++..
T Consensus       140 ~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~  172 (193)
T PF11846_consen  140 RRPDPNVYQRYALALALLGDPEEARQWLARARR  172 (193)
T ss_pred             hCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            367777777777777777777777777777766

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=84.36  E-value=29  Score=30.84  Aligned_cols=178  Identities=10%  Similarity=-0.066  Sum_probs=94.8

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-----HhcCCHHHHHHHHHHHHh-------CCCCCChHhHHHHHHHHHcc
Q 022531           60 TEKAEELFERVKQSNLSFNALMYNEMMTLY-----MSVGQVEKVALVVEEIKR-------KNVVPDIFTYNLWISSCAAT  127 (295)
Q Consensus        60 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~-----~~~~~~~~a~~~~~~m~~-------~~~~p~~~~~~~li~~~~~~  127 (295)
                      ...|...++...+.|   +...-..+..+|     ....+++.|+.+|+...+       .|   +.....-+..+|.+.
T Consensus       228 ~~~a~~~~~~~a~~g---~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~---~~~a~~~lg~~Y~~g  301 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG---HSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKG---LPPAQYGLGRLYLQG  301 (552)
T ss_pred             hhHHHHHHHHHHhhc---chHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhc---CCccccHHHHHHhcC
Confidence            456778888777776   344443333333     345678888888887766       44   233455566666653


Q ss_pred             C-----CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh-cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHH--Hhc
Q 022531          128 L-----NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT-ASHLVNAESSTLVEAEKSITQRQWITYDFLIILY--AGL  199 (295)
Q Consensus       128 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~--~~~  199 (295)
                      .     +.+.|..++...-.. | .|+....-..+..... ..+...|.+ ++......|.. ...-+..++...  ...
T Consensus       302 ~~~~~~d~~~A~~~~~~aA~~-g-~~~a~~~lg~~~~~g~~~~d~~~A~~-yy~~Aa~~G~~-~A~~~la~~y~~G~gv~  377 (552)
T KOG1550|consen  302 LGVEKIDYEKALKLYTKAAEL-G-NPDAQYLLGVLYETGTKERDYRRAFE-YYSLAAKAGHI-LAIYRLALCYELGLGVE  377 (552)
T ss_pred             CCCccccHHHHHHHHHHHHhc-C-CchHHHHHHHHHHcCCccccHHHHHH-HHHHHHHcCCh-HHHHHHHHHHHhCCCcC
Confidence            3     566688888777765 3 2344332222222222 234667777 77777666643 222222221111  123


Q ss_pred             CCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          200 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       200 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      .+...|..++++..+.| .|...--...+..+.. ++.+.+.-.+..+..
T Consensus       378 r~~~~A~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~  425 (552)
T KOG1550|consen  378 RNLELAFAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAE  425 (552)
T ss_pred             CCHHHHHHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHH
Confidence            46777888888777776 3332221223333333 555555555544444

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=84.26  E-value=12  Score=26.32  Aligned_cols=82  Identities=9%  Similarity=0.043  Sum_probs=50.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCC-----CCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCChHhHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSN-----LSFNALMYNEMMTLYMSVGQ-VEKVALVVEEIKRKNVVPDIFTYNL  119 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~  119 (295)
                      ..|.++.-.+..+++...+.+++.+....     -..+...|+.++.+.++... ---+..+|.-|++.+.+++..-|..
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            45666666666777777777777663221     01244556777777655554 3445666666666666667777777


Q ss_pred             HHHHHHcc
Q 022531          120 WISSCAAT  127 (295)
Q Consensus       120 li~~~~~~  127 (295)
                      +|.++.+.
T Consensus       121 li~~~l~g  128 (145)
T PF13762_consen  121 LIKAALRG  128 (145)
T ss_pred             HHHHHHcC
Confidence            77666554

>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=84.25  E-value=57  Score=34.10  Aligned_cols=62  Identities=18%  Similarity=0.072  Sum_probs=41.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCC
Q 022531          223 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNC  288 (295)
Q Consensus       223 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~  288 (295)
                      +|....+.....|+++.|...+-...+..  .|..  +---.....+.|+...|+.++++.++...
T Consensus      1672 ~wLqsAriaR~aG~~q~A~nall~A~e~r--~~~i--~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1672 CWLQSARIARLAGHLQRAQNALLNAKESR--LPEI--VLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHhhhhcc--cchH--HHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            35555566666788887777666555533  2333  44566677888888888888888876443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=83.73  E-value=5.4  Score=32.38  Aligned_cols=55  Identities=9%  Similarity=-0.036  Sum_probs=39.2

Q ss_pred             HHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          158 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      +-|.+.|.+++|.+ .+.......+ -|.+++..-..+|.+..++..|+.=......
T Consensus       105 N~yFKQgKy~EAID-CYs~~ia~~P-~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia  159 (536)
T KOG4648|consen  105 NTYFKQGKYEEAID-CYSTAIAVYP-HNPVYHINRALAYLKQKSFAQAEEDCEAAIA  159 (536)
T ss_pred             hhhhhccchhHHHH-HhhhhhccCC-CCccchhhHHHHHHHHHHHHHHHHhHHHHHH
Confidence            56888899999999 6665444332 2778888888889888888877765554443

>PF11817 Foie-gras_1: Foie gras liver health family 1; InterPro: IPR021773 Mutating the gene foie gras in zebrafish has been shown to affect development; the mutants develop large, lipid-filled hepatocytes in the liver, resembling those in individuals with fatty liver disease []

Probab=83.70  E-value=8.4  Score=30.03  Aligned_cols=61  Identities=16%  Similarity=0.151  Sum_probs=45.6

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHhh----hcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          224 YICILSSYLMLGHLKEVGEIIDQWKQ----SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       224 ~~~li~~~~~~~~~~~A~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      ...+..-|.+.|++++|.++|+.+..    .+...+...+...+..++...|+.+....+-=++.
T Consensus       181 ~~~~A~ey~~~g~~~~A~~~l~~~~~~yr~egW~~l~~~~l~~l~~Ca~~~~~~~~~l~~~leLl  245 (247)
T PF11817_consen  181 SLEMAEEYFRLGDYDKALKLLEPAASSYRREGWWSLLTEVLWRLLECAKRLGDVEDYLTTSLELL  245 (247)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHh
Confidence            33577888999999999999998743    33334455667778888889999988887766654

Foie-gras protein is long and has several well-defined domains though none of them has a known function. We have annotated this one as the first []. THe C terminus of this region contains TPR repeats.

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=83.46  E-value=18  Score=27.59  Aligned_cols=77  Identities=13%  Similarity=0.005  Sum_probs=57.8

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCChHhHHHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKN--VVPDIFTYNLWISS  123 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~  123 (295)
                      |.+.-++.+.+.+.+++++...++-.+.. +-|...-..++..++-.|+|++|..-++-.-+..  ..+-..+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            34556677888899999999998877764 4567778899999999999999988887665532  23345667777765

>KOG2908 consensus 26S proteasome regulatory complex, subunit RPN9/PSMD13 [Posttranslational modification, protein turnover, chaperones]

Probab=82.79  E-value=14  Score=29.98  Aligned_cols=81  Identities=10%  Similarity=0.111  Sum_probs=0.0

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccC-----CCCHHHHHHH--HHHHHccCcHHHHHHHHHHHHh-----CCCCCCH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLS-----AKTSETYTAL--LHLYAGAKWTEKAEELFERVKQ-----SNLSFNA   79 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----~p~~~~~~~l--i~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~   79 (295)
                      .....++.+.-+.++.++|.++++++.+.     .|+...|...  .+.+...|+..++.+++++.++     .+++|++
T Consensus        76 slvei~l~~~~~~~D~~~al~~Le~i~~~~~~~~e~~av~~~~t~~~r~~L~i~DLk~~kk~ldd~~~~ld~~~~v~~~V  155 (380)
T KOG2908|consen   76 SLVEILLVVSEQISDKDEALEFLEKIIEKLKEYKEPDAVIYILTEIARLKLEINDLKEIKKLLDDLKSMLDSLDGVTSNV  155 (380)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhcccCCChhh


Q ss_pred             H-HHHHHHHHHHhc
Q 022531           80 L-MYNEMMTLYMSV   92 (295)
Q Consensus        80 ~-~~~~li~~~~~~   92 (295)
                      + .|+.+-.-|.+.
T Consensus       156 h~~fY~lssqYyk~  169 (380)
T KOG2908|consen  156 HSSFYSLSSQYYKK  169 (380)
T ss_pred             hhhHHHHHHHHHHH

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=82.56  E-value=37  Score=30.67  Aligned_cols=63  Identities=14%  Similarity=0.099  Sum_probs=40.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-------HHHHHHHHHHHHhCCC
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ-------VEKVALVVEEIKRKNV  110 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-------~~~a~~~~~~m~~~~~  110 (295)
                      -=.+|-.|.|+|++++|.++..+.... +......+-..+..|....+       -++...-|++..+...
T Consensus       114 ~Wa~Iyy~LR~G~~~~A~~~~~~~~~~-~~~~~~~f~~~l~~~~~s~~~~l~~~~~~~l~~ey~~~~r~~~  183 (613)
T PF04097_consen  114 IWALIYYCLRCGDYDEALEVANENRNQ-FQKIERSFPTYLKAYASSPDRRLPPELRDKLKLEYNQRIRNST  183 (613)
T ss_dssp             HHHHHHHHHTTT-HHHHHHHHHHTGGG-S-TTTTHHHHHHHHCTTTTSS---TCCCHHHHHHHHHHTTT-T
T ss_pred             cHHHHHHHHhcCCHHHHHHHHHHhhhh-hcchhHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHHHhcCCC
Confidence            345788889999999999999655543 34445667777777776532       2355666666665543

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.

>PF10579 Rapsyn_N: Rapsyn N-terminal myristoylation and linker region; InterPro: IPR019568 Neuromuscular junction formation relies upon the clustering of acetylcholine receptors and other proteins in the muscle membrane

Probab=82.53  E-value=6.2  Score=24.34  Aligned_cols=45  Identities=4%  Similarity=-0.082  Sum_probs=20.1

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCC--hHhHHHHHHHHHccCCHHHHHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPD--IFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~  135 (295)
                      ...+.++|+..|....+.-..|.  -.++..++.+++..|+++++++
T Consensus        18 ~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~   64 (80)
T PF10579_consen   18 HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLA   64 (80)
T ss_pred             ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34444555555555444322211  1234444555555555555444

Rapsyn is a peripheral membrane protein that is selectively concentrated at the neuromuscular junction and is essential for the formation of synaptic acetylcholine receptor aggregates. Acetylcholine receptors fail to aggregate beneath nerve terminals in mice where rapsyn has been knocked out. The N-terminal six amino acids of rapsyn are its myristoylation site, and myristoylation is necessary for the targeting of the protein to the membrane []. ; GO: 0008270 zinc ion binding, 0033130 acetylcholine receptor binding, 0007268 synaptic transmission, 0005856 cytoskeleton, 0030054 cell junction, 0045211 postsynaptic membrane

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=82.49  E-value=6.2  Score=23.06  Aligned_cols=23  Identities=26%  Similarity=0.414  Sum_probs=11.6

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHh
Q 022531          226 CILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       226 ~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      .+|.+|...|++++|.+++.++.
T Consensus        28 qvI~gllqlg~~~~a~eYi~~~~   50 (62)
T PF14689_consen   28 QVIYGLLQLGKYEEAKEYIKELS   50 (62)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHH
Confidence            34555555555555555555443

>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=81.87  E-value=12  Score=27.38  Aligned_cols=107  Identities=14%  Similarity=0.037  Sum_probs=55.8

Q ss_pred             hhHHHHHHhhcccCCC-CHHHHHHHHH---HHHccCcHHHH-------HHHHHHHHhCCCCCC-HHHHHHHHHHHHhcC-
Q 022531           27 IHSGERYFEGLPLSAK-TSETYTALLH---LYAGAKWTEKA-------EELFERVKQSNLSFN-ALMYNEMMTLYMSVG-   93 (295)
Q Consensus        27 ~~~A~~~~~~~~~~~p-~~~~~~~li~---~~~~~~~~~~a-------~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~-   93 (295)
                      ++.|.+..+.--...| |...++.-..   -++......++       ..-|++.+..  .|+ ..++..+..+|...+ 
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 FEHARKKAEAAYAKNPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKI--NPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHHHHh
Confidence            4445555554333344 5554444333   33333333444       4444444443  355 457777777766443 


Q ss_pred             ---C-------HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           94 ---Q-------VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        94 ---~-------~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                         +       +++|...|++..+  ..|+..+|..-+....      +|-+++.++.+.
T Consensus        85 l~~d~~~A~~~F~kA~~~FqkAv~--~~P~ne~Y~ksLe~~~------kap~lh~e~~~~  136 (186)
T PF06552_consen   85 LTPDTAEAEEYFEKATEYFQKAVD--EDPNNELYRKSLEMAA------KAPELHMEIHKQ  136 (186)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHH--H-TT-HHHHHHHHHHH------THHHHHHHHHHS
T ss_pred             hcCChHHHHHHHHHHHHHHHHHHh--cCCCcHHHHHHHHHHH------hhHHHHHHHHHH
Confidence               2       4556666666665  4799999998888764      355566666554

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.

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=81.85  E-value=15  Score=25.55  Aligned_cols=67  Identities=9%  Similarity=-0.054  Sum_probs=36.9

Q ss_pred             ccccHHHHHHHHHhcC---CHHHHHHHHHHHHhccCCCCHHhH-HHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          185 QWITYDFLIILYAGLG---NKDKIDQIWKSLRMTKQKMTSRNY-ICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       185 ~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~~~-~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      +..+--.+..++.+..   +..+.+.+++.+.+...+-...-| --|.-++.+.++++.++++++.+.+..
T Consensus        31 s~~s~f~lAwaLV~S~~~~dv~~GI~iLe~l~~~~~~~~rRe~lyYLAvg~yRlkeY~~s~~yvd~ll~~e  101 (149)
T KOG3364|consen   31 SKQSQFNLAWALVRSRDTEDVQEGIVILEDLLKSAHPERRRECLYYLAVGHYRLKEYSKSLRYVDALLETE  101 (149)
T ss_pred             hHHHHHHHHHHHHcccchHHHHHhHHHHHHHhhhcCcccchhhhhhhHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            3333334444555544   345556677776653222222222 235556777888888888887777643

>KOG4507 consensus Uncharacterized conserved protein, contains TPR repeats [Function unknown]

Probab=81.64  E-value=27  Score=30.90  Aligned_cols=147  Identities=13%  Similarity=0.041  Sum_probs=82.4

Q ss_pred             CChHhHHHHHHHHHccC--CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccH
Q 022531          112 PDIFTYNLWISSCAATL--NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY  189 (295)
Q Consensus       112 p~~~~~~~li~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (295)
                      |+..+..+++.-....-  ..+-|-.++-.|.+  ..-|-+.+.|...-...-.|+...|.. .+...+...+...-+..
T Consensus       569 ~~~~~~k~~~~r~~~~~i~e~e~~~~~~~~~~~--~~~p~w~~ln~aglywr~~gn~~~a~~-cl~~a~~~~p~~~~v~~  645 (886)
T KOG4507|consen  569 PDDHARKILLSRINNYTIPEEEIGSFLFHAINK--PNAPIWLILNEAGLYWRAVGNSTFAIA-CLQRALNLAPLQQDVPL  645 (886)
T ss_pred             chHHHHHHHHHHHhcccCcHHHHHHHHHHHhcC--CCCCeEEEeecccceeeecCCcHHHHH-HHHHHhccChhhhcccH
Confidence            45555555544333221  12334444444443  334544444433333334577777777 55555554444344555


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHH
Q 022531          190 DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  264 (295)
Q Consensus       190 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~  264 (295)
                      -.|.....+.|...+|-.++.+..... ...+-++..+.+++....+++.|++.|++..+...  .+...-+.|.
T Consensus       646 v~la~~~~~~~~~~da~~~l~q~l~~~-~sepl~~~~~g~~~l~l~~i~~a~~~~~~a~~~~~--~~~~~~~~l~  717 (886)
T KOG4507|consen  646 VNLANLLIHYGLHLDATKLLLQALAIN-SSEPLTFLSLGNAYLALKNISGALEAFRQALKLTT--KCPECENSLK  717 (886)
T ss_pred             HHHHHHHHHhhhhccHHHHHHHHHhhc-ccCchHHHhcchhHHHHhhhHHHHHHHHHHHhcCC--CChhhHHHHH
Confidence            556666667777777777776655543 33344566777888888888888888887776542  3444444444

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.00  E-value=32  Score=28.86  Aligned_cols=166  Identities=10%  Similarity=-0.003  Sum_probs=89.1

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---------CCCCC
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK---------NVVPD  113 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------~~~p~  113 (295)
                      ..+.-+..-|..+|+++.|++.+.+....-  .+-....|-.+|..-.-.|+|.....+..+..+.         .+.+-
T Consensus       151 ra~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A~st~~~~~~~~q~v~~k  230 (466)
T KOG0686|consen  151 RALEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKAESTPDANENLAQEVPAK  230 (466)
T ss_pred             HHHHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHHHhCchhhhhHHHhcCcc
Confidence            456778888889999999999998865432  1112345556666667778888777776666553         13333


Q ss_pred             hHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-----CCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcccc
Q 022531          114 IFTYNLWISSCAATLNIDQVKKFLDEMSCDS-----GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT  188 (295)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (295)
                      ...+..+...+.  +++..|.+.|-......     -+.|+-.+....+.+++--++-+--..+.-...++......+..
T Consensus       231 l~C~agLa~L~l--kkyk~aa~~fL~~~~~~~d~~~ivtpsdv~iYggLcALAtfdr~~Lk~~vi~n~~Fk~flel~Pql  308 (466)
T KOG0686|consen  231 LKCAAGLANLLL--KKYKSAAKYFLLAEFDHCDYPEIVTPSDVAIYGGLCALATFDRQDLKLNVIKNESFKLFLELEPQL  308 (466)
T ss_pred             hHHHHHHHHHHH--HHHHHHHHHHHhCCCCccCccceecchhhHHHHhhHhhccCCHHHHHHHHHcchhhhhHHhcChHH
Confidence            444444444443  36666666554433221     12333333334445554444443332311111122222223334


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      +..+...|  .+++..+++++++++.
T Consensus       309 r~il~~fy--~sky~~cl~~L~~~k~  332 (466)
T KOG0686|consen  309 REILFKFY--SSKYASCLELLREIKP  332 (466)
T ss_pred             HHHHHHHh--hhhHHHHHHHHHHhcc
Confidence            44444433  4677888888887654

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=80.80  E-value=36  Score=29.41  Aligned_cols=244  Identities=10%  Similarity=0.066  Sum_probs=139.7

Q ss_pred             HHHHHhhcccCCCCHHHHHHHHHHHHccC------cHHHHHHHHHHHHhC-CCCCC-HHHHHHHHHHHHhcCCH-HHHHH
Q 022531           30 GERYFEGLPLSAKTSETYTALLHLYAGAK------WTEKAEELFERVKQS-NLSFN-ALMYNEMMTLYMSVGQV-EKVAL  100 (295)
Q Consensus        30 A~~~~~~~~~~~p~~~~~~~li~~~~~~~------~~~~a~~~~~~m~~~-~~~p~-~~~~~~li~~~~~~~~~-~~a~~  100 (295)
                      ...+|+....--|+...|+..|..|...-      .+.....+|+..... +..++ ...|..+.-.+...... +-|..
T Consensus       301 ~~~v~ee~v~~l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~~a~~  380 (568)
T KOG2396|consen  301 CCAVYEEAVKTLPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEAREVAVK  380 (568)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhHHHHH
Confidence            34566666554467777777777665432      345555566655433 23333 34555555555555543 33444


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHcc-CCHHHH-HHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Q 022531          101 VVEEIKRKNVVPDIFTYNLWISSCAAT-LNIDQV-KKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAE  178 (295)
Q Consensus       101 ~~~~m~~~~~~p~~~~~~~li~~~~~~-~~~~~a-~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (295)
                      +..+..    .-+...|..-+....+. .+++-- ..++...... -..+....|++..    +....+.....++-...
T Consensus       381 l~~e~f----~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~-~~s~~~~~w~s~~----~~dsl~~~~~~~Ii~a~  451 (568)
T KOG2396|consen  381 LTTELF----RDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQ-VCSELLISWASAS----EGDSLQEDTLDLIISAL  451 (568)
T ss_pred             hhHHHh----cchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHH-hcchhHHHHHHHh----hccchhHHHHHHHHHHH
Confidence            443333    33555555544444422 122221 1223333332 2233333444333    22223333322333344


Q ss_pred             HhcCCCccccH-HHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHH--hcCChHHHHHHHHHHhhhcCCCC
Q 022531          179 KSITQRQWITY-DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL--MLGHLKEVGEIIDQWKQSATSDF  255 (295)
Q Consensus       179 ~~~~~~~~~~~-~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~--~~~~~~~A~~~~~~~~~~~~~~~  255 (295)
                      .+...++..++ +.++..+-..|-..+|...+..+.... +|+...|..+|+.=.  ..-++..+.++|+.+....+  .
T Consensus       452 ~s~~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lp-p~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg--~  528 (568)
T KOG2396|consen  452 LSVIGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELP-PFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFG--A  528 (568)
T ss_pred             HHhcCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCC-CccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhC--C
Confidence            45555666665 567888888999999999999998763 556666666665422  22237788999999988765  5


Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          256 DISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      |+..|...+.-=...|..+.+-.++.++.+
T Consensus       529 d~~lw~~y~~~e~~~g~~en~~~~~~ra~k  558 (568)
T KOG2396|consen  529 DSDLWMDYMKEELPLGRPENCGQIYWRAMK  558 (568)
T ss_pred             ChHHHHHHHHhhccCCCcccccHHHHHHHH
Confidence            778888888777789999998888777654

>smart00028 TPR Tetratricopeptide repeats

Probab=80.26  E-value=3  Score=19.27  Aligned_cols=27  Identities=19%  Similarity=0.154  Sum_probs=15.9

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHh
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQ   72 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~   72 (295)
                      .|..+...+...++++.|...|+...+
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~   29 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALE   29 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHc
Confidence            445555566666666666666665554

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.

---

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	295
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	1e-07
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	5e-07
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-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 = 52.1 bits (123), Expect = 1e-07
 Identities = 16/109 (14%), Positives = 35/109 (32%), Gaps = 4/109 (3%)

Query: 45  ETYTALLHLYAGAKWTEKAEELFERVKQ---SNLSFNALMYNEMMTLYMSVGQVEKVALV 101
           +   A             A  L                 MYN +M  +   G  +++  V
Sbjct: 128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYV 187

Query: 102 VEEIKRKNVVPDIFTYNLWISSCA-ATLNIDQVKKFLDEMSCDSGGSDD 149
           +  +K   + PD+ +Y   +        +   +++ L++MS +      
Sbjct: 188 LFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQA 236

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 50.2 bits (118), Expect = 5e-07
 Identities = 24/211 (11%), Positives = 69/211 (32%), Gaps = 10/211 (4%)

Query: 45  ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL-VVE 103
           + Y A++  +A     ++   +   VK + L+ + L Y   +       Q        +E
Sbjct: 166 DMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLE 225

Query: 104 EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA 163
           ++ ++ +        + +S       +  V K     S              L ++Y   
Sbjct: 226 QMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD 285

Query: 164 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN 223
             +   +    ++  + + ++Q         L+  L ++  +  + K    +K+   +R 
Sbjct: 286 GRVSYPKLHLPLKTLQCLFEKQ---------LHMELASRVCVVSVEKPTLPSKEVKHARK 336

Query: 224 YICILSSYLMLGHLKEVGEIIDQWKQSATSD 254
            +  L         + + E  ++ ++     
Sbjct: 337 TLKTLRDQWEKALCRALRETKNRLEREVYEG 367

>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 = 41.4 bits (96), Expect = 3e-04
 Identities = 48/312 (15%), Positives = 98/312 (31%), Gaps = 97/312 (31%)

Query: 16  TR-IDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTE-KAEELFERVKQS 73
           TR   +   +    +     +   ++    E  + L       K+ + + ++L   V  +
Sbjct: 272 TRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLL------LKYLDCRPQDLPREVLTT 325

Query: 74  NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQV 133
           N                       ++++ E I+       + T++ W       +N D++
Sbjct: 326 NP----RR----------------LSIIAESIR-----DGLATWDNW-----KHVNCDKL 355

Query: 134 KKFLDEMSCDSGGSDDWVK-YVNLV----NIYITASHLVNAESSTLVEAEKSITQRQW-- 186
              + E S +     ++ K +  L     + +I    L     S +           W  
Sbjct: 356 TTII-ESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILL-----SLI-----------WFD 398

Query: 187 -ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL-MLGHLKEVGE-- 242
            I  D ++++   L     +++  K   ++           I S YL +   L+      
Sbjct: 399 VIKSDVMVVV-NKLHKYSLVEKQPKESTIS-----------IPSIYLELKVKLENEYALH 446

Query: 243 --IIDQWKQSATSDFDISACNRLLGAF--------SDVGLTEKANEFHMLLL------QK 286
             I+D +    T D D      L   F         ++   E+   F M+ L      QK
Sbjct: 447 RSIVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQK 506

Query: 287 ---NCAPTNASG 295
              +    NASG
Sbjct: 507 IRHDSTAWNASG 518

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	295
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	99.97
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.95
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.92
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.91
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.9
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.89
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.88
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.88
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.87
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.87
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.86
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.81
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.79
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.78
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.77
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.77
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.77
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.76
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.75
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.75
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.75
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.75
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.74
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.74
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.73
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.7
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.7
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.69
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.68
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.68
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.67
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.67
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.66
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.66
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.66
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.65
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.64
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.64
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.6
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.59
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.59
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.58
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.57
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.57
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.57
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.54
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.52
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.51
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.5
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.49
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.49
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.48
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.48
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.48
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.45
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.42
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.42
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.4
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.36
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.36
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.34
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.34
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.34
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.32
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.31
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.29
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.27
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.27
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.27
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.26
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.25
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.25
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.24
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.24
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.23
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.22
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.21
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.21
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.21
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.21
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.21
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.19
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.18
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.18
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.17
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.17
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.15
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.09
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.09
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.07
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.07
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.05
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.05
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.03
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.01
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.0
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.0
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.0
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.99
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.99
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	98.99
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.99
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.98
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.98
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.98
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.98
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.97
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.96
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.96
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.95
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.94
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.94
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.93
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.93
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.91
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.9
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.9
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.9
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.84
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.82
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.81
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.81
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.8
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.8
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.8
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.79
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.79
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.79
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.78
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.77
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.75
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.75
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.74
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.74
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.74
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.73
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.72
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.72
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.7
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.68
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.67
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.67
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.66
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.64
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.64
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.62
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.59
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.56
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.53
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.53
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.52
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.52
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.52
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.5
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.49
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.48
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.48
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.47
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.47
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.46
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.45
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.35
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.3
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.27
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.27
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.26
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.25
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.21
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.19
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.16
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.16
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.15
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.14
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.11
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.08
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.08
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.01
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.0
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.94
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.87
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.83
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.69
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.57
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.54
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.54
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.49
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.46
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.44
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.43
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.42
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.37
1pc2_A	152	Mitochondria fission protein; unknown function; NM	97.2
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.19
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.17
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	97.11
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.0
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.99
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.97
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.96
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.65
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.46
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.35
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.28
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.19
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.14
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.13
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.85
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.67
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.23
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.15
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	95.08
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	95.0
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.99
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.98
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	94.67
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.67
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	94.53
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	93.97
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.83
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.71
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	93.23
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	92.59
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.34
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	92.28
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	92.27
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	92.27
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	91.86
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	91.35
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	91.25
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	91.15
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	90.9
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	90.31
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.71
2p58_C	116	Putative type III secretion protein YSCG; type III	89.41
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	89.27
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	88.52
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	88.34
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	88.19
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.81
3eu9_A	240	Huntingtin-interacting protein 14; epigenetics, an	87.74
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	87.58
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	87.51
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	86.92
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	86.77
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	85.13
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	84.62
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	84.17
2zu6_B	307	Programmed cell death protein 4; protein-protein c	83.4
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	82.89
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	80.8
4aez_C	223	MAD3, mitotic spindle checkpoint component MAD3; c	80.64
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	80.5

>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=100.00  E-value=5.1e-37  Score=258.79  Aligned_cols=205  Identities=12%  Similarity=0.073  Sum_probs=181.9

Q ss_pred             hHHHHHHhhcccCC--C-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---------H
Q 022531           28 HSGERYFEGLPLSA--K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ---------V   95 (295)
Q Consensus        28 ~~A~~~~~~~~~~~--p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~---------~   95 (295)
                      ..+..+.+.+.+..  + ....++.+|.+|++.|++++|+++|++|.+.|++||..|||+||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            34555666666552  2 3456889999999999999999999999999999999999999999987664         7


Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHH
Q 022531           96 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  175 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (295)
                      ++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|... |+.|+..+|+++|.+|++.|++++|.+ +++
T Consensus        87 ~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~-g~~Pd~~tyn~lI~~~~~~g~~~~A~~-l~~  164 (501)
T 4g26_A           87 SRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKAF-GIQPRLRSYGPALFGFCRKGDADKAYE-VDA  164 (501)
T ss_dssp             HHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHTTCHHHHHH-HHH
T ss_pred             HHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHc-CCCCccceehHHHHHHHHCCCHHHHHH-HHH
Confidence            899999999999999999999999999999999999999999999998 999999999999999999999999999 999


Q ss_pred             HHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhc
Q 022531          176 EAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML  234 (295)
Q Consensus       176 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~  234 (295)
                      +|.+.+..||..||++||.+|++.|++++|.+++++|++.|..|+..||+.++..|+..
T Consensus       165 ~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          165 HMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            99999999999999999999999999999999999999999999999999999998864

>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=100.00  E-value=8.4e-37  Score=257.44  Aligned_cols=207  Identities=12%  Similarity=0.146  Sum_probs=182.0

Q ss_pred             HHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC---------H
Q 022531           61 EKAEELFERVKQSNLSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN---------I  130 (295)
Q Consensus        61 ~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~---------~  130 (295)
                      ..+..+.+++.+.+..+.+. .++.+|.+|++.|++++|+++|++|.+.|+.||..||++||.+|++.+.         +
T Consensus         7 s~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l   86 (501)
T 4g26_A            7 SPSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGL   86 (501)
T ss_dssp             -----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHH
T ss_pred             chHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchH
Confidence            44666777888887766554 6899999999999999999999999999999999999999999987664         6


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          131 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      ++|.++|++|... |+.||..+|+++|.+|++.|++++|.+ ++++|...+..||..+|+.+|.+|++.|++++|.++|+
T Consensus        87 ~~A~~lf~~M~~~-G~~Pd~~tyn~lI~~~~~~g~~~~A~~-l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~  164 (501)
T 4g26_A           87 SRGFDIFKQMIVD-KVVPNEATFTNGARLAVAKDDPEMAFD-MVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDA  164 (501)
T ss_dssp             HHHHHHHHHHHHT-TCCCCHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh-CCCCCHHHHHHHHHHHHhcCCHHHHHH-HHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHH
Confidence            8899999999998 999999999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHcc
Q 022531          211 SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV  270 (295)
Q Consensus       211 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  270 (295)
                      +|.+.|+.||..||+.||.+|++.|++++|.++|++|.+.+. .|+..||+.++..|...
T Consensus       165 ~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~-~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          165 HMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVR-QVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS-SBCHHHHHHHHHHHHSH
T ss_pred             HHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCC-CcCHHHHHHHHHHHhcC
Confidence            999999999999999999999999999999999999999886 69999999999999864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=3.5e-29  Score=217.49  Aligned_cols=275  Identities=9%  Similarity=-0.028  Sum_probs=246.2

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      +++..+++.++..|.+.|++++|.++|+.+....| +..+|+.++.++.+.|++++|..+|+++.+.. +.+..+|+.++
T Consensus       302 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~  380 (597)
T 2xpi_A          302 EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVG  380 (597)
T ss_dssp             GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHH
Confidence            47899999999999999999999999999987766 78899999999999999999999999998654 56789999999


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      ..|.+.|++++|.++|+++.+... .+..+|+.++.+|.+.|++++|.++|+++...  .+.+..++..++.+|.+.|++
T Consensus       381 ~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~  457 (597)
T 2xpi_A          381 IYYLCVNKISEARRYFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQGTHLPYLFLGMQHMQLGNI  457 (597)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTTCSHHHHHHHHHHHHHTCH
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHcCCH
Confidence            999999999999999999987532 35789999999999999999999999999874  356888999999999999999


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCCCC--HHhHHHHHHHHHhcCChHHH
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT----KQKMT--SRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~--~~~~~~li~~~~~~~~~~~A  240 (295)
                      ++|.+ +++.+.+..+. +..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..+|..++.+|.+.|++++|
T Consensus       458 ~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A  535 (597)
T 2xpi_A          458 LLANE-YLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAA  535 (597)
T ss_dssp             HHHHH-HHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHH-HHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHH
Confidence            99999 99998876544 7788999999999999999999999999776    66777  67899999999999999999


Q ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      .++|+++.+..  +.+..+|..+..+|.+.|++++|.++|+++.+  ..|+.
T Consensus       536 ~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~--~~p~~  583 (597)
T 2xpi_A          536 IDALNQGLLLS--TNDANVHTAIALVYLHKKIPGLAITHLHESLA--ISPNE  583 (597)
T ss_dssp             HHHHHHHHHHS--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCC
Confidence            99999998865  45889999999999999999999999999987  44543

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=3.5e-29  Score=217.46  Aligned_cols=276  Identities=11%  Similarity=0.056  Sum_probs=243.9

Q ss_pred             CCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHH----------------------------------
Q 022531            6 EFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTAL----------------------------------   50 (295)
Q Consensus         6 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~l----------------------------------   50 (295)
                      +..++..+|+.++.+|.+.|++++|.++|+++....| +...+..+                                  
T Consensus       195 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  274 (597)
T 2xpi_A          195 GIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSL  274 (597)
T ss_dssp             SCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHH
T ss_pred             ccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHHHHHHH
Confidence            4456788999999999999999999999999988766 44444433                                  


Q ss_pred             ----HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           51 ----LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        51 ----i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                          +..|.+.|++++|.++|+++.+.  +++..+|+.++.+|.+.|++++|.++|+++.+.+. .+..++..++.++.+
T Consensus       275 ~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~  351 (597)
T 2xpi_A          275 YMLKLNKTSHEDELRRAEDYLSSINGL--EKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-YNLDVYPLHLASLHE  351 (597)
T ss_dssp             HHTTSCTTTTHHHHHHHHHHHHTSTTG--GGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCCTTHHHHHHHHHH
T ss_pred             HHHHHHHHcCcchHHHHHHHHHHhhcC--CchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCc-ccHHHHHHHHHHHHH
Confidence                55667889999999999999876  58999999999999999999999999999998653 377889999999999


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHH
Q 022531          127 TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKID  206 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  206 (295)
                      .|++++|..+++++...  .+.+..+++.++.+|.+.|++++|.+ +++++.+..+ .+..+|+.++.+|.+.|++++|+
T Consensus       352 ~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~  427 (597)
T 2xpi_A          352 SGEKNKLYLISNDLVDR--HPEKAVTWLAVGIYYLCVNKISEARR-YFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAI  427 (597)
T ss_dssp             HTCHHHHHHHHHHHHHH--CTTSHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHhccHHHHHH-HHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999864  46788999999999999999999999 9998877543 36789999999999999999999


Q ss_pred             HHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          207 QIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       207 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      ++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.+..  +.+..+|+.++.+|.+.|++++|.++|+++.+.
T Consensus       428 ~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  504 (597)
T 2xpi_A          428 SAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF--QYDPLLLNELGVVAFNKSDMQTAINHFQNALLL  504 (597)
T ss_dssp             HHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHh
Confidence            9999998764 4577889999999999999999999999999865  457899999999999999999999999999876


Q ss_pred             ----CCCCC
Q 022531          287 ----NCAPT  291 (295)
Q Consensus       287 ----g~~p~  291 (295)
                          +..|+
T Consensus       505 ~~~~~~~p~  513 (597)
T 2xpi_A          505 VKKTQSNEK  513 (597)
T ss_dssp             HHHSCCCSG
T ss_pred             hhccccchh
Confidence                66665

>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=99.95  E-value=5.3e-24  Score=175.46  Aligned_cols=272  Identities=11%  Similarity=-0.010  Sum_probs=163.2

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC--------------
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSN--------------   74 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--------------   74 (295)
                      +...|..+...+.+.|++++|...|+.+....| +..+|..++.++.+.|++++|.+.|+++.+.+              
T Consensus        66 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  145 (388)
T 1w3b_A           66 LAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLL  145 (388)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            445555566666666666666666655554444 34445555555555555555555555444432              


Q ss_pred             -------------------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHH
Q 022531           75 -------------------LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        75 -------------------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  135 (295)
                                         -+.+..+|+.+...+.+.|++++|...|+++.+.+. .+...+..+...+...|++++|..
T Consensus       146 ~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~  224 (388)
T 1w3b_A          146 KALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVA  224 (388)
T ss_dssp             HTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHH
T ss_pred             HHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CcHHHHHHHHHHHHHcCCHHHHHH
Confidence                               022344455555555555555555555555544321 123445555555555555555555


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          136 FLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      .|++....  .+.+..++..+..++.+.|++++|.+ .++++....+. +..+|..+...+.+.|++++|++.|+++.+.
T Consensus       225 ~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  300 (388)
T 1w3b_A          225 AYLRALSL--SPNHAVVHGNLACVYYEQGLIDLAID-TYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRL  300 (388)
T ss_dssp             HHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhh--CcCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            55555443  13345666677777777777777777 66666654432 4456777777777777777777777777665


Q ss_pred             cCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCC
Q 022531          216 KQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  291 (295)
Q Consensus       216 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~  291 (295)
                      . +.+..++..+...+.+.|++++|.+.++++.+..  +.+..++..+..+|.+.|++++|...|+++++  ..|+
T Consensus       301 ~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~--~~p~  371 (388)
T 1w3b_A          301 C-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPT  371 (388)
T ss_dssp             C-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTT
T ss_pred             C-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh--hCCC
Confidence            3 4456667777777777778888877777777632  34566777777788888888888888877775  4454

>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=99.94  E-value=4.2e-24  Score=176.06  Aligned_cols=267  Identities=12%  Similarity=0.039  Sum_probs=201.0

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+..+...+.+.|++++|...++......| +..+|..+...+.+.|++++|...|+++.+.. +.+..+|..+..+
T Consensus        32 ~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  110 (388)
T 1w3b_A           32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLK-PDFIDGYINLAAA  110 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-cchHHHHHHHHHH
Confidence            456677788888999999999999998887766 78899999999999999999999999998864 4456789999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  167 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (295)
                      +.+.|++++|.+.|+++.+..  |+ ...+..+...+...|++++|.+.|+++...  .+.+..+|..+..++.+.|+++
T Consensus       111 ~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~  186 (388)
T 1w3b_A          111 LVAAGDMEGAVQAYVSALQYN--PDLYCVRSDLGNLLKALGRLEEAKACYLKAIET--QPNFAVAWSNLGCVFNAQGEIW  186 (388)
T ss_dssp             HHHHSCSSHHHHHHHHHHHHC--TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHH
Confidence            999999998888888887753  33 445666667777777788887777777764  2344566666777777777776


Q ss_pred             hHHHHHHHHHHHhcCC---------------------------------CccccHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          168 NAESSTLVEAEKSITQ---------------------------------RQWITYDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       168 ~a~~~~~~~~~~~~~~---------------------------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      +|.. .++++....+.                                 .+..++..+...|...|++++|++.|+++.+
T Consensus       187 ~A~~-~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  265 (388)
T 1w3b_A          187 LAIH-HFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIE  265 (388)
T ss_dssp             HHHH-HHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6666 55555443221                                 1345666677777777777777777777766


Q ss_pred             ccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          215 TKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       215 ~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+ +.+..++..+..++.+.|++++|.+.|+++.+..  +.+..+|..+...+...|++++|...++++.+
T Consensus       266 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  333 (388)
T 1w3b_A          266 LQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             TC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            53 2245667777778888888888888888877753  45677778888888888888888888888776

>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=99.93  E-value=7.4e-23  Score=171.69  Aligned_cols=267  Identities=12%  Similarity=0.011  Sum_probs=167.2

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+..+...+.+.|++++|..+|+.+....| +..+|..++.++...|++++|...|+++.+.+ +.+..++..+..+
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            455677777778888888888888887776555 67777888888888888888888888877764 4456777778888


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC-h---HhHHHH------------HHHHHccCCHHHHHHHHHHHhhcCCCCCCHHH
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPD-I---FTYNLW------------ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK  152 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~-~---~~~~~l------------i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  152 (295)
                      |.+.|++++|.+.|+++.+..  |+ .   ..+..+            ...+.+.|++++|...|+++...  .+.+..+
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~  179 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSN--PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV--CVWDAEL  179 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC--CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHH
Confidence            888888888888888777643  33 2   344444            33366777777777777777653  2445666


Q ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH-HhHHHH----
Q 022531          153 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICI----  227 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~l----  227 (295)
                      +..+..+|.+.|++++|.. .+..+....+ .+..+|..+...|...|++++|+..|+++...  .|+. ..+..+    
T Consensus       180 ~~~l~~~~~~~g~~~~A~~-~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~  255 (450)
T 2y4t_A          180 RELRAECFIKEGEPRKAIS-DLKAASKLKN-DNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVK  255 (450)
T ss_dssp             HHHHHHHHHHTTCGGGGHH-HHHHHHHHHC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHH-HHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHH
Confidence            6677777777777777777 6666655443 24556666666666666666666666666543  2222 222222    


Q ss_pred             --------HHHHHhcCChHHHHHHHHHHhhhcCCCCC--HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          228 --------LSSYLMLGHLKEVGEIIDQWKQSATSDFD--ISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       228 --------i~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                              ...+.+.|++++|.+.|+++.+.....|.  ...|..+..++.+.|++++|..+++++.+
T Consensus       256 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  323 (450)
T 2y4t_A          256 KLNKLIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQ  323 (450)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence                    45555555555555555555543211010  22445555555555555555555555543

>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=99.93  E-value=9.8e-23  Score=170.95  Aligned_cols=272  Identities=12%  Similarity=-0.009  Sum_probs=232.8

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH---HHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA---LMYNE   84 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~   84 (295)
                      .+...|..+..++...|++++|...|+.+....| +..+|..++.++.+.|++++|...|+++.+.+ +.+.   .++..
T Consensus        58 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~  136 (450)
T 2y4t_A           58 DNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQ  136 (450)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHH
Confidence            4678899999999999999999999999988777 78899999999999999999999999999875 3334   56666


Q ss_pred             HH------------HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHH
Q 022531           85 MM------------TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK  152 (295)
Q Consensus        85 li------------~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  152 (295)
                      ++            ..+.+.|++++|+..|+++.+... .+..++..+..++.+.|++++|..+|+++...  .+.+..+
T Consensus       137 l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~  213 (450)
T 2y4t_A          137 LIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKL--KNDNTEA  213 (450)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH--HCSCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHH
Confidence            54            448999999999999999988532 36788999999999999999999999999874  3567889


Q ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHH------------HHHHHhcCCHHHHHHHHHHHHhccCCCC
Q 022531          153 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFL------------IILYAGLGNKDKIDQIWKSLRMTKQKMT  220 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l------------i~~~~~~g~~~~a~~~~~~m~~~~~~~~  220 (295)
                      +..+..+|...|++++|.. .+..+....+. +...+..+            ...+...|++++|...|+++.+.  .|+
T Consensus       214 ~~~l~~~~~~~g~~~~A~~-~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~  289 (450)
T 2y4t_A          214 FYKISTLYYQLGDHELSLS-EVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPS  289 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCS
T ss_pred             HHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCc
Confidence            9999999999999999999 89888765543 44445444            78899999999999999999875  454


Q ss_pred             -----HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          221 -----SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       221 -----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                           ...+..+..++.+.|++++|.+.++++.+..  +.+..+|..+..+|...|++++|...++++++  +.|+.
T Consensus       290 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~  362 (450)
T 2y4t_A          290 IAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNEND  362 (450)
T ss_dssp             SHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSSC
T ss_pred             chHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcch
Confidence                 3467888999999999999999999998754  45788999999999999999999999999987  45553

>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=99.92  E-value=5.8e-22  Score=159.28  Aligned_cols=276  Identities=9%  Similarity=-0.092  Sum_probs=235.7

Q ss_pred             CCCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531            6 EFVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus         6 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      ++..++..+..+...+...|++++|.++|+.+....| +...+..++..+...|++++|..+++++.+.. +.+..+|..
T Consensus        17 ~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~   95 (330)
T 3hym_B           17 GLQENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFA   95 (330)
T ss_dssp             ---CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHH
T ss_pred             hchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHH
Confidence            3455667788899999999999999999999988776 67788888999999999999999999999864 456889999


Q ss_pred             HHHHHHhcC-CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531           85 MMTLYMSVG-QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        85 li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      +...+...| ++++|.+.|++..+... .+...|..+...+...|++++|...++++...  .+.+...+..+...|...
T Consensus        96 l~~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~  172 (330)
T 3hym_B           96 VGCYYLMVGHKNEHARRYLSKATTLEK-TYGPAWIAYGHSFAVESEHDQAMAAYFTAAQL--MKGCHLPMLYIGLEYGLT  172 (330)
T ss_dssp             HHHHHHHSCSCHHHHHHHHHHHHTTCT-TCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCSHHHHHHHHHHHHT
T ss_pred             HHHHHHHhhhhHHHHHHHHHHHHHhCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHH
Confidence            999999999 99999999999988643 35778999999999999999999999999885  244567778899999999


Q ss_pred             CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccC--------CCCHHhHHHHHHHHHhcC
Q 022531          164 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ--------KMTSRNYICILSSYLMLG  235 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--------~~~~~~~~~li~~~~~~~  235 (295)
                      |++++|.. .+.......+. +...+..+...+...|++++|...+++......        ......+..+..++...|
T Consensus       173 ~~~~~A~~-~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g  250 (330)
T 3hym_B          173 NNSKLAER-FFSQALSIAPE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLK  250 (330)
T ss_dssp             TCHHHHHH-HHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTT
T ss_pred             hhHHHHHH-HHHHHHHhCCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhc
Confidence            99999999 88888776543 677889999999999999999999998876421        233567888999999999


Q ss_pred             ChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCC
Q 022531          236 HLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  291 (295)
Q Consensus       236 ~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~  291 (295)
                      ++++|.+.+++..+..  +.+...|..+..++...|++++|.+.++++.+  +.|+
T Consensus       251 ~~~~A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~  302 (330)
T 3hym_B          251 KYAEALDYHRQALVLI--PQNASTYSAIGYIHSLMGNFENAVDYFHTALG--LRRD  302 (330)
T ss_dssp             CHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT--TCSC
T ss_pred             CHHHHHHHHHHHHhhC--ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc--cCCC
Confidence            9999999999998865  35678899999999999999999999999876  4454

>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=99.91  E-value=1.4e-21  Score=159.66  Aligned_cols=269  Identities=11%  Similarity=-0.038  Sum_probs=223.9

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+..+...+.+.|++++|...|+.+....| +..+|..+..++...|++++|...|+++.+.+ +.+..++..+...
T Consensus        63 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~  141 (368)
T 1fch_A           63 DHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVS  141 (368)
T ss_dssp             TCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            345678899999999999999999999988877 78899999999999999999999999998875 5578899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHH---------------HHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHH
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNL---------------WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKY  153 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~---------------li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (295)
                      |...|++++|.+.|+++.+.... +...+..               .+..+...|++++|...|+++.......++..++
T Consensus       142 ~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~  220 (368)
T 1fch_A          142 FTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQ  220 (368)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHH
Confidence            99999999999999999886432 2222221               2344448899999999999998863222268889


Q ss_pred             HHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHh
Q 022531          154 VNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM  233 (295)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  233 (295)
                      ..+..+|.+.|++++|.. .+.......+. +..+|..+...+...|++++|+..|+++.... +.+...+..+..+|.+
T Consensus       221 ~~l~~~~~~~g~~~~A~~-~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~  297 (368)
T 1fch_A          221 CGLGVLFNLSGEYDKAVD-CFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCIN  297 (368)
T ss_dssp             HHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHH-HHHHHHHhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHH
Confidence            999999999999999999 88888776543 56789999999999999999999999988764 3456788899999999


Q ss_pred             cCChHHHHHHHHHHhhhcCCC---------CCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 022531          234 LGHLKEVGEIIDQWKQSATSD---------FDISACNRLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       234 ~~~~~~A~~~~~~~~~~~~~~---------~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                      .|++++|...|++..+.....         ....+|..+..+|...|++++|..++++.
T Consensus       298 ~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  356 (368)
T 1fch_A          298 LGAHREAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADARD  356 (368)
T ss_dssp             HTCHHHHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHTTC
T ss_pred             CCCHHHHHHHHHHHHHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHHHH
Confidence            999999999999987754211         11678999999999999999999888744

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.90  E-value=1e-21  Score=160.37  Aligned_cols=267  Identities=12%  Similarity=-0.017  Sum_probs=220.3

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+..+...+.+.|++++|..+|+.+....| +..+|..+...+...|++++|...|+++.+.. +.+..+|..+...
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  142 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVS  142 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHH
Confidence            445688899999999999999999999988777 78899999999999999999999999999875 4568899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCC-h----------HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPD-I----------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  157 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~-~----------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  157 (295)
                      |...|++++|+..|+++.+..  |+ .          ..+..+...+.+.|++++|...|+++.......++..++..+.
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            999999999999999998742  33 1          2233457889999999999999999998632222688999999


Q ss_pred             HHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCCh
Q 022531          158 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  237 (295)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  237 (295)
                      .+|.+.|++++|.. .+.+.....+. +..+|..+...|...|++++|+..|++..+.. +.+...+..+..+|.+.|++
T Consensus       221 ~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~  297 (365)
T 4eqf_A          221 VLFHLSGEFNRAID-AFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAY  297 (365)
T ss_dssp             HHHHHHTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHCCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCH
Confidence            99999999999999 89888876543 67889999999999999999999999998763 33477888999999999999


Q ss_pred             HHHHHHHHHHhhhcCCC----------CCHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          238 KEVGEIIDQWKQSATSD----------FDISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       238 ~~A~~~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      ++|.+.|++..+.....          .+..+|..+..++...|+.+.+..+.++
T Consensus       298 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          298 REAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            99999999987743111          1367899999999999999998887765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=6.8e-20  Score=148.73  Aligned_cols=270  Identities=12%  Similarity=-0.033  Sum_probs=204.9

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCC---CCHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLS---FNALMYNEM   85 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~---p~~~~~~~l   85 (295)
                      ++..+..+...+...|++++|...|+.+....| +...|..+...+...|++++|...|++..+.. +   .+...+..+
T Consensus        36 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l  114 (359)
T 3ieg_A           36 NYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSEQEEKEAESQL  114 (359)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CcccChHHHHHHH
Confidence            466777788888888888888888888777666 67778888888888888888888888887764 2   244455444


Q ss_pred             ------------HHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHH
Q 022531           86 ------------MTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKY  153 (295)
Q Consensus        86 ------------i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (295)
                                  ...+...|++++|.+.++++.+... .+...+..+...+...|++++|...++++...  .+.+..++
T Consensus       115 ~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  191 (359)
T 3ieg_A          115 VKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKL--KSDNTEAF  191 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CSCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence                        4677788888888888888877532 35677888888888888888888888888874  35677788


Q ss_pred             HHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHH------------HHHHHHHhcCCHHHHHHHHHHHHhccCCCCH
Q 022531          154 VNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYD------------FLIILYAGLGNKDKIDQIWKSLRMTKQKMTS  221 (295)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~------------~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  221 (295)
                      ..+...+...|++++|.. .+.......+. +...+.            .+...+...|++++|...+++..+..  |+.
T Consensus       192 ~~la~~~~~~~~~~~A~~-~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~  267 (359)
T 3ieg_A          192 YKISTLYYQLGDHELSLS-EVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTE--PSV  267 (359)
T ss_dssp             HHHHHHHHHHTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CSS
T ss_pred             HHHHHHHHHcCCHHHHHH-HHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCc
Confidence            888888888899998888 78777765543 223332            22556788899999999998887753  332


Q ss_pred             H-----hHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCC
Q 022531          222 R-----NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  291 (295)
Q Consensus       222 ~-----~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~  291 (295)
                      .     .+..+..++...|++++|.+.+++..+..  +.+..+|..+..++...|++++|...|+++.+.  .|+
T Consensus       268 ~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~--~p~  338 (359)
T 3ieg_A          268 AEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEH--NEN  338 (359)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTT
T ss_pred             hHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCC
Confidence            2     24457788889999999999999988854  357788899999999999999999999999873  454

>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=99.90  E-value=4e-21  Score=154.16  Aligned_cols=267  Identities=9%  Similarity=-0.073  Sum_probs=223.8

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+-.+...+...|++++|..+|+.+....| +...|..+..++...|++++|...|+++.+.. +.+..++..+...
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   98 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVS   98 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHH
Confidence            445667888899999999999999999988766 78899999999999999999999999998874 5578899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH--------------HH-HHHccCCHHHHHHHHHHHhhcCCCCCCHHHH
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW--------------IS-SCAATLNIDQVKKFLDEMSCDSGGSDDWVKY  153 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l--------------i~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (295)
                      +...|++++|.+.++++.+.... +...+..+              .. .+...|++++|...++++...  .+.+..++
T Consensus        99 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~  175 (327)
T 3cv0_A           99 HTNEHNANAALASLRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM--NPNDAQLH  175 (327)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHH--STTCHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh--CCCCHHHH
Confidence            99999999999999999886322 23333333              22 377889999999999999875  35578889


Q ss_pred             HHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHh
Q 022531          154 VNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM  233 (295)
Q Consensus       154 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~  233 (295)
                      ..+..++.+.|++++|.. .+.......+ .+..++..+...+...|++++|...+++..+.. +.+...+..+..++..
T Consensus       176 ~~la~~~~~~~~~~~A~~-~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~  252 (327)
T 3cv0_A          176 ASLGVLYNLSNNYDSAAA-NLRRAVELRP-DDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSN  252 (327)
T ss_dssp             HHHHHHHHHTTCHHHHHH-HHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHH-HHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHH
Confidence            999999999999999999 8888877654 356788999999999999999999999988764 3456788899999999


Q ss_pred             cCChHHHHHHHHHHhhhcCCCC-----------CHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          234 LGHLKEVGEIIDQWKQSATSDF-----------DISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       234 ~~~~~~A~~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      .|++++|.+.+++..+... ..           +..+|..+..++...|++++|..++++.+
T Consensus       253 ~g~~~~A~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          253 MSQYDLAAKQLVRAIYMQV-GGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             TTCHHHHHHHHHHHHHHHT-TSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             hccHHHHHHHHHHHHHhCC-ccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            9999999999999887542 11           57789999999999999999999987654

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.89  E-value=6.8e-20  Score=148.71  Aligned_cols=267  Identities=11%  Similarity=-0.011  Sum_probs=224.5

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      ++..+..+...+...|++++|...|+.+....| +..+|..+...+...|++++|...|+++.+.. +.+...+..+...
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   80 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHL   80 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHH
Confidence            456788899999999999999999999988777 78899999999999999999999999999874 4477899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCC----ChHhHHHH------------HHHHHccCCHHHHHHHHHHHhhcCCCCCCHHH
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVP----DIFTYNLW------------ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK  152 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p----~~~~~~~l------------i~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  152 (295)
                      +...|++++|...|++..+.  .|    +...+..+            ...+...|++++|..+++++...  .+.+..+
T Consensus        81 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~  156 (359)
T 3ieg_A           81 LLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEV--CVWDAEL  156 (359)
T ss_dssp             HHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCchHH
Confidence            99999999999999999885  34    34445444            57888999999999999999885  3567888


Q ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHH-------
Q 022531          153 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI-------  225 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~-------  225 (295)
                      +..+..++...|++++|.. .+.......+ .+..++..+...+...|++++|...+++..+.. +.+...+.       
T Consensus       157 ~~~~~~~~~~~~~~~~A~~-~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~~~~~~  233 (359)
T 3ieg_A          157 RELRAECFIKEGEPRKAIS-DLKAASKLKS-DNTEAFYKISTLYYQLGDHELSLSEVRECLKLD-QDHKRCFAHYKQVKK  233 (359)
T ss_dssp             HHHHHHHHHHTTCHHHHHH-HHHHHHTTCS-CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHH-HHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHH
Confidence            9999999999999999999 8888877654 367788999999999999999999999988763 22333332       


Q ss_pred             -----HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCH----HHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          226 -----CILSSYLMLGHLKEVGEIIDQWKQSATSDFDI----SACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       226 -----~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                           .+...+.+.|++++|.+.+++..+...  .+.    ..+..+..++...|++++|..++++..+.
T Consensus       234 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~--~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  301 (359)
T 3ieg_A          234 LNKLIESAEELIRDGRYTDATSKYESVMKTEP--SVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQM  301 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC--SSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC--CchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHh
Confidence                 236678999999999999999988652  233    33556788999999999999999999874

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.88  E-value=6.7e-20  Score=156.08  Aligned_cols=269  Identities=10%  Similarity=-0.111  Sum_probs=180.5

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--------
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN--------   78 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--------   78 (295)
                      .|++..|..+..++.+.|++++|...|+.+....| +..+|..++.++.+.|++++|...|+++...+ +++        
T Consensus        36 ~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~  114 (514)
T 2gw1_A           36 KEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGLGKFADAMFDLSVLSLNG-DFNDASIEPML  114 (514)
T ss_dssp             CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSS-SCCGGGTHHHH
T ss_pred             CccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCccchHHHHH
Confidence            36888888899999999999999999998887767 67788889999999999999999888876654 111        


Q ss_pred             -----------------------------------------------------------------------HHHHHHHHH
Q 022531           79 -----------------------------------------------------------------------ALMYNEMMT   87 (295)
Q Consensus        79 -----------------------------------------------------------------------~~~~~~li~   87 (295)
                                                                                             ...+..+..
T Consensus       115 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  194 (514)
T 2gw1_A          115 ERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELTFANYDESNEADKELMNGL  194 (514)
T ss_dssp             HHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCCCSSCCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHHHHHhcCCcHHHHHHHHHH
Confidence                                                                                   223333333


Q ss_pred             HHHh---cCCHHHHHHHHHHHHh-----CCC--------CCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHH
Q 022531           88 LYMS---VGQVEKVALVVEEIKR-----KNV--------VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV  151 (295)
Q Consensus        88 ~~~~---~~~~~~a~~~~~~m~~-----~~~--------~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  151 (295)
                      .+..   .|++++|...|+++.+     ...        +.+..++..+...+...|++++|...|+++... .  |+..
T Consensus       195 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~-~--~~~~  271 (514)
T 2gw1_A          195 SNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIEL-F--PRVN  271 (514)
T ss_dssp             HHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHH-C--CCHH
T ss_pred             HHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-C--ccHH
Confidence            3333   6777777777777766     211        112456666777777777888887777777664 2  2266


Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHH
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  231 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  231 (295)
                      ++..+..++...|++++|.. .+.......+. +..++..+...+...|++++|...+++..... +.+...+..+...+
T Consensus       272 ~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~  348 (514)
T 2gw1_A          272 SYIYMALIMADRNDSTEYYN-YFDKALKLDSN-NSSVYYHRGQMNFILQNYDQAGKDFDKAKELD-PENIFPYIQLACLA  348 (514)
T ss_dssp             HHHHHHHHHHTSSCCTTGGG-HHHHHHTTCTT-CTHHHHHHHHHHHHTTCTTHHHHHHHHHHHTC-SSCSHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCCCHHHHHH-HHHHHhhcCcC-CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-hhhHHHHHHHHHHH
Confidence            66777777777777777777 66666554332 45566666667777777777777777666543 22344555666666


Q ss_pred             HhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          232 LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       232 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ...|++++|.+.++++.+..  +.+..++..+..++...|++++|...++++.+
T Consensus       349 ~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~  400 (514)
T 2gw1_A          349 YRENKFDDCETLFSEAKRKF--PEAPEVPNFFAEILTDKNDFDKALKQYDLAIE  400 (514)
T ss_dssp             TTTTCHHHHHHHHHHHHHHS--TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHc--ccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66666666666666666543  23445566666666666666666666666654

>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=99.88  E-value=2.2e-19  Score=144.19  Aligned_cols=257  Identities=9%  Similarity=-0.034  Sum_probs=218.8

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccC-cHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMT   87 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~   87 (295)
                      +...+..++..+...|++++|..+|+.+....| +...|..+...+...| ++++|...|++..+.. +.+..+|..+..
T Consensus        55 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~  133 (330)
T 3hym_B           55 HASCLPVHIGTLVELNKANELFYLSHKLVDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGH  133 (330)
T ss_dssp             CTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHH
T ss_pred             ChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHH
Confidence            345667788889999999999999999988777 7889999999999999 9999999999999875 456788999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh
Q 022531           88 LYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  167 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (295)
                      .+...|++++|...|++..+.... +...+..+...+...|++++|...++++...  .+.+..++..+...+...|+++
T Consensus       134 ~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~  210 (330)
T 3hym_B          134 SFAVESEHDQAMAAYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWK  210 (330)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHH
Confidence            999999999999999999886432 4567777999999999999999999999874  4567888999999999999999


Q ss_pred             hHHHHHHHHHHHhcC--------CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHH
Q 022531          168 NAESSTLVEAEKSIT--------QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE  239 (295)
Q Consensus       168 ~a~~~~~~~~~~~~~--------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  239 (295)
                      +|.. .+........        ..+..++..+...|...|++++|...+++..+.. +.+...+..+..++...|++++
T Consensus       211 ~A~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~  288 (330)
T 3hym_B          211 TAEK-WFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFEN  288 (330)
T ss_dssp             HHHH-HHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHH
T ss_pred             HHHH-HHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHH
Confidence            9999 8888876542        2345688899999999999999999999998764 3456778889999999999999


Q ss_pred             HHHHHHHHhhhcCCCCCHHHHHHHHHHH-HccCChH
Q 022531          240 VGEIIDQWKQSATSDFDISACNRLLGAF-SDVGLTE  274 (295)
Q Consensus       240 A~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~  274 (295)
                      |.+.|++..+..  +.+...+..+..++ ...|+.+
T Consensus       289 A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          289 AVDYFHTALGLR--RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             HHHHHHTTTTTC--SCCHHHHHHHHHHHHTTTTC--
T ss_pred             HHHHHHHHHccC--CCchHHHHHHHHHHHHHhCchh
Confidence            999999998754  45777888888888 5666654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.88  E-value=1.8e-22  Score=176.50  Aligned_cols=161  Identities=17%  Similarity=0.155  Sum_probs=132.2

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHH---hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVK---QSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  120 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~---~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l  120 (295)
                      ..+||+||.+|++.|++++|.++|++|.   ..|+.||+.|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYntL  206 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAA  206 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHHH
Confidence            4589999999999999999999998876   4589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCH-HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc------cccHHHHH
Q 022531          121 ISSCAATLNI-DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ------WITYDFLI  193 (295)
Q Consensus       121 i~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~li  193 (295)
                      |.++++.|+. ++|.++|++|... |+.||..+|++++..+.+.+-++...+     + .....|+      ..+...|.
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~Vrk-----v-~P~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAVHK-----V-KPTFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHHGG-----G-CCCCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHHHH-----h-CcccCCCCCCcccccchHHHH
Confidence            9999999984 7899999999998 999999999999987776655544443     2 2222222      45555667


Q ss_pred             HHHHhcC---------CHHHHHHHHHH
Q 022531          194 ILYAGLG---------NKDKIDQIWKS  211 (295)
Q Consensus       194 ~~~~~~g---------~~~~a~~~~~~  211 (295)
                      +.|.+.+         ..++..++|++
T Consensus       280 dl~s~d~~~s~pk~~~~~~~L~~~~~~  306 (1134)
T 3spa_A          280 DVYAKDGRVSYPKLHLPLKTLQCLFEK  306 (1134)
T ss_dssp             HHHCCCSCCCCCCCSSCHHHHHHHHHH
T ss_pred             HHHccCCCCcCccccCCHHHHHHHHHH
Confidence            7777655         23555555554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.88  E-value=9.1e-20  Score=155.26  Aligned_cols=269  Identities=9%  Similarity=-0.001  Sum_probs=226.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      ...+......+.+.|++++|...|+.+....|+..+|..++.++.+.|++++|...|+++.+.+ +.+..+|..+..+|.
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            4567778899999999999999999999888999999999999999999999999999999875 557889999999999


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCC---------------------------------------------------------
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPD---------------------------------------------------------  113 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~---------------------------------------------------------  113 (295)
                      +.|++++|...|+++.+.+...+                                                         
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            99999999999999877642110                                                         


Q ss_pred             ---------------------hHhHHHHHHHHHc---cCCHHHHHHHHHHHhh-----cCCC-------CCCHHHHHHHH
Q 022531          114 ---------------------IFTYNLWISSCAA---TLNIDQVKKFLDEMSC-----DSGG-------SDDWVKYVNLV  157 (295)
Q Consensus       114 ---------------------~~~~~~li~~~~~---~~~~~~a~~~~~~~~~-----~~~~-------~~~~~~~~~l~  157 (295)
                                           ...+......+..   .|++++|..+|+++..     ....       +.+..++..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence                                 2223333333333   8999999999999887     2111       23456788899


Q ss_pred             HHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCCh
Q 022531          158 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  237 (295)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  237 (295)
                      .++...|++++|.. .+..+....+.  ...+..+...+...|++++|.+.++++.... +.+...+..+...+...|++
T Consensus       245 ~~~~~~~~~~~A~~-~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~  320 (514)
T 2gw1_A          245 IFKFLKNDPLGAHE-DIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNY  320 (514)
T ss_dssp             HHHHHSSCHHHHHH-HHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCT
T ss_pred             HHHHHCCCHHHHHH-HHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCH
Confidence            99999999999999 89988887655  7788889999999999999999999988764 34567788899999999999


Q ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          238 KEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       238 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      ++|...+++..+..  +.+...+..+...+...|++++|..+++++.+.
T Consensus       321 ~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  367 (514)
T 2gw1_A          321 DQAGKDFDKAKELD--PENIFPYIQLACLAYRENKFDDCETLFSEAKRK  367 (514)
T ss_dssp             THHHHHHHHHHHTC--SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999998854  346778999999999999999999999999874

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.87  E-value=3.1e-23  Score=181.22  Aligned_cols=149  Identities=11%  Similarity=0.024  Sum_probs=125.7

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccC-----CCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLS-----AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      ...+|++||++|++.|++++|.++|+.|.+.     .||..|||+||.+||+.|++++|.++|++|.+.|+.||..|||+
T Consensus       126 ~~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCcHHHHHH
Confidence            3468999999999999999999999887643     58999999999999999999999999999999999999999999


Q ss_pred             HHHHHHhcCC-HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC------HHHHHHHH
Q 022531           85 MMTLYMSVGQ-VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD------WVKYVNLV  157 (295)
Q Consensus        85 li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~  157 (295)
                      ||.++++.|+ .++|.++|++|.+.|+.||..+|++++.++.+.    .+++..+++..  ++.|+      ..+...|.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL~~Vrkv~P--~f~p~~~~~~~~~t~~LL~  279 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVLKAVHKVKP--TFSLPPQLPPPVNTSKLLR  279 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHHHHHGGGCC--CCCCCCCCCCCCCCCTTTH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHHHHHHHhCc--ccCCCCCCcccccchHHHH
Confidence            9999999998 588999999999999999999999999776654    34444444432  44443      44455666


Q ss_pred             HHHHhcC
Q 022531          158 NIYITAS  164 (295)
Q Consensus       158 ~~~~~~~  164 (295)
                      +.|.+.+
T Consensus       280 dl~s~d~  286 (1134)
T 3spa_A          280 DVYAKDG  286 (1134)
T ss_dssp             HHHCCCS
T ss_pred             HHHccCC
Confidence            7777655

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.87  E-value=4e-19  Score=140.35  Aligned_cols=253  Identities=11%  Similarity=-0.005  Sum_probs=192.0

Q ss_pred             HHHHhccChhHHHHHHhhcccCCCC--HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           19 DLMTKVFGIHSGERYFEGLPLSAKT--SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        19 ~~~~~~~~~~~A~~~~~~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      .-....|+++.|+..++......|+  ......+.++|...|+++.|+..++.   . -+|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHH
Confidence            4455678899999988877766563  34566678888899999888876654   2 3567778888888888888999


Q ss_pred             HHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHH
Q 022531           97 KVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  175 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  175 (295)
                      +|++.++++...+..|+ ...+..+...+...|++++|++.+++       +.+..++..++.++.+.|++++|.+ .++
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~-~l~  154 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARK-ELK  154 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHH-HHH
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHH-HHH
Confidence            99999998887765554 45566667788889999999988876       3677788888889999999999999 888


Q ss_pred             HHHHhcCCCccccHHHH----HHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          176 EAEKSITQRQWITYDFL----IILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       176 ~~~~~~~~~~~~~~~~l----i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      .+....  |+. +...+    +..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|.+.|++..+..
T Consensus       155 ~~~~~~--p~~-~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          155 KMQDQD--EDA-TLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHC--TTC-HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHhhC--cCc-HHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            887764  332 22222    233344588999999999888763 5567778888888999999999999999888754


Q ss_pred             CCCCCHHHHHHHHHHHHccCChHH-HHHHHHHHHhcCCCCC
Q 022531          252 TSDFDISACNRLLGAFSDVGLTEK-ANEFHMLLLQKNCAPT  291 (295)
Q Consensus       252 ~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~m~~~g~~p~  291 (295)
                        +.+..++..++..+...|+.++ +.++++++++  ..|+
T Consensus       231 --p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~--~~P~  267 (291)
T 3mkr_A          231 --SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKD--AHRS  267 (291)
T ss_dssp             --TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH--HCTT
T ss_pred             --CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHH--hCCC
Confidence              3567788888888888888865 5688888876  4444

>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=99.87  E-value=1.9e-19  Score=146.86  Aligned_cols=259  Identities=9%  Similarity=-0.102  Sum_probs=207.4

Q ss_pred             HHHhccChhHHHH-HHhhcccCCC-----CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 022531           20 LMTKVFGIHSGER-YFEGLPLSAK-----TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG   93 (295)
Q Consensus        20 ~~~~~~~~~~A~~-~~~~~~~~~p-----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~   93 (295)
                      .+...|++++|.+ .|+......|     +...+..+...+.+.|++++|...|+++.+.. +.+..++..+..++.+.|
T Consensus        34 ~~~~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g  112 (368)
T 1fch_A           34 AHPWLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENE  112 (368)
T ss_dssp             ------------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTT
T ss_pred             hhHHHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCc
Confidence            3445678999998 8887665533     35678899999999999999999999999875 567889999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHH---------------HHH
Q 022531           94 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN---------------LVN  158 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~---------------l~~  158 (295)
                      ++++|...|+++.+... .+..++..+...+...|++++|...++++....  +.+...+..               .+.
T Consensus       113 ~~~~A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~  189 (368)
T 1fch_A          113 QELLAISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILG  189 (368)
T ss_dssp             CHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--TTTGGGCC---------------CTTH
T ss_pred             CHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--cCcHHHHHHHHHHhhhhcccHHHHHHH
Confidence            99999999999988643 367889999999999999999999999998752  233333221               233


Q ss_pred             HHHhcCchhhHHHHHHHHHHHhcCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCCh
Q 022531          159 IYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  237 (295)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~  237 (295)
                      .+...|++++|.. .+..+....+.. +..++..+...|...|++++|+..++++.... +.+...+..+...+...|++
T Consensus       190 ~~~~~~~~~~A~~-~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~  267 (368)
T 1fch_A          190 SLLSDSLFLEVKE-LFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQS  267 (368)
T ss_dssp             HHHHHHHHHHHHH-HHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHhhcccHHHHHH-HHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCH
Confidence            3448999999999 888888766543 56788899999999999999999999988764 34567888999999999999


Q ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          238 KEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       238 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      ++|.+.|+++.+..  +.+..++..+..+|.+.|++++|...|+++.+.
T Consensus       268 ~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          268 EEAVAAYRRALELQ--PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            99999999998854  457888999999999999999999999998763

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.87  E-value=4.2e-20  Score=150.84  Aligned_cols=236  Identities=8%  Similarity=-0.112  Sum_probs=197.2

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...|..+...+.+.|++++|..+|+++.+.. +.+..+|..+...|...|++++|+..|++..+... .+..++..+..
T Consensus        64 ~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~l~~  141 (365)
T 4eqf_A           64 DWPGAFEEGLKRLKEGDLPVTILFMEAAILQD-PGDAEAWQFLGITQAENENEQAAIVALQRCLELQP-NNLKALMALAV  141 (365)
T ss_dssp             TCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            56679999999999999999999999999875 56789999999999999999999999999988632 35788999999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCH----------HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-ccccHHH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDW----------VKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-QWITYDF  191 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~  191 (295)
                      +|...|++++|...|+++....  +.+.          ..+..+...+.+.|++++|.. .+.++....+.. +..++..
T Consensus       142 ~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~al~~~p~~~~~~~~~~  218 (365)
T 4eqf_A          142 SYTNTSHQQDACEALKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKE-LYLEAAHQNGDMIDPDLQTG  218 (365)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC--HHHHCC-------------------CCHHHHHHHH-HHHHHHHHSCSSCCHHHHHH
T ss_pred             HHHccccHHHHHHHHHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHH-HHHHHHHhCcCccCHHHHHH
Confidence            9999999999999999988742  1122          233445889999999999999 899888876542 5778999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccC
Q 022531          192 LIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG  271 (295)
Q Consensus       192 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  271 (295)
                      +...|...|++++|++.|++..+.. +.+..++..+..+|...|++++|.+.|++..+..  +.+..+|..+..+|...|
T Consensus       219 l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~g  295 (365)
T 4eqf_A          219 LGVLFHLSGEFNRAIDAFNAALTVR-PEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ--PGFIRSRYNLGISCINLG  295 (365)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHHCC
Confidence            9999999999999999999998764 4467889999999999999999999999998864  356888999999999999


Q ss_pred             ChHHHHHHHHHHHhc
Q 022531          272 LTEKANEFHMLLLQK  286 (295)
Q Consensus       272 ~~~~a~~~~~~m~~~  286 (295)
                      ++++|...|+++++.
T Consensus       296 ~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          296 AYREAVSNFLTALSL  310 (365)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999999863

>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=8.8e-19  Score=150.10  Aligned_cols=265  Identities=10%  Similarity=-0.025  Sum_probs=202.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ...+..+...+.+.|++++|...|+.+....| +..+|..+..++.+.|++++|++.|+++.+.+ +.+..++..+..++
T Consensus        25 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~  103 (537)
T 3fp2_A           25 AVQLKNRGNHFFTAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASAN  103 (537)
T ss_dssp             HHHHHHHHHHHHHTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHH
Confidence            34567777788888888888888888877766 77788888888888888888888888887765 45677788888888


Q ss_pred             HhcCCHHHHHHHHHHH----------------------------------------------------------------
Q 022531           90 MSVGQVEKVALVVEEI----------------------------------------------------------------  105 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m----------------------------------------------------------------  105 (295)
                      ...|++++|...|+.+                                                                
T Consensus       104 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (537)
T 3fp2_A          104 ESLGNFTDAMFDLSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSV  183 (537)
T ss_dssp             HHHTCHHHHHHHHHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTS
T ss_pred             HHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHH
Confidence            8888888887766432                                                                


Q ss_pred             ---------------------------------------------HhCCCCCC--------hHhHHHHHHHHHccCCHHH
Q 022531          106 ---------------------------------------------KRKNVVPD--------IFTYNLWISSCAATLNIDQ  132 (295)
Q Consensus       106 ---------------------------------------------~~~~~~p~--------~~~~~~li~~~~~~~~~~~  132 (295)
                                                                   .+.  .|+        ..++..+...+...|++++
T Consensus       184 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~  261 (537)
T 3fp2_A          184 NTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNLLD  261 (537)
T ss_dssp             CCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             hhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccHHH
Confidence                                                         111  122        1235555566777888888


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531          133 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSL  212 (295)
Q Consensus       133 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  212 (295)
                      |...|+++...   .|+..++..+...+...|++++|.. .+.......+. +..+|..+...+...|++++|.+.+++.
T Consensus       262 A~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a  336 (537)
T 3fp2_A          262 AQVLLQESINL---HPTPNSYIFLALTLADKENSQEFFK-FFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKA  336 (537)
T ss_dssp             HHHHHHHHHHH---CCCHHHHHHHHHHTCCSSCCHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhc---CCCchHHHHHHHHHHHhcCHHHHHH-HHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            88888888875   2457778888888888899999988 88877766543 5677888888888999999999999888


Q ss_pred             HhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          213 RMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       213 ~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      .... +.+...+..+..++...|++++|.+.++++.+..  +.+...+..+..++...|++++|...|+++.+.
T Consensus       337 ~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          337 QSLN-PENVYPYIQLACLLYKQGKFTESEAFFNETKLKF--PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHC-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            7764 2345677788888999999999999999888764  345677888889999999999999999888764

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=2.7e-17  Score=129.91  Aligned_cols=246  Identities=9%  Similarity=-0.009  Sum_probs=196.9

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHh
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF-NALMYNEMMTLYMS   91 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~   91 (295)
                      ....+..+|...|+++.|...++..  ..|+..++..+...+...++.++|++.++++...+..| +...+..+...+.+
T Consensus        36 ~~~~l~r~yi~~g~~~~al~~~~~~--~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~  113 (291)
T 3mkr_A           36 RDVFLYRAYLAQRKYGVVLDEIKPS--SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFY  113 (291)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHSCTT--SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHhccc--CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHH
Confidence            4456789999999999999988763  34688899999999999999999999999998876444 56777888899999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHH---HHHHHHHHHhcCchhh
Q 022531           92 VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK---YVNLVNIYITASHLVN  168 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~  168 (295)
                      .|++++|++.+++      +.+..++..++..+.+.|++++|.+.|+++... .  |+...   ....+..+...|++++
T Consensus       114 ~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-~--p~~~~~~l~~a~~~l~~~~~~~~e  184 (291)
T 3mkr_A          114 DQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ-D--EDATLTQLATAWVSLAAGGEKLQD  184 (291)
T ss_dssp             TTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-C--TTCHHHHHHHHHHHHHHCTTHHHH
T ss_pred             CCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-C--cCcHHHHHHHHHHHHHhCchHHHH
Confidence            9999999999987      457888999999999999999999999999986 2  44321   1233444555699999


Q ss_pred             HHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHH-HHHHHHHH
Q 022531          169 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE-VGEIIDQW  247 (295)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-A~~~~~~~  247 (295)
                      |.. .++++....+ .+...++.+..++...|++++|++.|++..... +-+..++..++..+...|+.++ +.++++++
T Consensus       185 A~~-~~~~~l~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~  261 (291)
T 3mkr_A          185 AYY-IFQEMADKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQL  261 (291)
T ss_dssp             HHH-HHHHHHHHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHH
T ss_pred             HHH-HHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHH
Confidence            999 9999988754 478889999999999999999999999988764 3467788889999999999876 67899998


Q ss_pred             hhhcCCCCCHHHHHHHHHHHHccCChHHHHH
Q 022531          248 KQSATSDFDISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       248 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      .+..   |+...   +.+...+.+.++++..
T Consensus       262 ~~~~---P~~~~---~~d~~~~~~~fd~~~~  286 (291)
T 3mkr_A          262 KDAH---RSHPF---IKEYRAKENDFDRLVL  286 (291)
T ss_dssp             HHHC---TTCHH---HHHHHHHHHHHHHHHH
T ss_pred             HHhC---CCChH---HHHHHHHHHHHHHHHH
Confidence            8754   33322   3344455555555543

>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=99.83  E-value=1.1e-17  Score=143.18  Aligned_cols=269  Identities=10%  Similarity=-0.038  Sum_probs=219.0

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHH-----------------
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERV-----------------   70 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m-----------------   70 (295)
                      .++..|..+..++.+.|++++|.+.|+.+....| +..++..+..++...|++++|...|+.+                 
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~  136 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANESLGNFTDAMFDLSVLSLNGDFDGASIEPMLER  136 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHC-----------CHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHcCCHHHHHHHHHHHhcCCCCChHHHHHHHHH
Confidence            3677888999999999999999999999888767 6888899999999999888888777432                 


Q ss_pred             --------------------------------------------------------------------------------
Q 022531           71 --------------------------------------------------------------------------------   70 (295)
Q Consensus        71 --------------------------------------------------------------------------------   70 (295)
                                                                                                      
T Consensus       137 ~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~  216 (537)
T 3fp2_A          137 NLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVAND  216 (537)
T ss_dssp             HHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHHHH
Confidence                                                                                            


Q ss_pred             ------------HhCCCCCC--------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCH
Q 022531           71 ------------KQSNLSFN--------ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  130 (295)
Q Consensus        71 ------------~~~~~~p~--------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  130 (295)
                                  .+.  .|+        ..++..+...+...|++++|...|++..+.  .|+..++..+...+...|++
T Consensus       217 ~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  292 (537)
T 3fp2_A          217 LLTKSTDMYHSLLSA--NTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENS  292 (537)
T ss_dssp             HHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCC
T ss_pred             HHHHHHHHHHHHHHH--CCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCH
Confidence                        111  122        224666667788899999999999999885  46678899999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          131 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       131 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      ++|...++++...  .+.+..++..+..++...|++++|.. .+.......+. +...|..+...+...|++++|...++
T Consensus       293 ~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~  368 (537)
T 3fp2_A          293 QEFFKFFQKAVDL--NPEYPPTYYHRGQMYFILQDYKNAKE-DFQKAQSLNPE-NVYPYIQLACLLYKQGKFTESEAFFN  368 (537)
T ss_dssp             HHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CSHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcc--CCCCHHHHHHHHHHHHhcCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999999999875  35678889999999999999999999 89888876644 56788999999999999999999999


Q ss_pred             HHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC----CHHHHHHHHHHHHcc----------CChHHH
Q 022531          211 SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF----DISACNRLLGAFSDV----------GLTEKA  276 (295)
Q Consensus       211 ~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~----------g~~~~a  276 (295)
                      ++.+.. +.+...+..+...+...|++++|.+.|+++.+.....+    ....+..+..++...          |++++|
T Consensus       369 ~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A  447 (537)
T 3fp2_A          369 ETKLKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAA  447 (537)
T ss_dssp             HHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHH
T ss_pred             HHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHH
Confidence            998774 34566788899999999999999999999876432112    122244455677777          999999


Q ss_pred             HHHHHHHHhc
Q 022531          277 NEFHMLLLQK  286 (295)
Q Consensus       277 ~~~~~~m~~~  286 (295)
                      ...|+++.+.
T Consensus       448 ~~~~~~a~~~  457 (537)
T 3fp2_A          448 IKLLTKACEL  457 (537)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999874

>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=99.82  E-value=1.2e-17  Score=133.76  Aligned_cols=235  Identities=9%  Similarity=-0.074  Sum_probs=197.2

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...+..+...+...|++++|..+|+++.+.. +.+..++..+..++...|++++|.+.|+++.+.. +.+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHH
Confidence            45677888999999999999999999998864 4578899999999999999999999999998863 236778999999


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHH--------------HH-HHHhcCchhhHHHHHHHHHHHhcCCCccc
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL--------------VN-IYITASHLVNAESSTLVEAEKSITQRQWI  187 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  187 (295)
                      .+...|++++|...++++....  +.+...+..+              .. .+...|++++|.. .+..+....+. +..
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~  173 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRT-LLHAALEMNPN-DAQ  173 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHH-HHHHHHHHSTT-CHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHH-HHHHHHhhCCC-CHH
Confidence            9999999999999999998752  3333333333              22 3778899999999 88888776644 677


Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHH
Q 022531          188 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  267 (295)
Q Consensus       188 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  267 (295)
                      ++..+...|...|++++|.+.++++.+.. +.+...+..+...+...|++++|.+.+++..+..  +.+..+|..+..+|
T Consensus       174 ~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~  250 (327)
T 3cv0_A          174 LHASLGVLYNLSNNYDSAAANLRRAVELR-PDDAQLWNKLGATLANGNRPQEALDAYNRALDIN--PGYVRVMYNMAVSY  250 (327)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC--CCCHHHHHHHHHHH
Confidence            88999999999999999999999988764 3456788899999999999999999999998864  45678899999999


Q ss_pred             HccCChHHHHHHHHHHHhc
Q 022531          268 SDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       268 ~~~g~~~~a~~~~~~m~~~  286 (295)
                      ...|++++|...++++.+.
T Consensus       251 ~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          251 SNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh
Confidence            9999999999999999864

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.81  E-value=1.7e-17  Score=128.33  Aligned_cols=224  Identities=9%  Similarity=-0.046  Sum_probs=132.0

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CC----hHhHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--PD----IFTYN  118 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~----~~~~~  118 (295)
                      ..|..+...+...|++++|...|++..+..  .+..+|..+..++...|++++|...+++..+....  |+    ..++.
T Consensus         6 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~   83 (258)
T 3uq3_A            6 DKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFA   83 (258)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHH
Confidence            455556666666666666666666666554  45566666666666666666666666665543111  11    35566


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh
Q 022531          119 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG  198 (295)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  198 (295)
                      .+...+...|++++|...|+++...   .|+.       ..+.+.|++++|.. .+.......+ .+...+..+...+..
T Consensus        84 ~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~-------~~~~~~~~~~~a~~-~~~~~~~~~~-~~~~~~~~~~~~~~~  151 (258)
T 3uq3_A           84 RIGNAYHKLGDLKKTIEYYQKSLTE---HRTA-------DILTKLRNAEKELK-KAEAEAYVNP-EKAEEARLEGKEYFT  151 (258)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CCCH-------HHHHHHHHHHHHHH-HHHHHHHCCH-HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcccHHHHHHHHHHHHhc---Cchh-------HHHHHHhHHHHHHH-HHHHHHHcCc-chHHHHHHHHHHHHH
Confidence            6666666666666666666666653   1332       33445566666666 5555544332 234455566666666


Q ss_pred             cCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHH
Q 022531          199 LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       199 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      .|++++|...+++..+.. +.+...+..+..++...|++++|.+.+++..+..  +.+...|..+..++...|++++|..
T Consensus       152 ~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~  228 (258)
T 3uq3_A          152 KSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQIAVKEYASALE  228 (258)
T ss_dssp             TTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            666666666666665543 2345556666666666666666666666666543  2345566666666666666666666


Q ss_pred             HHHHHHh
Q 022531          279 FHMLLLQ  285 (295)
Q Consensus       279 ~~~~m~~  285 (295)
                      .+++..+
T Consensus       229 ~~~~a~~  235 (258)
T 3uq3_A          229 TLDAART  235 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            6666654

>1b89_A Protein (clathrin heavy chain); triskelion, coated vesicles, endocytosis, SELF- assembly, alpha-alpha superhelix; 2.60A {Bos taurus} SCOP: a.118.1.3

Probab=99.80  E-value=1.9e-19  Score=146.28  Aligned_cols=221  Identities=10%  Similarity=0.065  Sum_probs=82.4

Q ss_pred             hccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022531           23 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV  102 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  102 (295)
                      +.|++++|.++++++..    ..+|+.|+.++.+.|++++|++.|.+.      +|..+|..++.++...|++++|++++
T Consensus        15 ~~~~ld~A~~fae~~~~----~~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~yl   84 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNE----PAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYL   84 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCC----hHHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            56778888888888733    348888888888888888888888642      46778888888888888888888877


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcC
Q 022531          103 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       103 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                      +..++.  .+++.+.+.++.+|.+.|+++++.++++        .|+..+|..+...|...|.+++|.. +|..+     
T Consensus        85 ~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~-~Y~~a-----  148 (449)
T 1b89_A           85 QMARKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKL-LYNNV-----  148 (449)
T ss_dssp             --------------------------CHHHHTTTTT--------CC----------------CTTTHHH-HHHHT-----
T ss_pred             HHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHH-HHHHh-----
Confidence            666553  4456778888888888888888777663        2566688888888888888888888 77644     


Q ss_pred             CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHH
Q 022531          183 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR  262 (295)
Q Consensus       183 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  262 (295)
                          ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+.    ..|+.  ...
T Consensus       149 ----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~----~~ad~--l~~  212 (449)
T 1b89_A          149 ----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV----VHADE--LEE  212 (449)
T ss_dssp             ----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT----TCHHH--HHH
T ss_pred             ----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH----hCHhh--HHH
Confidence                47888888888888888888888876      266788888888888888888865554322    12333  446


Q ss_pred             HHHHHHccCChHHHHHHHHHHHh
Q 022531          263 LLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       263 l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ++..|.+.|++++|..+++..+.
T Consensus       213 lv~~Yek~G~~eEai~lLe~aL~  235 (449)
T 1b89_A          213 LINYYQDRGYFEELITMLEAALG  235 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCHHHHHHHHHHHhC
Confidence            78888888888888888887764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.80  E-value=3.3e-17  Score=123.85  Aligned_cols=199  Identities=17%  Similarity=0.072  Sum_probs=117.4

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 022531           77 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  156 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  156 (295)
                      ++...+..+...+.+.|++++|+..|++..+... .+...+..+...+.+.|++++|+..|++..+.  .|.+...+..+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENP-QDPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            3444555555555555555555555555555322 13445555555555555555555555555543  13344455555


Q ss_pred             HHHHHhc-----------CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHH
Q 022531          157 VNIYITA-----------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI  225 (295)
Q Consensus       157 ~~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~  225 (295)
                      ..++.+.           |++++|.. .+.+..+..+. +...|..+...+...|++++|+..|++..+..  .+...+.
T Consensus        80 g~~~~~~~~~~~~~~~~~g~~~~A~~-~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~  155 (217)
T 2pl2_A           80 SEAYVALYRQAEDRERGKGYLEQALS-VLKDAERVNPR-YAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHHTCSSHHHHHHHHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHH
T ss_pred             HHHHHHhhhhhhhhcccccCHHHHHH-HHHHHHHhCcc-cHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHH
Confidence            5555555           77777777 77766665443 55667777777777888888888887777765  5666777


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          226 CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       226 ~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      .+..+|...|++++|...|++..+..  +.+...+..+..++...|++++|...+++..
T Consensus       156 ~la~~~~~~g~~~~A~~~~~~al~~~--P~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          156 ALAELYLSMGRLDEALAQYAKALEQA--PKDLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTC---------------
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            77778888888888888888877754  3466677777788888888888887777654

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=1.8e-17  Score=125.37  Aligned_cols=207  Identities=12%  Similarity=-0.019  Sum_probs=90.0

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMT   87 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~   87 (295)
                      +++..+..+...+.+.|++++|...|+......| +...|..+..++.+.|++++|+..|++..+.+ |.+...+..+..
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            3444455555555555555555555555544444 44555555555555555555555555555443 233445555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh
Q 022531           88 LYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  167 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (295)
                      .+...+            ...   +.         .....|++++|+..|++..+.  .|.+..++..+..++...|+++
T Consensus        82 ~~~~~~------------~~~---~~---------~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~  135 (217)
T 2pl2_A           82 AYVALY------------RQA---ED---------RERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERD  135 (217)
T ss_dssp             HHHHHH------------HTC---SS---------HHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhh------------hhh---hh---------hcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChH
Confidence            555440            000   00         000005555555555554442  1233444445555555555555


Q ss_pred             hHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHH
Q 022531          168 NAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  246 (295)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~  246 (295)
                      +|.. .+++..+..  .+...+..+..+|...|++++|+..|++..+.. +.+...+..+...+.+.|++++|.+.|++
T Consensus       136 ~A~~-~~~~al~~~--~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          136 KAEA-SLKQALALE--DTPEIRSALAELYLSMGRLDEALAQYAKALEQA-PKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHH-HHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTC-------------
T ss_pred             HHHH-HHHHHHhcc--cchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            5555 444444433  344444455555555555555555555544432 12333444455555555555555555544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.79  E-value=4.4e-17  Score=126.03  Aligned_cols=227  Identities=11%  Similarity=-0.028  Sum_probs=194.2

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCC----HHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFN----ALMYNE   84 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~~~   84 (295)
                      ...|..+...+...|++++|...|+......++...|..+..++...|++++|...|++..+..  ..|+    ..+|..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            4678889999999999999999999876655778899999999999999999999999988653  1112    578999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  164 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (295)
                      +...+...|++++|...|++..+.  .|+.       ..+.+.|++++|...++++...  .+.+..++..+...+...|
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~  153 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFTKS  153 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHhc
Confidence            999999999999999999999884  4553       3466778899999999999874  3556778889999999999


Q ss_pred             chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHH
Q 022531          165 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII  244 (295)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~  244 (295)
                      ++++|.. .+.......+. +..+|..+...|...|++++|...+++..+.. +.+...+..+..++...|++++|.+.+
T Consensus       154 ~~~~A~~-~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  230 (258)
T 3uq3_A          154 DWPNAVK-AYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETL  230 (258)
T ss_dssp             CHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CHHHHHH-HHHHHHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            9999999 89988876644 67789999999999999999999999998764 345778888999999999999999999


Q ss_pred             HHHhhhc
Q 022531          245 DQWKQSA  251 (295)
Q Consensus       245 ~~~~~~~  251 (295)
                      ++..+..
T Consensus       231 ~~a~~~~  237 (258)
T 3uq3_A          231 DAARTKD  237 (258)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhC
Confidence            9987643

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.79  E-value=8.3e-17  Score=125.70  Aligned_cols=248  Identities=12%  Similarity=0.016  Sum_probs=167.2

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC--CHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF--NALMYNEMMT   87 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~   87 (295)
                      +..+......+...|++++|...|+...+..| +...+..+..++...|++++|+..|++..+..-.|  ...+|..+..
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            44555667777888888888888888777766 55678888888888888888888888887732111  1234778888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh
Q 022531           88 LYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  167 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  167 (295)
                      .+...|++++|++.|++..+... .+..++..+...+...|++++|...|++....  .+.+..++..+...+...++++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~  159 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDRDT-TRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYV  159 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHST-TCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHcccHHHHHHHHHHHHhcCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888777532 24567777888888888888888888887764  3455666666662333445888


Q ss_pred             hHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCC---HHHHHHHHHHHHhcc-CCCC------HHhHHHHHHHHHhcCCh
Q 022531          168 NAESSTLVEAEKSITQRQWITYDFLIILYAGLGN---KDKIDQIWKSLRMTK-QKMT------SRNYICILSSYLMLGHL  237 (295)
Q Consensus       168 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~-~~~~------~~~~~~li~~~~~~~~~  237 (295)
                      +|.+ .+....+..+. +...+..+...+...|+   +++|...+++..+.. -.|+      ...|..+...|...|++
T Consensus       160 ~A~~-~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          160 KADS-SFVKVLELKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHH-HHHHHHHHSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHH-HHHHHHHhCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            8888 77777665433 45566666667777676   667777777665432 1122      13566677777778888


Q ss_pred             HHHHHHHHHHhhhcCCCCCHHHHHHHHH
Q 022531          238 KEVGEIIDQWKQSATSDFDISACNRLLG  265 (295)
Q Consensus       238 ~~A~~~~~~~~~~~~~~~~~~~~~~l~~  265 (295)
                      ++|.+.|++..+..  +.+...+..+..
T Consensus       238 ~~A~~~~~~al~~~--p~~~~a~~~l~~  263 (272)
T 3u4t_A          238 VKADAAWKNILALD--PTNKKAIDGLKM  263 (272)
T ss_dssp             HHHHHHHHHHHHHC--TTCHHHHHHHC-
T ss_pred             HHHHHHHHHHHhcC--ccHHHHHHHhhh
Confidence            88888888777744  234544444443

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.79  E-value=9.5e-17  Score=125.37  Aligned_cols=241  Identities=10%  Similarity=-0.003  Sum_probs=192.4

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--hHhHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD--IFTYNLWI  121 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li  121 (295)
                      ...+......+...|++++|+..|++..+.. +.+..++..+..+|...|++++|+..+++..+.+..|+  ..+|..+.
T Consensus         3 ~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg   81 (272)
T 3u4t_A            3 DDVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYG   81 (272)
T ss_dssp             --CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHH
Confidence            3456677888999999999999999999875 34566899999999999999999999999998542222  23488899


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCC
Q 022531          122 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  201 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  201 (295)
                      ..+...|++++|...|++....  .+.+..++..+..+|...|++++|.. .+.+..... +.+...|..+...+...++
T Consensus        82 ~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~al~~~-~~~~~~~~~l~~~~~~~~~  157 (272)
T 3u4t_A           82 KILMKKGQDSLAIQQYQAAVDR--DTTRLDMYGQIGSYFYNKGNFPLAIQ-YMEKQIRPT-TTDPKVFYELGQAYYYNKE  157 (272)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHH-HHGGGCCSS-CCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcccHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHccCHHHHHH-HHHHHhhcC-CCcHHHHHHHHHHHHHHHH
Confidence            9999999999999999999885  34567889999999999999999999 887766553 2355667777734445569


Q ss_pred             HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCC---hHHHHHHHHHHhhhcCCCCC------HHHHHHHHHHHHccCC
Q 022531          202 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH---LKEVGEIIDQWKQSATSDFD------ISACNRLLGAFSDVGL  272 (295)
Q Consensus       202 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~---~~~A~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~  272 (295)
                      +++|.+.|++..+.. +.+...+..+..++...|+   .++|...+++..+.....|+      ..+|..+...|...|+
T Consensus       158 ~~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  236 (272)
T 3u4t_A          158 YVKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRD  236 (272)
T ss_dssp             HHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCC
Confidence            999999999998764 3346677778888888888   88899999988765322233      2578889999999999


Q ss_pred             hHHHHHHHHHHHhcCCCCCC
Q 022531          273 TEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       273 ~~~a~~~~~~m~~~g~~p~~  292 (295)
                      +++|.++|+++++  +.|+.
T Consensus       237 ~~~A~~~~~~al~--~~p~~  254 (272)
T 3u4t_A          237 KVKADAAWKNILA--LDPTN  254 (272)
T ss_dssp             HHHHHHHHHHHHH--HCTTC
T ss_pred             HHHHHHHHHHHHh--cCccH
Confidence            9999999999987  44554

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.78  E-value=2.9e-16  Score=118.85  Aligned_cols=204  Identities=13%  Similarity=0.025  Sum_probs=125.3

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...|..+...+...|++++|...|+++.+.. +.+..++..+...|...|++++|.+.|++..+... .+..++..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~   84 (225)
T 2vq2_A            7 VSNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIKP-DSAEINNNYGW   84 (225)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhCC-CChHHHHHHHH
Confidence            45566666666666666666666666666543 33456666666666666666666666666665422 24555666666


Q ss_pred             HHHcc-CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCC
Q 022531          123 SCAAT-LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  201 (295)
Q Consensus       123 ~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  201 (295)
                      .+... |++++|...++++...+..+.+..++..+..++...|++++|.. .+.......+. +...+..+...+...|+
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~la~~~~~~~~  162 (225)
T 2vq2_A           85 FLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEA-YLKRSLAAQPQ-FPPAFKELARTKMLAGQ  162 (225)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-CchHHHHHHHHHHHcCC
Confidence            66666 67777777666666521122234556666666667777777776 66665554432 45556666666677777


Q ss_pred             HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          202 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       202 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      +++|.+.+++........+...+..+...+...|+.+.|..+++.+.+.
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            7777777776655432134555556666666777777777777766553

>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=99.77  E-value=1.4e-18  Score=141.24  Aligned_cols=224  Identities=7%  Similarity=0.026  Sum_probs=100.0

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +++.+|..|..++.+.|++++|++.|.+.    +|..+|..++.++...|++++|...++...+.  .+++.+.+.++.+
T Consensus        30 ~~~~vWs~La~A~l~~g~~~eAIdsfika----~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~  103 (449)
T 1b89_A           30 NEPAVWSQLAKAQLQKGMVKEAIDSYIKA----DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFA  103 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             CChHHHHHHHHHHHHcCCHHHHHHHHHcC----CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHH
Confidence            44568999999999999999999999653    67779999999999999999999977766664  4568889999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      |.+.|+++++.++++       .|+..+|..+...|...|++++|..+|..+          ..|..++.++.+.|++++
T Consensus       104 Y~Klg~l~e~e~f~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~yq~  166 (449)
T 1b89_A          104 LAKTNRLAELEEFIN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQA  166 (449)
T ss_dssp             -----CHHHHTTTTT-------CC----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTCHHH
T ss_pred             HHHhCCHHHHHHHHc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhccHHH
Confidence            999999999998884       377789999999999999999999999976          368899999999999999


Q ss_pred             HHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          169 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      |.+ .+.++      .++.+|..++.+|...|+++.|......     +...+.....++..|.+.|.+++|..+++...
T Consensus       167 AVe-a~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL  234 (449)
T 1b89_A          167 AVD-GARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAAL  234 (449)
T ss_dssp             HHH-HHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHH-HHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            999 77765      3678999999999999999999665543     22344445578899999999999999998876


Q ss_pred             hhcCCCCCHHHHHHHHHHHHc
Q 022531          249 QSATSDFDISACNRLLGAFSD  269 (295)
Q Consensus       249 ~~~~~~~~~~~~~~l~~~~~~  269 (295)
                      ...  +-....|+-|..+|++
T Consensus       235 ~le--~ah~~~ftel~il~~k  253 (449)
T 1b89_A          235 GLE--RAHMGMFTELAILYSK  253 (449)
T ss_dssp             TST--TCCHHHHHHHHHHHHT
T ss_pred             CCc--HHHHHHHHHHHHHHHh
Confidence            533  3344555555555544

>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=99.77  E-value=3.6e-16  Score=120.72  Aligned_cols=203  Identities=10%  Similarity=-0.046  Sum_probs=155.8

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      ...|..+...+...|++++|...|+++.+.. +.+..++..+...|...|++++|.+.|+++.+... .+...+..+...
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~~  114 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDS-RNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCc-CcHHHHHHHHHH
Confidence            5677888888888888888888888887664 44677888888888888888888888888877532 256677778888


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHH
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  203 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  203 (295)
                      +...|++++|..+++++...+..+.+..++..+..++...|++++|.. .+.......+. +...+..+...+...|+++
T Consensus       115 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          115 LYEQKRYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKE-YFEKSLRLNRN-QPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHTTCHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCSC-CHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhHHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhcCcc-cHHHHHHHHHHHHHcCCHH
Confidence            888888888888888887621123356677788888888888888888 77777665533 5667778888888888888


Q ss_pred             HHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          204 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       204 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      +|...++++.+.. +.+...+..+...+...|+.++|.++++++.+..
T Consensus       193 ~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~  239 (252)
T 2ho1_A          193 PARQYYDLFAQGG-GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLY  239 (252)
T ss_dssp             HHHHHHHHHHTTS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhC-cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC
Confidence            8888888877653 3455667778888888888988888888887754

>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=99.77  E-value=3.9e-15  Score=116.47  Aligned_cols=222  Identities=12%  Similarity=-0.040  Sum_probs=116.3

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHc----cCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      +..+..+...+...|++++|...|+...+ ..+...+..+...+..    .+++++|...|++..+.+   +..++..+.
T Consensus         6 ~~a~~~lg~~~~~~~~~~~A~~~~~~a~~-~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg   81 (273)
T 1ouv_A            6 PKELVGLGAKSYKEKDFTQAKKYFEKACD-LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLG   81 (273)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHH
Confidence            34455555555555566666655555554 1234455555555555    555566666665555554   455555555


Q ss_pred             HHHHh----cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           87 TLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        87 ~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      ..|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+. +   +...+..+..
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~  154 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHH
Confidence            55555    555555655555555542   44455555555555    55555555555555543 2   3344445555


Q ss_pred             HHHh----cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHHHHHHH
Q 022531          159 IYIT----ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSS  230 (295)
Q Consensus       159 ~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~  230 (295)
                      .|..    .+++++|.. .+++..+.+   +...+..+...|..    .+++++|++.|++..+.+   +...+..+...
T Consensus       155 ~~~~~~~~~~~~~~A~~-~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~  227 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALA-SYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAM  227 (273)
T ss_dssp             HHHHTSSSCCCHHHHHH-HHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHcCCCCCCCHHHHHH-HHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHH
Confidence            5555    555555555 555444432   23344445555555    555555555555554432   13344445555


Q ss_pred             HHh----cCChHHHHHHHHHHhhh
Q 022531          231 YLM----LGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       231 ~~~----~~~~~~A~~~~~~~~~~  250 (295)
                      |..    .+++++|.+.|++..+.
T Consensus       228 ~~~g~~~~~~~~~A~~~~~~a~~~  251 (273)
T 1ouv_A          228 QYNGEGVTRNEKQAIENFKKGCKL  251 (273)
T ss_dssp             HHTTSSSSCCSTTHHHHHHHHHHH
T ss_pred             HHcCCCcccCHHHHHHHHHHHHHc
Confidence            555    55555555555555543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.77  E-value=1.5e-15  Score=114.88  Aligned_cols=202  Identities=11%  Similarity=-0.008  Sum_probs=140.8

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      ++..+..+...+...|++++|...|+.+....| +...|..+...+...|++++|...|+++.+.. +.+..++..+...
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            355666777777777777777777777766655 56677777777777777777777777777653 3456677777777


Q ss_pred             HHhc-CCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           89 YMSV-GQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        89 ~~~~-~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      +... |++++|...++++.+.+..|+ ...+..+...+...|++++|...++++...  .+.+..++..+..++.+.|++
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~  163 (225)
T 2vq2_A           86 LCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAA--QPQFPPAFKELARTKMLAGQL  163 (225)
T ss_dssp             HHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCchHHHHHHHHHHHcCCH
Confidence            7777 777777777777776322332 456667777777777777777777777664  234566677777777777777


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      ++|.. .+.......+..+...+..+...+...|+.+++..+++.+...
T Consensus       164 ~~A~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          164 GDADY-YFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHH-HHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            77777 7776666554235555666666677777777777777776554

>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=99.77  E-value=2.5e-16  Score=128.53  Aligned_cols=249  Identities=7%  Similarity=-0.011  Sum_probs=202.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCc-HHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKW-TEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      ...|..+...+.+.|++++|+..|+.+....| +...|+.+..++...|+ +++|+..|++.++.+ +-+..+|+.+..+
T Consensus        97 ~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           97 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            45678888899999999999999999988877 78899999999999997 999999999999875 4578899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh-cCchh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT-ASHLV  167 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~  167 (295)
                      +...|++++|+..|+++.+.... +...|..+..++.+.|++++|+..|+++...  .+.+..+|+.+..++.+ .|..+
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~  252 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  252 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHHccCHHHHHHHHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcch
Confidence            99999999999999999986433 6788999999999999999999999999985  35678899999999999 66657


Q ss_pred             hHH-----HHHHHHHHHhcCCCccccHHHHHHHHHhcC--CHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcC-----
Q 022531          168 NAE-----SSTLVEAEKSITQRQWITYDFLIILYAGLG--NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLG-----  235 (295)
Q Consensus       168 ~a~-----~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~-----  235 (295)
                      +|.     . .+.+.....+. +...|+.+...+...|  +.++|++.+.++ +. ...+...+..+..+|.+.|     
T Consensus       253 eA~~~~el~-~~~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~  328 (382)
T 2h6f_A          253 RAVLEREVQ-YTLEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCD  328 (382)
T ss_dssp             HHHHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCS
T ss_pred             HHHHHHHHH-HHHHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhccccc
Confidence            773     6 67777665543 6678888888888888  689999999887 33 2445567778888888864     


Q ss_pred             ----ChHHHHHHHHHH-hhhcCCCCCHHHHHHHHHHHHc
Q 022531          236 ----HLKEVGEIIDQW-KQSATSDFDISACNRLLGAFSD  269 (295)
Q Consensus       236 ----~~~~A~~~~~~~-~~~~~~~~~~~~~~~l~~~~~~  269 (295)
                          ..++|.++|+++ .+..  +.....|..+...+..
T Consensus       329 ~~~~~~~~A~~~~~~l~~~~D--P~r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          329 NKEDILNKALELCEILAKEKD--TIRKEYWRYIGRSLQS  365 (382)
T ss_dssp             SHHHHHHHHHHHHHHHHHTTC--GGGHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHHHHhC--chhHHHHHHHHHHHHH
Confidence                358999999998 5533  2344566666655543

>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=99.76  E-value=1.2e-15  Score=117.80  Aligned_cols=199  Identities=8%  Similarity=0.001  Sum_probs=91.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  159 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  159 (295)
                      ..|..+...+...|++++|.+.|+++.+.. +.+..++..+...+...|++++|...++++...  .+.+..++..+..+
T Consensus        38 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~  114 (252)
T 2ho1_A           38 DAYIQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALAS--DSRNARVLNNYGGF  114 (252)
T ss_dssp             HHHHHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHH
Confidence            344444445555555555555555544432 113344444444555555555555555554442  12234444445555


Q ss_pred             HHhcCchhhHHHHHHHHHHHhcCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChH
Q 022531          160 YITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLK  238 (295)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  238 (295)
                      |...|++++|.+ .+..+......| +...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|+++
T Consensus       115 ~~~~g~~~~A~~-~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~  192 (252)
T 2ho1_A          115 LYEQKRYEEAYQ-RLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREYV  192 (252)
T ss_dssp             HHHTTCHHHHHH-HHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHhHHHHHHH-HHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCHH
Confidence            555555555555 444443311111 23344444444555555555555555444432 122334444455555555555


Q ss_pred             HHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          239 EVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       239 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +|.+.++++.+..  +.+...+..+...+...|+.++|.++++++.+
T Consensus       193 ~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~  237 (252)
T 2ho1_A          193 PARQYYDLFAQGG--GQNARSLLLGIRLAKVFEDRDTAASYGLQLKR  237 (252)
T ss_dssp             HHHHHHHHHHTTS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC--cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            5555555544422  23344444444555555555555555555443

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.76  E-value=9.5e-17  Score=125.48  Aligned_cols=246  Identities=9%  Similarity=-0.027  Sum_probs=192.2

Q ss_pred             HhccChhHHHHHHhhcccCC----C-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           22 TKVFGIHSGERYFEGLPLSA----K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        22 ~~~~~~~~A~~~~~~~~~~~----p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      ...|++++|...|+.+....    | +..+|..+...+...|++++|...|+++.+.+ +.+..+|..+...|...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHH
Confidence            34688999999999988762    2 57789999999999999999999999999875 457899999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      +|.+.|++..+... .+..++..+...+.+.|++++|...|+++...   .|+.......+..+...|++++|.. .+..
T Consensus        95 ~A~~~~~~al~~~~-~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~  169 (275)
T 1xnf_A           95 AAYEAFDSVLELDP-TYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKE-VLKQ  169 (275)
T ss_dssp             HHHHHHHHHHHHCT-TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHH-HHHH
T ss_pred             HHHHHHHHHHhcCc-cccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHH-HHHH
Confidence            99999999988632 35788999999999999999999999999875   2444444445556677799999999 8877


Q ss_pred             HHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC---CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCC
Q 022531          177 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM---TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS  253 (295)
Q Consensus       177 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~  253 (295)
                      .....+. +...+ .++..+...++.++|.+.+++........   +...+..+...|.+.|++++|...|++.....  
T Consensus       170 ~~~~~~~-~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--  245 (275)
T 1xnf_A          170 HFEKSDK-EQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--  245 (275)
T ss_dssp             HHHHSCC-CSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--
T ss_pred             HHhcCCc-chHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--
Confidence            7665533 44444 46677788888999999998876542211   14667889999999999999999999998743  


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHH
Q 022531          254 DFDISACNRLLGAFSDVGLTEKANEFH  280 (295)
Q Consensus       254 ~~~~~~~~~l~~~~~~~g~~~~a~~~~  280 (295)
                       |+.  +.....++...|++++|.+.+
T Consensus       246 -p~~--~~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          246 -VHN--FVEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             -CTT--CHHHHHHHHHHHHHHHC----
T ss_pred             -chh--HHHHHHHHHHHHHHHhhHHHH
Confidence             422  233456778889999888766

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.75  E-value=1.4e-16  Score=122.12  Aligned_cols=212  Identities=13%  Similarity=0.026  Sum_probs=122.7

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      ....|..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|+..|++..+... .+..++..+..
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~   99 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAGN   99 (243)
T ss_dssp             --------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHHH
Confidence            45566666666666777777777777666643 34566666666677777777777777776665422 24556666666


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  202 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  202 (295)
                      .+...|++++|...++++...  .+.+..++..+..++.+.|++++|.. .+.+.....+. +...+..+...+...|++
T Consensus       100 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A          100 VYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALP-YLQRAVELNEN-DTEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHTCC
T ss_pred             HHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHH-HHHHHHHhCCc-cHHHHHHHHHHHHHcCCH
Confidence            677777777777777776654  23455666667777777777777777 66666554432 455666666777777777


Q ss_pred             HHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHH
Q 022531          203 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRL  263 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l  263 (295)
                      ++|.+.+++..... +.+...+..+..+|...|++++|.+.++++.+..  +.+...+..+
T Consensus       176 ~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~  233 (243)
T 2q7f_A          176 DEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ--PDHMLALHAK  233 (243)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC--cchHHHHHHH
Confidence            77777777766553 2345566677777777777777777777776643  2344444433

>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=99.75  E-value=8.6e-15  Score=114.48  Aligned_cols=224  Identities=13%  Similarity=-0.015  Sum_probs=197.4

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChHhHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYN  118 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~  118 (295)
                      +..++..+...+...|++++|...|++..+.+   +..++..+...|..    .+++++|+..|++..+.+   +...+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            67788999999999999999999999999855   67889999999999    999999999999999875   678888


Q ss_pred             HHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchhhHHHHHHHHHHHhcCCCccccHH
Q 022531          119 LWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYD  190 (295)
Q Consensus       119 ~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  190 (295)
                      .+...|..    .+++++|...|++.... +   +..++..+...|..    .+++++|.. .+++..+.+   +...+.
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~~~A~~-~~~~a~~~~---~~~a~~  150 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDL-K---YAEGCASLGGIYHDGKVVTRDFKKAVE-YFTKACDLN---DGDGCT  150 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHH-HHHHHHHTT---CHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHc-C---CccHHHHHHHHHHcCCCcccCHHHHHH-HHHHHHhcC---cHHHHH
Confidence            89999999    99999999999999886 3   67888899999999    999999999 888887755   456777


Q ss_pred             HHHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHhhhcCCCCCHHHHHH
Q 022531          191 FLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKEVGEIIDQWKQSATSDFDISACNR  262 (295)
Q Consensus       191 ~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  262 (295)
                      .+...|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|.+.|++..+.+    +...+..
T Consensus       151 ~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~----~~~a~~~  223 (273)
T 1ouv_A          151 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE----NGGGCFN  223 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT----CHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC----CHHHHHH
Confidence            88888888    999999999999988764   45677788999999    999999999999988853    2567888


Q ss_pred             HHHHHHc----cCChHHHHHHHHHHHhcC
Q 022531          263 LLGAFSD----VGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       263 l~~~~~~----~g~~~~a~~~~~~m~~~g  287 (295)
                      +...|..    .+++++|...|++..+.|
T Consensus       224 l~~~~~~g~~~~~~~~~A~~~~~~a~~~~  252 (273)
T 1ouv_A          224 LGAMQYNGEGVTRNEKQAIENFKKGCKLG  252 (273)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHHHHcCCCcccCHHHHHHHHHHHHHcC
Confidence            9999999    999999999999998765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.75  E-value=2.9e-16  Score=120.45  Aligned_cols=202  Identities=10%  Similarity=0.026  Sum_probs=124.5

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM   86 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li   86 (295)
                      ++++..|..+...+...|++++|...|+.+....| +...+..+...+...|++++|...|+++.+.. +.+..++..+.
T Consensus        20 ~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la   98 (243)
T 2q7f_A           20 HMASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAG   98 (243)
T ss_dssp             ----------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHH
Confidence            34455666677777777777777777777766655 56677777777777777777777777776653 34566777777


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531           87 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus        87 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      ..+...|++++|.+.++++.+... .+...+..+...+.+.|++++|...++++...  .+.+..++..+..++.+.|++
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~  175 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRAGM-ENGDLFYMLGTVLVKLEQPKLALPYLQRAVEL--NENDTEARFQFGMCLANEGML  175 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHTC-CSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCC
T ss_pred             HHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHcCCH
Confidence            777777777777777777766432 25566667777777777777777777777664  234566677777777777777


Q ss_pred             hhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          167 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       167 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      ++|.. .+.......+ .+..++..+...|...|++++|.+.++++.+.
T Consensus       176 ~~A~~-~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          176 DEALS-QFAAVTEQDP-GHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             HHHHH-HHHHHHHHCT-TCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHHhCc-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            77777 6666655543 24556667777777777777777777777664

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.75  E-value=1.5e-16  Score=131.81  Aligned_cols=273  Identities=15%  Similarity=0.033  Sum_probs=211.0

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCCC-H----HHHHHHHHHHHccCcHHHHHHHHHHHHhC----C-CCCCHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAKT-S----ETYTALLHLYAGAKWTEKAEELFERVKQS----N-LSFNALM   81 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~-~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~p~~~~   81 (295)
                      ..+..+...+...|++++|...|+.+....|+ .    ..|..+...+...|++++|...|++..+.    + .+....+
T Consensus        49 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~  128 (411)
T 4a1s_A           49 LELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKS  128 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHH
Confidence            34556777889999999999999998887663 3    57889999999999999999999987653    1 1224567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC-CChHhHHHHHHHHHccCC-----------------HHHHHHHHHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIKRK----NVV-PDIFTYNLWISSCAATLN-----------------IDQVKKFLDE  139 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~-p~~~~~~~li~~~~~~~~-----------------~~~a~~~~~~  139 (295)
                      +..+...|...|++++|...|++..+.    +-. ....++..+...+...|+                 +++|...+++
T Consensus       129 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~  208 (411)
T 4a1s_A          129 SGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQE  208 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHH
Confidence            889999999999999999999987653    111 234578888889999999                 9999999888


Q ss_pred             Hhhc----CCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-c----cccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          140 MSCD----SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-Q----WITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       140 ~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      ....    ...+....++..+...|...|++++|.. .+.+........ +    ..++..+...|...|++++|.+.++
T Consensus       209 al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  287 (411)
T 4a1s_A          209 NLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIE-HHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYK  287 (411)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHH
Confidence            6542    1112234578889999999999999999 888776644321 1    2377888899999999999999999


Q ss_pred             HHHhccCC-C----CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC----CCHHHHHHHHHHHHccCChHHHHHHHH
Q 022531          211 SLRMTKQK-M----TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD----FDISACNRLLGAFSDVGLTEKANEFHM  281 (295)
Q Consensus       211 ~m~~~~~~-~----~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~  281 (295)
                      +....... .    ....+..+...|...|++++|.+.+++........    ....++..+..+|...|++++|..+++
T Consensus       288 ~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~  367 (411)
T 4a1s_A          288 RTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAE  367 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            87654211 1    13567788999999999999999999886632111    124578889999999999999999999


Q ss_pred             HHHh
Q 022531          282 LLLQ  285 (295)
Q Consensus       282 ~m~~  285 (295)
                      +..+
T Consensus       368 ~al~  371 (411)
T 4a1s_A          368 QHLQ  371 (411)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            9865

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.74  E-value=4.8e-16  Score=128.23  Aligned_cols=278  Identities=15%  Similarity=0.076  Sum_probs=214.6

Q ss_pred             CCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-C----HHHHHHHHHHHHccCcHHHHHHHHHHHHhC----CCCC
Q 022531            7 FVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-T----SETYTALLHLYAGAKWTEKAEELFERVKQS----NLSF   77 (295)
Q Consensus         7 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p   77 (295)
                      .......+......+...|++++|...|+......| +    ..+|..+...+...|++++|...|++....    +-.|
T Consensus         5 ~~~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~   84 (406)
T 3sf4_A            5 MEASCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQL   84 (406)
T ss_dssp             CCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccH
Confidence            345666778888999999999999999999887766 3    367889999999999999999999986542    2122


Q ss_pred             -CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----hHhHHHHHHHHHccCC--------------------HH
Q 022531           78 -NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PD----IFTYNLWISSCAATLN--------------------ID  131 (295)
Q Consensus        78 -~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~--------------------~~  131 (295)
                       ...++..+...|...|++++|...+++..+.... ++    ..++..+...+...|+                    ++
T Consensus        85 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~  164 (406)
T 3sf4_A           85 GEAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQ  164 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHH
Confidence             2557888999999999999999999987653110 11    4478888889999999                    99


Q ss_pred             HHHHHHHHHhhc---CC-CCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-c----cccHHHHHHHHHhcCCH
Q 022531          132 QVKKFLDEMSCD---SG-GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-Q----WITYDFLIILYAGLGNK  202 (295)
Q Consensus       132 ~a~~~~~~~~~~---~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~  202 (295)
                      +|...+++....   .+ .+....++..+...|...|++++|.. .+.+........ +    ..++..+...|...|++
T Consensus       165 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  243 (406)
T 3sf4_A          165 AAVDFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVI-AHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEF  243 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCh
Confidence            999998876542   11 12224568888999999999999999 888776543221 1    23778888999999999


Q ss_pred             HHHHHHHHHHHhccCC-CC----HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCC----HHHHHHHHHHHHccCCh
Q 022531          203 DKIDQIWKSLRMTKQK-MT----SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLT  273 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~  273 (295)
                      ++|...+++....... ++    ..++..+...|...|++++|.+.+++..+.....++    ..++..+..+|...|++
T Consensus       244 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~  323 (406)
T 3sf4_A          244 ETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNH  323 (406)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            9999999987643211 11    346778899999999999999999988664221122    55788899999999999


Q ss_pred             HHHHHHHHHHHh
Q 022531          274 EKANEFHMLLLQ  285 (295)
Q Consensus       274 ~~a~~~~~~m~~  285 (295)
                      ++|...+++..+
T Consensus       324 ~~A~~~~~~al~  335 (406)
T 3sf4_A          324 DQAMHFAEKHLE  335 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998765

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.74  E-value=4e-16  Score=125.15  Aligned_cols=274  Identities=14%  Similarity=0.070  Sum_probs=209.5

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCCC-----HHHHHHHHHHHHccCcHHHHHHHHHHHHhC----CCCC-CHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAKT-----SETYTALLHLYAGAKWTEKAEELFERVKQS----NLSF-NALM   81 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   81 (295)
                      ..+......+...|++++|...|+.+....|+     ...+..+...+...|++++|...+++..+.    +-.| ...+
T Consensus         6 ~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   85 (338)
T 3ro2_A            6 LELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKA   85 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHH
Confidence            34556677889999999999999998877663     467889999999999999999999987543    2112 3567


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----hHhHHHHHHHHHccCC--------------------HHHHHHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPD----IFTYNLWISSCAATLN--------------------IDQVKKF  136 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~~~--------------------~~~a~~~  136 (295)
                      +..+...|...|++++|...+++..+... .++    ..++..+...+...|+                    +++|...
T Consensus        86 ~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~  165 (338)
T 3ro2_A           86 SGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDL  165 (338)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHH
Confidence            88999999999999999999998765311 112    3478888888999999                    9999999


Q ss_pred             HHHHhhc----CCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-----ccccHHHHHHHHHhcCCHHHHHH
Q 022531          137 LDEMSCD----SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-----QWITYDFLIILYAGLGNKDKIDQ  207 (295)
Q Consensus       137 ~~~~~~~----~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~  207 (295)
                      +++....    ...+....++..+...+...|++++|.. .+.+........     ...++..+...+...|++++|.+
T Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  244 (338)
T 3ro2_A          166 YEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVI-AHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASE  244 (338)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            8876542    1112234577888999999999999999 887776543221     12377888889999999999999


Q ss_pred             HHHHHHhccCC-CC----HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC----CHHHHHHHHHHHHccCChHHHHH
Q 022531          208 IWKSLRMTKQK-MT----SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF----DISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       208 ~~~~m~~~~~~-~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      .+++....... .+    ..++..+...+...|++++|.+.+++.........    ...++..+..+|...|++++|..
T Consensus       245 ~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  324 (338)
T 3ro2_A          245 YYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMH  324 (338)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHH
Confidence            99987543211 11    34567788999999999999999998865321111    24478889999999999999999


Q ss_pred             HHHHHHhc
Q 022531          279 FHMLLLQK  286 (295)
Q Consensus       279 ~~~~m~~~  286 (295)
                      ++++..+.
T Consensus       325 ~~~~a~~~  332 (338)
T 3ro2_A          325 FAEKHLEI  332 (338)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHHH
Confidence            99998864

>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=99.73  E-value=2.4e-15  Score=122.74  Aligned_cols=233  Identities=11%  Similarity=0.042  Sum_probs=197.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC-HHHHHHHHHHHHhCCCCCChHhHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ-VEKVALVVEEIKRKNVVPDIFTYNLWI  121 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~~li  121 (295)
                      +...|+.+...+.+.|++++|+..|++.++.. +-+..+|+.+..++...|+ +++|+..|++..+.... +...|..+.
T Consensus        96 ~~~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~-~~~a~~~~g  173 (382)
T 2h6f_A           96 FRDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRR  173 (382)
T ss_dssp             HHHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCC-CHHHHHHHH
Confidence            46789999999999999999999999999875 4568899999999999997 99999999999986433 678899999


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh-cC
Q 022531          122 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG-LG  200 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g  200 (295)
                      .++...|++++|+..|+++...  .+.+..+|..+..++.+.|++++|.. .++++....+. +...|+.+..++.. .|
T Consensus       174 ~~~~~~g~~~eAl~~~~kal~l--dP~~~~a~~~lg~~~~~~g~~~eAl~-~~~~al~l~P~-~~~a~~~lg~~l~~l~~  249 (382)
T 2h6f_A          174 VLVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQ-YVDQLLKEDVR-NNSVWNQRYFVISNTTG  249 (382)
T ss_dssp             HHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHccCHHHHHHHHHHHHHh--CccCHHHHHHHHHHHHHcCChHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHhcC
Confidence            9999999999999999999985  36688899999999999999999999 99998887654 77889999999998 66


Q ss_pred             CHHHH-----HHHHHHHHhccCCCCHHhHHHHHHHHHhcC--ChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccC--
Q 022531          201 NKDKI-----DQIWKSLRMTKQKMTSRNYICILSSYLMLG--HLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG--  271 (295)
Q Consensus       201 ~~~~a-----~~~~~~m~~~~~~~~~~~~~~li~~~~~~~--~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--  271 (295)
                      ..++|     ++.+++..... +-+...|..+...+...|  ++++|.+.+.++ +.  .+.+...+..+..+|.+.|  
T Consensus       250 ~~~eA~~~~el~~~~~Al~l~-P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~--~p~~~~al~~La~~~~~~~~~  325 (382)
T 2h6f_A          250 YNDRAVLEREVQYTLEMIKLV-PHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP--SHSSPYLIAFLVDIYEDMLEN  325 (382)
T ss_dssp             SCSHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT--TCCCHHHHHHHHHHHHHHHHT
T ss_pred             cchHHHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc--CCCCHHHHHHHHHHHHHHhcc
Confidence            65777     48888877753 234567888888888888  689999999887 42  2457788899999998874  


Q ss_pred             -------ChHHHHHHHHHH-Hh
Q 022531          272 -------LTEKANEFHMLL-LQ  285 (295)
Q Consensus       272 -------~~~~a~~~~~~m-~~  285 (295)
                             ..++|.++++++ .+
T Consensus       326 ~~~~~~~~~~~A~~~~~~l~~~  347 (382)
T 2h6f_A          326 QCDNKEDILNKALELCEILAKE  347 (382)
T ss_dssp             TCSSHHHHHHHHHHHHHHHHHT
T ss_pred             cccchHHHHHHHHHHHHHHHHH
Confidence                   358999999998 55

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.70  E-value=7.8e-15  Score=114.53  Aligned_cols=224  Identities=13%  Similarity=-0.043  Sum_probs=180.4

Q ss_pred             HccCcHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHH
Q 022531           55 AGAKWTEKAEELFERVKQSNL---SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID  131 (295)
Q Consensus        55 ~~~~~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~  131 (295)
                      ...|++++|+..|+++.+...   +.+..+|..+...+...|++++|...|++..+... .+..++..+...+...|+++
T Consensus        16 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~   94 (275)
T 1xnf_A           16 QPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFD   94 (275)
T ss_dssp             CCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHH
T ss_pred             CccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHccCHH
Confidence            346889999999999998632   12467889999999999999999999999988643 36788999999999999999


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 022531          132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKS  211 (295)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  211 (295)
                      +|...|+++...  .+.+..++..+..+|.+.|++++|.. .+..+....+.  .......+..+...|++++|...+++
T Consensus        95 ~A~~~~~~al~~--~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~a~~~~~~--~~~~~~~~~~~~~~~~~~~A~~~~~~  169 (275)
T 1xnf_A           95 AAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQD-DLLAFYQDDPN--DPFRSLWLYLAEQKLDEKQAKEVLKQ  169 (275)
T ss_dssp             HHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT--CHHHHHHHHHHHHHHCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhc--CccccHHHHHHHHHHHHhccHHHHHH-HHHHHHHhCCC--ChHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            999999999985  34567889999999999999999999 89888776543  33344444555777999999999988


Q ss_pred             HHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCC-C-CCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          212 LRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS-D-FDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       212 m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~-~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      ..... +++...+ .++..+...++.++|.+.+......... . .+..+|..+..+|...|++++|...|+++++.
T Consensus       170 ~~~~~-~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          170 HFEKS-DKEQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHS-CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHhcC-CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            77653 3344344 4777888888999999999988664310 0 12578899999999999999999999999874

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.70  E-value=6.3e-14  Score=111.59  Aligned_cols=235  Identities=11%  Similarity=0.013  Sum_probs=185.7

Q ss_pred             HHHHHHHHHHHHhc----cCh----hHHHHHHhhcccCCC-CHHHHHHHHHHHHc-------cCcH-------HHHHHHH
Q 022531           11 DSDYATRIDLMTKV----FGI----HSGERYFEGLPLSAK-TSETYTALLHLYAG-------AKWT-------EKAEELF   67 (295)
Q Consensus        11 ~~~~~~li~~~~~~----~~~----~~A~~~~~~~~~~~p-~~~~~~~li~~~~~-------~~~~-------~~a~~~~   67 (295)
                      ...|...+....+.    ++.    ++|..+|+......| +...|..++..+..       .|++       ++|..+|
T Consensus         8 ~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~   87 (308)
T 2ond_A            8 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY   87 (308)
T ss_dssp             HHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHH
Confidence            34566666665443    233    688899999888766 78899998888763       5775       8999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-hH-hHHHHHHHHHccCCHHHHHHHHHHHhhcCC
Q 022531           68 ERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IF-TYNLWISSCAATLNIDQVKKFLDEMSCDSG  145 (295)
Q Consensus        68 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~-~~~~li~~~~~~~~~~~a~~~~~~~~~~~~  145 (295)
                      ++..+.--+-+...|..++..+.+.|++++|.++|++..+.  .|+ .. +|..++..+.+.|++++|..+|++..+.  
T Consensus        88 ~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--  163 (308)
T 2ond_A           88 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--  163 (308)
T ss_dssp             HHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--
Confidence            99998412345678999999999999999999999999984  454 33 7899999999999999999999999875  


Q ss_pred             CCCCHHHHHHHHHHHH-hcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CCC--CH
Q 022531          146 GSDDWVKYVNLVNIYI-TASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK-QKM--TS  221 (295)
Q Consensus       146 ~~~~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~--~~  221 (295)
                      .+++...|........ ..|++++|.. +++...+..+. +...|..++..+.+.|+.++|..+|++..... +.|  ..
T Consensus       164 ~p~~~~~~~~~a~~~~~~~~~~~~A~~-~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~  241 (308)
T 2ond_A          164 ARTRHHVYVTAALMEYYCSKDKSVAFK-IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSG  241 (308)
T ss_dssp             TTCCTHHHHHHHHHHHHTSCCHHHHHH-HHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCH
T ss_pred             CCCCHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHH
Confidence            2445566654444432 3699999999 88888876654 67788899999999999999999999998863 354  35


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          222 RNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       222 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      ..|..++....+.|+.+.|..+++++.+..
T Consensus       242 ~l~~~~~~~~~~~g~~~~a~~~~~~a~~~~  271 (308)
T 2ond_A          242 EIWARFLAFESNIGDLASILKVEKRRFTAF  271 (308)
T ss_dssp             HHHHHHHHHHHHHSCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHc
Confidence            578888888999999999999999988754

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.69  E-value=2.4e-16  Score=125.35  Aligned_cols=240  Identities=13%  Similarity=0.028  Sum_probs=155.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------C
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQS-------NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK------N  109 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~  109 (295)
                      +..++..+...+...|++++|..+|+++.+.       ..+....++..+...|...|++++|...+++..+.      +
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            4667777888888888888888888877762       22334566777888888888888888888777653      2


Q ss_pred             CCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc------CCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh--
Q 022531          110 VVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD------SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS--  180 (295)
Q Consensus       110 ~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--  180 (295)
                      -.| ...++..+...+...|++++|...++++...      ...+....++..+...+...|++++|.+ .+.+....  
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~-~~~~a~~~~~  184 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEY-YYQRALEIYQ  184 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHH-HHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHH
Confidence            122 3456777777888888888888888876653      1223345567778888888888888888 77776654  


Q ss_pred             ----c-CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc-------CCCCHH-------hHHHHHHHHHhcCChHHHH
Q 022531          181 ----I-TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK-------QKMTSR-------NYICILSSYLMLGHLKEVG  241 (295)
Q Consensus       181 ----~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-------~~~~~~-------~~~~li~~~~~~~~~~~A~  241 (295)
                          . ......++..+...|...|++++|.+.++++.+..       ..+...       .+..+...+...+.+.+|.
T Consensus       185 ~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  264 (311)
T 3nf1_A          185 TKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYG  264 (311)
T ss_dssp             HTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC
T ss_pred             HHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence                1 11134567777788888888888888888776431       111111       1222334444556666777


Q ss_pred             HHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          242 EIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..+.......  +.+..++..+..+|.+.|++++|.++|++.++
T Consensus       265 ~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          265 GWYKACKVDS--PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             ---------C--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCC--chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7777766532  34567888999999999999999999998876

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.68  E-value=1.1e-12  Score=111.26  Aligned_cols=256  Identities=7%  Similarity=-0.081  Sum_probs=161.5

Q ss_pred             CHHHHHHHHHHHHh----ccChhHHHHHHhhcccCCCCHHHHHHHHHHHHc----cCcHHHHHHHHHHHHhCCCCCCHHH
Q 022531           10 SDSDYATRIDLMTK----VFGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALM   81 (295)
Q Consensus        10 ~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~   81 (295)
                      ++..+..+...|..    .+++++|...|+...+. .+...+..|...|..    .+++++|...|++..+.|   ++..
T Consensus        38 ~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a  113 (490)
T 2xm6_A           38 EAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQ-GYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQA  113 (490)
T ss_dssp             CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHH
T ss_pred             CHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHH
Confidence            45555666666666    67777787777776653 356667777777777    777777888777777765   5666


Q ss_pred             HHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCCHHHH
Q 022531           82 YNEMMTLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKY  153 (295)
Q Consensus        82 ~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  153 (295)
                      +..|...|..    .+++++|+..|++..+.|   +...+..+...|..    .+++++|.+.|++..+. +   +...+
T Consensus       114 ~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~-~---~~~a~  186 (490)
T 2xm6_A          114 QQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ-G---NVWSC  186 (490)
T ss_dssp             HHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHH
T ss_pred             HHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-C---CHHHH
Confidence            6677777776    677777777777777654   44556666666665    56777777777776664 2   45566


Q ss_pred             HHHHHHHHh----cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHH
Q 022531          154 VNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYI  225 (295)
Q Consensus       154 ~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~  225 (295)
                      ..+...|..    .++.++|.+ ++.+..+.+   +...+..+...|..    .++.++|.++|++..+.+   +...+.
T Consensus       187 ~~Lg~~y~~g~g~~~~~~~A~~-~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~  259 (490)
T 2xm6_A          187 NQLGYMYSRGLGVERNDAISAQ-WYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQF  259 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHH-HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHH
T ss_pred             HHHHHHHhcCCCCCcCHHHHHH-HHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            666666666    677777777 666655543   33455555555554    566667777666665543   233444


Q ss_pred             HHHHHHHh----cCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHcc-----CChHHHHHHHHHHHhcC
Q 022531          226 CILSSYLM----LGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV-----GLTEKANEFHMLLLQKN  287 (295)
Q Consensus       226 ~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~~a~~~~~~m~~~g  287 (295)
                      .+...|..    .++.++|.++|++..+.+    +...+..+...|...     +++++|..+|++..+.|
T Consensus       260 ~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~----~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~  326 (490)
T 2xm6_A          260 RLGYILEQGLAGAKEPLKALEWYRKSAEQG----NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG  326 (490)
T ss_dssp             HHHHHHHHTTTSSCCHHHHHHHHHHHHTTT----CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHCCCCCCCCHHHHHHHHHHHHHcC----CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC
Confidence            45555555    566666666666655432    233444555555554     56666666666655543

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.68  E-value=9.8e-13  Score=111.55  Aligned_cols=258  Identities=10%  Similarity=0.027  Sum_probs=131.3

Q ss_pred             HHHHHHHHHHHHh----ccChhHHHHHHhhcccCCCCHHHHHHHHHHHHc----cCcHHHHHHHHHHHHhCCCCCCHHHH
Q 022531           11 DSDYATRIDLMTK----VFGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALMY   82 (295)
Q Consensus        11 ~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~   82 (295)
                      +..+..|...|..    .+++++|...|+...+. .+...+..|...|..    .+++++|...|++..+.|   +...+
T Consensus        75 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~  150 (490)
T 2xm6_A           75 TPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALK-GLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQG---RDSGQ  150 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHH
T ss_pred             HHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHH
Confidence            4455555566665    66666666666665543 244555556666655    556666666666666655   45555


Q ss_pred             HHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCCCCHHHHH
Q 022531           83 NEMMTLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYV  154 (295)
Q Consensus        83 ~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  154 (295)
                      ..|...|..    .+++++|++.|++..+.|   +...+..+...|..    .+++++|...|++..+. +   +..++.
T Consensus       151 ~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~-~---~~~a~~  223 (490)
T 2xm6_A          151 QSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATS-G---DELGQL  223 (490)
T ss_dssp             HHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT-T---CHHHHH
T ss_pred             HHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHC-C---CHHHHH
Confidence            555555555    556666666666655542   34455555555554    55556666655555543 1   233444


Q ss_pred             HHHHHHHh----cCchhhHHHHHHHHHHHhcCC---------------------------------CccccHHHHHHHHH
Q 022531          155 NLVNIYIT----ASHLVNAESSTLVEAEKSITQ---------------------------------RQWITYDFLIILYA  197 (295)
Q Consensus       155 ~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~---------------------------------~~~~~~~~li~~~~  197 (295)
                      .+...|..    .+++++|.. ++....+.+..                                 .+...+..+...|.
T Consensus       224 ~lg~~y~~g~g~~~~~~~A~~-~~~~a~~~~~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~  302 (490)
T 2xm6_A          224 HLADMYYFGIGVTQDYTQSRV-LFSQSAEQGNSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYD  302 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHH-HHHHHHTTTCHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHH-HHHHHHHCCCHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44444443    445555555 44444332210                                 12223333444443


Q ss_pred             hc-----CCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcC---ChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHc
Q 022531          198 GL-----GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLG---HLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  269 (295)
Q Consensus       198 ~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~---~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  269 (295)
                      ..     ++.++|+.+|++..+.+   +...+..+...|...|   +.++|.++|++..+.    .+...+..|...|..
T Consensus       303 ~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~  375 (490)
T 2xm6_A          303 KGAEGVAKNREQAISWYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAK----GEKAAQFNLGNALLQ  375 (490)
T ss_dssp             HCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHT----TCHHHHHHHHHHHHH
T ss_pred             cCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHC----CCHHHHHHHHHHHHc
Confidence            33     44445555444444432   2233334444444433   445555555555442    133445555555555


Q ss_pred             ----cCChHHHHHHHHHHHhcC
Q 022531          270 ----VGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       270 ----~g~~~~a~~~~~~m~~~g  287 (295)
                          .+++++|..+|++..+.|
T Consensus       376 g~g~~~~~~~A~~~~~~A~~~~  397 (490)
T 2xm6_A          376 GKGVKKDEQQAAIWMRKAAEQG  397 (490)
T ss_dssp             TSSSCCCHHHHHHHHHHHHHTT
T ss_pred             CCCCCCCHHHHHHHHHHHHhCC
Confidence                556666666666555543

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.67  E-value=2.5e-13  Score=108.11  Aligned_cols=237  Identities=8%  Similarity=0.060  Sum_probs=184.8

Q ss_pred             CHHHHHHHHHHHHcc----CcH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCH-------HHHHH
Q 022531           43 TSETYTALLHLYAGA----KWT----EKAEELFERVKQSNLSFNALMYNEMMTLYMS-------VGQV-------EKVAL  100 (295)
Q Consensus        43 ~~~~~~~li~~~~~~----~~~----~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-------~~~~-------~~a~~  100 (295)
                      +...|...+....+.    ++.    ++|..+|++..... +.++..|..++..+..       .|++       ++|..
T Consensus         7 ~~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~   85 (308)
T 2ond_A            7 QVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAAN   85 (308)
T ss_dssp             HHHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHH
Confidence            344666666665443    233    78999999998864 5578899988888763       5875       99999


Q ss_pred             HHHHHHhCCCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHH-HHHHHHHHHHhcCchhhHHHHHHHHHH
Q 022531          101 VVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV-KYVNLVNIYITASHLVNAESSTLVEAE  178 (295)
Q Consensus       101 ~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (295)
                      +|++..+. +.| +...|..++..+.+.|++++|..+|+++.+.  .+.+.. +|..+...+.+.|++++|.. ++.+..
T Consensus        86 ~~~rAl~~-~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~a~  161 (308)
T 2ond_A           86 IYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRM-IFKKAR  161 (308)
T ss_dssp             HHHHHHTT-TTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHH-HHHHHH
T ss_pred             HHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHH-HHHHHH
Confidence            99999983 234 4568999999999999999999999999974  122343 89999999999999999999 898887


Q ss_pred             HhcCCCccccHHHHHHHH-HhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC--
Q 022531          179 KSITQRQWITYDFLIILY-AGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--  255 (295)
Q Consensus       179 ~~~~~~~~~~~~~li~~~-~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~--  255 (295)
                      ...+ .+...|....... ...|+.++|..+|++..+.. +-+...+..++..+.+.|++++|..+|++.......+|  
T Consensus       162 ~~~p-~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~  239 (308)
T 2ond_A          162 EDAR-TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEK  239 (308)
T ss_dssp             TSTT-CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGG
T ss_pred             hcCC-CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHH
Confidence            7554 2444454433332 23799999999999987763 33567788899999999999999999999988532234  


Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          256 DISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       256 ~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      ....|..++..+.+.|+.+.|..+++++.+.
T Consensus       240 ~~~l~~~~~~~~~~~g~~~~a~~~~~~a~~~  270 (308)
T 2ond_A          240 SGEIWARFLAFESNIGDLASILKVEKRRFTA  270 (308)
T ss_dssp             CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4678999999999999999999999999873

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.67  E-value=6.8e-15  Score=124.12  Aligned_cols=207  Identities=11%  Similarity=-0.067  Sum_probs=96.5

Q ss_pred             HHHHHHhhcccCCC-CHHHHHHHHHHHHccCcH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           29 SGERYFEGLPLSAK-TSETYTALLHLYAGAKWT-EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        29 ~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      ++...++......| +...|..+...+...|++ ++|++.|++..+.. +.+..+|..+..+|.+.|++++|++.|++..
T Consensus        86 ~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al  164 (474)
T 4abn_A           86 KTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGAL  164 (474)
T ss_dssp             HHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33334443333333 444555555555555555 55555555554432 2234455555555555555555555555554


Q ss_pred             hCCCCCChHhHHHHHHHHHcc---------CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc--------CchhhH
Q 022531          107 RKNVVPDIFTYNLWISSCAAT---------LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA--------SHLVNA  169 (295)
Q Consensus       107 ~~~~~p~~~~~~~li~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~~~~a  169 (295)
                      +.  .|+...+..+...+...         |++++|...|++..+.  .+.+...|..+..+|...        |++++|
T Consensus       165 ~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A  240 (474)
T 4abn_A          165 TH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKISQQA  240 (474)
T ss_dssp             TT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             hh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchHHHH
Confidence            43  23344444455555554         5555555555554442  133344445555555544        555555


Q ss_pred             HHHHHHHHHHhcCC--CccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHH
Q 022531          170 ESSTLVEAEKSITQ--RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGE  242 (295)
Q Consensus       170 ~~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  242 (295)
                      .. .+++.....+.  .+...|..+..+|...|++++|.+.|++..+.. +-+...+..+..++...|++++|.+
T Consensus       241 ~~-~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          241 LS-AYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             HH-HHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HH-HHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            55 44444443221  233444445555555555555555555444432 1122334444444444444444444

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=1.2e-13  Score=116.39  Aligned_cols=200  Identities=11%  Similarity=-0.083  Sum_probs=136.3

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccC---------CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC-----C
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLS---------AK-TSETYTALLHLYAGAKWTEKAEELFERVKQS-----N   74 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~---------~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~   74 (295)
                      ....|+.|...+...|++++|++.|++..+.         .| ...+|+.+..+|...|++++|...+++..+.     +
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            3567999999999999999999999875431         34 5678999999999999999999999887642     1


Q ss_pred             --CCCCHHHHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHH---HHccCCHHHHHHHHHHHhhcCCC
Q 022531           75 --LSFNALMYNEMMTLYMSV--GQVEKVALVVEEIKRKNVVPD-IFTYNLWISS---CAATLNIDQVKKFLDEMSCDSGG  146 (295)
Q Consensus        75 --~~p~~~~~~~li~~~~~~--~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~---~~~~~~~~~a~~~~~~~~~~~~~  146 (295)
                        -.....++..+..++...  +++++|+..|++..+.  .|+ ...+..+..+   +...++.++|++.+++....  .
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~--~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l--~  205 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEK--KPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL--N  205 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH--C
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc--C
Confidence              112356777776666654  4689999999998875  343 4444444433   34456677788877777664  2


Q ss_pred             CCCHHHHHHHHHHHHh----cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          147 SDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       147 ~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      +.+..++..+...+..    .+++++|.+ .+++.....+. +..++..+...|...|++++|.+.+++..+.
T Consensus       206 p~~~~~~~~l~~~~~~~~~~~~~~~~a~~-~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  276 (472)
T 4g1t_A          206 PDNQYLKVLLALKLHKMREEGEEEGEGEK-LVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEY  276 (472)
T ss_dssp             SSCHHHHHHHHHHHHHCC------CHHHH-HHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcchHHHHHHHHHHHHHHhhhhHHHHHHH-HHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHh
Confidence            3455555555544443    356677777 66666554433 5566777777788888888888877776654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.66  E-value=2e-15  Score=119.90  Aligned_cols=239  Identities=10%  Similarity=0.014  Sum_probs=172.6

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhccc--------CCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC------C
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPL--------SAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS------N   74 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~--------~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~   74 (295)
                      +...+..+...+...|++++|..+|+.+..        ..| ...++..+...+...|++++|...+++....      +
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            466788899999999999999999998876        234 5678999999999999999999999988754      2


Q ss_pred             -CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc---
Q 022531           75 -LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK------NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD---  143 (295)
Q Consensus        75 -~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---  143 (295)
                       .+....++..+...|...|++++|...|++..+.      +..| ...++..+...+...|++++|..+++++...   
T Consensus       106 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~  185 (311)
T 3nf1_A          106 DHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQT  185 (311)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence             2334668899999999999999999999998764      2223 3556888899999999999999999998763   


Q ss_pred             ---CCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcC-------CC-ccccHHH------HHHHHHhcCCHHHHH
Q 022531          144 ---SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT-------QR-QWITYDF------LIILYAGLGNKDKID  206 (295)
Q Consensus       144 ---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-------~~-~~~~~~~------li~~~~~~g~~~~a~  206 (295)
                         ...+....++..+..+|...|++++|.+ .+.+......       .+ ....+..      +...+...+.+.++.
T Consensus       186 ~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~  264 (311)
T 3nf1_A          186 KLGPDDPNVAKTKNNLASCYLKQGKFKQAET-LYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYG  264 (311)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC
T ss_pred             HhCCCCHHHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence               1123345678899999999999999999 8888775321       11 1222222      222233455566666


Q ss_pred             HHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          207 QIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       207 ~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      ..++...... .....++..+..+|.+.|++++|.++|++..+.
T Consensus       265 ~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          265 GWYKACKVDS-PTVTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             ---------C-HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhcCCCC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            6666655432 233456778999999999999999999988763

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.66  E-value=9e-13  Score=112.87  Aligned_cols=149  Identities=7%  Similarity=-0.030  Sum_probs=86.4

Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc-cccHHHHHHHHHhcCCHHHHHHHHH
Q 022531          132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ-WITYDFLIILYAGLGNKDKIDQIWK  210 (295)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~  210 (295)
                      +|..+|++.... -.+.+...|..++..+.+.|++++|.. +++++....+. + ...|..++..+.+.|+.++|.++|+
T Consensus       304 ~A~~~~~~Al~~-~~p~~~~l~~~~~~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~A~~~~~  380 (530)
T 2ooe_A          304 EAANIYERAIST-LLKKNMLLYFAYADYEESRMKYEKVHS-IYNRLLAIEDI-DPTLVYIQYMKFARRAEGIKSGRMIFK  380 (530)
T ss_dssp             HHHHHHHHHTTT-TCSSCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHSSSS-CHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH-hCcccHHHHHHHHHHHHhcCCHHHHHH-HHHHHhCcccc-CchHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            555555555531 123345555566666666666666666 55555543221 2 1355555555556666666666666


Q ss_pred             HHHhccCCCCHHhHHHHHHH-HHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhc
Q 022531          211 SLRMTKQKMTSRNYICILSS-YLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  286 (295)
Q Consensus       211 ~m~~~~~~~~~~~~~~li~~-~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~  286 (295)
                      +..+.. +.+...|...... +...|+.++|.++|+...+..  +.+...|..++..+.+.|+.++|..+|++.+..
T Consensus       381 ~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~--p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~  454 (530)
T 2ooe_A          381 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY--GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTS  454 (530)
T ss_dssp             HHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH--TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHS
T ss_pred             HHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC--CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhc
Confidence            655431 1112222221111 235777788888888777654  245677888888888888888888888888765

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.65  E-value=6.1e-14  Score=118.21  Aligned_cols=279  Identities=10%  Similarity=-0.075  Sum_probs=185.5

Q ss_pred             HHHHHHHHHHHHhc--cChhHHHHHHhhcccCCC-CHHHHHHHHHH---HHccCcHHHHHHHHHHHHhCCCCCCHHHHHH
Q 022531           11 DSDYATRIDLMTKV--FGIHSGERYFEGLPLSAK-TSETYTALLHL---YAGAKWTEKAEELFERVKQSNLSFNALMYNE   84 (295)
Q Consensus        11 ~~~~~~li~~~~~~--~~~~~A~~~~~~~~~~~p-~~~~~~~li~~---~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~   84 (295)
                      +.++.....++.+.  +++++|...|+...+..| +...+..+..+   +...++.++|++.+++..+.+ +.+..++..
T Consensus       136 ~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~  214 (472)
T 4g1t_A          136 PELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVL  214 (472)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHH
T ss_pred             HHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHH
Confidence            45666666666554  469999999999888777 56666666655   344577788999999888765 456777777


Q ss_pred             HHHHHHhc----CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           85 MMTLYMSV----GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        85 li~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      +...+...    |++++|.+++++...... .+..++..+...+.+.|++++|...+++..+.  .|.+..++..+..+|
T Consensus       215 l~~~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~y  291 (472)
T 4g1t_A          215 LALKLHKMREEGEEEGEGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQIGCCY  291 (472)
T ss_dssp             HHHHHHHCC------CHHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhhHHHHHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHHHHHHH
Confidence            76666554    578899999999887533 35677888999999999999999999999875  355667777777666


Q ss_pred             Hhc-------------------CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH
Q 022531          161 ITA-------------------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS  221 (295)
Q Consensus       161 ~~~-------------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  221 (295)
                      ...                   +..+.|.. .+.......+ .+..++..+...|...|++++|++.|++..+....|..
T Consensus       292 ~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~a~~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~  369 (472)
T 4g1t_A          292 RAKVFQVMNLRENGMYGKRKLLELIGHAVA-HLKKADEAND-NLFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVA  369 (472)
T ss_dssp             HHHHHHHHHC------CHHHHHHHHHHHHH-HHHHHHHHCT-TTCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHhhhHHHHHHHHHHHHHhhHHHHHH-HHHHHhhcCC-chhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChH
Confidence            432                   23456666 6666655443 36778999999999999999999999998876433322


Q ss_pred             H--hHHHHHH-HHHhcCChHHHHHHHHHHhhhc----------------------CCCCCHHHHHHHHHHHHccCChHHH
Q 022531          222 R--NYICILS-SYLMLGHLKEVGEIIDQWKQSA----------------------TSDFDISACNRLLGAFSDVGLTEKA  276 (295)
Q Consensus       222 ~--~~~~li~-~~~~~~~~~~A~~~~~~~~~~~----------------------~~~~~~~~~~~l~~~~~~~g~~~~a  276 (295)
                      .  .+..+.. .....|+.++|+..|.+..+-.                      ..+.+..+|..+..+|...|++++|
T Consensus       370 ~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A  449 (472)
T 4g1t_A          370 KQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQA  449 (472)
T ss_dssp             HHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            1  1222222 2346789999999888765421                      1134567899999999999999999


Q ss_pred             HHHHHHHHhcC-CCCCCCCC
Q 022531          277 NEFHMLLLQKN-CAPTNASG  295 (295)
Q Consensus       277 ~~~~~~m~~~g-~~p~~~t~  295 (295)
                      .+.|++.++.| ..|+..+|
T Consensus       450 ~~~y~kALe~~~~~p~a~~~  469 (472)
T 4g1t_A          450 DEDSERGLESGSLIPSASSW  469 (472)
T ss_dssp             --------------------
T ss_pred             HHHHHHHHhcCCCCCcHhhc
Confidence            99999998854 44665554

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.64  E-value=2.3e-14  Score=120.87  Aligned_cols=215  Identities=10%  Similarity=-0.074  Sum_probs=183.4

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH-HHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHH
Q 022531           59 WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV-EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFL  137 (295)
Q Consensus        59 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  137 (295)
                      .+++++..+++..... +.+...+..+...+...|++ ++|++.|++..+... -+..+|..+..+|.+.|++++|...|
T Consensus        83 ~~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~  160 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEP-ELVEAWNQLGEVYWKKGDVTSAHTCF  160 (474)
T ss_dssp             HHHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCC-CCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4677788888776653 45788999999999999999 999999999988632 25788999999999999999999999


Q ss_pred             HHHhhcCCCCCCHHHHHHHHHHHHhc---------CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc--------C
Q 022531          138 DEMSCDSGGSDDWVKYVNLVNIYITA---------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL--------G  200 (295)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~--------g  200 (295)
                      ++....   .|+..++..+..++...         |++++|.. .+++.....+. +...|..+..+|...        |
T Consensus       161 ~~al~~---~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g  235 (474)
T 4abn_A          161 SGALTH---CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVR-QAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPK  235 (474)
T ss_dssp             HHHHTT---CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHH
T ss_pred             HHHHhh---CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccc
Confidence            999975   36678899999999999         99999999 89988876644 678899999999988        9


Q ss_pred             CHHHHHHHHHHHHhccCC--CCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHH
Q 022531          201 NKDKIDQIWKSLRMTKQK--MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       201 ~~~~a~~~~~~m~~~~~~--~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      ++++|++.|++..+....  -+...|..+..+|...|++++|.+.|++..+..  +.+...+..+..++...|++++|.+
T Consensus       236 ~~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~a~~~l~~~~~~lg~~~eAi~  313 (474)
T 4abn_A          236 ISQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPEPQQREQQLLEFLSRLTSLLE  313 (474)
T ss_dssp             HHHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999876310  377888899999999999999999999998865  3567788999999999999999987


Q ss_pred             HHHH
Q 022531          279 FHML  282 (295)
Q Consensus       279 ~~~~  282 (295)
                      .+.+
T Consensus       314 ~~~~  317 (474)
T 4abn_A          314 SKGK  317 (474)
T ss_dssp             HTTT
T ss_pred             Hhcc
Confidence            5544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.64  E-value=8.7e-14  Score=102.05  Aligned_cols=162  Identities=12%  Similarity=0.055  Sum_probs=62.9

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      .+|..+...+.+.|++++|+..|++..+.+ |-+..+|..+..+|.+.|++++|...+++...... .+...+..+...+
T Consensus         6 ~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~~~~~~   83 (184)
T 3vtx_A            6 TIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDT-TSAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCc-hhHHHHHHHHHHH
Confidence            344444444444444444444444444332 22333444444444444444444444444333211 1223333333334


Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHH
Q 022531          125 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK  204 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  204 (295)
                      ...++++.+...+.+....  .+.+..++..+..+|.+.|++++|.+ .+++..+..+. +..+|..+..+|.+.|++++
T Consensus        84 ~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~-~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIE-AYEKTISIKPG-FIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHH-HHHHHHHhcch-hhhHHHHHHHHHHHCCCHHH
Confidence            4444444444444443332  12233333344444444444444444 33333332221 23333333334444444444


Q ss_pred             HHHHHHHH
Q 022531          205 IDQIWKSL  212 (295)
Q Consensus       205 a~~~~~~m  212 (295)
                      |++.|++.
T Consensus       160 A~~~~~~a  167 (184)
T 3vtx_A          160 AVKYFKKA  167 (184)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            44444333

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.64  E-value=7e-14  Score=102.56  Aligned_cols=167  Identities=11%  Similarity=-0.025  Sum_probs=149.0

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      ++..|..+...+.+.|++++|++.|++..+..| +..+|..+..++.+.|++++|...+.+..... +.+...+..+...
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            577899999999999999999999999988877 78899999999999999999999999998765 4567888899999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      +...++++.|...+.+..+... .+...+..+...+.+.|++++|++.|++..+.  .+.+..++..+..+|.+.|++++
T Consensus        83 ~~~~~~~~~a~~~~~~a~~~~~-~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           83 NFMIDEKQAAIDALQRAIALNT-VYADAYYKLGLVYDSMGEHDKAIEAYEKTISI--KPGFIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHhCCchhHHHHHHHHHHh--cchhhhHHHHHHHHHHHCCCHHH
Confidence            9999999999999999887533 35778889999999999999999999999885  35678889999999999999999


Q ss_pred             HHHHHHHHHHHhc
Q 022531          169 AESSTLVEAEKSI  181 (295)
Q Consensus       169 a~~~~~~~~~~~~  181 (295)
                      |.+ .+++..+..
T Consensus       160 A~~-~~~~al~~~  171 (184)
T 3vtx_A          160 AVK-YFKKALEKE  171 (184)
T ss_dssp             HHH-HHHHHHHTT
T ss_pred             HHH-HHHHHHhCC
Confidence            999 888877644

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.60  E-value=1.1e-13  Score=113.53  Aligned_cols=250  Identities=9%  Similarity=-0.055  Sum_probs=183.8

Q ss_pred             HHHhhcccCCCCHH------HHHHHHHHHHccCcHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHH
Q 022531           32 RYFEGLPLSAKTSE------TYTALLHLYAGAKWTEKAEELFERVKQS----NLSF-NALMYNEMMTLYMSVGQVEKVAL  100 (295)
Q Consensus        32 ~~~~~~~~~~p~~~------~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~  100 (295)
                      +.++.+....++..      .+......+...|++++|...|++..+.    +-++ ...++..+...|...|++++|+.
T Consensus        85 ~~~~~i~~~~~~~~~~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~  164 (383)
T 3ulq_A           85 DLLLEIDKKQARLTGLLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMD  164 (383)
T ss_dssp             HHHHHHHHHTHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hHHHHHHhcCCCchhHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            66666544322222      2333677888999999999999998764    2112 34688999999999999999999


Q ss_pred             HHHHHHhCC--C---CC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcC---C-CCCCHHHHHHHHHHHHhcCchhhHH
Q 022531          101 VVEEIKRKN--V---VP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDS---G-GSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus       101 ~~~~m~~~~--~---~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      .+++..+.-  .   .| ...++..+...|...|++++|...|++.....   + .+....++..+..+|...|++++|.
T Consensus       165 ~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~  244 (383)
T 3ulq_A          165 YARQAYEIYKEHEAYNIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAI  244 (383)
T ss_dssp             HHHHHHHHHHTCSTTHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhCccchHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHH
Confidence            999876521  1   11 24578888899999999999999999876531   1 1112247888999999999999999


Q ss_pred             HHHHHHHHHh----cC-CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccC---CC-CHHhHHHHHHHHHhcCC---hH
Q 022531          171 SSTLVEAEKS----IT-QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ---KM-TSRNYICILSSYLMLGH---LK  238 (295)
Q Consensus       171 ~~~~~~~~~~----~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---~~-~~~~~~~li~~~~~~~~---~~  238 (295)
                      + .+.+....    +. +....++..+...|...|++++|.+.+++..+...   .| ....+..+...+...|+   ++
T Consensus       245 ~-~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  323 (383)
T 3ulq_A          245 P-YFKRAIAVFEESNILPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQ  323 (383)
T ss_dssp             H-HHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHH
T ss_pred             H-HHHHHHHHHHhhccchhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHH
Confidence            9 88887762    22 23456788899999999999999999998754321   11 12235667778888898   77


Q ss_pred             HHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          239 EVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       239 ~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +|+.++++...   .+.....+..+...|...|++++|..++++..+
T Consensus       324 ~al~~~~~~~~---~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          324 GFFDFLESKML---YADLEDFAIDVAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHHTTC---HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCcC---HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77777776522   123345778899999999999999999999875

>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=99.59  E-value=6e-13  Score=97.21  Aligned_cols=166  Identities=10%  Similarity=-0.036  Sum_probs=121.8

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ...|..+...+...|++++|...|+.+....| +...+..+...+...|++++|...++++.+.. +.+..++..+...+
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            34566677777888888888888888777655 67777788888888888888888888877653 44667777777888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      ...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++++...  .+.+..++..+..++...|++++|
T Consensus        87 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A  163 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGL--RPNEGKVHRAIAFSYEQMGRHEEA  163 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHcCCHHHH
Confidence            88888888888888777653 235666777777777788888888888777764  244566777777777777888877


Q ss_pred             HHHHHHHHHHhc
Q 022531          170 ESSTLVEAEKSI  181 (295)
Q Consensus       170 ~~~~~~~~~~~~  181 (295)
                      .. .+.......
T Consensus       164 ~~-~~~~~~~~~  174 (186)
T 3as5_A          164 LP-HFKKANELD  174 (186)
T ss_dssp             HH-HHHHHHHHH
T ss_pred             HH-HHHHHHHcC
Confidence            77 666665544

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.59  E-value=9e-14  Score=115.01  Aligned_cols=240  Identities=14%  Similarity=0.058  Sum_probs=184.5

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCh
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA----LMYNEMMTLYMSVGQVEKVALVVEEIKRK----NV-VPDI  114 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~  114 (295)
                      ...+..+...+...|++++|...|+++.+.+ +.+.    .+|..+...|...|++++|...|++..+.    +. ....
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  126 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAG-TEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEA  126 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhc-ccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHH
Confidence            4456667888999999999999999998864 2233    47889999999999999999999987653    11 2235


Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcC----CCCCCHHHHHHHHHHHHhcCc-----------------hhhHHHHH
Q 022531          115 FTYNLWISSCAATLNIDQVKKFLDEMSCDS----GGSDDWVKYVNLVNIYITASH-----------------LVNAESST  173 (295)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~-----------------~~~a~~~~  173 (295)
                      .++..+...|...|++++|...++++....    ..+....++..+...|...|+                 +++|.+ .
T Consensus       127 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~-~  205 (411)
T 4a1s_A          127 KSSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVE-F  205 (411)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHH-H
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHH-H
Confidence            678888899999999999999998876531    122335578889999999999                 999999 7


Q ss_pred             HHHHHHhcC-----CCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CC----HHhHHHHHHHHHhcCChHHHHHH
Q 022531          174 LVEAEKSIT-----QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT----SRNYICILSSYLMLGHLKEVGEI  243 (295)
Q Consensus       174 ~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~----~~~~~~li~~~~~~~~~~~A~~~  243 (295)
                      +.+......     .....++..+...|...|++++|++.+++..+.... ++    ...+..+...|...|++++|.+.
T Consensus       206 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~  285 (411)
T 4a1s_A          206 YQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEH  285 (411)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHH
Confidence            776654221     112357778888999999999999999987654211 12    12677889999999999999999


Q ss_pred             HHHHhhhcCCC----CCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          244 IDQWKQSATSD----FDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       244 ~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +++........    ....++..+..+|...|++++|..++++.++
T Consensus       286 ~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  331 (411)
T 4a1s_A          286 YKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLA  331 (411)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            99886643111    1256788899999999999999999998865

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.58  E-value=2.3e-13  Score=112.17  Aligned_cols=242  Identities=15%  Similarity=0.052  Sum_probs=185.8

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-
Q 022531           42 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVP-  112 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-  112 (295)
                      +....+......+...|++++|...|++..+.+ +.+    ..++..+...|...|++++|...+++....    +..| 
T Consensus         7 ~~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~   85 (406)
T 3sf4_A            7 ASCLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLG   85 (406)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHH
Confidence            356677888999999999999999999998864 233    357889999999999999999999986542    2222 


Q ss_pred             ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCC----CCCCHHHHHHHHHHHHhcCc--------------------hhh
Q 022531          113 DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSG----GSDDWVKYVNLVNIYITASH--------------------LVN  168 (295)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~~~--------------------~~~  168 (295)
                      ...++..+...+...|++++|...+++......    ......++..+...|...|+                    +++
T Consensus        86 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~  165 (406)
T 3sf4_A           86 EAKASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQA  165 (406)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHH
Confidence            245688888899999999999999988765311    11124478889999999999                    999


Q ss_pred             HHHHHHHHHHHhcCC-----CccccHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CCC----HHhHHHHHHHHHhcCChH
Q 022531          169 AESSTLVEAEKSITQ-----RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KMT----SRNYICILSSYLMLGHLK  238 (295)
Q Consensus       169 a~~~~~~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~~~~~  238 (295)
                      |.. .+.........     ....++..+...|...|++++|...+++..+... .++    ...+..+...|...|+++
T Consensus       166 A~~-~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  244 (406)
T 3sf4_A          166 AVD-FYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFE  244 (406)
T ss_dssp             HHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHH-HHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChH
Confidence            999 77766543211     1235677888899999999999999998764321 122    236778899999999999


Q ss_pred             HHHHHHHHHhhhcCCCCC----HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          239 EVGEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       239 ~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +|...+++........++    ..++..+...|...|++++|..++++..+
T Consensus       245 ~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  295 (406)
T 3sf4_A          245 TASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  295 (406)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHH
Confidence            999999988653211112    56788899999999999999999998865

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.57  E-value=2.2e-13  Score=109.12  Aligned_cols=240  Identities=16%  Similarity=0.059  Sum_probs=181.6

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-Ch
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVP-DI  114 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~  114 (295)
                      ...+......+...|++++|...|+++.+.+ +.+    ...+..+...+...|++++|.+.+++..+.    +..| ..
T Consensus         5 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   83 (338)
T 3ro2_A            5 CLELALEGERLCKSGDCRAGVSFFEAAVQVG-TEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   83 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHH
Confidence            3456667788899999999999999998864 223    467889999999999999999999886542    2122 25


Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHhcCc--------------------hhhHH
Q 022531          115 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYITASH--------------------LVNAE  170 (295)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~--------------------~~~a~  170 (295)
                      .++..+...+...|++++|...+++........++    ..++..+...+...|+                    +++|.
T Consensus        84 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~  163 (338)
T 3ro2_A           84 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAV  163 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHH
Confidence            57888888999999999999999987653111122    3478888999999999                    99999


Q ss_pred             HHHHHHHHHhcC----C-CccccHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CCC----HHhHHHHHHHHHhcCChHHH
Q 022531          171 SSTLVEAEKSIT----Q-RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KMT----SRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       171 ~~~~~~~~~~~~----~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~~~~~~~A  240 (295)
                      + .+.+......    . ....++..+...+...|++++|.+.+++..+... .++    ...+..+...+...|++++|
T Consensus       164 ~-~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  242 (338)
T 3ro2_A          164 D-LYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETA  242 (338)
T ss_dssp             H-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHH
T ss_pred             H-HHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8 7766544211    1 1234677888889999999999999998754321 111    23577788999999999999


Q ss_pred             HHHHHHHhhhcCCCCC----HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          241 GEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+.+++..+.....++    ..++..+...+...|++++|..++++..+
T Consensus       243 ~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  291 (338)
T 3ro2_A          243 SEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLA  291 (338)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            9999988653211112    56788899999999999999999998865

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.57  E-value=4.8e-12  Score=103.35  Aligned_cols=272  Identities=12%  Similarity=0.050  Sum_probs=194.8

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC--CH----HHHHHHHHHHHccCcHHHHHHHHHHHHhC----CCCC-CHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK--TS----ETYTALLHLYAGAKWTEKAEELFERVKQS----NLSF-NALM   81 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p--~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~   81 (295)
                      ........+...|++++|...++......|  +.    ..++.+...+...|++++|...+++....    +... ...+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            344455667789999999999988765533  22    25677788899999999999999987642    2100 1234


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC----CCC--CC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCC---CCCCHH
Q 022531           82 YNEMMTLYMSVGQVEKVALVVEEIKRK----NVV--PD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSG---GSDDWV  151 (295)
Q Consensus        82 ~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~--p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~---~~~~~~  151 (295)
                      +..+...+...|++++|...+++..+.    +..  |. ..++..+...+...|++++|...+++......   .+....
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  175 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQ  175 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHH
Confidence            677888899999999999999987653    221  22 34566678889999999999999998765311   111235


Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcc-ccHH-----HHHHHHHhcCCHHHHHHHHHHHHhccCCCC---HH
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQW-ITYD-----FLIILYAGLGNKDKIDQIWKSLRMTKQKMT---SR  222 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~-----~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~  222 (295)
                      ++..+...+...|++++|.. .+.+.......++. ..+.     ..+..+...|+.++|...+++.......++   ..
T Consensus       176 ~~~~la~~~~~~g~~~~A~~-~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  254 (373)
T 1hz4_A          176 CLAMLIQCSLARGDLDNARS-QLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  254 (373)
T ss_dssp             HHHHHHHHHHHHTCHHHHHH-HHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHcCCHHHHHH-HHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHH
Confidence            67788899999999999999 88887665433322 1222     223447789999999999998765432211   22


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhhcC---CCCCH-HHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          223 NYICILSSYLMLGHLKEVGEIIDQWKQSAT---SDFDI-SACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       223 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~---~~~~~-~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+..+...+...|++++|...+++......   ..++. .++..+..++...|+.++|...+++..+
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            456778889999999999999998765321   11122 3666778889999999999999988764

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.57  E-value=1.6e-11  Score=105.18  Aligned_cols=217  Identities=10%  Similarity=0.073  Sum_probs=164.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHh-------cCCHH-------HHHHHHHHHHhCCCCCChHhHHHHHHHHHcc
Q 022531           62 KAEELFERVKQSNLSFNALMYNEMMTLYMS-------VGQVE-------KVALVVEEIKRKNVVPDIFTYNLWISSCAAT  127 (295)
Q Consensus        62 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-------~~~~~-------~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  127 (295)
                      ++..+|++..... +-+...|..++..+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+.
T Consensus       256 ~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~  334 (530)
T 2ooe_A          256 RVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  334 (530)
T ss_dssp             HHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            3444555555432 3356677777777765       68876       8999999998631233577899999999999


Q ss_pred             CCHHHHHHHHHHHhhcCCCCCC-H-HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHH-HHhcCCHHH
Q 022531          128 LNIDQVKKFLDEMSCDSGGSDD-W-VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIIL-YAGLGNKDK  204 (295)
Q Consensus       128 ~~~~~a~~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~  204 (295)
                      |++++|..+|+++...   .|+ . .+|..++..+.+.|++++|.. ++.+..+..+. +...|...... +...|+.++
T Consensus       335 g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~Al~~~~~-~~~~~~~~a~~~~~~~~~~~~  409 (530)
T 2ooe_A          335 MKYEKVHSIYNRLLAI---EDIDPTLVYIQYMKFARRAEGIKSGRM-IFKKAREDART-RHHVYVTAALMEYYCSKDKSV  409 (530)
T ss_dssp             TCHHHHHHHHHHHHHS---SSSCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHTCTTC-CTHHHHHHHHHHHHHTCCHHH
T ss_pred             CCHHHHHHHHHHHhCc---cccCchHHHHHHHHHHHHhcCHHHHHH-HHHHHHhccCC-chHHHHHHHHHHHHHcCChhH
Confidence            9999999999999974   343 3 588999999999999999999 88888765332 22233222222 336899999


Q ss_pred             HHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCC--HHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          205 IDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD--ISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       205 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      |..+|+...+.. +-+...+..++..+.+.|+.++|..+|++........|+  ...|...+......|+.+.+..++++
T Consensus       410 A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r  488 (530)
T 2ooe_A          410 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  488 (530)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999887763 335678888999999999999999999999886433332  44788888888899999999999998


Q ss_pred             HHh
Q 022531          283 LLQ  285 (295)
Q Consensus       283 m~~  285 (295)
                      +.+
T Consensus       489 ~~~  491 (530)
T 2ooe_A          489 RFT  491 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            875

>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=99.54  E-value=2.8e-12  Score=93.60  Aligned_cols=164  Identities=14%  Similarity=0.086  Sum_probs=84.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  159 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  159 (295)
                      ..+..+...+...|++++|...|+++.+... .+..++..+...+...|++++|...++++...  .+.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~   85 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDADA-FDVDVALHLGIAYVKTGAVDRGTELLERSLAD--APDNVKVATVLGLT   85 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTTS-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-cChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHH
Confidence            3455555566666666666666665554322 24455555555666666666666666665543  23344555555555


Q ss_pred             HHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHH
Q 022531          160 YITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE  239 (295)
Q Consensus       160 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~  239 (295)
                      +...|++++|.+ .+.......+ .+...+..+...+...|++++|.+.+++..... +.+...+..+...+...|++++
T Consensus        86 ~~~~~~~~~A~~-~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           86 YVQVQKYDLAVP-LLIKVAEANP-INFNVRFRLGVALDNLGRFDEAIDSFKIALGLR-PNEGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHHTCHHHHHH-HHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHhcCHHHHHH-HHHHHHhcCc-HhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCHHH
Confidence            555566666655 5555444332 233444444455555555555555555544432 2233444444455555555555


Q ss_pred             HHHHHHHHhh
Q 022531          240 VGEIIDQWKQ  249 (295)
Q Consensus       240 A~~~~~~~~~  249 (295)
                      |.+.+++..+
T Consensus       163 A~~~~~~~~~  172 (186)
T 3as5_A          163 ALPHFKKANE  172 (186)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            5555554443

>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=99.52  E-value=8.1e-13  Score=116.15  Aligned_cols=165  Identities=10%  Similarity=-0.038  Sum_probs=145.4

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...|+.|...+.+.|++++|++.|++..+..| +..+|+.+..++.+.|++++|++.|++..+.+ +-+..+|+.+..+
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~   86 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNT   86 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            367899999999999999999999999988877 68899999999999999999999999998875 4468899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      |.+.|++++|++.|++..+.... +..+|..+..++.+.|++++|++.|++..+.  .+.+..++..+..++...|++++
T Consensus        87 l~~~g~~~~A~~~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~~~~  163 (723)
T 4gyw_A           87 LKEMQDVQGALQCYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCDWTD  163 (723)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCCTT
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhcccHHH
Confidence            99999999999999999885322 5778999999999999999999999998875  35567889999999999999999


Q ss_pred             HHHHHHHHHHH
Q 022531          169 AESSTLVEAEK  179 (295)
Q Consensus       169 a~~~~~~~~~~  179 (295)
                      |.+ .+++..+
T Consensus       164 A~~-~~~kal~  173 (723)
T 4gyw_A          164 YDE-RMKKLVS  173 (723)
T ss_dssp             HHH-HHHHHHH
T ss_pred             HHH-HHHHHHH
Confidence            998 7776654

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.52  E-value=8.9e-13  Score=108.17  Aligned_cols=229  Identities=10%  Similarity=-0.039  Sum_probs=174.4

Q ss_pred             HHHHHHhccChhHHHHHHhhcccC---CC----CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC----C--CCCCHHHHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLS---AK----TSETYTALLHLYAGAKWTEKAEELFERVKQS----N--LSFNALMYN   83 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~---~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~--~~p~~~~~~   83 (295)
                      ....+...|++++|...|+.....   .+    ...+|..+...+...|++++|...+++..+.    +  .+....+++
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            455677889999999999988664   12    3568999999999999999999999987643    1  011245788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc---CCC-CCCHHHHH
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRK----NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGG-SDDWVKYV  154 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~~  154 (295)
                      .+...|...|++++|+..|++..+.    +..+ ...++..+...|...|++++|...+++....   .+. +....++.
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            9999999999999999999987753    1111 1247888999999999999999999987761   122 34567788


Q ss_pred             HHHHHHHhcCchhhHHHHHHHHHHHhcCC---C-ccccHHHHHHHHHhcCC---HHHHHHHHHHHHhccCCCC-HHhHHH
Q 022531          155 NLVNIYITASHLVNAESSTLVEAEKSITQ---R-QWITYDFLIILYAGLGN---KDKIDQIWKSLRMTKQKMT-SRNYIC  226 (295)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~-~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~-~~~~~~  226 (295)
                      .+..+|.+.|++++|.. .+++.......   | ....+..+...|...|+   .++|+.++++.   +..|+ ...+..
T Consensus       269 ~l~~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~  344 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHE-YHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAID  344 (383)
T ss_dssp             HHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHH
Confidence            99999999999999999 88877653321   1 22335667778888898   77777777765   22222 345667


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhh
Q 022531          227 ILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       227 li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      +...|...|++++|.+.+++..+
T Consensus       345 la~~y~~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          345 VAKYYHERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHH
Confidence            89999999999999999998865

>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=99.52  E-value=1.5e-12  Score=101.62  Aligned_cols=204  Identities=13%  Similarity=0.011  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc------CC
Q 022531           79 ALMYNEMMTLYMSVGQVEKVALVVEEIKRK------NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD------SG  145 (295)
Q Consensus        79 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~  145 (295)
                      ..++..+...|...|++++|+..|++..+.      +-.| ...++..+...+...|++++|...++++...      ..
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            334444455555555555555555444332      1111 2334444555555555555555555544332      01


Q ss_pred             CCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh------c-CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc---
Q 022531          146 GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS------I-TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT---  215 (295)
Q Consensus       146 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---  215 (295)
                      .+....++..+..+|...|++++|.. .+.+....      . ......++..+...|...|++++|..++++..+.   
T Consensus       123 ~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~  201 (283)
T 3edt_B          123 HPDVAKQLNNLALLCQNQGKAEEVEY-YYRRALEIYATRLGPDDPNVAKTKNNLASCYLKQGKYQDAETLYKEILTRAHE  201 (283)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHH-HHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHH
Confidence            12233445555555555555555555 55444432      0 1112344555555566666666666666555432   


Q ss_pred             ----cCCCCH-HhHHHHHHHHHhcCC------hHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          216 ----KQKMTS-RNYICILSSYLMLGH------LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       216 ----~~~~~~-~~~~~li~~~~~~~~------~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                          ...+.. ..+..+...+...+.      +..+...+......  .+....++..+..+|...|++++|..++++.+
T Consensus       202 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al  279 (283)
T 3edt_B          202 KEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD--SPTVNTTLRSLGALYRRQGKLEAAHTLEDCAS  279 (283)
T ss_dssp             HHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC--CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             hcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC--CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence                111221 122222222222222      22222222222111  11234577888899999999999999998887


Q ss_pred             h
Q 022531          285 Q  285 (295)
Q Consensus       285 ~  285 (295)
                      +
T Consensus       280 ~  280 (283)
T 3edt_B          280 R  280 (283)
T ss_dssp             T
T ss_pred             H
Confidence            5

>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=99.51  E-value=1.5e-12  Score=114.48  Aligned_cols=168  Identities=12%  Similarity=0.007  Sum_probs=146.8

Q ss_pred             CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHH
Q 022531           41 AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL  119 (295)
Q Consensus        41 ~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  119 (295)
                      .| +...|+.|...+.+.|++++|++.|++..+.. +-+..+|+.|..+|.+.|++++|++.|++..+.... +..+|..
T Consensus         5 ~P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~n   82 (723)
T 4gyw_A            5 CPTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSN   82 (723)
T ss_dssp             -CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHH
Confidence            35 57899999999999999999999999998875 446889999999999999999999999999885322 4778999


Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc
Q 022531          120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL  199 (295)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  199 (295)
                      +..++.+.|++++|++.|++..+.  .+.+..+|+.+..+|.+.|++++|.+ .+++..+..+. +...|..+...+...
T Consensus        83 Lg~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~-~~~~Al~l~P~-~~~a~~~L~~~l~~~  158 (723)
T 4gyw_A           83 MGNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIA-SYRTALKLKPD-FPDAYCNLAHCLQIV  158 (723)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCSC-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-ChHHHhhhhhHHHhc
Confidence            999999999999999999999875  35577899999999999999999999 89988876644 677899999999999


Q ss_pred             CCHHHHHHHHHHHHh
Q 022531          200 GNKDKIDQIWKSLRM  214 (295)
Q Consensus       200 g~~~~a~~~~~~m~~  214 (295)
                      |++++|.+.+++..+
T Consensus       159 g~~~~A~~~~~kal~  173 (723)
T 4gyw_A          159 CDWTDYDERMKKLVS  173 (723)
T ss_dssp             TCCTTHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHH
Confidence            999999999887754

>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=99.50  E-value=5.6e-13  Score=104.13  Aligned_cols=226  Identities=11%  Similarity=0.056  Sum_probs=157.9

Q ss_pred             HhccChhHHHHHHhhcccC--------CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC------C-CCCCHHHHHHH
Q 022531           22 TKVFGIHSGERYFEGLPLS--------AK-TSETYTALLHLYAGAKWTEKAEELFERVKQS------N-LSFNALMYNEM   85 (295)
Q Consensus        22 ~~~~~~~~A~~~~~~~~~~--------~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~------~-~~p~~~~~~~l   85 (295)
                      ...|++++|...|++..+.        .| ...++..+...+...|++++|...|++..+.      + .+....++..+
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            3457777777776665442        23 5778999999999999999999999988754      2 22345688999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhC------CCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc------CCCCCCHHH
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRK------NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD------SGGSDDWVK  152 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~------~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~  152 (295)
                      ...|...|++++|.+.|++..+.      ...| ...++..+...+...|++++|...++++...      ...+....+
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  171 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKT  171 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHH
Confidence            99999999999999999988764      1123 3567888999999999999999999987763      112334567


Q ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhc-------CCCc-cccHHHHHHHHHhcCCHHHHH------HHHHHHHhccCC
Q 022531          153 YVNLVNIYITASHLVNAESSTLVEAEKSI-------TQRQ-WITYDFLIILYAGLGNKDKID------QIWKSLRMTKQK  218 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~-~~~~~~li~~~~~~g~~~~a~------~~~~~m~~~~~~  218 (295)
                      +..+..+|.+.|++++|.. .+.+.....       ..+. ...|..+...+...+....+.      ..++..... ..
T Consensus       172 ~~~la~~~~~~g~~~~A~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~  249 (283)
T 3edt_B          172 KNNLASCYLKQGKYQDAET-LYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVD-SP  249 (283)
T ss_dssp             HHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCC-CH
T ss_pred             HHHHHHHHHHcCCHHHHHH-HHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCC-CH
Confidence            8899999999999999999 888777542       1222 333444444443333322222      222211110 01


Q ss_pred             CCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          219 MTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       219 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      .....+..+...|...|++++|.++|++..+
T Consensus       250 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          250 TVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            1234577789999999999999999998765

>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=99.49  E-value=5.7e-11  Score=108.24  Aligned_cols=204  Identities=10%  Similarity=0.056  Sum_probs=110.5

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +..+|..+..++...|++++|.+.|.+.      -|...|..++.++.+.|++++|.+.|...++..  ++....+.++.
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~Laf 1175 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIF 1175 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHH
Confidence            3555666666666666666666666442      245566666666666666666666666555432  22222333566


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  202 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  202 (295)
                      +|++.+++++...+    ..    .++...|..+...|...|++++|.. +|...         ..|..+...+.+.|++
T Consensus      1176 aYAKl~rleele~f----I~----~~n~ad~~~iGd~le~eg~YeeA~~-~Y~kA---------~ny~rLA~tLvkLge~ 1237 (1630)
T 1xi4_A         1176 ALAKTNRLAELEEF----IN----GPNNAHIQQVGDRCYDEKMYDAAKL-LYNNV---------SNFGRLASTLVHLGEY 1237 (1630)
T ss_pred             HHHhhcCHHHHHHH----Hh----CCCHHHHHHHHHHHHhcCCHHHHHH-HHHhh---------hHHHHHHHHHHHhCCH
Confidence            66666665543322    11    1334445556666666666666666 55542         2566666666666666


Q ss_pred             HHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          203 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      ++|.+.+++.      .+..+|..+-.+|...|++..|......+      ..+...+..++..|.+.|.+++|..+++.
T Consensus      1238 q~AIEaarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~I------iv~~deLeeli~yYe~~G~feEAI~LlE~ 1305 (1630)
T 1xi4_A         1238 QAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHI------VVHADELEELINYYQDRGYFEELITMLEA 1305 (1630)
T ss_pred             HHHHHHHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhh------hcCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            6666666543      12234444444444444444444433321      12333455666666777777777777655


Q ss_pred             HH
Q 022531          283 LL  284 (295)
Q Consensus       283 m~  284 (295)
                      .+
T Consensus      1306 aL 1307 (1630)
T 1xi4_A         1306 AL 1307 (1630)
T ss_pred             Hh
Confidence            54

>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=99.49  E-value=3e-11  Score=110.01  Aligned_cols=237  Identities=8%  Similarity=0.047  Sum_probs=158.9

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ++.+|..+..++.+.|++++|.+.|...    .|...|..++.++.+.|++++|.+.+....+..  +++...+.++.+|
T Consensus      1104 ~p~vWsqLAKAql~~G~~kEAIdsYiKA----dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaY 1177 (1630)
T 1xi4_A         1104 EPAVWSQLAKAQLQKGMVKEAIDSYIKA----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFAL 1177 (1630)
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHhc----CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHH
Confidence            4778999999999999999999999664    577888899999999999999999999877664  4444455689999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      ++.+++++.....    +   .|+...|..+...|...|++++|..+|..+          ..|..+..+|.+.|++++|
T Consensus      1178 AKl~rleele~fI----~---~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA----------~ny~rLA~tLvkLge~q~A 1240 (1630)
T 1xi4_A         1178 AKTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAA 1240 (1630)
T ss_pred             HhhcCHHHHHHHH----h---CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh----------hHHHHHHHHHHHhCCHHHH
Confidence            9998888544332    2   346667777888899999999999998874          3678888889999999888


Q ss_pred             HHHHHHHHHHhcCCCccccHH------------------------------HHHHHHHhcCCHHHHHHHHHHHHhccCCC
Q 022531          170 ESSTLVEAEKSITQRQWITYD------------------------------FLIILYAGLGNKDKIDQIWKSLRMTKQKM  219 (295)
Q Consensus       170 ~~~~~~~~~~~~~~~~~~~~~------------------------------~li~~~~~~g~~~~a~~~~~~m~~~~~~~  219 (295)
                      .+ .+.+.      .+..+|.                              .++..|.+.|.+++|+.+++...... +-
T Consensus      1241 IE-aarKA------~n~~aWkev~~acve~~Ef~LA~~cgl~Iiv~~deLeeli~yYe~~G~feEAI~LlE~aL~Le-ra 1312 (1630)
T 1xi4_A         1241 VD-GARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RA 1312 (1630)
T ss_pred             HH-HHHHh------CCHHHHHHHHHHHhhhhHHHHHHHHHHhhhcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccC-hh
Confidence            88 55543      1234444                              44555555666666666665443322 11


Q ss_pred             CHHhHHHHHHHHHhc--CChHHHHHHHHHHhhhcCCCC------CHHHHHHHHHHHHccCChHHHHHHH
Q 022531          220 TSRNYICILSSYLML--GHLKEVGEIIDQWKQSATSDF------DISACNRLLGAFSDVGLTEKANEFH  280 (295)
Q Consensus       220 ~~~~~~~li~~~~~~--~~~~~A~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~~  280 (295)
                      ....|+-+..+|++.  ++..++.++|..   ....+|      +...|..++..|.+.|+++.|....
T Consensus      1313 H~gmftELaiLyaKy~peklmEhlk~f~~---rini~k~~r~~e~~~lW~elv~LY~~~~e~dnA~~tm 1378 (1630)
T 1xi4_A         1313 HMGMFTELAILYSKFKPQKMREHLELFWS---RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM 1378 (1630)
T ss_pred             HhHHHHHHHHHHHhCCHHHHHHHHHHHHH---hcccchHhHHHHHHHHHHHHHHHHHhcccHHHHHHHH
Confidence            222344444444432  233333333332   111111      3455777777777777777766543

>4i17_A Hypothetical protein; TPR repeats protein, structural genomics, joint center for S genomics, JCSG, protein structure initiative; HET: MSE; 1.83A {Bacteroides fragilis}

Probab=99.48  E-value=1.9e-11  Score=92.74  Aligned_cols=198  Identities=11%  Similarity=-0.018  Sum_probs=136.3

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHH
Q 022531           42 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  121 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li  121 (295)
                      .|+..|......+...|++++|...|++..+..-+++...+..+..++...|++++|++.|++..+.... +..++..+.
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   83 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYN-LANAYIGKS   83 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCS-HHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcc-hHHHHHHHH
Confidence            3667888888888888999999999988887653367777777888888889999999888888875322 466788888


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCCH-------HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-ccccHHHHH
Q 022531          122 SSCAATLNIDQVKKFLDEMSCDSGGSDDW-------VKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-QWITYDFLI  193 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li  193 (295)
                      ..+...|++++|...+++.....  +.+.       .+|..+...+...|++++|.+ .+....+..+.. +...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~-~~~~al~~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKAV--PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEE-NYKHATDVTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHTTSSCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHH-HHHHHHhcCCCcccHHHHHHHH
Confidence            88888888888888888887742  3344       457777777888888888888 777765543210 245566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          194 ILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       194 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      ..|...|     ...++++...+ ..+...|....  ....+.+++|...|++..+..
T Consensus       161 ~~~~~~~-----~~~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~  210 (228)
T 4i17_A          161 VLFYNNG-----ADVLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTLS  210 (228)
T ss_dssp             HHHHHHH-----HHHHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHH-----HHHHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcC
Confidence            6664433     33444444433 22333443332  233456788888888877754

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.48  E-value=8.9e-12  Score=102.04  Aligned_cols=234  Identities=10%  Similarity=-0.040  Sum_probs=174.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCC-CC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CC-ChH
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNL-SF----NALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NV-VP-DIF  115 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p-~~~  115 (295)
                      |......+...|++++|...|++..+.-- .+    ...++..+...|...|++++|...+++..+.    +. .+ ...
T Consensus       104 ~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~  183 (378)
T 3q15_A          104 LFFRGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQ  183 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHH
T ss_pred             HHHHHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHH
Confidence            33455667789999999999999876421 12    2457889999999999999999999987652    11 11 245


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhcC---CCC-CCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH-----hcCCCcc
Q 022531          116 TYNLWISSCAATLNIDQVKKFLDEMSCDS---GGS-DDWVKYVNLVNIYITASHLVNAESSTLVEAEK-----SITQRQW  186 (295)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~  186 (295)
                      +++.+...|...|++++|...|++.....   +.+ ....++..+..+|...|++++|.+ .+.+...     ..+. ..
T Consensus       184 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~-~~~~al~~~~~~~~~~-~~  261 (378)
T 3q15_A          184 SLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVE-HFQKAAKVSREKVPDL-LP  261 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHCGGG-HH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHH-HHHHHHHHHHhhCChh-HH
Confidence            68888999999999999999998876521   111 123567889999999999999999 8888776     3332 36


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCC---CC-HHhHHHHHHHHHhcCC---hHHHHHHHHHHhhhcCCCCCHHH
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK---MT-SRNYICILSSYLMLGH---LKEVGEIIDQWKQSATSDFDISA  259 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~---~~-~~~~~~li~~~~~~~~---~~~A~~~~~~~~~~~~~~~~~~~  259 (295)
                      .++..+...|.+.|++++|...+++..+....   |. ...+..+...+...++   +.+|+..++...   ..+.....
T Consensus       262 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~---~~~~~~~~  338 (378)
T 3q15_A          262 KVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKN---LHAYIEAC  338 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCC---ChhHHHHH
Confidence            67888899999999999999999988764322   21 2335556666777788   777777777632   21223456


Q ss_pred             HHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          260 CNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       260 ~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      +..+...|...|++++|..+|++..+
T Consensus       339 ~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          339 ARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77899999999999999999998865

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.48  E-value=5.4e-12  Score=99.61  Aligned_cols=161  Identities=7%  Similarity=-0.083  Sum_probs=68.6

Q ss_pred             HHHHccCcHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCC--hHhHHHHH
Q 022531           52 HLYAGAKWTEKAEELFERVKQS----NLSFN-ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV---VPD--IFTYNLWI  121 (295)
Q Consensus        52 ~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~--~~~~~~li  121 (295)
                      ..|...|++++|...|++..+.    |-+++ ..+|+.+..+|.+.|++++|+..|++..+...   .+.  ..++..+.
T Consensus        45 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg  124 (292)
T 1qqe_A           45 TIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELG  124 (292)
T ss_dssp             HHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3444455555555555544321    11111 23455555555555555555555554443110   000  22344444


Q ss_pred             HHHHcc-CCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccc------cHH
Q 022531          122 SSCAAT-LNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI------TYD  190 (295)
Q Consensus       122 ~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~  190 (295)
                      ..|... |++++|+..|++.........+    ..++..+...+.+.|++++|.. .+++.....+.....      .|.
T Consensus       125 ~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~  203 (292)
T 1qqe_A          125 EILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASD-IYSKLIKSSMGNRLSQWSLKDYFL  203 (292)
T ss_dssp             HHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTTSSCTTTGGGHHHHHH
T ss_pred             HHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHHHHhcCCcccHHHHHHHH
Confidence            445443 5555555555554432000000    1234444455555555555555 444444433222111      233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHH
Q 022531          191 FLIILYAGLGNKDKIDQIWKSLR  213 (295)
Q Consensus       191 ~li~~~~~~g~~~~a~~~~~~m~  213 (295)
                      .+..++...|++++|+..|++..
T Consensus       204 ~lg~~~~~~g~~~~A~~~~~~al  226 (292)
T 1qqe_A          204 KKGLCQLAATDAVAAARTLQEGQ  226 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHGGG
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444555555555555443

>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=99.45  E-value=2.1e-11  Score=92.41  Aligned_cols=201  Identities=9%  Similarity=-0.083  Sum_probs=154.4

Q ss_pred             CCCHHHHHHHHHHHHhccChhHHHHHHhhcccCC--CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531            8 VLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus         8 ~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      +.|+..+......+.+.|++++|...|+......  ++...+..+..++...|++++|+..|++..+.+ +.+..+|..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            3567889999999999999999999999988765  577888889999999999999999999999875 3467789999


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCh-------HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCC--CHHHHHHH
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRKNVVPDI-------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD--DWVKYVNL  156 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l  156 (295)
                      ...|...|++++|+..|++..+.... +.       .+|..+...+...|++++|...|+++.+.  .+.  +..++..+
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l  159 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSL  159 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHH
Confidence            99999999999999999999885322 34       45777888899999999999999999874  233  46778888


Q ss_pred             HHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHh
Q 022531          157 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN  223 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~  223 (295)
                      ..+|...|+.      .++.+.... ..+...|....  ....+.+++|+..+++..+.  .|+...
T Consensus       160 ~~~~~~~~~~------~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~~  215 (228)
T 4i17_A          160 GVLFYNNGAD------VLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRTE  215 (228)
T ss_dssp             HHHHHHHHHH------HHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCHH
T ss_pred             HHHHHHHHHH------HHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCHH
Confidence            8888766553      223222222 22333333332  34456789999999998876  455443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.42  E-value=2.8e-11  Score=99.05  Aligned_cols=229  Identities=10%  Similarity=-0.060  Sum_probs=171.5

Q ss_pred             HHHHHHhccChhHHHHHHhhcccC---CC----CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC----C-CCC-CHHHHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLS---AK----TSETYTALLHLYAGAKWTEKAEELFERVKQS----N-LSF-NALMYN   83 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~---~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~-~~p-~~~~~~   83 (295)
                      ....+...|++++|...|+.....   .+    ...++..+...+...|+++.|...+++..+.    + ..+ ...+++
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            344567889999999999987654   12    3568899999999999999999999987642    1 111 255788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCCCCHHHHHH
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRK----NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGGSDDWVKYVN  155 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~  155 (295)
                      .+...|...|++++|.+.|++..+.    +..+ ...++..+...|...|++++|...+++....   .+.+....++..
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  266 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFG  266 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHH
Confidence            9999999999999999999987652    1111 2356788899999999999999999998761   022334677889


Q ss_pred             HHHHHHhcCchhhHHHHHHHHHHHhcCCCc----cccHHHHHHHHHhcCC---HHHHHHHHHHHHhccCCCC-HHhHHHH
Q 022531          156 LVNIYITASHLVNAESSTLVEAEKSITQRQ----WITYDFLIILYAGLGN---KDKIDQIWKSLRMTKQKMT-SRNYICI  227 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~-~~~~~~l  227 (295)
                      +..+|.+.|++++|.. .+++........+    ...+..+...|...++   ..+|+..+++   .+..|+ ...+..+
T Consensus       267 la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~l  342 (378)
T 3q15_A          267 LSWTLCKAGQTQKAFQ-FIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSA  342 (378)
T ss_dssp             HHHHHHHTTCHHHHHH-HHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHH
Confidence            9999999999999999 8888877543322    2334555566667788   7777777775   222222 2345678


Q ss_pred             HHHHHhcCChHHHHHHHHHHhh
Q 022531          228 LSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       228 i~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      ...|...|++++|.+.|++..+
T Consensus       343 a~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          343 AAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8999999999999999998765

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.42  E-value=2.5e-10  Score=93.15  Aligned_cols=239  Identities=9%  Similarity=-0.046  Sum_probs=170.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----hHh
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA----LMYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPD----IFT  116 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~  116 (295)
                      ....+...+...|++++|...+++.....-..+.    .+++.+...+...|++++|...+++...... .++    ..+
T Consensus        16 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~   95 (373)
T 1hz4_A           16 FNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWS   95 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHH
Confidence            3445566777899999999999998775422222    2567777889999999999999998765211 111    233


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcC---CCC--C-CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC----cc
Q 022531          117 YNLWISSCAATLNIDQVKKFLDEMSCDS---GGS--D-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR----QW  186 (295)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~  186 (295)
                      +..+...+...|++++|...+++.....   +.+  | ...++..+...+...|++++|.. .+.+........    ..
T Consensus        96 ~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~  174 (373)
T 1hz4_A           96 LIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEA-SARSGIEVLSSYQPQQQL  174 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHH-HHHHHHHHhhccCcHHHH
Confidence            5667778899999999999998876531   221  2 34466778889999999999999 888877644322    12


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH-HhHH-----HHHHHHHhcCChHHHHHHHHHHhhhcCCCC--CHH
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYI-----CILSSYLMLGHLKEVGEIIDQWKQSATSDF--DIS  258 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~-----~li~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~  258 (295)
                      .++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++........+  ...
T Consensus       175 ~~~~~la~~~~~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~  254 (373)
T 1hz4_A          175 QCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQG  254 (373)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHH
Confidence            45677888899999999999999988654222221 1221     233457799999999999998876332111  123


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          259 ACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       259 ~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+..+...+...|++++|...+++..+
T Consensus       255 ~~~~la~~~~~~g~~~~A~~~l~~a~~  281 (373)
T 1hz4_A          255 QWRNIARAQILLGEFEPAEIVLEELNE  281 (373)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            567788899999999999999998764

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.40  E-value=9.4e-12  Score=104.32  Aligned_cols=104  Identities=10%  Similarity=0.023  Sum_probs=51.8

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT---EKAEELFERVKQSNLSFNALMYNEMMTLYMSVG   93 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~   93 (295)
                      +...+.+.|++++|.++|+...+.+ +...+..|...|...|+.   ++|...|++..+.    ++..+..|...+...+
T Consensus         9 la~~~~~~g~~~~A~~~~~~aa~~g-~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~   83 (452)
T 3e4b_A            9 LANEALKRGDTVTAQQNYQQLAELG-YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKP   83 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHT-CCTGGGTCC--------------------------------CHHHHHHHHHTC-
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCC
Confidence            5666778888999999988876542 455556666777777777   8888888887754    4566666766555544


Q ss_pred             -----CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC
Q 022531           94 -----QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL  128 (295)
Q Consensus        94 -----~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  128 (295)
                           ++++|+..|++..+.|.. +  .+..|...|...+
T Consensus        84 ~~~~~~~~~A~~~~~~Aa~~g~~-~--A~~~Lg~~y~~~~  120 (452)
T 3e4b_A           84 GATEAEHHEAESLLKKAFANGEG-N--TLIPLAMLYLQYP  120 (452)
T ss_dssp             -CCHHHHHHHHHHHHHHHHTTCS-S--CHHHHHHHHHHCG
T ss_pred             CCCCcCHHHHHHHHHHHHHCCCH-H--HHHHHHHHHHhCC
Confidence                 678888888888776542 2  4455555554443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.36  E-value=6e-10  Score=87.02  Aligned_cols=147  Identities=11%  Similarity=0.022  Sum_probs=63.1

Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHH
Q 022531           98 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  177 (295)
Q Consensus        98 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  177 (295)
                      |+..|+++.+.+ .++..++..+..++...|++++|++++.+....+...-+...+..++..+.+.|+.+.|.+ .++.+
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k-~l~~~  162 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTAST-IFDNY  162 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHH-HHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHH-HHHHH
Confidence            444455444433 2333333444455555555555555555543321001234444455555555555555555 45444


Q ss_pred             HHhcC---CCccccHHHHHHHH--HhcC--CHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          178 EKSIT---QRQWITYDFLIILY--AGLG--NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       178 ~~~~~---~~~~~~~~~li~~~--~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      .+..+   ..+..+...|..++  ...|  +..+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.
T Consensus       163 ~~~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~  238 (310)
T 3mv2_B          163 TNAIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLL  238 (310)
T ss_dssp             HHHSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HhcCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33321   00122333333331  1122  455555555555432  2332222223335555555555555555443

>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=99.36  E-value=5.5e-11  Score=81.74  Aligned_cols=126  Identities=9%  Similarity=0.053  Sum_probs=57.2

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   92 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~   92 (295)
                      |..+...+...|++++|..+|+.+....| +...+..+...+...|++++|...|+++...+ +.+...+..+...+...
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~   82 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQ   82 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHcCCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHh
Confidence            34444444455555555555544443333 34444444444444455555555555444432 22344444444444444


Q ss_pred             CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           93 GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      |++++|.+.++++.+... .+..++..+...+.+.|++++|...++++.
T Consensus        83 ~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~  130 (136)
T 2fo7_A           83 GDYDEAIEYYQKALELDP-RSAEAWYNLGNAYYKQGDYDEAIEYYQKAL  130 (136)
T ss_dssp             TCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHHccHHHHHHHHHHHH
Confidence            455555544444444311 123344444444444444444444444443

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.34  E-value=1.5e-10  Score=89.65  Aligned_cols=183  Identities=11%  Similarity=-0.009  Sum_probs=86.4

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-C---HHHHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCCHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-T---SETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNE   84 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~~~~~~~   84 (295)
                      +..+-.+...+.+.|++++|...|+.+....| +   ...+..+..++.+.|++++|...|++..+..  -+....++..
T Consensus        15 ~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~   94 (261)
T 3qky_A           15 PQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAEYE   94 (261)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHHHH
Confidence            33444445555555555555555555555444 2   3455555555555555555555555555431  0111334444


Q ss_pred             HHHHHHh--------cCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHH
Q 022531           85 MMTLYMS--------VGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN  155 (295)
Q Consensus        85 li~~~~~--------~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  155 (295)
                      +..++..        .|++++|+..|++..+..  |+ ......+.              .+......     ....+..
T Consensus        95 lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~--------------~~~~~~~~-----~~~~~~~  153 (261)
T 3qky_A           95 RAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQ--------------KIRELRAK-----LARKQYE  153 (261)
T ss_dssp             HHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHH--------------HHHHHHHH-----HHHHHHH
T ss_pred             HHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHH--------------HHHHHHHH-----HHHHHHH
Confidence            5555555        555555555555555431  21 11111000              00000000     0000134


Q ss_pred             HHHHHHhcCchhhHHHHHHHHHHHhcCCC--ccccHHHHHHHHHhc----------CCHHHHHHHHHHHHhc
Q 022531          156 LVNIYITASHLVNAESSTLVEAEKSITQR--QWITYDFLIILYAGL----------GNKDKIDQIWKSLRMT  215 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~  215 (295)
                      +..+|.+.|++++|.. .++.+....+..  ....+..+..+|...          |++++|...|+++.+.
T Consensus       154 la~~~~~~g~~~~A~~-~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          154 AARLYERRELYEAAAV-TYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHTTCHHHHHH-HHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHH-HHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            4566666666666666 666665544332  123445555555544          6666777777666554

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.34  E-value=2.2e-09  Score=89.93  Aligned_cols=251  Identities=12%  Similarity=0.007  Sum_probs=163.7

Q ss_pred             HHHHHHHHHHhccChh----HHHHHHhhcccCCCCHHHHHHHHHHHHccC---cHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIH----SGERYFEGLPLSAKTSETYTALLHLYAGAK---WTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~----~A~~~~~~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      ....|...|...+.++    .|..+++......|  ..+..|...|...|   +.++|+..|++..+.| +++...+..|
T Consensus       143 a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~--~a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~L  219 (452)
T 3e4b_A          143 AGLAQVLLYRTQGTYDQHLDDVERICKAALNTTD--ICYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSV  219 (452)
T ss_dssp             HHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCT--THHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHH
T ss_pred             HHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCH--HHHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHH
Confidence            3444555555555433    34444444443333  37777888888888   8888888888888887 4566666677


Q ss_pred             HHHHHhc----CCHHHHHHHHHHHHhCCCCCChHhHHHHHHH-H--HccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           86 MTLYMSV----GQVEKVALVVEEIKRKNVVPDIFTYNLWISS-C--AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        86 i~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      ...|...    +++++|+.+|++.. .   -+...+..+... +  ...+++++|...|++..+. |   +...+..+..
T Consensus       220 g~~y~~g~~~~~d~~~A~~~~~~aa-~---g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~  291 (452)
T 3e4b_A          220 ARVLGDATLGTPDEKTAQALLEKIA-P---GYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGK  291 (452)
T ss_dssp             HHHHTCGGGSSCCHHHHHHHHHHHG-G---GSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHH
T ss_pred             HHHHhCCCCCCCCHHHHHHHHHHHc-C---CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHH
Confidence            7777654    68888888888876 2   344555556555 3  4578888888888887765 3   5566667777


Q ss_pred             HHHhcC-----chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHHHHHH
Q 022531          159 IYITAS-----HLVNAESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILS  229 (295)
Q Consensus       159 ~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  229 (295)
                      +|. .|     ++++|.+ ++.+..    ..+...+..|...|..    ..+.++|..+|++..+.|. |  .....|..
T Consensus       292 ~y~-~G~g~~~d~~~A~~-~~~~Aa----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~-~--~A~~~Lg~  362 (452)
T 3e4b_A          292 LYY-EGKWVPADAKAAEA-HFEKAV----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQ-N--SADFAIAQ  362 (452)
T ss_dssp             HHH-HCSSSCCCHHHHHH-HHHTTT----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTC-T--THHHHHHH
T ss_pred             HHH-cCCCCCCCHHHHHH-HHHHHh----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhCh-H--HHHHHHHH
Confidence            776 44     8888888 666554    3355666667666655    3488888888888877663 2  23445555


Q ss_pred             HHHh----cCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          230 SYLM----LGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       230 ~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .|..    ..+.++|..+|+...+.+  .++.......+......++..+|..+.++-.+
T Consensus       363 ~y~~G~g~~~d~~~A~~~~~~A~~~g--~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          363 LFSQGKGTKPDPLNAYVFSQLAKAQD--TPEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHSCTTBCCCHHHHHHHHHHHHTTC--CHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHhCCCCCCCHHHHHHHHHHHHHCC--CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            6653    457888888888887765  34444443334334445566777777766544

>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=99.34  E-value=1.5e-10  Score=79.49  Aligned_cols=129  Identities=11%  Similarity=0.059  Sum_probs=76.1

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  125 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  125 (295)
                      .|..+...+...|++++|..+|+++.+.+ +.+..++..+...+...|++++|...++++.+.+. .+...+..+...+.
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-RSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCC-CchHHHHHHHHHHH
Confidence            45556666666666666666666665543 33455666666666666666666666666655422 23445555666666


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Q 022531          126 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                      ..|++++|...++++...  .+.+..++..+..++.+.|++++|.. .+..+..
T Consensus        81 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~-~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIE-YYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHH-HHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHccHHHHHH-HHHHHHc
Confidence            666666666666666553  13344555556666666666666666 5555444

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.32  E-value=9.3e-11  Score=92.49  Aligned_cols=237  Identities=12%  Similarity=-0.042  Sum_probs=167.2

Q ss_pred             hHHHHHHhhcccCCCC-HHHHHHHHHHHHcc--C-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022531           28 HSGERYFEGLPLSAKT-SETYTALLHLYAGA--K-WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE  103 (295)
Q Consensus        28 ~~A~~~~~~~~~~~p~-~~~~~~li~~~~~~--~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  103 (295)
                      .+|.+++.+....-+. ...| .+   + +.  + ++++|...|++.               ...|...|++++|...|+
T Consensus         2 ~~a~~~~~~a~k~~~~~~~~~-~~---~-~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~   61 (292)
T 1qqe_A            2 SDPVELLKRAEKKGVPSSGFM-KL---F-SGSDSYKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFL   61 (292)
T ss_dssp             CCHHHHHHHHHHHSSCCCTHH-HH---H-SCCSHHHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHH
T ss_pred             CcHHHHHHHHHHHhCcCCCcc-hh---c-CCCCCccHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHH
Confidence            3566666666655333 2223 22   2 32  2 589999998876               346778999999999998


Q ss_pred             HHHhC----CCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcC---CCCC-CHHHHHHHHHHHHhc-CchhhHHHHH
Q 022531          104 EIKRK----NVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDS---GGSD-DWVKYVNLVNIYITA-SHLVNAESST  173 (295)
Q Consensus       104 ~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~-~~~~~a~~~~  173 (295)
                      +..+.    |-.++ ..+|+.+..+|.+.|++++|+..|++.....   |... ...+++.+..+|... |++++|.. .
T Consensus        62 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~-~  140 (292)
T 1qqe_A           62 KAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAID-C  140 (292)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH-H
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHH-H
Confidence            87653    32222 5689999999999999999999998876531   1111 145788999999996 99999999 8


Q ss_pred             HHHHHHhcCCCc-----cccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHH------hHHHHHHHHHhcCChHHHHH
Q 022531          174 LVEAEKSITQRQ-----WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR------NYICILSSYLMLGHLKEVGE  242 (295)
Q Consensus       174 ~~~~~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~------~~~~li~~~~~~~~~~~A~~  242 (295)
                      +++.....+..+     ..++..+...+...|++++|+..|++..+........      .|..+..++...|++++|..
T Consensus       141 ~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~  220 (292)
T 1qqe_A          141 YELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAAR  220 (292)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            888776543221     3568889999999999999999999988764332221      46678888999999999999


Q ss_pred             HHHHHhhhcCCCCC---HHHHHHHHHHHH--ccCChHHHHHHHHHHHh
Q 022531          243 IIDQWKQSATSDFD---ISACNRLLGAFS--DVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       243 ~~~~~~~~~~~~~~---~~~~~~l~~~~~--~~g~~~~a~~~~~~m~~  285 (295)
                      .|++..+.....++   ...+..++.+|.  ..+++++|...|+++..
T Consensus       221 ~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~  268 (292)
T 1qqe_A          221 TLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMR  268 (292)
T ss_dssp             HHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSC
T ss_pred             HHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCc
Confidence            99998763211111   123455666665  56778899988877654

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.31  E-value=1.4e-09  Score=84.19  Aligned_cols=187  Identities=9%  Similarity=-0.050  Sum_probs=129.5

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC-hHhH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPD-IFTY  117 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~-~~~~  117 (295)
                      +...+..+...+.+.|++++|...|+++.+.. +.+   ..++..+..+|.+.|++++|+..|++..+... .|. ...+
T Consensus        14 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~   92 (261)
T 3qky_A           14 SPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQAE   92 (261)
T ss_dssp             SHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHH
T ss_pred             CHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHHH
Confidence            67777888888888888888888888888764 223   56788888888888888888888888877522 112 3456


Q ss_pred             HHHHHHHHc--------cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccH
Q 022531          118 NLWISSCAA--------TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY  189 (295)
Q Consensus       118 ~~li~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  189 (295)
                      ..+..++..        .|++++|...|+++....  +.+......+....       .... .+           ...+
T Consensus        93 ~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~a~~~~~-------~~~~-~~-----------~~~~  151 (261)
T 3qky_A           93 YERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDRY--PNHELVDDATQKIR-------ELRA-KL-----------ARKQ  151 (261)
T ss_dssp             HHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHHC--TTCTTHHHHHHHHH-------HHHH-HH-----------HHHH
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHC--cCchhHHHHHHHHH-------HHHH-HH-----------HHHH
Confidence            667777777        888888888888887752  22222222211110       0011 00           1124


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCCC--CHHhHHHHHHHHHhc----------CChHHHHHHHHHHhhhc
Q 022531          190 DFLIILYAGLGNKDKIDQIWKSLRMTKQKM--TSRNYICILSSYLML----------GHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       190 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~----------~~~~~A~~~~~~~~~~~  251 (295)
                      ..+...|...|++++|+..|+++.+.....  ....+..+..+|...          |++++|...|+.+.+..
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~  225 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIF  225 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHC
Confidence            567788899999999999999988763211  234566777888766          88999999999998864

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.29  E-value=3e-10  Score=84.90  Aligned_cols=76  Identities=12%  Similarity=0.097  Sum_probs=39.8

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      +..+|.+.|++++|+..|++..+... -+...+..+...+...|++++|...|++....  .|.+..++..+..+|...
T Consensus        60 lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           60 LALAYKKNRNYDKAYLFYKELLQKAP-NNVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHH
Confidence            55555555666666665555555321 13445555555555556666666655555543  133444555555554443

>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=99.27  E-value=3.9e-10  Score=99.30  Aligned_cols=173  Identities=8%  Similarity=-0.085  Sum_probs=137.0

Q ss_pred             HccCcHHHHHHHHHHHH--------hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           55 AGAKWTEKAEELFERVK--------QSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        55 ~~~~~~~~a~~~~~~m~--------~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                      ...|++++|++.+++..        +.. +.+...+..+...+.+.|++++|++.|++..+... -+...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVG-WRWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-CCHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCc-chHHHHHHHHHHHHH
Confidence            67899999999999988        432 44677888999999999999999999999887532 256788888889999


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHH
Q 022531          127 TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKID  206 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  206 (295)
                      .|++++|...|++..+.  .+.+...+..+..++.+.|++++ .+ .+++..+..+. +...|..+..++...|++++|+
T Consensus       480 ~g~~~~A~~~~~~al~l--~P~~~~~~~~lg~~~~~~g~~~~-~~-~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          480 TGDYDSATKHFTEVLDT--FPGELAPKLALAATAELAGNTDE-HK-FYQTVWSTNDG-VISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             HTCHHHHHHHHHHHHHH--STTCSHHHHHHHHHHHHHTCCCT-TC-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcCChHH-HH-HHHHHHHhCCc-hHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999998875  24567788899999999999999 88 88888776644 6678889999999999999999


Q ss_pred             HHHHHHHhccCCCC-HHhHHHHHHHHHhcCC
Q 022531          207 QIWKSLRMTKQKMT-SRNYICILSSYLMLGH  236 (295)
Q Consensus       207 ~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~  236 (295)
                      +.|++..+.  .|+ ...+..+..++...++
T Consensus       555 ~~~~~al~l--~P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          555 RTLDEVPPT--SRHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHTSCTT--STTHHHHHHHHHHHTC----
T ss_pred             HHHHhhccc--CcccHHHHHHHHHHHHccCC
Confidence            999987654  455 3455566666655444

>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=99.27  E-value=2.1e-10  Score=83.34  Aligned_cols=163  Identities=9%  Similarity=-0.061  Sum_probs=106.1

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL-YM   90 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~   90 (295)
                      .+..+...+.+.|++++|...|+......| +...+..+...+...|++++|...|++.....  |+...+..+... +.
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~   85 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLELH   85 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHHH
Confidence            345566677788888888888888777656 67788888888888888888888888776553  344433332212 12


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  170 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  170 (295)
                      ..+...+|+..|++..+... -+...+..+...+...|++++|...|+++.+......+...+..+..++...|+.++|.
T Consensus        86 ~~~~~~~a~~~~~~al~~~P-~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAANP-DNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hhcccchHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            22223346677777666422 14666777777777778888888887777764211123456777777777777777777


Q ss_pred             HHHHHHHHH
Q 022531          171 SSTLVEAEK  179 (295)
Q Consensus       171 ~~~~~~~~~  179 (295)
                      . .+.+...
T Consensus       165 ~-~y~~al~  172 (176)
T 2r5s_A          165 S-KYRRQLY  172 (176)
T ss_dssp             H-HHHHHHH
T ss_pred             H-HHHHHHH
Confidence            7 6655443

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.27  E-value=1.2e-09  Score=85.42  Aligned_cols=180  Identities=14%  Similarity=0.068  Sum_probs=133.7

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCChHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           63 AEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPDIFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        63 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      |+..|++..+.+ +++..++..+..++...|++++|++++.+....|. .-+...+..++..+.+.|+++.|.+.++.|.
T Consensus        85 a~~~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~  163 (310)
T 3mv2_B           85 NIEELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYT  163 (310)
T ss_dssp             CCHHHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            677888877765 56677777888999999999999999999877654 2356778889999999999999999999998


Q ss_pred             hcCCCCC-----CHHHHHHHHHHH--HhcC--chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531          142 CDSGGSD-----DWVKYVNLVNIY--ITAS--HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSL  212 (295)
Q Consensus       142 ~~~~~~~-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  212 (295)
                      +.   .|     +..+...++.++  ...|  ++.+|.. +|+++....+  +..+-..++.++.+.|++++|.+.++.+
T Consensus       164 ~~---~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~-~f~El~~~~p--~~~~~~lLln~~~~~g~~~eAe~~L~~l  237 (310)
T 3mv2_B          164 NA---IEDTVSGDNEMILNLAESYIKFATNKETATSNFY-YYEELSQTFP--TWKTQLGLLNLHLQQRNIAEAQGIVELL  237 (310)
T ss_dssp             HH---SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHH-HHHHHHTTSC--SHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             hc---CccccccchHHHHHHHHHHHHHHhCCccHHHHHH-HHHHHHHhCC--CcccHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            75   35     355556666663  3334  8999999 9998866543  3222334444788999999999999976


Q ss_pred             Hhcc---------CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          213 RMTK---------QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       213 ~~~~---------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      .+..         -.-++.++..+|......|+  +|.+++.++.+..
T Consensus       238 ~~~~p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~  283 (310)
T 3mv2_B          238 LSDYYSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLD  283 (310)
T ss_dssp             HSHHHHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTT
T ss_pred             HHhcccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhC
Confidence            5531         02345566566666666776  7899999998854

>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=99.26  E-value=4.1e-11  Score=84.70  Aligned_cols=141  Identities=11%  Similarity=-0.076  Sum_probs=79.0

Q ss_pred             HHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHH
Q 022531           20 LMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKV   98 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a   98 (295)
                      .+...|++++|+..++......| +...+..+...|.+.|++++|++.|++..+.. +-+..+|..+..+|.+.|++++|
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A   84 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKA   84 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHH
Confidence            33445566666666666655544 34455556666666666666666666666553 33556666666666666666666


Q ss_pred             HHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHH-HHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 022531           99 ALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF-LDEMSCDSGGSDDWVKYVNLVNIYITAS  164 (295)
Q Consensus        99 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (295)
                      +..|++..+.... +..++..+...+.+.|++++|... +++..+.  .|.++.+|......+...|
T Consensus        85 ~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           85 VECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            6666666653221 345566666666666666544433 3555542  2334455554444444444

>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=99.25  E-value=4e-10  Score=97.28  Aligned_cols=161  Identities=6%  Similarity=-0.138  Sum_probs=120.3

Q ss_pred             ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV  102 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  102 (295)
                      .|++++|...|++..+..| +...|..+...+...|++++|.+.|++..+.. +.+..++..+...|...|++++|.+.|
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            4788999999999888777 68899999999999999999999999999875 456889999999999999999999999


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc---CchhhHHHHHHHHHHH
Q 022531          103 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA---SHLVNAESSTLVEAEK  179 (295)
Q Consensus       103 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~~~~~  179 (295)
                      ++..+... .+...+..+..++.+.|++++|.+.|++..+.  .+.+..++..+..++...   |+.++|.+ .+++..+
T Consensus        81 ~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~-~~~~al~  156 (568)
T 2vsy_A           81 QQASDAAP-EHPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSA-QVRAAVA  156 (568)
T ss_dssp             HHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHH-HHHHHHH
T ss_pred             HHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHH-HHHHHHh
Confidence            99888632 25778888999999999999999999998875  245678888999999999   99999999 8888877


Q ss_pred             hcCCCccccHH
Q 022531          180 SITQRQWITYD  190 (295)
Q Consensus       180 ~~~~~~~~~~~  190 (295)
                      ..+. +...|.
T Consensus       157 ~~p~-~~~~~~  166 (568)
T 2vsy_A          157 QGVG-AVEPFA  166 (568)
T ss_dssp             HTCC-CSCHHH
T ss_pred             cCCc-ccChHH
Confidence            6654 333443

>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=99.25  E-value=1.9e-10  Score=91.34  Aligned_cols=131  Identities=8%  Similarity=-0.022  Sum_probs=55.2

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCCC-CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc-----c
Q 022531          116 TYNLWISSCAATLNIDQVKKFLDEMSCD---SGGSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ-----W  186 (295)
Q Consensus       116 ~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~  186 (295)
                      +|..+...|.+.|++++|+..|++....   .+.+. ...++..+..+|.. |++++|.. .+++........+     .
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~-~~~~Al~~~~~~~~~~~~~  155 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH-LYQQAAAVFENEERLRQAA  155 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH-HHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH-HHHHHHHHHHhCCChhHHH
Confidence            3444444455555555555555443321   01000 12334444445544 55555555 4444433221110     2


Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccC----CCC-HHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ----KMT-SRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~----~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      .++..+...|...|++++|+..|++......    .+. ...+..+..++...|++++|...|++..
T Consensus       156 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al  222 (307)
T 2ifu_A          156 ELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY  222 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            3344445555555555555555554433210    000 1123334444444455555555555544

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.24  E-value=3.9e-10  Score=84.28  Aligned_cols=165  Identities=11%  Similarity=0.025  Sum_probs=122.9

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHH----------------HHHHHHccCcHHHHHHHHHHHHhC
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTA----------------LLHLYAGAKWTEKAEELFERVKQS   73 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~----------------li~~~~~~~~~~~a~~~~~~m~~~   73 (295)
                      ...+-.....+...|++++|...|+......| +...|..                +..++.+.|++++|...|++..+.
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   83 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQK   83 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            34445556677899999999999999988777 5677777                999999999999999999999987


Q ss_pred             CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC--HHHHHHHHHHHhhcCCCCCCHH
Q 022531           74 NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN--IDQVKKFLDEMSCDSGGSDDWV  151 (295)
Q Consensus        74 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~~~~~~~~~~~~~  151 (295)
                      + |-+...+..+...+...|++++|+..|++..+... -+..++..+...+...|+  .+.+...++....   ..|...
T Consensus        84 ~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~P-~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~  158 (208)
T 3urz_A           84 A-PNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEA-DNLAANIFLGNYYYLTAEQEKKKLETDYKKLSS---PTKMQY  158 (208)
T ss_dssp             C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHHHHHHC---C---CCHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC---CCchhH
Confidence            5 45788999999999999999999999999998633 256778888888765553  3445555555432   223333


Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhc
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSI  181 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (295)
                      .+.....++...|++++|.. .+++..+..
T Consensus       159 a~~~~g~~~~~~~~~~~A~~-~~~~al~l~  187 (208)
T 3urz_A          159 ARYRDGLSKLFTTRYEKARN-SLQKVILRF  187 (208)
T ss_dssp             HHHHHHHHHHHHHTHHHHHH-HHHHHTTTS
T ss_pred             HHHHHHHHHHHccCHHHHHH-HHHHHHHhC
Confidence            34445556666777888888 777665544

>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=99.24  E-value=3.7e-10  Score=99.43  Aligned_cols=174  Identities=8%  Similarity=-0.025  Sum_probs=143.8

Q ss_pred             HhcCCHHHHHHHHHHHH--------hCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 022531           90 MSVGQVEKVALVVEEIK--------RKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  161 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~--------~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (295)
                      ...|++++|++.+++..        +. .+.+...+..+..++.+.|++++|+..|+++.+.  .+.+..++..+..++.
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~-~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~~~~  478 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVD-FSESVELPLMEVRALLDLGDVAKATRKLDDLAER--VGWRWRLVWYRAVAEL  478 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------C-CTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--HCCCHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccc-cccchhHHHHHHHHHHhcCCHHHHHHHHHHHhcc--CcchHHHHHHHHHHHH
Confidence            77899999999999998        43 2235677888999999999999999999999875  3567889999999999


Q ss_pred             hcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHH
Q 022531          162 TASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVG  241 (295)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~  241 (295)
                      +.|++++|.. .|++..+..+. +...|..+..++...|++++ ++.|++..+.. .-+...+..+..++.+.|++++|.
T Consensus       479 ~~g~~~~A~~-~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~  554 (681)
T 2pzi_A          479 LTGDYDSATK-HFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWSTN-DGVISAAFGLARARSAEGDRVGAV  554 (681)
T ss_dssp             HHTCHHHHHH-HHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcCCHHHHHH-HHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHhC-CchHHHHHHHHHHHHHcCCHHHHH
Confidence            9999999999 99988876654 67788999999999999999 99999988764 335677888999999999999999


Q ss_pred             HHHHHHhhhcCCCCCHHHHHHHHHHHHccCC
Q 022531          242 EIIDQWKQSATSDFDISACNRLLGAFSDVGL  272 (295)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  272 (295)
                      +.|++..+..  +.+...|..+..++...|+
T Consensus       555 ~~~~~al~l~--P~~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          555 RTLDEVPPTS--RHFTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HHHHTSCTTS--TTHHHHHHHHHHHTC----
T ss_pred             HHHHhhcccC--cccHHHHHHHHHHHHccCC
Confidence            9999988743  3356778888888876554

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.23  E-value=3.4e-09  Score=80.11  Aligned_cols=198  Identities=7%  Similarity=-0.095  Sum_probs=103.9

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH----HHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAKT----SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA----LMYN   83 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~   83 (295)
                      ..+-.+...+.+.|++++|...|+.+....|+    ...+..+..++.+.|++++|+..|+++.+..  |+.    .++.
T Consensus         5 ~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a~~   82 (225)
T 2yhc_A            5 NEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYVMY   82 (225)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHHHH
Confidence            33444445555555666666665555544332    2345555555555555555555555555432  211    1233


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      .+..++...+..     .+            ..|..+...+...|++++|...|+++.+.  .|.+..+..+...    .
T Consensus        83 ~~g~~~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~----l  139 (225)
T 2yhc_A           83 MRGLTNMALDDS-----AL------------QGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKR----L  139 (225)
T ss_dssp             HHHHHHHHHHC-------------------------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHH----H
T ss_pred             HHHHHHHhhhhh-----hh------------hhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHH----H
Confidence            333333222110     00            01112222333467888999999888874  2333333322111    1


Q ss_pred             CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH----HhHHHHHHHHHhcCChHH
Q 022531          164 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS----RNYICILSSYLMLGHLKE  239 (295)
Q Consensus       164 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~~~~~~  239 (295)
                      +.......               .....+...|.+.|++++|+..|+++.+.  .|+.    ..+..+..+|.+.|+.++
T Consensus       140 ~~~~~~~~---------------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~  202 (225)
T 2yhc_A          140 VFLKDRLA---------------KYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQ  202 (225)
T ss_dssp             HHHHHHHH---------------HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHH---------------HHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHH
Confidence            01110000               01124566788899999999999988776  3432    456678889999999999


Q ss_pred             HHHHHHHHhhhc
Q 022531          240 VGEIIDQWKQSA  251 (295)
Q Consensus       240 A~~~~~~~~~~~  251 (295)
                      |.+.++.+...+
T Consensus       203 A~~~~~~l~~~~  214 (225)
T 2yhc_A          203 AEKVAKIIAANS  214 (225)
T ss_dssp             HHHHHHHHHHCC
T ss_pred             HHHHHHHHHhhC
Confidence            999999887754

>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=3.8e-09  Score=79.83  Aligned_cols=190  Identities=8%  Similarity=-0.005  Sum_probs=123.8

Q ss_pred             CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-C-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH-HHHH
Q 022531           78 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-P-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW-VKYV  154 (295)
Q Consensus        78 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~  154 (295)
                      +...+..+...+.+.|++++|+..|+++.+.... | ....+..+..++.+.|++++|+..|+++.+.....+.. .++.
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~P~~~~~~~a~~   82 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNIDYVMY   82 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCCcHHHHHH
Confidence            4566777888899999999999999999875322 1 13567778889999999999999999988752222221 2444


Q ss_pred             HHHHHHHh------------------cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc
Q 022531          155 NLVNIYIT------------------ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  216 (295)
Q Consensus       155 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  216 (295)
                      .+..++.+                  .|++++|.. .+..+.+..+. +...+.....          ...+...+.   
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~l~~~P~-~~~a~~a~~~----------l~~~~~~~~---  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFS-DFSKLVRGYPN-SQYTTDATKR----------LVFLKDRLA---  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHH-HHHHHHTTCTT-CTTHHHHHHH----------HHHHHHHHH---
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHH-HHHHHHHHCcC-ChhHHHHHHH----------HHHHHHHHH---
Confidence            55555544                  345555555 55554444322 1122211110          000000000   


Q ss_pred             CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC-CHHHHHHHHHHHHccCChHHHHHHHHHHHhcC
Q 022531          217 QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF-DISACNRLLGAFSDVGLTEKANEFHMLLLQKN  287 (295)
Q Consensus       217 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g  287 (295)
                           .....+...|.+.|++++|...|+++.+.....| ....+..+..+|.+.|+.++|.+.++.+...+
T Consensus       148 -----~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 -----KYEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             -----HHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             -----HHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                 0112466788899999999999999988652211 12568889999999999999999999988754

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.21  E-value=2.1e-08  Score=78.89  Aligned_cols=234  Identities=8%  Similarity=-0.031  Sum_probs=169.3

Q ss_pred             ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccC--cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----Hhc---C
Q 022531           24 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK--WTEKAEELFERVKQSNLSFNALMYNEMMTLY----MSV---G   93 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~----~~~---~   93 (295)
                      ....++|+.+++.+....| +..+|+.-...+...|  ++++++++++.+.... +-+..+|+.--..+    ...   +
T Consensus        46 ~e~s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           46 EEYSERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCCCHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccC
Confidence            3445689999999888877 6778888888888888  8999999999988765 44566777655555    445   7


Q ss_pred             CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHH--HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc------
Q 022531           94 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID--QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH------  165 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~------  165 (295)
                      ++++++++++++.+...+ +..+|+--.-.+.+.|.++  +++++++++...  .+-+-.+|+.-...+.+.+.      
T Consensus       125 ~~~~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          125 DPYREFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CTHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhh
Confidence            888999999998886443 6777777777777788887  889999988875  35577777777666666666      


Q ss_pred             hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHH-HHHHHHHHHhcc--CCCCHHhHHHHHHHHHhcCChHHHHH
Q 022531          166 LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK-IDQIWKSLRMTK--QKMTSRNYICILSSYLMLGHLKEVGE  242 (295)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~-a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~~~~~~A~~  242 (295)
                      ++++.+ .+..+....+. |...|+-+-..+.+.|+... +.++..++.+.+  -..++..+..+...|.+.|+.++|.+
T Consensus       202 ~~eEl~-~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~  279 (306)
T 3dra_A          202 IDEELN-YVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRT  279 (306)
T ss_dssp             HHHHHH-HHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHH-HHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHH
Confidence            778888 77777666654 77888887777777777444 555666655432  12355667778888888889999999


Q ss_pred             HHHHHhhhcCCCCCHHHHHHHH
Q 022531          243 IIDQWKQSATSDFDISACNRLL  264 (295)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~l~  264 (295)
                      +++.+.+.-- +.....|+..+
T Consensus       280 ~~~~l~~~~D-pir~~yW~~~~  300 (306)
T 3dra_A          280 VYDLLKSKYN-PIRSNFWDYQI  300 (306)
T ss_dssp             HHHHHHHTTC-GGGHHHHHHHH
T ss_pred             HHHHHHhccC-hHHHHHHHHHH
Confidence            9988875311 23444554443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.21  E-value=4.7e-10  Score=88.20  Aligned_cols=165  Identities=12%  Similarity=-0.004  Sum_probs=132.2

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHH-HH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL-WI  121 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-li  121 (295)
                      +...+..+...+...|++++|...|++..+.. +-+...+..+...+.+.|++++|...+++....  .|+...... ..
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~~~~  192 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ--DQDTRYQGLVAQ  192 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG--GCSHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh--hcchHHHHHHHH
Confidence            56677888888999999999999999988775 456788999999999999999999999988764  345443322 22


Q ss_pred             HHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-ccccHHHHHHHHHhcC
Q 022531          122 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLG  200 (295)
Q Consensus       122 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g  200 (295)
                      ..+.+.++.+.|...+++....  .+.+...+..+...+...|++++|.. .+.++....+.. +...+..++..+...|
T Consensus       193 ~~l~~~~~~~~a~~~l~~al~~--~P~~~~~~~~la~~l~~~g~~~~A~~-~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          193 IELLXQAADTPEIQQLQQQVAE--NPEDAALATQLALQLHQVGRNEEALE-LLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHTSCHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHhhcccCccHHHHHHHHhc--CCccHHHHHHHHHHHHHcccHHHHHH-HHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            3366778888889999888875  35678888899999999999999999 888888776543 3667889999999999


Q ss_pred             CHHHHHHHHHHHH
Q 022531          201 NKDKIDQIWKSLR  213 (295)
Q Consensus       201 ~~~~a~~~~~~m~  213 (295)
                      +.++|...+++..
T Consensus       270 ~~~~a~~~~r~al  282 (287)
T 3qou_A          270 TGDALASXYRRQL  282 (287)
T ss_dssp             TTCHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHH
Confidence            9999998887654

>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=99.21  E-value=2.9e-09  Score=79.72  Aligned_cols=175  Identities=10%  Similarity=0.020  Sum_probs=88.4

Q ss_pred             HHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC----CHHHHHHHHHHH
Q 022531           30 GERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG----QVEKVALVVEEI  105 (295)
Q Consensus        30 A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~----~~~~a~~~~~~m  105 (295)
                      |.+.|+...+. -+...+..|...|...+++++|...|++..+.|   ++..+..|...|.. +    ++++|+++|++.
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            44444444432 345555556666656666666666666665554   45555555555555 4    566666666665


Q ss_pred             HhCCCCCChHhHHHHHHHHHc----cCCHHHHHHHHHHHhhcCCCC-CCHHHHHHHHHHHHh----cCchhhHHHHHHHH
Q 022531          106 KRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGS-DDWVKYVNLVNIYIT----ASHLVNAESSTLVE  176 (295)
Q Consensus       106 ~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~  176 (295)
                      .+.|   +...+..|...|..    .+++++|...|++..+. +.. .+...+..|..+|..    .+++++|.. ++.+
T Consensus        80 ~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~-~~~~  154 (212)
T 3rjv_A           80 VEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGPEDDVKASE-YFKG  154 (212)
T ss_dssp             HHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH-HHHH
T ss_pred             HHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH-HHHH
Confidence            5542   33445555555544    55566666666665543 210 014445555555555    455555555 5554


Q ss_pred             HHHhcCCCccccHHHHHHHHHhc-C-----CHHHHHHHHHHHHhcc
Q 022531          177 AEKSITQRQWITYDFLIILYAGL-G-----NKDKIDQIWKSLRMTK  216 (295)
Q Consensus       177 ~~~~~~~~~~~~~~~li~~~~~~-g-----~~~~a~~~~~~m~~~~  216 (295)
                      ..+..  .+...+..|...|... |     +.++|..+|++..+.|
T Consensus       155 A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          155 SSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            44431  1222344444444321 1     4555555555544443

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.21  E-value=8e-10  Score=86.87  Aligned_cols=169  Identities=9%  Similarity=-0.080  Sum_probs=126.0

Q ss_pred             CChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHH
Q 022531          112 PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDF  191 (295)
Q Consensus       112 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  191 (295)
                      .+...+..+...+.+.|++++|...|++....  .+.+..++..+..++.+.|++++|.. .++.+....+. .......
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~-~l~~~~~~~p~-~~~~~~~  190 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEA-VLXTIPLQDQD-TRYQGLV  190 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHH-HHTTSCGGGCS-HHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHH-HHHhCchhhcc-hHHHHHH
Confidence            34566777778888899999999999988875  35567788888899999999999999 77766554432 1222222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccC
Q 022531          192 LIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG  271 (295)
Q Consensus       192 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  271 (295)
                      ....+...++.++|++.+++..... +.+...+..+...+...|++++|.+.|.++.+......+...+..++..+...|
T Consensus       191 ~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g  269 (287)
T 3qou_A          191 AQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALG  269 (287)
T ss_dssp             HHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHC
T ss_pred             HHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcC
Confidence            3334566777888888888877764 345667778888999999999999999998886532223678888999999999


Q ss_pred             ChHHHHHHHHHHHh
Q 022531          272 LTEKANEFHMLLLQ  285 (295)
Q Consensus       272 ~~~~a~~~~~~m~~  285 (295)
                      +.++|...+++.+.
T Consensus       270 ~~~~a~~~~r~al~  283 (287)
T 3qou_A          270 TGDALASXYRRQLY  283 (287)
T ss_dssp             TTCHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHH
Confidence            99999888887654

>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=99.21  E-value=4.6e-09  Score=78.62  Aligned_cols=177  Identities=10%  Similarity=0.061  Sum_probs=128.9

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC----CHHHHHHH
Q 022531           61 EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL----NIDQVKKF  136 (295)
Q Consensus        61 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~----~~~~a~~~  136 (295)
                      .+|++.|++..+.|   ++..+..|...|...+++++|+.+|++..+.|   +...+..+...|.. +    ++++|...
T Consensus         3 ~eA~~~~~~aa~~g---~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~   75 (212)
T 3rjv_A            3 TEPGSQYQQQAEAG---DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQL   75 (212)
T ss_dssp             -CTTHHHHHHHHTT---CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHH
T ss_pred             chHHHHHHHHHHCC---CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHH
Confidence            45777888888876   78888888888888999999999999888864   55667777777777 6    88999999


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHh----cCchhhHHHHHHHHHHHhcCC-CccccHHHHHHHHHh----cCCHHHHHH
Q 022531          137 LDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQ-RQWITYDFLIILYAG----LGNKDKIDQ  207 (295)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~a~~  207 (295)
                      |++.... +   +..++..+..+|..    .+++++|.+ ++.+..+.++. .+...+..|...|..    .++.++|+.
T Consensus        76 ~~~A~~~-g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~-~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~  150 (212)
T 3rjv_A           76 AEKAVEA-G---SKSGEIVLARVLVNRQAGATDVAHAIT-LLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHHHHT-T---CHHHHHHHHHHHTCGGGSSCCHHHHHH-HHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHHHHC-C---CHHHHHHHHHHHHcCCCCccCHHHHHH-HHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            9888764 2   55667777777776    778888888 77776655432 124567777777777    777888888


Q ss_pred             HHHHHHhccCCCCHHhHHHHHHHHHhc-C-----ChHHHHHHHHHHhhhc
Q 022531          208 IWKSLRMTKQKMTSRNYICILSSYLML-G-----HLKEVGEIIDQWKQSA  251 (295)
Q Consensus       208 ~~~~m~~~~~~~~~~~~~~li~~~~~~-~-----~~~~A~~~~~~~~~~~  251 (295)
                      +|++..+.  ..+...+..|...|... |     +.++|..+|+...+.+
T Consensus       151 ~~~~A~~~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          151 YFKGSSSL--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHHHHT--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHc--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            88877665  22334555566666543 2     7888888888777765

>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=99.19  E-value=1.1e-09  Score=86.98  Aligned_cols=201  Identities=7%  Similarity=-0.071  Sum_probs=142.5

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHH
Q 022531           57 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF  136 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  136 (295)
                      .|++++|.+++++..+.. +..      +   +...+++++|...|.+.               ...|...|++++|...
T Consensus         4 ~~~~~eA~~~~~~a~k~~-~~~------~---~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~   58 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYL-KTS------F---MKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDA   58 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHH-CCC------S---SSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHc-ccc------c---cCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHH
Confidence            467778888887766532 111      0   11146778888777765               4466778888888888


Q ss_pred             HHHHhhcC---CCC-CCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC---C--ccccHHHHHHHHHhcCCHHHHHH
Q 022531          137 LDEMSCDS---GGS-DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ---R--QWITYDFLIILYAGLGNKDKIDQ  207 (295)
Q Consensus       137 ~~~~~~~~---~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~--~~~~~~~li~~~~~~g~~~~a~~  207 (295)
                      |.+.....   +.+ ....+|+.+..+|.+.|++++|.. .+++.......   +  -..++..+...|.. |++++|++
T Consensus        59 ~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~-~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~  136 (307)
T 2ifu_A           59 YLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQ-YIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH  136 (307)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHH-HHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH
Confidence            88765421   111 124578888999999999999999 88876654221   1  13567788888888 99999999


Q ss_pred             HHHHHHhccCCC-----CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCC----HHHHHHHHHHHHccCChHHHHH
Q 022531          208 IWKSLRMTKQKM-----TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       208 ~~~~m~~~~~~~-----~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      .|++..+.....     ...++..+...|.+.|++++|++.|++..+.....++    ...+..+..++...|++++|..
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            999876532111     1356778899999999999999999998764211111    2367777788888999999999


Q ss_pred             HHHHHH
Q 022531          279 FHMLLL  284 (295)
Q Consensus       279 ~~~~m~  284 (295)
                      .|++.+
T Consensus       217 ~~~~al  222 (307)
T 2ifu_A          217 CVRESY  222 (307)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            999988

>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=2.9e-10  Score=80.30  Aligned_cols=146  Identities=9%  Similarity=-0.068  Sum_probs=92.7

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC
Q 022531           50 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  129 (295)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  129 (295)
                      |...+...|++++|+..++...... +-+...+..+...|.+.|++++|++.|++..+... -+..+|..+..++.+.|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQE-RDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCc
Confidence            3445556677777877777766542 22344566677778888888888888887776532 256677777777788888


Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcC
Q 022531          130 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG  200 (295)
Q Consensus       130 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  200 (295)
                      +++|+..|++..+.  .+.+..++..+..+|.+.|++++|.+.++++..+..+. +..+|......+...|
T Consensus        81 ~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           81 TDKAVECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            88888888777764  24456677777777777777776655134555554432 4455555555554444

>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=99.18  E-value=2.1e-08  Score=78.97  Aligned_cols=165  Identities=4%  Similarity=-0.116  Sum_probs=108.7

Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCCHH----HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC-Ccc----ccHH
Q 022531          120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWV----KYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQW----ITYD  190 (295)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~----~~~~  190 (295)
                      .+..+...|++++|..++++........|+..    .+..+...+...+++++|.. .+......... ++.    .+++
T Consensus        81 ~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~-~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           81 QVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCIL-ELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHH-HHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHH-HHHHHHHHhcccccHHHHHHHHH
Confidence            35567777888888888887776433333321    23345666666778888888 77777663322 221    2577


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhc-----cCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHhhhc----CCCCCHHHH
Q 022531          191 FLIILYAGLGNKDKIDQIWKSLRMT-----KQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSA----TSDFDISAC  260 (295)
Q Consensus       191 ~li~~~~~~g~~~~a~~~~~~m~~~-----~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~~~~  260 (295)
                      .+...|...|++++|+..|++..+.     +..+. ..++..+...|.+.|++++|.+.+++..+..    ....-..+|
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            7777888888888888888877531     11111 2356678888888899999988888775422    111125678


Q ss_pred             HHHHHHHHccCC-hHHHHHHHHHHHh
Q 022531          261 NRLLGAFSDVGL-TEKANEFHMLLLQ  285 (295)
Q Consensus       261 ~~l~~~~~~~g~-~~~a~~~~~~m~~  285 (295)
                      ..+..+|.+.|+ +++|.+.+++.+.
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            888888888885 5888888887754

>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=99.17  E-value=5.7e-10  Score=81.01  Aligned_cols=79  Identities=10%  Similarity=-0.057  Sum_probs=45.3

Q ss_pred             HHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          205 IDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       205 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      ++..+++..+.. +-+...+..+..++...|++++|...|+++.+......+...+..+..++...|+.++|...|++.+
T Consensus        93 a~~~~~~al~~~-P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A           93 ELKRLEQELAAN-PDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             HHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            455555554432 1234555566666666666666666666666543211234456666666666677666666666554

>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=99.17  E-value=1.7e-09  Score=93.30  Aligned_cols=154  Identities=7%  Similarity=-0.072  Sum_probs=118.0

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHH
Q 022531           57 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF  136 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  136 (295)
                      .|++++|.+.|++..+.. +.+...|..+...+.+.|++++|.+.|++..+... .+..++..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHP-GHPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTST-TCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            478899999999988764 44688999999999999999999999999998643 3577899999999999999999999


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc---CCHHHHHHHHHHHH
Q 022531          137 LDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL---GNKDKIDQIWKSLR  213 (295)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~  213 (295)
                      +++..+.  .+.+...+..+..+|.+.|++++|.+ .+++..+..+. +...+..+...+...   |+.++|.+.+++..
T Consensus        80 ~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al  155 (568)
T 2vsy_A           80 LQQASDA--APEHPGIALWLGHALEDAGQAEAAAA-AYTRAHQLLPE-EPYITAQLLNWRRRLCDWRALDVLSAQVRAAV  155 (568)
T ss_dssp             HHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHH
T ss_pred             HHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHhhccccHHHHHHHHHHHH
Confidence            9999885  35567889999999999999999999 88888776543 567888899999999   99999999999987


Q ss_pred             hcc
Q 022531          214 MTK  216 (295)
Q Consensus       214 ~~~  216 (295)
                      +.+
T Consensus       156 ~~~  158 (568)
T 2vsy_A          156 AQG  158 (568)
T ss_dssp             HHT
T ss_pred             hcC
Confidence            764

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.15  E-value=9.8e-08  Score=75.11  Aligned_cols=224  Identities=10%  Similarity=-0.023  Sum_probs=174.1

Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCChHhHHHHHHHH----Hcc-
Q 022531           55 AGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG--QVEKVALVVEEIKRKNVVPDIFTYNLWISSC----AAT-  127 (295)
Q Consensus        55 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~----~~~-  127 (295)
                      .+...-++|+.++++++..+ +-+..+|+.--..+...|  +++++++.++.+.....+ +..+|+.-...+    ... 
T Consensus        44 ~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~l~  121 (306)
T 3dra_A           44 KAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMELNN  121 (306)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHHTT
T ss_pred             HcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHhcc
Confidence            33444579999999999875 446778999888888888  999999999999986443 445566544444    444 


Q ss_pred             --CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh--hHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCC--
Q 022531          128 --LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV--NAESSTLVEAEKSITQRQWITYDFLIILYAGLGN--  201 (295)
Q Consensus       128 --~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--  201 (295)
                        +++++++.+++.+...  .+-+..+|+.-.-++.+.|.++  ++.+ ++..+.+..+. |-..|+.-.....+.+.  
T Consensus       122 ~~~~~~~EL~~~~~~l~~--~pkny~aW~~R~~vl~~l~~~~~~~EL~-~~~~~i~~d~~-N~sAW~~R~~ll~~l~~~~  197 (306)
T 3dra_A          122 NDFDPYREFDILEAMLSS--DPKNHHVWSYRKWLVDTFDLHNDAKELS-FVDKVIDTDLK-NNSAWSHRFFLLFSKKHLA  197 (306)
T ss_dssp             TCCCTHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCTTCHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHSSGGGC
T ss_pred             ccCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcccChHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHhccccc
Confidence              7899999999999985  4678888888888888899988  9999 88888876654 77788877766777776  


Q ss_pred             ----HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHH-HHHHHHHHhhhc-CCCCCHHHHHHHHHHHHccCChHH
Q 022531          202 ----KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE-VGEIIDQWKQSA-TSDFDISACNRLLGAFSDVGLTEK  275 (295)
Q Consensus       202 ----~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~-A~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~  275 (295)
                          ++++++.++.+.... .-|...|+.+-..+.+.|+... +..+..++.+.+ ....+...+..+..+|.+.|+.++
T Consensus       198 ~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~  276 (306)
T 3dra_A          198 TDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNE  276 (306)
T ss_dssp             CHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHH
T ss_pred             hhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHH
Confidence                899999999888775 3467778888888888887444 556666665432 113577889999999999999999


Q ss_pred             HHHHHHHHHh
Q 022531          276 ANEFHMLLLQ  285 (295)
Q Consensus       276 a~~~~~~m~~  285 (295)
                      |.++++.+.+
T Consensus       277 A~~~~~~l~~  286 (306)
T 3dra_A          277 SRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999875

>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=99.09  E-value=3.2e-08  Score=73.80  Aligned_cols=128  Identities=13%  Similarity=-0.016  Sum_probs=104.4

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   92 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~   92 (295)
                      .+..+...+...|++++|...|+...  .|+...|..+...+.+.|++++|...|++..+.. +.+...|..+..+|...
T Consensus         8 ~~~~~g~~~~~~~~~~~A~~~~~~a~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~   84 (213)
T 1hh8_A            8 SLWNEGVLAADKKDWKGALDAFSAVQ--DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQT   84 (213)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHTSS--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHc--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHc
Confidence            45566777888899999999999886  3678889999999999999999999999888764 45678888999999999


Q ss_pred             CCHHHHHHHHHHHHhCCCC--------------C-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           93 GQVEKVALVVEEIKRKNVV--------------P-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~~~~~--------------p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      |++++|++.|++..+....              | ....+..+..++.+.|++++|...|++....
T Consensus        85 ~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           85 EKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             TCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            9999999999988875321              1 1266777888888899999999999888864

>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=99.09  E-value=2.4e-08  Score=78.64  Aligned_cols=162  Identities=8%  Similarity=-0.098  Sum_probs=74.6

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCC-CCChH----hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC----HHHHHHH
Q 022531           86 MTLYMSVGQVEKVALVVEEIKRKNV-VPDIF----TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVKYVNL  156 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~~~~-~p~~~----~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l  156 (295)
                      +..+...|++++|..++++..+... .|+..    .+..+...+...+++++|+..|+++.......++    ..+++.+
T Consensus        82 i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~~l  161 (293)
T 3u3w_A           82 VIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIENAI  161 (293)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHHHH
T ss_pred             HHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHHHH
Confidence            4445555555555555555544211 11211    1223444444445555555555555442111111    1245555


Q ss_pred             HHHHHhcCchhhHHHHHHHHHHH---h--cCCC-ccccHHHHHHHHHhcCCHHHHHHHHHHHHhc----cCCCC-HHhHH
Q 022531          157 VNIYITASHLVNAESSTLVEAEK---S--ITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMT----KQKMT-SRNYI  225 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~---~--~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~-~~~~~  225 (295)
                      ..+|...|++++|.. .+....+   .  ...+ ...++..+...|.+.|++++|.+.+++..+.    +..+. ...|.
T Consensus       162 g~~y~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~~  240 (293)
T 3u3w_A          162 ANIYAENGYLKKGID-LFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLYY  240 (293)
T ss_dssp             HHHHHHTTCHHHHHH-HHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHHH
T ss_pred             HHHHHHcCCHHHHHH-HHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            555555555555555 5544442   0  1111 1234555555566666666666655554321    11111 34455


Q ss_pred             HHHHHHHhcCC-hHHHHHHHHHHh
Q 022531          226 CILSSYLMLGH-LKEVGEIIDQWK  248 (295)
Q Consensus       226 ~li~~~~~~~~-~~~A~~~~~~~~  248 (295)
                      .+..+|.+.|+ +++|.+.+++..
T Consensus       241 ~lg~~~~~~g~~~~~A~~~~~~Al  264 (293)
T 3u3w_A          241 QRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHH
Confidence            56666666663 466666665554

>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=99.07  E-value=4.7e-09  Score=82.17  Aligned_cols=95  Identities=11%  Similarity=0.016  Sum_probs=42.9

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      ..+..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..+++..+... .+...+..+..++
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~   82 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            344444444444555555555555444432 22344444444444444555555554444444311 1233444444444


Q ss_pred             HccCCHHHHHHHHHHHh
Q 022531          125 AATLNIDQVKKFLDEMS  141 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~  141 (295)
                      ...|++++|...|++..
T Consensus        83 ~~~g~~~~A~~~~~~al   99 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAY   99 (281)
T ss_dssp             HHTTCHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHH
Confidence            44444444444444443

>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=99.07  E-value=2.9e-08  Score=74.07  Aligned_cols=133  Identities=15%  Similarity=0.036  Sum_probs=102.9

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      ..+..+...+...|++++|...|++..    .|+..+|..+...|.+.|++++|+..|++..+.. +.+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHH
Confidence            345567778888899999999998773    5678889999999999999999999999888753 23567788888889


Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCC--------------CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC
Q 022531          125 AATLNIDQVKKFLDEMSCDSGGSD--------------DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  183 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~--------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (295)
                      ...|++++|...|++........+              ...++..+..+|.+.|++++|.. .++......+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~al~~~p~  153 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEE-QLALATSMKSE  153 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHTTCCS
T ss_pred             HHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHH-HHHHHHHcCcc
Confidence            999999999999988877421111              22677788888888888888888 77777665543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.05  E-value=2.3e-09  Score=75.49  Aligned_cols=124  Identities=10%  Similarity=-0.031  Sum_probs=100.4

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ...+..+.+++...+.+++       +....| +...+..+...+.+.|++++|...|++....+ |.+...|..+..+|
T Consensus         9 ~~~~~~l~~~~~~~~~l~~-------al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~   80 (151)
T 3gyz_A            9 ESISTAVIDAINSGATLKD-------INAIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIY   80 (151)
T ss_dssp             CHHHHHHHHHHHTSCCTGG-------GCCSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCCHHH-------HhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3445566666655544443       344456 67789999999999999999999999999875 55788999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      ...|++++|+..|++..+.... +...|..+..++.+.|++++|...|++....
T Consensus        81 ~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A           81 QIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            9999999999999999886432 5678888999999999999999999998875

>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=99.05  E-value=2.8e-08  Score=86.67  Aligned_cols=236  Identities=8%  Similarity=0.008  Sum_probs=173.4

Q ss_pred             HHHHHHHHHHHhcc-------ChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHH-HHHHHHHhCCCCCCHHHH
Q 022531           12 SDYATRIDLMTKVF-------GIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAE-ELFERVKQSNLSFNALMY   82 (295)
Q Consensus        12 ~~~~~li~~~~~~~-------~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~-~~~~~m~~~~~~p~~~~~   82 (295)
                      ..|...+..--..+       ..+.+..+|++.....| +...|...+..+...|+.++|. .+|++.... .|.+...|
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lw  381 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLA  381 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHH
Confidence            34555555543332       12345667887777656 7889999999998999988996 999999875 45677778


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhCC---------CCCC------------hHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           83 NEMMTLYMSVGQVEKVALVVEEIKRKN---------VVPD------------IFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        83 ~~li~~~~~~~~~~~a~~~~~~m~~~~---------~~p~------------~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      -..+....+.|++++|.++|+++.+..         -.|+            ..+|...+....+.|..+.|..+|.++.
T Consensus       382 l~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~  461 (679)
T 4e6h_A          382 FSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCR  461 (679)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            888888999999999999999987631         0132            2367777888888899999999999988


Q ss_pred             hcCCCCCCHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-
Q 022531          142 CDSGGSDDWVKYVNLVNIYITAS-HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-  219 (295)
Q Consensus       142 ~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-  219 (295)
                      +. ...+...+|...+..-.+.+ +.+.|.. +|+...+..+. +...|...+......|+.+.|..+|++.......+ 
T Consensus       462 ~~-~~~~~~~lyi~~A~lE~~~~~d~e~Ar~-ife~~Lk~~p~-~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~  538 (679)
T 4e6h_A          462 RL-KKLVTPDIYLENAYIEYHISKDTKTACK-VLELGLKYFAT-DGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSH  538 (679)
T ss_dssp             HT-GGGSCTHHHHHHHHHHHTTTSCCHHHHH-HHHHHHHHHTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTT
T ss_pred             Hh-cCCCChHHHHHHHHHHHHhCCCHHHHHH-HHHHHHHHCCC-chHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHH
Confidence            74 11223445544444444444 5899999 88888877543 55667778887788899999999999887764221 


Q ss_pred             -CHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          220 -TSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       220 -~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                       ....|...+..-.+.|+.+.+.++.+++.+..
T Consensus       539 ~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~  571 (679)
T 4e6h_A          539 LLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence             23457777888888999999999999998865

>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=99.03  E-value=1.1e-08  Score=72.91  Aligned_cols=130  Identities=14%  Similarity=0.005  Sum_probs=78.1

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      ...|..+...+...|++++|...|++..+.. +.+..++..+..++...|++++|...+++..+... .+..++..+..+
T Consensus        13 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~a~~   90 (166)
T 1a17_A           13 AEELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHH
Confidence            3455666666666677777777776666543 33566666666667777777777777766665421 245566666666


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHH--HHHHHHHHhcCchhhHHHHHHHHHH
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKY--VNLVNIYITASHLVNAESSTLVEAE  178 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~~~~  178 (295)
                      +...|++++|...|+++....  +.+...+  ......+.+.|++++|.. .+....
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~~  144 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIA-GDEHKR  144 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHH-HHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHH-cccchH
Confidence            677777777777777666541  2233333  233333556677777766 555443

>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=99.01  E-value=1.9e-09  Score=86.67  Aligned_cols=151  Identities=5%  Similarity=-0.086  Sum_probs=117.4

Q ss_pred             cChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC---------------HHHHHHHHHH
Q 022531           25 FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---------------ALMYNEMMTL   88 (295)
Q Consensus        25 ~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---------------~~~~~~li~~   88 (295)
                      +++++|...|+......| +...|..+...+.+.|++++|...|++..+.. +.+               ..+|..+..+
T Consensus       127 ~~~~~A~~~~~~a~~~~p~~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~  205 (336)
T 1p5q_A          127 KSFEKAKESWEMNSEEKLEQSTIVKERGTVYFKEGKYKQALLQYKKIVSWL-EYESSFSNEEAQKAQALRLASHLNLAMC  205 (336)
T ss_dssp             EEEECCCCGGGCCHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCCCCCSHHHHHHHHHHHHHHHHHHHH
T ss_pred             eecccccchhcCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHh-hccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            445566666665554445 57788899999999999999999999988764 222               4788889999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      |.+.|++++|+..|++..+... .+...|..+..++...|++++|...|+++...  .+.+..++..+..++.+.|+.++
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999998888532 36778888888899999999999999998875  34567788888888888888888


Q ss_pred             HHHHHHHHHHH
Q 022531          169 AESSTLVEAEK  179 (295)
Q Consensus       169 a~~~~~~~~~~  179 (295)
                      |....+..++.
T Consensus       283 a~~~~~~~~~~  293 (336)
T 1p5q_A          283 REKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            85435555554

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.00  E-value=9.7e-09  Score=72.28  Aligned_cols=97  Identities=9%  Similarity=-0.133  Sum_probs=53.6

Q ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHH
Q 022531          150 WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILS  229 (295)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  229 (295)
                      ...+..+...+.+.|++++|.. .+.......+. +...|..+..+|...|++++|++.|++..... +-+...+..+..
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~-~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg~  112 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEV-FFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTGQ  112 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHHH
Confidence            3445555555566666666666 55555544332 44555555556666666666666666555543 223344555555


Q ss_pred             HHHhcCChHHHHHHHHHHhh
Q 022531          230 SYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       230 ~~~~~~~~~~A~~~~~~~~~  249 (295)
                      +|...|++++|.+.|++..+
T Consensus       113 ~~~~lg~~~eA~~~~~~al~  132 (151)
T 3gyz_A          113 CQLRLKAPLKAKECFELVIQ  132 (151)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            66666666666666665555

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.00  E-value=1.2e-08  Score=69.52  Aligned_cols=109  Identities=8%  Similarity=-0.010  Sum_probs=66.1

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      ...+......+.+.|++++|+..|++.++.+ +.+..+|..+..+|.+.|++++|+..|++..+.+. .+...|..+..+
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~lg~~   90 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDS-KFIKGYIRKAAC   90 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhh-hhhHHHHHHHHH
Confidence            4456666666666666666666666666553 34566666666666666666666666666665422 235556666666


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  156 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  156 (295)
                      +...|++++|...|++..+.  .|.+..+...+
T Consensus        91 ~~~~~~~~~A~~~~~~al~l--~P~~~~a~~~l  121 (126)
T 4gco_A           91 LVAMREWSKAQRAYEDALQV--DPSNEEAREGV  121 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHH--CcCCHHHHHHH
Confidence            66666777777666666653  23344444433

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.00  E-value=8.5e-09  Score=76.25  Aligned_cols=156  Identities=12%  Similarity=0.025  Sum_probs=89.4

Q ss_pred             HhccChhHHHHHHhhcccCC-CCHHHHHHHHHHHHccCcHHHHHHHHHHHHh----CCCC-CCHHHHHHHHHHHHhcCCH
Q 022531           22 TKVFGIHSGERYFEGLPLSA-KTSETYTALLHLYAGAKWTEKAEELFERVKQ----SNLS-FNALMYNEMMTLYMSVGQV   95 (295)
Q Consensus        22 ~~~~~~~~A~~~~~~~~~~~-p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~-p~~~~~~~li~~~~~~~~~   95 (295)
                      ...|++++|.++++.+.... ....++..+...+...|++++|...+++...    .+.. ....++..+...+...|++
T Consensus         3 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~   82 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNW   82 (203)
T ss_dssp             ----CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             cccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCH
Confidence            35677777777444333322 2456777777777777888887777777654    1111 1234666777777777777


Q ss_pred             HHHHHHHHHHHhC----CCCC--ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcC---CCC-CCHHHHHHHHHHHHhcCc
Q 022531           96 EKVALVVEEIKRK----NVVP--DIFTYNLWISSCAATLNIDQVKKFLDEMSCDS---GGS-DDWVKYVNLVNIYITASH  165 (295)
Q Consensus        96 ~~a~~~~~~m~~~----~~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~-~~~~~~~~l~~~~~~~~~  165 (295)
                      ++|...+++..+.    +-.|  ....+..+...+...|++++|...+++.....   +.+ ....++..+..++...|+
T Consensus        83 ~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~  162 (203)
T 3gw4_A           83 DAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKN  162 (203)
T ss_dssp             HHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcC
Confidence            7777777765542    1111  13346666666777777777777777654310   111 112234556666666667


Q ss_pred             hhhHHHHHHHHHH
Q 022531          166 LVNAESSTLVEAE  178 (295)
Q Consensus       166 ~~~a~~~~~~~~~  178 (295)
                      +++|.+ .+.+..
T Consensus       163 ~~~A~~-~~~~al  174 (203)
T 3gw4_A          163 LLEAQQ-HWLRAR  174 (203)
T ss_dssp             HHHHHH-HHHHHH
T ss_pred             HHHHHH-HHHHHH
Confidence            766666 555443

>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=98.99  E-value=6.4e-09  Score=73.10  Aligned_cols=108  Identities=9%  Similarity=-0.074  Sum_probs=78.3

Q ss_pred             HhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 022531           34 FEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP  112 (295)
Q Consensus        34 ~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p  112 (295)
                      |+.+....| +...+..+...+.+.|++++|...|++....+ +.+...|..+..+|...|++++|+..|++..+... .
T Consensus        10 ~~~al~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~   87 (148)
T 2vgx_A           10 IAMLNEISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDI-X   87 (148)
T ss_dssp             HHHHTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHST-T
T ss_pred             HHHHHcCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-C
Confidence            444444445 56677777778888888888888888877664 44677777888888888888888888888776532 2


Q ss_pred             ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          113 DIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       113 ~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      +...+..+..++...|++++|...|++....
T Consensus        88 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           88 EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4566777777788888888888888877664

>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=98.99  E-value=3.9e-07  Score=72.60  Aligned_cols=224  Identities=6%  Similarity=0.010  Sum_probs=153.2

Q ss_pred             HHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccC-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc-C-CH
Q 022531           20 LMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV-G-QV   95 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-~-~~   95 (295)
                      ...+.+..++|+++++.+....| +..+|+.--..+...| .+++++++++.+.... +-+..+|+.-...+.+. + ++
T Consensus        63 ~~~~~e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~  141 (349)
T 3q7a_A           63 IAAKEEKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDP  141 (349)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCC
T ss_pred             HHHhCCCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCCh
Confidence            33445556789999999888877 6778888887777777 5999999999998875 55778888887777776 6 78


Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHH--------HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc--
Q 022531           96 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID--------QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH--  165 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--  165 (295)
                      ++++++++++.+...+ |..+|+--.-.+.+.+.++        ++++.++++.+.  .+-|..+|+.....+.+.++  
T Consensus       142 ~~EL~~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~  218 (349)
T 3q7a_A          142 VSEIEYIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAE  218 (349)
T ss_dssp             HHHHHHHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCC
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccc
Confidence            8999999999886443 6667776555555555555        888888888875  35677788877777777765  


Q ss_pred             -----hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCH--------------------HHHHHHHHHHHhcc----
Q 022531          166 -----LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK--------------------DKIDQIWKSLRMTK----  216 (295)
Q Consensus       166 -----~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~m~~~~----  216 (295)
                           ++++.+ .+.......+. |...|+-+-..+.+.|..                    .+..++...+...+    
T Consensus       219 ~~~~~~~eELe-~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  296 (349)
T 3q7a_A          219 TSSRSLQDELI-YILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPED  296 (349)
T ss_dssp             CCHHHHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSS
T ss_pred             cchHHHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccc
Confidence                 567777 66666665543 677777766656555543                    22333333332221    


Q ss_pred             -CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhh
Q 022531          217 -QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       217 -~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                       -.+++..+..++..|...|+.++|.++++.+.+
T Consensus       297 ~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          297 TPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             cCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence             024455566677777777777778877777754

>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=98.99  E-value=3.8e-08  Score=85.86  Aligned_cols=217  Identities=8%  Similarity=-0.032  Sum_probs=165.0

Q ss_pred             CCHHHHHHHHHHHHhccChhHHH-HHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC---------CCC
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGE-RYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSN---------LSF   77 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~-~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~---------~~p   77 (295)
                      -++..|-..+..+.+.|+.++|. ++|+......| +...|...+...-+.|++++|.++|+++....         -.|
T Consensus       341 ~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p  420 (679)
T 4e6h_A          341 FAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDP  420 (679)
T ss_dssp             TCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHST
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccC
Confidence            35666777778888889999997 99999887767 67778889999999999999999999988641         013


Q ss_pred             C------------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCChHhHHHHHHHHHcc-CCHHHHHHHHHHHhhc
Q 022531           78 N------------ALMYNEMMTLYMSVGQVEKVALVVEEIKRK-NVVPDIFTYNLWISSCAAT-LNIDQVKKFLDEMSCD  143 (295)
Q Consensus        78 ~------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~~~~-~~~~~a~~~~~~~~~~  143 (295)
                      +            ..+|...+....+.|+.+.|.++|.+..+. +. +....|...+..-.+. ++++.|.++|+...+.
T Consensus       421 ~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~~~~-~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~  499 (679)
T 4e6h_A          421 TNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRLKKL-VTPDIYLENAYIEYHISKDTKTACKVLELGLKY  499 (679)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHTGGG-SCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH
T ss_pred             cchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCC-CChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence            2            346888888888899999999999999876 21 1233343333222333 4599999999998885


Q ss_pred             CCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC--ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCH
Q 022531          144 SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR--QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS  221 (295)
Q Consensus       144 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~  221 (295)
                        ++.+...+...+......|+.+.|.. +|++.....+.+  ....|...+..-...|+.+.+..+.+++.+.  .|+.
T Consensus       500 --~p~~~~~w~~y~~fe~~~~~~~~AR~-lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~--~P~~  574 (679)
T 4e6h_A          500 --FATDGEYINKYLDFLIYVNEESQVKS-LFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEK--FPEV  574 (679)
T ss_dssp             --HTTCHHHHHHHHHHHHHHTCHHHHHH-HHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHH--STTC
T ss_pred             --CCCchHHHHHHHHHHHhCCCHHHHHH-HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence              45566777888888889999999999 999888766532  4467888888888899999999999999887  4554


Q ss_pred             HhHHHHHHHH
Q 022531          222 RNYICILSSY  231 (295)
Q Consensus       222 ~~~~~li~~~  231 (295)
                      .....++.-|
T Consensus       575 ~~~~~f~~ry  584 (679)
T 4e6h_A          575 NKLEEFTNKY  584 (679)
T ss_dssp             CHHHHHHHHT
T ss_pred             cHHHHHHHHh
Confidence            4444444444

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.99  E-value=1.6e-08  Score=68.20  Aligned_cols=115  Identities=11%  Similarity=0.063  Sum_probs=72.1

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      ...|..+...+...|++++|...|+++.+.. +.+..++..+...+.+.|++++|...|+++.+.. +.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            4566666666777777777777777666543 3356666677777777777777777777766542 2245566666667


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  162 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (295)
                      +...|++++|...++++...  .+.+...+..+..++.+
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~  123 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL--DPNNAEAKQNLGNAKQK  123 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHh
Confidence            77777777777777776654  23344455555554443

>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=98.98  E-value=3.8e-08  Score=70.11  Aligned_cols=96  Identities=8%  Similarity=-0.088  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      .+..+...+...|++++|...|++..+... .+..++..+...+...|++++|...+++....  .+.+..++..+..++
T Consensus        15 ~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           15 ELKTQANDYFKAKDYENAIKFYSQAIELNP-SNAIYYGNRSLAYLRTECYGYALGDATRAIEL--DKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHHHHHH
Confidence            344444444455555555555554444311 13344444444455555555555555554442  123344444444555


Q ss_pred             HhcCchhhHHHHHHHHHHHh
Q 022531          161 ITASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       161 ~~~~~~~~a~~~~~~~~~~~  180 (295)
                      ...|++++|.. .+.+....
T Consensus        92 ~~~~~~~~A~~-~~~~a~~~  110 (166)
T 1a17_A           92 MALGKFRAALR-DYETVVKV  110 (166)
T ss_dssp             HHTTCHHHHHH-HHHHHHHH
T ss_pred             HHhccHHHHHH-HHHHHHHh
Confidence            55555555555 44444443

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.98  E-value=1.2e-07  Score=74.65  Aligned_cols=168  Identities=6%  Similarity=-0.131  Sum_probs=113.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-h----HhHHHHHHHHHccCCHHHHHHHHHHHhhcCC--CCCC--H
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-I----FTYNLWISSCAATLNIDQVKKFLDEMSCDSG--GSDD--W  150 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~----~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~--~~~~--~  150 (295)
                      ..+...+..+...|++++|.+.+++..+.....+ .    ..+..+...+...|++++|+..+++......  ..+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            4455667778888999999988887776532211 1    2233455566778889999998888765311  1111  3


Q ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHH---hcCCC---ccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc----CCC-
Q 022531          151 VKYVNLVNIYITASHLVNAESSTLVEAEK---SITQR---QWITYDFLIILYAGLGNKDKIDQIWKSLRMTK----QKM-  219 (295)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~~-  219 (295)
                      .+++.+...|...|++++|.. .+.+..+   ..+..   ...++..+...|...|++++|+..+++..+..    ... 
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~-~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~  234 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGID-LFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMAL  234 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSS
T ss_pred             HHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHH
Confidence            477888888888999999988 7777763   22111   12477788888888899998888888765432    111 


Q ss_pred             CHHhHHHHHHHHHhcCChHHH-HHHHHHHh
Q 022531          220 TSRNYICILSSYLMLGHLKEV-GEIIDQWK  248 (295)
Q Consensus       220 ~~~~~~~li~~~~~~~~~~~A-~~~~~~~~  248 (295)
                      -..+|..+..+|.+.|+.++| ...+++..
T Consensus       235 ~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          235 IGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            145677788888888888888 66676654

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.98  E-value=1.6e-07  Score=73.83  Aligned_cols=168  Identities=7%  Similarity=-0.042  Sum_probs=125.8

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCH------HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC---CCC-
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA------LMYNEMMTLYMSVGQVEKVALVVEEIKRKNV---VPD-  113 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~---~p~-  113 (295)
                      ...+...+..+...|++++|.+.+++..+..-. ..      ..+..+...+...|++++|+..+++..+...   .+. 
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEY-HPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCC-CHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccC-ChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            445666788889999999999999988765321 22      2344566677888999999999999875322   122 


Q ss_pred             -hHhHHHHHHHHHccCCHHHHHHHHHHHh---hcCCCCC--CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC---
Q 022531          114 -IFTYNLWISSCAATLNIDQVKKFLDEMS---CDSGGSD--DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR---  184 (295)
Q Consensus       114 -~~~~~~li~~~~~~~~~~~a~~~~~~~~---~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---  184 (295)
                       ..+++.+...|...|++++|...|+++.   ...+..+  ...++..+..+|.+.|++++|.. .+++........   
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~-~~~kal~~~~~~~~~  232 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLY-QVNKAIEISCRINSM  232 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHTTBC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHH-HHHHHHHHHHhcCcH
Confidence             4578889999999999999999999987   3211112  12588899999999999999999 888776543211   


Q ss_pred             --ccccHHHHHHHHHhcCCHHHH-HHHHHHHH
Q 022531          185 --QWITYDFLIILYAGLGNKDKI-DQIWKSLR  213 (295)
Q Consensus       185 --~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  213 (295)
                        -..+|..+...|...|+.++| ...+++..
T Consensus       233 ~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          233 ALIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence              145678888899999999999 77677654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.98  E-value=2.1e-08  Score=68.35  Aligned_cols=95  Identities=8%  Similarity=-0.053  Sum_probs=61.0

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      .+......+.+.|++++|++.|++..+..| +...|..+..++.+.|++++|+..|++.++.+ +.+...|..+..+|..
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~   93 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLD-SKFIKGYIRKAACLVA   93 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhh-hhhhHHHHHHHHHHHH
Confidence            455566666666666666666666655555 56666666666666666666666666666553 3345666666666666


Q ss_pred             cCCHHHHHHHHHHHHhC
Q 022531           92 VGQVEKVALVVEEIKRK  108 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~  108 (295)
                      .|++++|++.|++..+.
T Consensus        94 ~~~~~~A~~~~~~al~l  110 (126)
T 4gco_A           94 MREWSKAQRAYEDALQV  110 (126)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHH
Confidence            66666666666666653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.97  E-value=4.6e-08  Score=65.86  Aligned_cols=95  Identities=12%  Similarity=0.096  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      ..+..+...+...|++++|.+.|+.+....| +..++..+...+.+.|++++|...|+++.+.. +.+..++..+...+.
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~   88 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYY   88 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHH
Confidence            4455555555555566666555555544433 44555555555555556666665555555442 234555555555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 022531           91 SVGQVEKVALVVEEIKR  107 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~  107 (295)
                      ..|++++|...|+++.+
T Consensus        89 ~~~~~~~A~~~~~~~~~  105 (125)
T 1na0_A           89 KQGDYDEAIEYYQKALE  105 (125)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHH
Confidence            55566666655555554

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.96  E-value=2.5e-08  Score=68.12  Aligned_cols=118  Identities=9%  Similarity=-0.070  Sum_probs=67.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...|..+...+...|++++|...|++..+.. +.+..++..+...+...|++++|++.+++..+... .+...+..+..
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~   92 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRN-PKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEP-TFIKGYTRKAA   92 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CchHHHHHHHH
Confidence            45556666666666666666666666665543 23455666666666666666666666666655321 23455555666


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  164 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  164 (295)
                      ++.+.|++++|...|++....  .+.+...+..+..++.+.|
T Consensus        93 ~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~  132 (133)
T 2lni_A           93 ALEAMKDYTKAMDVYQKALDL--DSSCKEAADGYQRCMMAQY  132 (133)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CGGGTHHHHHHHHHHHHHT
T ss_pred             HHHHHhhHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHHhc
Confidence            666666666666666665553  1233444555555554443

>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=98.96  E-value=4.8e-09  Score=82.16  Aligned_cols=97  Identities=7%  Similarity=-0.056  Sum_probs=66.7

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+..+...+.+.|++++|...|+......| +...|..+..++.+.|++++|...+++..+.. +.+...+..+..+
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~   81 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   81 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHH
Confidence            345566666777777777777777777666555 56677777777777777777777777776653 3456667777777


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 022531           89 YMSVGQVEKVALVVEEIKR  107 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~  107 (295)
                      |...|++++|+..|++..+
T Consensus        82 ~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           82 QLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            7777777777777776655

>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=98.95  E-value=1.5e-06  Score=69.30  Aligned_cols=233  Identities=11%  Similarity=-0.008  Sum_probs=169.1

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      .++.+-....+.+..++|++++++++..+ +-+..+|+.--..+...| .++++++.++.+.....+ +..+|+.-...+
T Consensus        56 ~~~~~r~~~~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPK-ny~aW~hR~wlL  133 (349)
T 3q7a_A           56 AMDYFRAIAAKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLK-SYQVWHHRLLLL  133 (349)
T ss_dssp             HHHHHHHHHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCC-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            34444444455566689999999999876 456778998888888888 599999999999987544 667788777776


Q ss_pred             Hcc-C-CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchh--------hHHHHHHHHHHHhcCCCccccHHHHHH
Q 022531          125 AAT-L-NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV--------NAESSTLVEAEKSITQRQWITYDFLII  194 (295)
Q Consensus       125 ~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~li~  194 (295)
                      .+. + ++++++++++.+...  .+-+..+|+.-.-++.+.|.++        ++.+ ...++.+..+. |...|+....
T Consensus       134 ~~l~~~~~~~EL~~~~k~L~~--dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe-~~~k~I~~dp~-N~SAW~~R~~  209 (349)
T 3q7a_A          134 DRISPQDPVSEIEYIHGSLLP--DPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELD-WCNEMLRVDGR-NNSAWGWRWY  209 (349)
T ss_dssp             HHHCCSCCHHHHHHHHHHTSS--CTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHH-HHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHhcCCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccccccchhhHHHHHH-HHHHHHHhCCC-CHHHHHHHHH
Confidence            666 6 889999999999974  4667888887766676767776        8888 78888776654 7788888877


Q ss_pred             HHHhcCC-------HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCCh--------------------HHHHHHHHHH
Q 022531          195 LYAGLGN-------KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL--------------------KEVGEIIDQW  247 (295)
Q Consensus       195 ~~~~~g~-------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~--------------------~~A~~~~~~~  247 (295)
                      .+.+.+.       ++++++.+++..... .-|...|+-+-..+.+.|+.                    .....+...+
T Consensus       210 lL~~l~~~~~~~~~~~eELe~~~~aI~~~-P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  288 (349)
T 3q7a_A          210 LRVSRPGAETSSRSLQDELIYILKSIHLI-PHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPM  288 (349)
T ss_dssp             HHTTSTTCCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCC
T ss_pred             HHHhccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHH
Confidence            7777776       688999998887764 33556676666666665543                    2333333333


Q ss_pred             hhhc----CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          248 KQSA----TSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       248 ~~~~----~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ....    ...++......|++.|...|+.++|.++++.+.+
T Consensus       289 ~~~~~~~~~~~~s~~al~~l~d~~~~~~~~~~a~~~~~~l~~  330 (349)
T 3q7a_A          289 PSDPLPEDTPLPVPLALEYLADSFIEQNRVDDAAKVFEKLSS  330 (349)
T ss_dssp             CC-CCCSSCCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhcccccccCCCcHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Confidence            3321    1136778888999999999999999999999863

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.94  E-value=3.3e-08  Score=73.04  Aligned_cols=160  Identities=8%  Similarity=-0.053  Sum_probs=96.3

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc---CCC-CCCHHHHHHHHHHHHhcCc
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGG-SDDWVKYVNLVNIYITASH  165 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~~~l~~~~~~~~~  165 (295)
                      ...|++++|.+.++.+... ......++..+...+...|++++|...+++....   .+. +....++..+...+...|+
T Consensus         3 ~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~   81 (203)
T 3gw4_A            3 FEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGN   81 (203)
T ss_dssp             ----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTC
T ss_pred             cccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCC
Confidence            4568888888855555432 2234566777777888888888888888776551   111 1234456677777888888


Q ss_pred             hhhHHHHHHHHHHHh---cC-CC--ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccC-CCCH----HhHHHHHHHHHhc
Q 022531          166 LVNAESSTLVEAEKS---IT-QR--QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KMTS----RNYICILSSYLML  234 (295)
Q Consensus       166 ~~~a~~~~~~~~~~~---~~-~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~----~~~~~li~~~~~~  234 (295)
                      +++|.. .+.+....   .. .+  ....+..+...+...|++++|.+.+++...... ..+.    .++..+...+...
T Consensus        82 ~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  160 (203)
T 3gw4_A           82 WDAARR-CFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQE  160 (203)
T ss_dssp             HHHHHH-HHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHH-HHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHC
Confidence            888888 66665543   11 11  123456666677777777777777776643211 1111    2245566667777


Q ss_pred             CChHHHHHHHHHHhhhc
Q 022531          235 GHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       235 ~~~~~A~~~~~~~~~~~  251 (295)
                      |++++|.+.+++..+..
T Consensus       161 g~~~~A~~~~~~al~~~  177 (203)
T 3gw4_A          161 KNLLEAQQHWLRARDIF  177 (203)
T ss_dssp             TCHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHH
Confidence            77777777777665543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.94  E-value=2.3e-08  Score=67.97  Aligned_cols=120  Identities=11%  Similarity=-0.009  Sum_probs=84.8

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+... .+...+..+..
T Consensus        11 ~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~   88 (131)
T 2vyi_A           11 EAERLKTEGNEQMKVENFEAAVHFYGKAIELN-PANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDP-AYSKAYGRMGL   88 (131)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHccCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCc-cCHHHHHHHHH
Confidence            45667777777777788888888887777653 34567777777777788888888888877776422 24566777777


Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  166 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  166 (295)
                      .+...|++++|...|++....  .+.+...+..+..++.+.|++
T Consensus        89 ~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           89 ALSSLNKHVEAVAYYKKALEL--DPDNETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHTTC
T ss_pred             HHHHhCCHHHHHHHHHHHHhc--CccchHHHHHHHHHHHHHhcC
Confidence            777888888888888777764  234566667777777776654

>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=98.93  E-value=1.4e-08  Score=73.47  Aligned_cols=120  Identities=13%  Similarity=0.085  Sum_probs=91.4

Q ss_pred             HhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HHhcCCH--HH
Q 022531           22 TKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL-YMSVGQV--EK   97 (295)
Q Consensus        22 ~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~-~~~~~~~--~~   97 (295)
                      ...|++++|...|+......| +...|..+...+...|++++|...|++..+.. +.+...+..+..+ +...|++  ++
T Consensus        21 ~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           21 ASQQNPEAQLQALQDKIRANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLR-GENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             C-----CCCCHHHHHHHHHCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-CSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             hhccCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCCcchHH
Confidence            456788888888888776666 77888888888888999999999998887764 3467778888888 7788887  88


Q ss_pred             HHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           98 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        98 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      |...|++..+... .+...+..+...+...|++++|...|+++...
T Consensus       100 A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALDS-NEITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCC-CcHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            8888888877532 24667777888888889999999888888775

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.93  E-value=5.6e-08  Score=66.04  Aligned_cols=115  Identities=9%  Similarity=-0.072  Sum_probs=54.0

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      ..+..+...+...|++++|...|+......| +...|..+...+...|++++|...+++..+.. +.+...+..+...+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            3444444555555555555555555444333 44445555555555555555555555544432 223444555555555


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL  128 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  128 (295)
                      ..|++++|...|++..+... .+...+..+..++.+.|
T Consensus        92 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~~l~~~~~~~~  128 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELDP-DNETYKSNLKIAELKLR  128 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHT
T ss_pred             HhCCHHHHHHHHHHHHhcCc-cchHHHHHHHHHHHHHh
Confidence            55555555555555444321 13333444444444333

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.91  E-value=4.4e-08  Score=68.19  Aligned_cols=109  Identities=12%  Similarity=-0.049  Sum_probs=77.9

Q ss_pred             HHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 022531           33 YFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV  111 (295)
Q Consensus        33 ~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  111 (295)
                      .|+......| +...+..+...+.+.|++++|...|++....+ +.+...|..+..+|.+.|++++|+..|++..+... 
T Consensus         6 ~l~~al~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-   83 (142)
T 2xcb_A            6 TLAMLRGLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI-   83 (142)
T ss_dssp             ---CCTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-
T ss_pred             hHHHHHcCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-
Confidence            4555555455 55667777777888888888888888877664 44677777888888888888888888888777532 


Q ss_pred             CChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          112 PDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       112 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .+...+..+..++...|++++|...|++....
T Consensus        84 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           84 NEPRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             TCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            24566777777788888888888888877654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.90  E-value=6e-08  Score=66.22  Aligned_cols=98  Identities=8%  Similarity=-0.104  Sum_probs=58.5

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+..+...+.+.|++++|...|+......| +...|..+...+...|++++|...|++..+.. +.+..++..+..+
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~   93 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLE-PTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCchHHHHHHHHH
Confidence            344555566666666666666666666555544 55566666666666666666666666655543 2345566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 022531           89 YMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~  108 (295)
                      +.+.|++++|.+.|++..+.
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~  113 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDL  113 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHHh
Confidence            66666666666666665553

>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=98.90  E-value=7.3e-09  Score=76.58  Aligned_cols=161  Identities=4%  Similarity=-0.137  Sum_probs=104.0

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--------------
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN--------------   78 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--------------   78 (295)
                      .+..+......|.+++|.+.|+.-....+ ....+..+...+...|++++|...|++..+.. +.+              
T Consensus         7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~   85 (198)
T 2fbn_A            7 HHHHSSGRENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKN   85 (198)
T ss_dssp             ---------------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHH
T ss_pred             ccchhhhhhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHH
Confidence            34445555667788888888876544333 56678888889999999999999999988753 112              


Q ss_pred             --HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 022531           79 --ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  156 (295)
Q Consensus        79 --~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  156 (295)
                        ..+|..+..+|...|++++|+..+++..+.. +.+...+..+..++...|++++|...|++....  .+.+..++..+
T Consensus        86 ~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l  162 (198)
T 2fbn_A           86 IEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSY  162 (198)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHH
Confidence              2678888888888899999999888887753 235677888888888889999999888888764  24466677777


Q ss_pred             HHHHHhcCchhhHHHHHHHHHH
Q 022531          157 VNIYITASHLVNAESSTLVEAE  178 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~  178 (295)
                      ..++...++.+++....+..++
T Consensus       163 ~~~~~~~~~~~~~~~~~~~~~f  184 (198)
T 2fbn_A          163 ELCVNKLKEARKKDKLTFGGMF  184 (198)
T ss_dssp             HHHHHHHHHHHC----------
T ss_pred             HHHHHHHHHHHHHHHHHHHHHh
Confidence            7777777777766631344443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.90  E-value=1e-07  Score=73.51  Aligned_cols=186  Identities=11%  Similarity=-0.008  Sum_probs=113.1

Q ss_pred             hccChhHHHHHHhhcccCCC-CHHHHHHH-------HHHHHccCcHHHHHHHHHHHHhCCCCCC----------------
Q 022531           23 KVFGIHSGERYFEGLPLSAK-TSETYTAL-------LHLYAGAKWTEKAEELFERVKQSNLSFN----------------   78 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~l-------i~~~~~~~~~~~a~~~~~~m~~~~~~p~----------------   78 (295)
                      ..++.+.|.+.|..+....| ....|..+       ...+.+.++..+++..+.+-..  +.|+                
T Consensus        18 ~~~d~~~A~~~F~~a~~~dP~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~--l~p~~l~a~~~~~g~y~~~~   95 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYDESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQ--ISMSTLNARIAIGGLYGDIT   95 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTT--CCGGGGCCEEECCTTTCCCE
T ss_pred             cCCCHHHHHHHHHHHHHhChhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhc--CChhhhhhhhccCCcccccc
Confidence            56778888888888777766 56777777       4555555555555554444433  1121                


Q ss_pred             ------HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC--H
Q 022531           79 ------ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD--W  150 (295)
Q Consensus        79 ------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~  150 (295)
                            ...+-.+...+...|++++|.++|+.+...+  |+......+...+.+.+++++|+..|+..... . .|.  .
T Consensus        96 ~~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~-~-d~~~~~  171 (282)
T 4f3v_A           96 YPVTSPLAITMGFAACEAAQGNYADAMEALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKW-P-DKFLAG  171 (282)
T ss_dssp             EECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGC-S-CHHHHH
T ss_pred             cccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhcc-C-CcccHH
Confidence                  1233445566777778888888877776643  43335555555677777888888777654432 1 111  2


Q ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          151 VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ--WITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      .++..+..++.+.|++++|+. .+++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       172 ~a~~~LG~al~~LG~~~eAl~-~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          172 AAGVAHGVAAANLALFTEAER-RLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHH-HHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHH-HHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            356667777777777777777 6666653221132  223445555666777777777777777665

>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=98.84  E-value=1.4e-07  Score=75.80  Aligned_cols=95  Identities=6%  Similarity=-0.125  Sum_probs=59.3

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  266 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (295)
                      .+|..+..+|.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|.+.|++..+..  +.+...+..+..+
T Consensus       197 ~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~a~~~l~~~  273 (336)
T 1p5q_A          197 ASHLNLAMCHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVC  273 (336)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--CCCHHHHHHHHHH
Confidence            456666666666777777777776666553 2345556666667777777777777777666643  2355566666666


Q ss_pred             HHccCChHHH-HHHHHHHH
Q 022531          267 FSDVGLTEKA-NEFHMLLL  284 (295)
Q Consensus       267 ~~~~g~~~~a-~~~~~~m~  284 (295)
                      +...|+.++| ...++.|.
T Consensus       274 ~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          274 QQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHH
Confidence            6667766666 34455443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.82  E-value=3.5e-07  Score=75.91  Aligned_cols=97  Identities=9%  Similarity=-0.140  Sum_probs=47.8

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC-----HHhHHHHHHHHHhcCChHHHHHHHHHHhhhc--CCCCC---H
Q 022531          188 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-----SRNYICILSSYLMLGHLKEVGEIIDQWKQSA--TSDFD---I  257 (295)
Q Consensus       188 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~--~~~~~---~  257 (295)
                      ++..+...|...|++++|..+++++...-...+     ...+..++..|...|++++|..+++......  ...|.   .
T Consensus       137 ~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  216 (434)
T 4b4t_Q          137 LSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVA  216 (434)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHH
T ss_pred             HHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHH
Confidence            344455555556666666665555432211111     1234555666666666666666665543321  11111   2


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          258 SACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       258 ~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      ..+..+...+...|++++|...|.+..
T Consensus       217 ~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          217 ELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            334445555556666666665555543

>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=98.81  E-value=1.5e-07  Score=68.08  Aligned_cols=123  Identities=11%  Similarity=0.048  Sum_probs=95.5

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHH-HHhcCCH
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIIL-YAGLGNK  202 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~  202 (295)
                      +...|++++|...+++....  .+.+..++..+..+|...|++++|.. .+.......+. +...+..+... +...|++
T Consensus        20 ~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~-~~~~al~~~p~-~~~~~~~la~~l~~~~~~~   95 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIRA--NPQNSEQWALLGEYYLWQNDYSNSLL-AYRQALQLRGE-NAELYAALATVLYYQASQH   95 (177)
T ss_dssp             CC-----CCCCHHHHHHHHH--CCSCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHCS-CHHHHHHHHHHHHHHTTTC
T ss_pred             hhhccCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHcCCC-CHHHHHHHHHHHHHhcCCc
Confidence            35678889999999988875  35677888899999999999999999 88888776643 56677777777 7788998


Q ss_pred             --HHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          203 --DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       203 --~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                        ++|...+++..... +.+...+..+...|...|++++|...|++..+..
T Consensus        96 ~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~  145 (177)
T 2e2e_A           96 MTAQTRAMIDKALALD-SNEITALMLLASDAFMQANYAQAIELWQKVMDLN  145 (177)
T ss_dssp             CCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC
T ss_pred             chHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhC
Confidence              99999999888764 3345677788889999999999999999988754

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.81  E-value=7.8e-06  Score=69.06  Aligned_cols=170  Identities=9%  Similarity=-0.084  Sum_probs=103.3

Q ss_pred             CCCCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCc-HHHHHHHHHHHHhC-CC-CCCHHHHH
Q 022531            7 FVLSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKW-TEKAEELFERVKQS-NL-SFNALMYN   83 (295)
Q Consensus         7 ~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~m~~~-~~-~p~~~~~~   83 (295)
                      +.--...|...+..+-. |+++.|..+|+......|+...|...+....+.+. .+....+|+..... |. +++...|.
T Consensus        11 i~~aR~vyer~l~~~P~-~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~   89 (493)
T 2uy1_A           11 LSSPSAIMEHARRLYMS-KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYK   89 (493)
T ss_dssp             -CCHHHHHHHHHHHHHT-TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHH
T ss_pred             hHHHHHHHHHHHHHCCC-CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHH
Confidence            34445677777777755 78888888888888877888888888877766663 35566777776643 32 33667777


Q ss_pred             HHHHHHH----hcCCHHHHHHHHHHHHhCCCCCChHhHH-----------------------------------------
Q 022531           84 EMMTLYM----SVGQVEKVALVVEEIKRKNVVPDIFTYN-----------------------------------------  118 (295)
Q Consensus        84 ~li~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~~~~-----------------------------------------  118 (295)
                      ..+..+.    ..++.+.+.++|++........-...|.                                         
T Consensus        90 ~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~  169 (493)
T 2uy1_A           90 EYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRG  169 (493)
T ss_dssp             HHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhh
Confidence            7776544    2356777777887777631110011111                                         


Q ss_pred             -------HHHHHHHcc--CC-----HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Q 022531          119 -------LWISSCAAT--LN-----IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       119 -------~li~~~~~~--~~-----~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (295)
                             ..+.--...  +-     .+.+..+|+++...  .+.+...|...+..+.+.|+.+.|.. ++++....
T Consensus       170 ~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~--~p~~~~lW~~ya~~~~~~~~~~~ar~-i~erAi~~  242 (493)
T 2uy1_A          170 WSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS--FYYAEEVYFFYSEYLIGIGQKEKAKK-VVERGIEM  242 (493)
T ss_dssp             CSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHH
T ss_pred             ccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhC
Confidence                   111110000  00     23345667776653  34556677777777788888888888 78777766

>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=98.80  E-value=1.3e-08  Score=85.34  Aligned_cols=151  Identities=5%  Similarity=-0.043  Sum_probs=112.0

Q ss_pred             ChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC---------------HHHHHHHHHHH
Q 022531           26 GIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---------------ALMYNEMMTLY   89 (295)
Q Consensus        26 ~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---------------~~~~~~li~~~   89 (295)
                      ++++|...|+......| ....|..+...+.+.|++++|...|++..+.. +.+               ..+|..+..+|
T Consensus       249 ~~~~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~~  327 (457)
T 1kt0_A          249 SFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMCY  327 (457)
T ss_dssp             EEECCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hcccCcchhhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHHH
Confidence            44566666655544344 56688889999999999999999999988753 122               57888899999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhH
Q 022531           90 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  169 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  169 (295)
                      .+.|++++|+..|++..+... .+...|..+..+|...|++++|...|+++.+.  .+.+..++..+..++.+.++.+++
T Consensus       328 ~~~g~~~~A~~~~~~al~~~p-~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          328 LKLREYTKAVECCDKALGLDS-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999998887533 35777888888999999999999999998874  345667788888888888888887


Q ss_pred             HHHHHHHHHHh
Q 022531          170 ESSTLVEAEKS  180 (295)
Q Consensus       170 ~~~~~~~~~~~  180 (295)
                      .+..+..|+..
T Consensus       405 ~~~~~~~~f~k  415 (457)
T 1kt0_A          405 DRRIYANMFKK  415 (457)
T ss_dssp             HHHHHHHC---
T ss_pred             HHHHHHHHHhh
Confidence            76455555443

>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=98.80  E-value=2.4e-07  Score=61.61  Aligned_cols=96  Identities=9%  Similarity=-0.016  Sum_probs=54.6

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      ..+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+... .+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHHH
Confidence            345555555556666666666666655443 23455555666666666666666666666555321 2344555555666


Q ss_pred             HccCCHHHHHHHHHHHhh
Q 022531          125 AATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~  142 (295)
                      ...|++++|...+++...
T Consensus        83 ~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHT
T ss_pred             HHHhhHHHHHHHHHHHHH
Confidence            666666666666666554

>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=98.80  E-value=2e-07  Score=63.21  Aligned_cols=96  Identities=10%  Similarity=-0.034  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      ..|..+...+.+.|++++|+..|++..+.. +.+...|..+..+|.+.|++++|+..|++..+... .+...|..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP-NFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHH
Confidence            345555555555566666666665555443 33455555555556666666666666655555321 1344555555555


Q ss_pred             HccCCHHHHHHHHHHHhh
Q 022531          125 AATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~  142 (295)
                      ...|++++|...|++...
T Consensus        83 ~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           83 IAVKEYASALETLDAART  100 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHH
Confidence            556666666665555544

>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=98.80  E-value=1.2e-07  Score=66.57  Aligned_cols=95  Identities=11%  Similarity=-0.076  Sum_probs=44.3

Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHH
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  231 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  231 (295)
                      .+..+...+.+.|++++|.. .+.......+. +...|..+..+|...|++++|+..|++..... +.+...+..+..+|
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~   99 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHX-VFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAECL   99 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHH-HHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHHHH
Confidence            34444444445555555555 44444333322 33444444445555555555555555444432 11233444455555


Q ss_pred             HhcCChHHHHHHHHHHhh
Q 022531          232 LMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       232 ~~~~~~~~A~~~~~~~~~  249 (295)
                      ...|++++|.+.|+...+
T Consensus       100 ~~~g~~~~A~~~~~~al~  117 (148)
T 2vgx_A          100 LQXGELAEAESGLFLAQE  117 (148)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            555555555555555444

>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=98.79  E-value=1.4e-07  Score=64.10  Aligned_cols=97  Identities=8%  Similarity=-0.028  Sum_probs=88.2

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ...+..+...+.+.|++++|...|+......| +...|..+..++.+.|++++|+..|++..+.+ +.+...|..+..++
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHH
Confidence            45678888999999999999999999888777 78999999999999999999999999999875 45688999999999


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 022531           90 MSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~  108 (295)
                      ...|++++|...|++..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~  101 (126)
T 3upv_A           83 IAVKEYASALETLDAARTK  101 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHh
Confidence            9999999999999998875

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.79  E-value=1.8e-07  Score=66.76  Aligned_cols=99  Identities=14%  Similarity=0.015  Sum_probs=66.2

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...|..+...+.+.|++++|+..|++..+.. +.+...|..+..+|.+.|++++|+..|++..+... .+...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDP-KYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHH
Confidence            45566666777777777777777777766653 33566677777777777777777777777666432 24556666777


Q ss_pred             HHHccCCHHHHHHHHHHHhhc
Q 022531          123 SCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      ++...|++++|...|++....
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            777777777777777776654

>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=98.79  E-value=4.8e-07  Score=60.09  Aligned_cols=97  Identities=12%  Similarity=-0.035  Sum_probs=60.0

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      ...+..+...+...|++++|...|+......| +...+..+...+...|++++|...+++..+.. +.+...+..+..++
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   82 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhC-cccHHHHHHHHHHH
Confidence            34455566666666666666666666655544 55566666666666666666666666666543 23455666666666


Q ss_pred             HhcCCHHHHHHHHHHHHhC
Q 022531           90 MSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~  108 (295)
                      ...|++++|.+.|++..+.
T Consensus        83 ~~~~~~~~A~~~~~~~~~~  101 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKH  101 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhhHHHHHHHHHHHHHc
Confidence            6666666666666666554

>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=98.78  E-value=1.4e-05  Score=63.30  Aligned_cols=230  Identities=8%  Similarity=-0.035  Sum_probs=155.6

Q ss_pred             HHHHHHHHH---HhccChh-HHHHHHhhcccCCC-CHHHHHHHHHHHHccCc----------HHHHHHHHHHHHhCCCCC
Q 022531           13 DYATRIDLM---TKVFGIH-SGERYFEGLPLSAK-TSETYTALLHLYAGAKW----------TEKAEELFERVKQSNLSF   77 (295)
Q Consensus        13 ~~~~li~~~---~~~~~~~-~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~p   77 (295)
                      .|..+.+.+   .+.|.++ +|+.+++.+....| +..+|+.--..+...+.          +++++.+++.+.... +-
T Consensus        28 ~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PK  106 (331)
T 3dss_A           28 LYQSATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PK  106 (331)
T ss_dssp             HHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TT
T ss_pred             HHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CC
Confidence            444444433   3455554 78999999988877 56677765554444333          678899999888765 55


Q ss_pred             CHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC-HHHHHHHHHHHhhcCCCCCCHHHHH
Q 022531           78 NALMYNEMMTLYMSVG--QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN-IDQVKKFLDEMSCDSGGSDDWVKYV  154 (295)
Q Consensus        78 ~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~  154 (295)
                      +..+|+.-...+.+.+  .+++++.+++++.+.... |..+|+--.-.+...|. ++++++.+..+...  .+-|..+|+
T Consensus       107 ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~  183 (331)
T 3dss_A          107 SYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWH  183 (331)
T ss_dssp             CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHH
T ss_pred             CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHH
Confidence            7889988888888877  489999999999886543 77778777777777787 58999999998875  356777777


Q ss_pred             HHHHHHHhc--------------CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc-----------CCHHHHHHHH
Q 022531          155 NLVNIYITA--------------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL-----------GNKDKIDQIW  209 (295)
Q Consensus       155 ~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----------g~~~~a~~~~  209 (295)
                      .....+.+.              +.++++.+ .+.......+. |...|+-+--.+.+.           +.++++++.+
T Consensus       184 ~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle-~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~  261 (331)
T 3dss_A          184 YRSCLLPQLHPQPDSGPQGRLPENVLLKELE-LVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESC  261 (331)
T ss_dssp             HHHHHHHHHSCCC------CCCHHHHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhccccccccccchHHHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHH
Confidence            766666555              45677888 77777665544 667776544444443           3467778888


Q ss_pred             HHHHhccCCCCH-HhHHHHH---HHHHhcCChHHHHHHHHHHhhh
Q 022531          210 KSLRMTKQKMTS-RNYICIL---SSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       210 ~~m~~~~~~~~~-~~~~~li---~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      +++.+.  .|+. ..+..++   ......+..+++...+.++.+-
T Consensus       262 ~elle~--~pd~~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~~  304 (331)
T 3dss_A          262 KELQEL--EPENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAV  304 (331)
T ss_dssp             HHHHHH--CTTCHHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHHH
T ss_pred             HHHHhh--CcccchHHHHHHHHHHhhcccccHHHHHHHHHHHHHh
Confidence            877765  4443 2222221   1122355666777777777764

>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=98.77  E-value=2.2e-07  Score=63.27  Aligned_cols=98  Identities=11%  Similarity=0.067  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----hHhHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV--VPD----IFTYN  118 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~  118 (295)
                      ..+..+...+.+.|++++|+..|++.++.. |-+..+|+.+..+|.+.|++++|++.|++..+...  .++    ..+|.
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~   87 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMS   87 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHH
Confidence            345556666666666666666666666553 33456666666666666666666666666554211  011    12455


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          119 LWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .+..++...|++++|++.|++....
T Consensus        88 ~lg~~~~~~~~~~~A~~~~~kal~~  112 (127)
T 4gcn_A           88 RAGNAFQKQNDLSLAVQWFHRSLSE  112 (127)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            5555666666666666666665543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.75  E-value=3e-07  Score=60.48  Aligned_cols=99  Identities=9%  Similarity=-0.072  Sum_probs=67.6

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--ChHhHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP--DIFTYNLW  120 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~l  120 (295)
                      +...|..+...+...|++++|...|++..+.. +.+..+|..+...+...|++++|.+.|++..+... .  +...+..+
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~~~l   82 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIE-DEYNKDVWAAK   82 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSC-CTTCHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCc-ccchHHHHHHH
Confidence            45566667777777777777777777776653 34566677777777777777777777777766421 2  35566667


Q ss_pred             HHHHHcc-CCHHHHHHHHHHHhhc
Q 022531          121 ISSCAAT-LNIDQVKKFLDEMSCD  143 (295)
Q Consensus       121 i~~~~~~-~~~~~a~~~~~~~~~~  143 (295)
                      ..++.+. |++++|.+.++.....
T Consensus        83 ~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           83 ADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHhCCHHHHHHHHHHHhhc
Confidence            7777777 7777777777777664

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.75  E-value=1.1e-07  Score=66.21  Aligned_cols=96  Identities=6%  Similarity=-0.060  Sum_probs=85.7

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      ..+..+...+.+.|++++|...|+......| +...|..+..++.+.|++++|+..|++....+ +.+...+..+..+|.
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   97 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECHL   97 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHHH
Confidence            3455677788999999999999999988777 78899999999999999999999999999875 456788999999999


Q ss_pred             hcCCHHHHHHHHHHHHhC
Q 022531           91 SVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~  108 (295)
                      ..|++++|.+.|++..+.
T Consensus        98 ~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           98 QLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             HTTCHHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            999999999999998874

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.74  E-value=4.8e-07  Score=59.50  Aligned_cols=100  Identities=10%  Similarity=-0.006  Sum_probs=78.9

Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC--CHHHHHH
Q 022531          185 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--DISACNR  262 (295)
Q Consensus       185 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~--~~~~~~~  262 (295)
                      +...+..+...+...|++++|...+++..+.. +.+...+..+..++...|++++|.+.+++..+..  +.  +...+..
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~   81 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVI--EDEYNKDVWAA   81 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS--CCTTCHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccchHHHHHH
Confidence            44566777778888888888888888877654 3356677778888888999999999998888753  34  5778888


Q ss_pred             HHHHHHcc-CChHHHHHHHHHHHhcC
Q 022531          263 LLGAFSDV-GLTEKANEFHMLLLQKN  287 (295)
Q Consensus       263 l~~~~~~~-g~~~~a~~~~~~m~~~g  287 (295)
                      +..++... |++++|.+.+++..+.+
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~~  107 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLEH  107 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGGC
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhcc
Confidence            88889999 99999999999888743

>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=98.74  E-value=1.2e-07  Score=64.55  Aligned_cols=105  Identities=7%  Similarity=-0.058  Sum_probs=87.2

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC--CCCC----HHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFN----ALMYNE   84 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~--~~p~----~~~~~~   84 (295)
                      ..+..+...+.+.|++++|+..|+...+..| +...|+.+..+|.+.|++++|++.|++.++.+  ..++    ..+|..
T Consensus         9 ~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A            9 IAEKDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            4677889999999999999999999888777 78899999999999999999999999987642  1111    246788


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHH
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYN  118 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  118 (295)
                      +..++...|++++|++.|++....  .||..+..
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~--~~~~~~~~  120 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSE--FRDPELVK  120 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH--SCCHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhh--CcCHHHHH
Confidence            888999999999999999998774  45655443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.74  E-value=7.5e-07  Score=68.72  Aligned_cols=129  Identities=5%  Similarity=-0.130  Sum_probs=99.1

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHh
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN--ALMYNEMMTLYMS   91 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~   91 (295)
                      .-.+...+...|++++|.++|+.+...+|+......+...+.+.+++++|+..|+...... .|.  ..++..+..++.+
T Consensus       105 ~LayA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~  183 (282)
T 4f3v_A          105 TMGFAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAAN  183 (282)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHH
Confidence            4456677888999999999999998877844377777778889999999999998665542 121  3467788888999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCC--hHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           92 VGQVEKVALVVEEIKRKNVVPD--IFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .|++++|+..|++.......|.  .........++.+.|+.++|...|+++...
T Consensus       184 LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          184 LALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             TTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            9999999999998875433253  335566677788899999999999998875

>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=98.73  E-value=2.7e-07  Score=63.48  Aligned_cols=98  Identities=10%  Similarity=0.025  Sum_probs=65.6

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...|..+...+...|++++|...|++..... +.+...|..+..++...|++++|...|++..+... .+...+..+..
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~l~~   85 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDG-QSVKAHFFLGQ   85 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCc-hhHHHHHHHHH
Confidence            56666677777777777777777777766653 34566677777777777777777777777666432 24556666777


Q ss_pred             HHHccCCHHHHHHHHHHHhh
Q 022531          123 SCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~  142 (295)
                      ++...|++++|...|++...
T Consensus        86 ~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           86 CQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHHHHHH
Confidence            77777777777777776654

>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=98.72  E-value=1.1e-07  Score=64.54  Aligned_cols=112  Identities=12%  Similarity=0.014  Sum_probs=63.7

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----hHhHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV--VPD----IFTYN  118 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~  118 (295)
                      ..|..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+...  .++    ..++.
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHH
Confidence            445556666666666666666666665543 33455666666666666666666666666554321  111    44555


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531          119 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      .+..++.+.|++++|...|+++...   .|+......+..+.
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~l~~~~  122 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLAE---HRTPDVLKKCQQAE  122 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH---CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHHh---CCCHHHHHHHHHHH
Confidence            6666666666666666666666654   23444444444433

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.72  E-value=6.9e-07  Score=62.08  Aligned_cols=98  Identities=9%  Similarity=-0.058  Sum_probs=68.9

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYN  118 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  118 (295)
                      +...+..+...+...|++++|...|++..+..  |+    ...|..+..+|...|++++|+..+++..+... .+...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDG-GDVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTS-CCHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCc-cCHHHHH
Confidence            56677777777777777777777777777653  44    56677777777777777777777777766422 2456666


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          119 LWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       119 ~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .+..++...|++++|...|++....
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~  128 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL  128 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            6777777777777777777777664

>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=98.70  E-value=3.8e-07  Score=61.85  Aligned_cols=97  Identities=10%  Similarity=-0.006  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCC--CCC----HHHHHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNL--SFN----ALMYNE   84 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~~   84 (295)
                      ..+..+...+...|++++|...|+......| +...+..+...+...|++++|...+++.....-  .++    ..++..
T Consensus         5 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            5 LKEKELGNDAYKKKDFDTALKHYDKAKELDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            3455566666666666666666666655544 555666666666666666666666666654420  111    455666


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      +..++...|++++|.+.|++..+.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~~~~  108 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHHHHh
Confidence            666666666666666666666653

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.68  E-value=8.9e-07  Score=63.06  Aligned_cols=97  Identities=6%  Similarity=-0.085  Sum_probs=52.0

Q ss_pred             hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHH
Q 022531          114 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  193 (295)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li  193 (295)
                      ...+..+...+.+.|++++|+..|++....  .+.+...|..+..+|.+.|++++|.. .+.+.....+. +...|..+.
T Consensus        11 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~lg   86 (164)
T 3sz7_A           11 SDKLKSEGNAAMARKEYSKAIDLYTQALSI--APANPIYLSNRAAAYSASGQHEKAAE-DAELATVVDPK-YSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHHccCHHHHHH-HHHHHHHhCCC-CHHHHHHHH
Confidence            344555555555666666666666655553  13345555555555555666666655 55555444322 344455555


Q ss_pred             HHHHhcCCHHHHHHHHHHHHh
Q 022531          194 ILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       194 ~~~~~~g~~~~a~~~~~~m~~  214 (295)
                      .+|...|++++|.+.|++..+
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~  107 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIE  107 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHH
Confidence            555555555555555555544

>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=98.67  E-value=5.5e-07  Score=61.83  Aligned_cols=97  Identities=7%  Similarity=-0.056  Sum_probs=59.1

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +...+..+...+...|++++|...|+......| +...|..+..++...|++++|...|++..+.+ +.+...|..+..+
T Consensus         8 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~   86 (137)
T 3q49_B            8 SAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQC   86 (137)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHHHHHH
Confidence            455566666666666666666666666555544 45566666666666666666666666665543 3345566666666


Q ss_pred             HHhcCCHHHHHHHHHHHHh
Q 022531           89 YMSVGQVEKVALVVEEIKR  107 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~  107 (295)
                      +...|++++|+..|++..+
T Consensus        87 ~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           87 QLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            6666666666666666554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.67  E-value=1.8e-06  Score=59.91  Aligned_cols=97  Identities=8%  Similarity=-0.073  Sum_probs=57.4

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCCC----HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKT----SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      +...+..+...+...|++++|...|+......|+    ...|..+..++...|++++|...+++..+.. +.+...+..+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  105 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKD-GGDVKALYRR  105 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-SCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-ccCHHHHHHH
Confidence            3445555566666666666666666666555554    4555666666666666666666666655542 2345556666


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHh
Q 022531           86 MTLYMSVGQVEKVALVVEEIKR  107 (295)
Q Consensus        86 i~~~~~~~~~~~a~~~~~~m~~  107 (295)
                      ..++...|++++|...|++..+
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~  127 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVS  127 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHH
Confidence            6666666666666666666555

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.66  E-value=2e-07  Score=62.85  Aligned_cols=94  Identities=11%  Similarity=-0.084  Sum_probs=47.4

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                      +..+...+.+.|++++|...|++..+.. +.+...|..+..++...|++++|+..|++..+.... +...+..+..++.+
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            3344445555555555555555555442 234455555555555555555555555555543211 33444555555555


Q ss_pred             cCCHHHHHHHHHHHhh
Q 022531          127 TLNIDQVKKFLDEMSC  142 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~  142 (295)
                      .|++++|...|++..+
T Consensus        98 ~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           98 EHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHH
Confidence            5555555555555443

>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=98.64  E-value=1e-06  Score=64.88  Aligned_cols=98  Identities=11%  Similarity=-0.022  Sum_probs=57.4

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  266 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (295)
                      ..|..+..+|...|++++|+..+++..... +.+...+..+..+|...|++++|.+.|++..+..  +.+...+..+..+
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~~l~~~  165 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASLN--PNNLDIRNSYELC  165 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHC--CCcHHHHHHHHHH
Confidence            455566666777777777777777766553 3345566667777777777777777777776643  2355666667777


Q ss_pred             HHccCChHHHH-HHHHHHHhcC
Q 022531          267 FSDVGLTEKAN-EFHMLLLQKN  287 (295)
Q Consensus       267 ~~~~g~~~~a~-~~~~~m~~~g  287 (295)
                      +...++.+++. ..+..|...|
T Consensus       166 ~~~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          166 VNKLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHHHHhccc
Confidence            77666666665 4455554433

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.64  E-value=4.8e-06  Score=69.04  Aligned_cols=192  Identities=8%  Similarity=-0.045  Sum_probs=90.1

Q ss_pred             HHHHhccChhHHHHHHhhcccCCCCH------------------HHHHHHHHHHHccCcHHHHHHHHHHHHhCC-CCCCH
Q 022531           19 DLMTKVFGIHSGERYFEGLPLSAKTS------------------ETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA   79 (295)
Q Consensus        19 ~~~~~~~~~~~A~~~~~~~~~~~p~~------------------~~~~~li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~   79 (295)
                      ..+.+.|++++|.+.|..+....|+.                  ..+..++..|...|++++|.+.+.++...- -.++.
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            44556677777777776665543210                  124555666666666666666666554321 00111


Q ss_pred             ----HHHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CC---
Q 022531           80 ----LMYNEMMTLYMSVGQVEKVALVVEEIKR----KNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDS-GG---  146 (295)
Q Consensus        80 ----~~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~---  146 (295)
                          .+.+.+-..+...|++++|..++++...    .+..+. ..++..+...+...|++++|..+++++.... +.   
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                1122222333344556666666555432    122222 2344555555666666666666665554321 11   


Q ss_pred             CCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhc---CCCc---cccHHHHHHHHHhcCCHHHHHHHHHH
Q 022531          147 SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI---TQRQ---WITYDFLIILYAGLGNKDKIDQIWKS  211 (295)
Q Consensus       147 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~  211 (295)
                      +....++..++..|...|++++|.. .+.......   ..|.   ...+..+...+...|++++|...|.+
T Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~  241 (434)
T 4b4t_Q          172 PSLVDVHLLESKVYHKLRNLAKSKA-SLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFE  241 (434)
T ss_dssp             THHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHhCcHHHHHH-HHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHH
Confidence            1112345555555666666666665 444443221   1110   12233344444455555555555543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.62  E-value=1.1e-06  Score=61.77  Aligned_cols=133  Identities=17%  Similarity=0.133  Sum_probs=72.4

Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC-c----cccHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CC----H
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSITQR-Q----WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT----S  221 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~----~  221 (295)
                      ++..+...+...|++++|.. .+.+........ +    ..++..+...+...|++++|.+.+++....... ++    .
T Consensus        11 ~~~~l~~~~~~~~~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   89 (164)
T 3ro3_A           11 AFGNLGNTHYLLGNFRDAVI-AHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA   89 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHH-HHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHH
Confidence            34444455555555555555 444443322110 0    124445555566666666666666654332100 11    2


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC----CCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          222 RNYICILSSYLMLGHLKEVGEIIDQWKQSATSD----FDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       222 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..+..+...+...|++++|.+.+++..+.....    ....++..+...+...|++++|.+.+++..+
T Consensus        90 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           90 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            345556667777777777777777665421101    1134566777778888888888888877664

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.59  E-value=1.3e-06  Score=58.77  Aligned_cols=96  Identities=7%  Similarity=-0.138  Sum_probs=75.1

Q ss_pred             ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHH
Q 022531          187 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  266 (295)
Q Consensus       187 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~  266 (295)
                      ..+..+...+.+.|++++|+..|++..... +-+...+..+..++...|++++|+..|++..+..  +.+...+..+..+
T Consensus        18 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~--P~~~~~~~~la~~   94 (121)
T 1hxi_A           18 ENPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVS   94 (121)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            345566677788888888888888887753 3356667778888888888888888888888754  3466778888888


Q ss_pred             HHccCChHHHHHHHHHHHh
Q 022531          267 FSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       267 ~~~~g~~~~a~~~~~~m~~  285 (295)
                      +...|++++|...+++.++
T Consensus        95 ~~~~g~~~~A~~~~~~al~  113 (121)
T 1hxi_A           95 HTNEHNANAALASLRAWLL  113 (121)
T ss_dssp             HHHHHHHHHHHHHHHHHHC
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            8888888888888888876

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.56  E-value=9.8e-05  Score=62.38  Aligned_cols=174  Identities=11%  Similarity=0.005  Sum_probs=87.3

Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHH------------------------
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK------------------------  152 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~------------------------  152 (295)
                      .+..+|+++.... +.+...|...+..+.+.|++++|..+|++....   |.+...                        
T Consensus       197 Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~~l~~~y~~~~e~~~~~~~l~~~~~~~  272 (493)
T 2uy1_A          197 RMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGMFLSLYYGLVMDEEAVYGDLKRKYSMG  272 (493)
T ss_dssp             HHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSSHHHHHHHHHTTCTHHHHHHHHHTC--
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcHHHHHHHHhhcchhHHHHHHHHHHHhh
Confidence            3455666655532 234555666666667777888888888777653   223222                        


Q ss_pred             ----------------HHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh-cCCHHHHHHHHHHHHhc
Q 022531          153 ----------------YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG-LGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       153 ----------------~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~  215 (295)
                                      |...+....+.+..+.|.. ++... . .+..+...|......-.. .++.+.|..+|+...+.
T Consensus       273 ~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~-i~~~A-~-~~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~  349 (493)
T 2uy1_A          273 EAESAEKVFSKELDLLRINHLNYVLKKRGLELFRK-LFIEL-G-NEGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK  349 (493)
T ss_dssp             --------CHHHHHHHHHHHHHHHHHHHCHHHHHH-HHHHH-T-TSCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH
T ss_pred             ccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHH-HHHHh-h-CCCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH
Confidence                            2222223333445555555 55554 1 111111222211111111 22466666666665543


Q ss_pred             cCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 022531          216 KQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  284 (295)
Q Consensus       216 ~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~  284 (295)
                      . .-++..+...++.....|+.+.|..+|+++.      .....|...+.--...|+.+.+..+++++.
T Consensus       350 ~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~------k~~~lw~~~~~fE~~~G~~~~~r~v~~~~~  411 (493)
T 2uy1_A          350 H-PDSTLLKEEFFLFLLRIGDEENARALFKRLE------KTSRMWDSMIEYEFMVGSMELFRELVDQKM  411 (493)
T ss_dssp             C-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC------CBHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH------HHHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            2 1122233444555555666666666666641      234556666655555677776666666665

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.53  E-value=2e-07  Score=62.45  Aligned_cols=82  Identities=16%  Similarity=0.065  Sum_probs=35.4

Q ss_pred             cChhHHHHHHhhcccC---CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHH
Q 022531           25 FGIHSGERYFEGLPLS---AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL  100 (295)
Q Consensus        25 ~~~~~A~~~~~~~~~~---~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  100 (295)
                      |++++|+..|++....   .| +...|..+..++...|++++|+..|++..+.. +-+..++..+..++.+.|++++|+.
T Consensus         4 g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~   82 (117)
T 3k9i_A            4 GLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGVE   82 (117)
T ss_dssp             ---CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHHH
Confidence            4444444444444443   12 33444444444444444444444444444432 2234444444444444444444444


Q ss_pred             HHHHHHh
Q 022531          101 VVEEIKR  107 (295)
Q Consensus       101 ~~~~m~~  107 (295)
                      .|++..+
T Consensus        83 ~~~~al~   89 (117)
T 3k9i_A           83 LLLKIIA   89 (117)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            4444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.53  E-value=1.8e-06  Score=58.46  Aligned_cols=91  Identities=7%  Similarity=-0.087  Sum_probs=42.9

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---hHhHHHHHHH
Q 022531           50 LLHLYAGAKWTEKAEELFERVKQSNLSFNA---LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD---IFTYNLWISS  123 (295)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~  123 (295)
                      +...+...|++++|...|++..+.. +.+.   ..+..+..++.+.|++++|...|++..+.... +   ...+..+..+
T Consensus         8 ~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A            8 VAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            3444444555555555555544432 1111   24444555555555555555555555443211 1   2334444555


Q ss_pred             HHccCCHHHHHHHHHHHhh
Q 022531          124 CAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~  142 (295)
                      +.+.|++++|...|+++..
T Consensus        86 ~~~~g~~~~A~~~~~~~~~  104 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVAT  104 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHH
Confidence            5555555555555555554

>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=98.52  E-value=0.00019  Score=56.93  Aligned_cols=220  Identities=10%  Similarity=-0.060  Sum_probs=155.7

Q ss_pred             HccCcH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           55 AGAKWT-EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ----------VEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        55 ~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      .+.|.+ ++|+++++.+...+ |-+..+|+.--..+...+.          +++++.+++.+.....+ +..+|+.-.-.
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~PK-ny~aW~hR~wl  117 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVNPK-SYGTWHHRCWL  117 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            345554 48999999999886 4456677765444444333          67899999998886443 66778777777


Q ss_pred             HHccC--CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc-hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhc-
Q 022531          124 CAATL--NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH-LVNAESSTLVEAEKSITQRQWITYDFLIILYAGL-  199 (295)
Q Consensus       124 ~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-  199 (295)
                      +.+.+  .+++++.+++.+...  .+-+..+|+.-.-++...|. ++++.+ .+..+....+. |...|+.....+.+. 
T Consensus       118 L~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~-~~~~~I~~~p~-N~SAW~~R~~ll~~l~  193 (331)
T 3dss_A          118 LSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELA-FTDSLITRNFS-NYSSWHYRSCLLPQLH  193 (331)
T ss_dssp             HHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHH-HHHHHHHHCSC-CHHHHHHHHHHHHHHS
T ss_pred             HhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHH-HHHHHHHHCCC-CHHHHHHHHHHHHHhh
Confidence            77777  489999999999985  36688888888888888888 589999 88888876654 777888766655554 


Q ss_pred             -------------CCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhc-----------CChHHHHHHHHHHhhhcCCCC
Q 022531          200 -------------GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML-----------GHLKEVGEIIDQWKQSATSDF  255 (295)
Q Consensus       200 -------------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-----------~~~~~A~~~~~~~~~~~~~~~  255 (295)
                                   +.++++++.+....... +-|...|+-+-..+.+.           +.++++++.++++.+..   |
T Consensus       194 ~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle~~---p  269 (331)
T 3dss_A          194 PQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQELE---P  269 (331)
T ss_dssp             CCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHHHC---T
T ss_pred             hccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHhhC---c
Confidence                         45788899998887764 33555565444444444           45789999999998854   4


Q ss_pred             CHHHHHHHHH-----HHHccCChHHHHHHHHHHHh
Q 022531          256 DISACNRLLG-----AFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       256 ~~~~~~~l~~-----~~~~~g~~~~a~~~~~~m~~  285 (295)
                      |. .|+.+..     +....|..+++...+.++++
T Consensus       270 d~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          270 EN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             TC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             cc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            43 3433222     22246778888999998876

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.52  E-value=1.5e-06  Score=61.15  Aligned_cols=95  Identities=8%  Similarity=0.020  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC----hHhHHHHHHHHHccCCHHHHHHHHHHHhhcC---CCC-CCHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PD----IFTYNLWISSCAATLNIDQVKKFLDEMSCDS---GGS-DDWV  151 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~-~~~~  151 (295)
                      ++..+...+...|++++|+..+++..+.... ++    ..++..+...+...|++++|...+++.....   +.+ ....
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            3444444555555555555555444331100 00    1234444445555555555555555443310   000 0122


Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHH
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      ++..+..++...|++++|.+ .+.+
T Consensus        91 ~~~~l~~~~~~~~~~~~A~~-~~~~  114 (164)
T 3ro3_A           91 SCYSLGNTYTLLQDYEKAID-YHLK  114 (164)
T ss_dssp             HHHHHHHHHHHTTCHHHHHH-HHHH
T ss_pred             HHHHHHHHHHHHhhHHHHHH-HHHH
Confidence            34444444455555555555 4433

>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=98.52  E-value=2.5e-07  Score=77.99  Aligned_cols=120  Identities=8%  Similarity=-0.051  Sum_probs=96.1

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV   95 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~   95 (295)
                      +...+.+.|++++|.+.|++..+..| +..+|..+..++.+.|++++|++.+++..+.. +.+..+|..+..+|...|++
T Consensus        12 lg~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           12 QANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCH
Confidence            34456678999999999999888777 68899999999999999999999999999875 45688999999999999999


Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHH--HHccCCHHHHHHHHH
Q 022531           96 EKVALVVEEIKRKNVVPDIFTYNLWISS--CAATLNIDQVKKFLD  138 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~p~~~~~~~li~~--~~~~~~~~~a~~~~~  138 (295)
                      ++|++.|++..+.... +...+..+..+  +.+.|++++|++.++
T Consensus        91 ~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999998875322 34455555555  788899999999988

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.50  E-value=5.6e-06  Score=56.01  Aligned_cols=92  Identities=10%  Similarity=-0.045  Sum_probs=54.4

Q ss_pred             HHHHHHHhccChhHHHHHHhhcccCCCC-H---HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC---HHHHHHHHHH
Q 022531           16 TRIDLMTKVFGIHSGERYFEGLPLSAKT-S---ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---ALMYNEMMTL   88 (295)
Q Consensus        16 ~li~~~~~~~~~~~A~~~~~~~~~~~p~-~---~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~   88 (295)
                      .+...+.+.|++++|...|+.+....|+ .   ..+..+..++.+.|++++|...|++..+.. +.+   ..++..+..+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY-PTHDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTSTTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHH
Confidence            3445555666666666666666554442 2   355566666666666666666666665543 122   4455666666


Q ss_pred             HHhcCCHHHHHHHHHHHHhC
Q 022531           89 YMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~  108 (295)
                      +...|++++|...|+++.+.
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHH
Confidence            66666666666666666553

>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=98.49  E-value=2.7e-06  Score=69.14  Aligned_cols=124  Identities=9%  Similarity=-0.035  Sum_probs=92.8

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhC---------------CCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQS---------------NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKN  109 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~---------------~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~  109 (295)
                      ..|..+...+.+.|++++|+..|++..+.               .-+.+..+|..+..+|.+.|++++|++.+++..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            45777888888889999999988887761               012245678888888888888888888888888753


Q ss_pred             CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHH
Q 022531          110 VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAES  171 (295)
Q Consensus       110 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  171 (295)
                      . .+...+..+..++...|++++|+..|+++.+.  .+.+..++..+..++.+.++.+++.+
T Consensus       304 p-~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 P-SNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             T-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             c-hhHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            2 25677888888888888888888888888774  24466677777777777777776655

>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=98.48  E-value=1.9e-06  Score=72.20  Aligned_cols=130  Identities=9%  Similarity=-0.073  Sum_probs=106.3

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-C---------------HHHHHHHHHHHHccCcHHHHHHHHHHHHhCC
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-T---------------SETYTALLHLYAGAKWTEKAEELFERVKQSN   74 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~---------------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   74 (295)
                      ...|..+...+.+.|++++|...|+......| +               ...|..+..++.+.|++++|+..|++.++..
T Consensus       268 a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  347 (457)
T 1kt0_A          268 AAIVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD  347 (457)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            34677888999999999999999999887655 3               5899999999999999999999999999875


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHH-HHHHHhh
Q 022531           75 LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK-FLDEMSC  142 (295)
Q Consensus        75 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~-~~~~~~~  142 (295)
                       +.+...|..+..+|...|++++|+..|++..+... -+...+..+..++.+.++.+++.+ .+..|..
T Consensus       348 -p~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P-~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          348 -SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNP-QNKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             -CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence             45788999999999999999999999999998632 245678888888888888887764 4555543

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.48  E-value=7.6e-07  Score=59.52  Aligned_cols=87  Identities=13%  Similarity=-0.055  Sum_probs=49.0

Q ss_pred             cCchhhHHHHHHHHHHHhc--CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          163 ASHLVNAESSTLVEAEKSI--TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      .|++++|.. .+.+....+  .+.+...+..+...|...|++++|+..|++..+.. +-+...+..+..++...|++++|
T Consensus         3 ~g~~~~A~~-~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A   80 (117)
T 3k9i_A            3 LGLEAQAVP-YYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQG   80 (117)
T ss_dssp             ----CCCHH-HHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CCcHHHHHH-HHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHH
Confidence            455666666 555555432  12234555666666666666666666666665543 22345555666666677777777


Q ss_pred             HHHHHHHhhhc
Q 022531          241 GEIIDQWKQSA  251 (295)
Q Consensus       241 ~~~~~~~~~~~  251 (295)
                      .+.+++.....
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            77776666544

>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=98.47  E-value=2.3e-06  Score=69.54  Aligned_cols=122  Identities=5%  Similarity=-0.116  Sum_probs=100.9

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhccc----------------CCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCC
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPL----------------SAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSN   74 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~----------------~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~   74 (295)
                      ..+..+...+.+.|++++|...|+....                ..| +..+|..+..++.+.|++++|+..+++..+..
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~  303 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID  303 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC
Confidence            3477788899999999999999998876                334 67889999999999999999999999999875


Q ss_pred             CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHH
Q 022531           75 LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        75 ~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  135 (295)
                       +.+...|..+..+|...|++++|++.|++..+... .+...+..+...+...++.+++.+
T Consensus       304 -p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P-~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 -PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAP-EDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             -TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             -chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHHHHHHHHHH
Confidence             45788999999999999999999999999988532 256667777777777776666544

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.47  E-value=9.8e-07  Score=62.70  Aligned_cols=99  Identities=12%  Similarity=0.101  Sum_probs=70.8

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhC--------C---------CCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQS--------N---------LSFNALMYNEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~--------~---------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      ...+......+.+.|++++|+..|++....        .         -+.+...|..+..+|.+.|++++|+..+++..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            445666677777777777777777766653        0         01234577788888888888888888888877


Q ss_pred             hCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531          107 RKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       107 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      +... .+...|..+..++...|++++|...|++....
T Consensus        91 ~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           91 KREE-TNEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHST-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             hcCC-cchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            7532 25667777888888888888888888887764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.46  E-value=2.2e-06  Score=60.82  Aligned_cols=102  Identities=9%  Similarity=0.011  Sum_probs=87.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccC------------------CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLS------------------AK-TSETYTALLHLYAGAKWTEKAEELFERVK   71 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~------------------~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~   71 (295)
                      ...+......+.+.|++++|...|......                  .| +...|..+..++.+.|++++|+..+++.+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~al   90 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEVL   90 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHH
Confidence            456778889999999999999999987664                  23 35689999999999999999999999999


Q ss_pred             hCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChH
Q 022531           72 QSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF  115 (295)
Q Consensus        72 ~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  115 (295)
                      +.+ +.+...|..+..+|...|++++|...|++..+.  .|+..
T Consensus        91 ~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l--~p~~~  131 (162)
T 3rkv_A           91 KRE-ETNEKALFRRAKARIAAWKLDEAEEDLKLLLRN--HPAAA  131 (162)
T ss_dssp             HHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CGGGH
T ss_pred             hcC-CcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhc--CCCCH
Confidence            875 557889999999999999999999999999885  45543

>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=98.45  E-value=2e-06  Score=72.41  Aligned_cols=124  Identities=13%  Similarity=-0.002  Sum_probs=98.0

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                      +..+...+.+.|++++|.+.|++..+.. +.+..+|..+..+|.+.|++++|++.+++..+... .+..++..+..+|.+
T Consensus         9 ~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p-~~~~~~~~lg~~~~~   86 (477)
T 1wao_1            9 LKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMA   86 (477)
T ss_dssp             SSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCT-TCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHH
Confidence            3444556678899999999999998874 44688999999999999999999999999998643 357789999999999


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH--HHhcCchhhHHHHHHH
Q 022531          127 TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI--YITASHLVNAESSTLV  175 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~a~~~~~~  175 (295)
                      .|++++|.+.|++..+..  +.+..++..+..+  +.+.|++++|.+ .++
T Consensus        87 ~g~~~eA~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~g~~~~A~~-~~~  134 (477)
T 1wao_1           87 LGKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIA-GDE  134 (477)
T ss_dssp             HTCHHHHHHHHHHHHHHS--TTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             cCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHhc-ccc
Confidence            999999999999988752  3344455555555  888899999999 666

>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=98.35  E-value=3.6e-05  Score=66.15  Aligned_cols=187  Identities=6%  Similarity=-0.039  Sum_probs=144.8

Q ss_pred             HHHHHHHHHH---Hhc-cChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCc----------HHHHHHHHHHHHhCCCC
Q 022531           12 SDYATRIDLM---TKV-FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKW----------TEKAEELFERVKQSNLS   76 (295)
Q Consensus        12 ~~~~~li~~~---~~~-~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~----------~~~a~~~~~~m~~~~~~   76 (295)
                      ..|..++..+   .+. ..-++|.+.++.+....| +..+|+.--.++...|+          ++++++.++++.+.. +
T Consensus        26 ~~y~~~~~~~~~~~~~~~~~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-p  104 (567)
T 1dce_A           26 KLYQSATQAVFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-P  104 (567)
T ss_dssp             HHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-T
T ss_pred             HHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-C
Confidence            3455444433   233 346688999999988877 67788887777776666          999999999999875 5


Q ss_pred             CCHHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC-CHHHHHHHHHHHhhcCCCCCCHHHH
Q 022531           77 FNALMYNEMMTLYMSVG--QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL-NIDQVKKFLDEMSCDSGGSDDWVKY  153 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~  153 (295)
                      -+..+|+.-...+.+.+  +++++++.++++.+.... +..+|+.-.-.+.+.| .++++++.+.++.+.  .+-+..+|
T Consensus       105 K~y~aW~hR~w~l~~l~~~~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~--~p~n~saW  181 (567)
T 1dce_A          105 KSYGTWHHRCWLLSRLPEPNWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSW  181 (567)
T ss_dssp             TCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHH
T ss_pred             CCHHHHHHHHHHHHHcccccHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHH--CCCCccHH
Confidence            67889999999999999  789999999999997554 7788888888888888 899999999999874  46678888


Q ss_pred             HHHHHHHHhc--------------CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHH
Q 022531          154 VNLVNIYITA--------------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK  204 (295)
Q Consensus       154 ~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  204 (295)
                      +.....+.+.              +.++++.+ .+.......+. |...|+-+-..+.+.++.++
T Consensus       182 ~~r~~ll~~l~~~~~~~~~~~~~~~~~~eel~-~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          182 HYRSCLLPQLHPQPDSGPQGRLPENVLLKELE-LVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             HHHHHHHHHHSCCCCSSSCCSSCHHHHHHHHH-HHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             HHHHHHHHhhcccccccccccccHHHHHHHHH-HHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence            8877777663              55788888 77777766544 77888887777777666433

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.30  E-value=1.7e-06  Score=69.54  Aligned_cols=98  Identities=6%  Similarity=-0.085  Sum_probs=47.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  160 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  160 (295)
                      .|..+..+|.+.|++++|+..+++..+... .+...|..+..+|...|++++|...|++....  .+.+..++..+....
T Consensus       232 ~~~nla~~~~~~g~~~~A~~~~~~al~~~p-~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~  308 (338)
T 2if4_A          232 CHLNIAACLIKLKRYDEAIGHCNIVLTEEE-KNPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALA  308 (338)
T ss_dssp             HHHHHHHHHHTTTCCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHH
Confidence            677788888888888888888888777532 25677788888888888888888888887753  233445555555542


Q ss_pred             -HhcCchhhHHHHHHHHHHHhcC
Q 022531          161 -ITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       161 -~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                       ...+..+.+.. .+..++...+
T Consensus       309 ~~~~~~~~~a~~-~~~~~l~~~p  330 (338)
T 2if4_A          309 EQEKALYQKQKE-MYKGIFKGKD  330 (338)
T ss_dssp             -----------------------
T ss_pred             HHHHHHHHHHHH-HHHHhhCCCC
Confidence             33455666666 7777765543

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.27  E-value=3.4e-06  Score=67.70  Aligned_cols=149  Identities=11%  Similarity=-0.018  Sum_probs=80.7

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  123 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  123 (295)
                      ...+..+...+.+.|++++|...|++.....  |+...       +...++.+++...+.          ...|..+..+
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~~  239 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAAC  239 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHHH
Confidence            4456666777777777777777777766542  33221       222333333332221          1367888889


Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHH-HHhcCCH
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIIL-YAGLGNK  202 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~  202 (295)
                      +.+.|++++|+..+++....  .+.+..++..+..+|...|++++|.. .+.+.....+. +...+..+... ....+..
T Consensus       240 ~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~-~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~  315 (338)
T 2if4_A          240 LIKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARD-DFRKAQKYAPD-DKAIRRELRALAEQEKALY  315 (338)
T ss_dssp             HHTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHH-HHHHTTC------------------------
T ss_pred             HHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHCCC-CHHHHHHHHHHHHHHHHHH
Confidence            99999999999999998875  35578889999999999999999999 88877654433 45556555554 3345677


Q ss_pred             HHHHHHHHHHHhc
Q 022531          203 DKIDQIWKSLRMT  215 (295)
Q Consensus       203 ~~a~~~~~~m~~~  215 (295)
                      +++..+|..|...
T Consensus       316 ~~a~~~~~~~l~~  328 (338)
T 2if4_A          316 QKQKEMYKGIFKG  328 (338)
T ss_dssp             -------------
T ss_pred             HHHHHHHHHhhCC
Confidence            8888888888654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.27  E-value=5.3e-06  Score=69.73  Aligned_cols=98  Identities=3%  Similarity=-0.146  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh-----CC-CCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHhh-----cCCCCC
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKR-----KN-VVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSC-----DSGGSD  148 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~-~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~-----~~~~~~  148 (295)
                      +++.|...|...|++++|+.++++.++     .| -.|+ ..+++.|...|...|++++|..++++...     .+...|
T Consensus       353 ~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~Hp  432 (490)
T 3n71_A          353 LLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRAGLTNWHAGHIEVGHGMICKAYAILLVTHGPSHP  432 (490)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTSH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCCh
Confidence            444444444444454444444444332     11 1111 23344444455555555555544444322     011111


Q ss_pred             -CHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Q 022531          149 -DWVKYVNLVNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       149 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                       ...+.+.+-.++...+.+++|+. ++..+.+
T Consensus       433 ~~~~~~~~l~~~~~e~~~~~~ae~-~~~~~~~  463 (490)
T 3n71_A          433 ITKDLEAMRMQTEMELRMFRQNEF-MYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence             12233344444455555555555 4444443

>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=98.26  E-value=1.2e-05  Score=56.32  Aligned_cols=97  Identities=6%  Similarity=-0.083  Sum_probs=57.4

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCC------CC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLS------FN-----ALMYNEMMTLYMSVGQVEKVALVVEEIKRK-----N  109 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~------p~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~  109 (295)
                      .+......+.+.|++++|+..|++.++..-.      .+     ...|+.+..++.+.|++++|+..+++.++.     .
T Consensus        13 ~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e   92 (159)
T 2hr2_A           13 LALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGE   92 (159)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcccc
Confidence            4444555555555555555555555543200      01     226777777777777777777777766653     1


Q ss_pred             CCCC-hHhH----HHHHHHHHccCCHHHHHHHHHHHhh
Q 022531          110 VVPD-IFTY----NLWISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       110 ~~p~-~~~~----~~li~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      +.|+ ...|    .....++...|++++|+..|++..+
T Consensus        93 ~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           93 LNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             TTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            1443 4456    6677777777777777777777654

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.25  E-value=5.2e-06  Score=55.12  Aligned_cols=78  Identities=9%  Similarity=-0.047  Sum_probs=55.3

Q ss_pred             HHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531           29 SGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR  107 (295)
Q Consensus        29 ~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~  107 (295)
                      +|...|+......| +...|..+...+...|++++|...|++..+.+ +.+...|..+..+|...|++++|...|++..+
T Consensus         3 ~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            3 AITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             CHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            45666666666555 66777777777777777777777777777654 34566777777777777777777777777665

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.21  E-value=1.6e-06  Score=56.99  Aligned_cols=64  Identities=9%  Similarity=0.078  Sum_probs=39.6

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      ...|..+...+...|++++|...|++..+.. +.+...|..+..++.+.|++++|++.|++..+.
T Consensus         4 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            4 FEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            4455566666666666666666666666543 335556666666666666666666666666653

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.19  E-value=3.9e-06  Score=58.57  Aligned_cols=98  Identities=11%  Similarity=0.002  Sum_probs=69.3

Q ss_pred             HhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcH----------HHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           22 TKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWT----------EKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        22 ~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      .+.+.+++|.+.++...+..| +...|+.+..++...+++          ++|+..|++.++.+ +-+..+|..+..+|.
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~   91 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHH
Confidence            456778888888888877766 788888888888877664          48888888877765 345677888888887


Q ss_pred             hcC-----------CHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           91 SVG-----------QVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        91 ~~~-----------~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      ..|           ++++|++.|++..+  +.|+...|...+.
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~~al~  132 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            664           67777777777766  3555555544443

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.16  E-value=2.4e-05  Score=51.78  Aligned_cols=80  Identities=8%  Similarity=-0.023  Sum_probs=62.6

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           62 KAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        62 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      .|+..|++..+.. +.+...+..+...|...|++++|+..|++..+... .+...|..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p-~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDP-TYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4667777777764 45678888888888899999999999988887532 246678888888888899999998888876


Q ss_pred             hc
Q 022531          142 CD  143 (295)
Q Consensus       142 ~~  143 (295)
                      ..
T Consensus        81 ~~   82 (115)
T 2kat_A           81 AA   82 (115)
T ss_dssp             HH
T ss_pred             Hh
Confidence            53

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.16  E-value=2.9e-05  Score=65.30  Aligned_cols=125  Identities=9%  Similarity=-0.045  Sum_probs=88.0

Q ss_pred             HhcCCHHHHHHHHHHHHhC-----C-CCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc-----CCCCC-CHHHHHHH
Q 022531           90 MSVGQVEKVALVVEEIKRK-----N-VVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD-----SGGSD-DWVKYVNL  156 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~-----~-~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~~~~l  156 (295)
                      ...|++++|+.++++.++.     | -.| ...+++.|...|...|++++|..++++...-     +...| ...+++.|
T Consensus       320 ~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nL  399 (490)
T 3n71_A          320 RSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMRA  399 (490)
T ss_dssp             HTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHH
T ss_pred             HhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHH
Confidence            3567888888888776542     1 122 2456888888999999999999888876541     12233 34568889


Q ss_pred             HHHHHhcCchhhHHHHHHHHHHH-----hcC-CCc-cccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          157 VNIYITASHLVNAESSTLVEAEK-----SIT-QRQ-WITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~-----~~~-~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      ...|...|++++|.. ++++...     .|+ .|+ ..+.+.+-.++...+.+++|+.+|..+++.
T Consensus       400 a~~~~~~G~~~eA~~-~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~  464 (490)
T 3n71_A          400 GLTNWHAGHIEVGHG-MICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMREA  464 (490)
T ss_dssp             HHHHHHTTCHHHHHH-HHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999999 7776653     122 222 234566677788888899999999888764

>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=98.15  E-value=6.8e-05  Score=52.41  Aligned_cols=63  Identities=10%  Similarity=-0.067  Sum_probs=40.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhh----cC-CCCCHHHH----HHHHHHHHccCChHHHHHHHHHHHh
Q 022531          223 NYICILSSYLMLGHLKEVGEIIDQWKQS----AT-SDFDISAC----NRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       223 ~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~-~~~~~~~~----~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .|..+..++.+.|++++|+..+++..+.    +. .+.+...|    .....++...|++++|+..|++.++
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            5556666666666666666666666653    00 12345566    7777777777777777777777664

>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=98.14  E-value=5.9e-05  Score=51.90  Aligned_cols=110  Identities=12%  Similarity=-0.048  Sum_probs=66.1

Q ss_pred             cChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHH
Q 022531           25 FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQVEKVAL  100 (295)
Q Consensus        25 ~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~  100 (295)
                      +++++|.+.|+...+.+. ....  |...|...+.+++|.+.|++..+.|   ++..+..|...|..    .+++++|++
T Consensus         9 ~d~~~A~~~~~~aa~~g~-~~a~--lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~   82 (138)
T 1klx_A            9 KDLKKAIQYYVKACELNE-MFGC--LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQ   82 (138)
T ss_dssp             HHHHHHHHHHHHHHHTTC-TTHH--HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHH
T ss_pred             cCHHHHHHHHHHHHcCCC-Hhhh--HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHHH
Confidence            345666666666655432 1222  5555555566666777776666665   45666666666666    566667777


Q ss_pred             HHHHHHhCCCCCChHhHHHHHHHHHc----cCCHHHHHHHHHHHhhc
Q 022531          101 VVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       101 ~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~~~~~  143 (295)
                      +|++..+.|   +...+..|...|..    .+++++|...|++..+.
T Consensus        83 ~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~  126 (138)
T 1klx_A           83 YYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRL  126 (138)
T ss_dssp             HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHC
Confidence            766666653   34455555556655    56666666666666554

>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=98.11  E-value=0.00032  Score=60.28  Aligned_cols=172  Identities=10%  Similarity=-0.051  Sum_probs=99.3

Q ss_pred             HHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC----------HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC-
Q 022531           96 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN----------IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS-  164 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-  164 (295)
                      ++|++.++++...+.. +..+|+.--.++.+.|+          ++++++.++.+...  .+-+..+|+.-.-++.+.+ 
T Consensus        46 eeal~~~~~~l~~nP~-~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~--~pK~y~aW~hR~w~l~~l~~  122 (567)
T 1dce_A           46 ESVLELTSQILGANPD-FATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV--NPKSYGTWHHRCWLLSRLPE  122 (567)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCSS
T ss_pred             HHHHHHHHHHHHHCch-hHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHccc
Confidence            4455555555553221 23334444444444444          56666666666653  2445556665555566666 


Q ss_pred             -chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcC-CHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhc--------
Q 022531          165 -HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG-NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML--------  234 (295)
Q Consensus       165 -~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~--------  234 (295)
                       +++++.+ .++++.+..+. |..+|+.-...+.+.| .++++++.++++.+... -|...|+.....+.+.        
T Consensus       123 ~~~~~el~-~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p-~n~saW~~r~~ll~~l~~~~~~~~  199 (567)
T 1dce_A          123 PNWARELE-LCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNF-SNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             CCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTC-CCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             ccHHHHHH-HHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCC-CCccHHHHHHHHHHhhcccccccc
Confidence             4466666 66666554433 5556665555555566 66666666666655432 2444455444443332        


Q ss_pred             ------CChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHH
Q 022531          235 ------GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEK  275 (295)
Q Consensus       235 ------~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  275 (295)
                            +.++++++.+++.....  +-|...|..+-..+.+.++.++
T Consensus       200 ~~~~~~~~~~eel~~~~~ai~~~--P~~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          200 QGRLPENVLLKELELVQNAFFTD--PNDQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CCSSCHHHHHHHHHHHHHHHHHC--SSCSHHHHHHHHHHSCCCCCSC
T ss_pred             cccccHHHHHHHHHHHHHHHhhC--CCCccHHHHHHHHHhcCCCccc
Confidence                  45788889998888754  4577888888888887776444

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.08  E-value=3.4e-05  Score=50.41  Aligned_cols=92  Identities=7%  Similarity=-0.146  Sum_probs=68.3

Q ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC------H
Q 022531           77 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD------W  150 (295)
Q Consensus        77 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~  150 (295)
                      ++...|..+...+...|++++|++.|++..+... .+...+..+..++.+.|++++|+..+++....  .+.+      .
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~   78 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQP-QNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRS   78 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHH
Confidence            3566788888889999999999999998887532 35677888888899999999999999998864  2223      4


Q ss_pred             HHHHHHHHHHHhcCchhhHHH
Q 022531          151 VKYVNLVNIYITASHLVNAES  171 (295)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~  171 (295)
                      ..+..+..++...|+.+.|..
T Consensus        79 ~~~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           79 KLQYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHHHhHhhhHh
Confidence            455566666666666665554

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.08  E-value=2.9e-05  Score=48.70  Aligned_cols=82  Identities=11%  Similarity=0.079  Sum_probs=50.7

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      +...|..+...+...|++++|...|++..+.. +.+..++..+..++.+.|++++|...|++..+... .+...+..+..
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p-~~~~~~~~l~~   85 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCHHHHHHHHH
Confidence            34566666667777777777777777666553 33566666777777777777777777777666422 23445555555


Q ss_pred             HHHc
Q 022531          123 SCAA  126 (295)
Q Consensus       123 ~~~~  126 (295)
                      ++.+
T Consensus        86 ~~~~   89 (91)
T 1na3_A           86 AKQK   89 (91)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            4443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.01  E-value=8.8e-05  Score=46.41  Aligned_cols=82  Identities=9%  Similarity=0.003  Sum_probs=51.8

Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           79 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        79 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      ...+..+...+...|++++|+..|++..+... .+...+..+..++.+.|++++|...|++....  .+.+..++..+..
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~l~~   85 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAKQNLGN   85 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCHHHHHHHHH
Confidence            45566666777777777777777777665422 24556666677777777777777777776654  2344555556655


Q ss_pred             HHHhc
Q 022531          159 IYITA  163 (295)
Q Consensus       159 ~~~~~  163 (295)
                      ++.+.
T Consensus        86 ~~~~~   90 (91)
T 1na3_A           86 AKQKQ   90 (91)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            55443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.00  E-value=3.3e-05  Score=49.81  Aligned_cols=63  Identities=16%  Similarity=0.084  Sum_probs=33.0

Q ss_pred             CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           43 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      +...|..+...+...|++++|+..|++..+.+ +.+..+|..+..+|...|++++|.+.|++..
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44455555555555555555555555555443 2234455555555555555555555555544

>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=97.94  E-value=0.00043  Score=47.48  Aligned_cols=110  Identities=11%  Similarity=-0.032  Sum_probs=59.5

Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc----cCCHHHH
Q 022531           58 KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQV  133 (295)
Q Consensus        58 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a  133 (295)
                      +++++|.+.|++..+.| .|+..    |...|...+..++|+++|++..+.|   +...+..|...|..    .+++++|
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHH
Confidence            34566666666666665 22222    5555555555666666666665542   34455555555555    5566666


Q ss_pred             HHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchhhHHHHHHHHHHHh
Q 022531          134 KKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~  180 (295)
                      ...|++..+. |   +...+..+..+|..    .++.++|.+ ++.+..+.
T Consensus        81 ~~~~~~Aa~~-g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~-~~~~Aa~~  126 (138)
T 1klx_A           81 AQYYSKACGL-N---DQDGCLILGYKQYAGKGVVKNEKQAVK-TFEKACRL  126 (138)
T ss_dssp             HHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCHHHHHH-HHHHHHHT
T ss_pred             HHHHHHHHcC-C---CHHHHHHHHHHHHCCCCCCcCHHHHHH-HHHHHHHC
Confidence            6666665553 2   34445555555555    555555555 55554443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.87  E-value=8.7e-05  Score=47.78  Aligned_cols=60  Identities=15%  Similarity=-0.005  Sum_probs=27.7

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          188 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       188 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      .+..+...|...|++++|++.|++..+.. +.+...|..+..+|...|++++|.+.|++..
T Consensus         9 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            9 TRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34444444445555555555555444432 1123334444455555555555555554443

>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=97.83  E-value=8.2e-05  Score=51.92  Aligned_cols=99  Identities=13%  Similarity=0.063  Sum_probs=75.1

Q ss_pred             HccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH----------HHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           55 AGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV----------EKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        55 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~----------~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      .+.+.+++|...+++..+.. +.+...|+.+..++...+++          ++|+..|++..+.... +..+|..+..+|
T Consensus        13 ~r~~~feeA~~~~~~Ai~l~-P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~-~~~A~~~LG~ay   90 (158)
T 1zu2_A           13 DRILLFEQIRQDAENTYKSN-PLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPK-KDEAVWCIGNAY   90 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcC-cHHHHHHHHHHH
Confidence            35567889999999988875 56788999888888888765          5899999888885332 466788888888


Q ss_pred             HccC-----------CHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531          125 AATL-----------NIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus       125 ~~~~-----------~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      ...|           ++++|++.|++..+.   .|+...|...+.
T Consensus        91 ~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l---~P~~~~y~~al~  132 (158)
T 1zu2_A           91 TSFAFLTPDETEAKHNFDLATQFFQQAVDE---QPDNTHYLKSLE  132 (158)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHHH---CTTCHHHHHHHH
T ss_pred             HHhcccCcchhhhhccHHHHHHHHHHHHHh---CCCCHHHHHHHH
Confidence            7764           788999999888875   466555554444

>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=97.69  E-value=0.0014  Score=52.48  Aligned_cols=136  Identities=14%  Similarity=0.078  Sum_probs=79.4

Q ss_pred             CHHHHHHHHHHHH--cc---CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh---cC--CHHHH---HHHHHHHHh-C
Q 022531           43 TSETYTALLHLYA--GA---KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS---VG--QVEKV---ALVVEEIKR-K  108 (295)
Q Consensus        43 ~~~~~~~li~~~~--~~---~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~---~~--~~~~a---~~~~~~m~~-~  108 (295)
                      +...|...+++..  ..   .+..+|..+|++..+.+ |-....|-.+..+|..   .+  .....   ...++.... .
T Consensus       193 ~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~lD-P~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~~  271 (372)
T 3ly7_A          193 RGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQSS-PEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTLP  271 (372)
T ss_dssp             SGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTCG
T ss_pred             CHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhcc
Confidence            5566666555432  22   23567888888877764 2223444433333321   11  11111   112222111 1


Q ss_pred             CCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC
Q 022531          109 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  183 (295)
Q Consensus       109 ~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (295)
                      ..+.+..+|..+...+...|++++|...++++... +  |+...|..+...+.-.|++++|.+ .+.+.....+.
T Consensus       272 ~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~L-n--~s~~a~~llG~~~~~~G~~~eA~e-~~~~AlrL~P~  342 (372)
T 3ly7_A          272 ELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDL-E--MSWLNYVLLGKVYEMKGMNREAAD-AYLTAFNLRPG  342 (372)
T ss_dssp             GGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH-C--CCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHSCS
T ss_pred             cCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc-C--CCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHhcCCC
Confidence            12445667777666666678888888888888876 3  677777777788888888888888 77777666543

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.57  E-value=0.0068  Score=40.54  Aligned_cols=148  Identities=11%  Similarity=0.010  Sum_probs=80.8

Q ss_pred             HHHHHHH--HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHH
Q 022531          117 YNLWISS--CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  194 (295)
Q Consensus       117 ~~~li~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  194 (295)
                      ...|+.+  ..-.|..+++.++..+....    .+..-||.+|.-....-+-+-..+ +++.+   |...|.        
T Consensus         8 ~kkLmeAK~~ildG~v~qGveii~k~~~s----sni~E~NW~ICNiiD~a~C~y~v~-vLd~I---GkiFDi--------   71 (172)
T 1wy6_A            8 IRKLMDAKKFLLDGYIDEGVKIVLEITKS----STKSEYNWFICNLLESIDCRYMFQ-VLDKI---GSYFDL--------   71 (172)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHH----SCHHHHTHHHHHHHHHCCHHHHHH-HHHHH---GGGSCG--------
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHcCC----CCccccceeeeecchhhchhHHHH-HHHHH---hhhcCc--------
Confidence            3344444  34456777777777776654    233444444444444444443333 33322   222232        


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChH
Q 022531          195 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTE  274 (295)
Q Consensus       195 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  274 (295)
                        ...|+...+...+-.+     ..+...+...+..+...|+-|.-.+++..+....  +|+....-.+..+|.+.|+..
T Consensus        72 --s~C~NlKrVi~C~~~~-----n~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~--~~~~~~l~kia~Ay~Klg~~r  142 (172)
T 1wy6_A           72 --DKCQNLKSVVECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN--EVSASILVAIANALRRVGDER  142 (172)
T ss_dssp             --GGCSCTHHHHHHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C--CSCHHHHHHHHHHHHHTTCHH
T ss_pred             --HhhhcHHHHHHHHHHh-----cchHHHHHHHHHHHHHhccHhHHHHHHHHHhccC--CCChHHHHHHHHHHHHhcchh
Confidence              2334444444444332     2344455666667777777777777776654432  456666666777777777777


Q ss_pred             HHHHHHHHHHhcCCC
Q 022531          275 KANEFHMLLLQKNCA  289 (295)
Q Consensus       275 ~a~~~~~~m~~~g~~  289 (295)
                      +|.+++.++-++|++
T Consensus       143 ~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A          143 DATTLLIEACKKGEK  157 (172)
T ss_dssp             HHHHHHHHHHHTTCH
T ss_pred             hHHHHHHHHHHhhhH
Confidence            777777777776653

>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=97.54  E-value=0.00057  Score=56.55  Aligned_cols=92  Identities=12%  Similarity=-0.079  Sum_probs=64.3

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCC---CCC----CHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CC-CCCC-hHh
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSN---LSF----NALMYNEMMTLYMSVGQVEKVALVVEEIKR-----KN-VVPD-IFT  116 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~---~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~-~~p~-~~~  116 (295)
                      +..+.+.|++++|+.++++..+..   +.|    ...+++.|...|...|++++|+.++++...     .| ..|+ ..+
T Consensus       294 ie~~~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~  373 (429)
T 3qwp_A          294 IEELKAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQ  373 (429)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHH
T ss_pred             HHHHHhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHH
Confidence            334456788888888888776431   222    245778888888888888888888887653     22 2233 455


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhh
Q 022531          117 YNLWISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      ++.|...|...|++++|..++++..+
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~  399 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFD  399 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            78888888888888888888877544

>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=97.54  E-value=0.00022  Score=58.98  Aligned_cols=62  Identities=11%  Similarity=-0.056  Sum_probs=34.8

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CC-CCCC-hHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKR-----KN-VVPD-IFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~-~~p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      .+++.|...|...|++++|+.++++..+     .| -.|+ ..+++.|...|...|++++|+.++++..
T Consensus       341 ~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~~~~qg~~~eA~~~~~~Al  409 (433)
T 3qww_A          341 HMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRLYMGLENKAAGEKALKKAI  409 (433)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHhccCHHHHHHHHHHHH
Confidence            4556666666666666666666665442     12 1222 2346666666666666666666666543

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.49  E-value=0.00045  Score=43.98  Aligned_cols=59  Identities=14%  Similarity=0.095  Sum_probs=41.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCCHH-hHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          192 LIILYAGLGNKDKIDQIWKSLRMTKQKMTSR-NYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       192 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      ....+...|++++|++.+++..+.. +.+.. .+..+..+|...|++++|.+.|++..+..
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            3445667788888888887776653 22345 66677777788888888888888877754

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.46  E-value=0.011  Score=53.05  Aligned_cols=155  Identities=10%  Similarity=0.102  Sum_probs=101.2

Q ss_pred             HHHHHhccChhHHHH-HHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           18 IDLMTKVFGIHSGER-YFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        18 i~~~~~~~~~~~A~~-~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      .......+++++|.+ ++..++    +......++..+.+.|..++|+++.++-        .    .-.......|+++
T Consensus       606 ~~~~~~~~~~~~a~~~~l~~i~----~~~~~~~~~~~l~~~~~~~~a~~~~~~~--------~----~~f~~~l~~~~~~  669 (814)
T 3mkq_A          606 FQTLTLRGEIEEAIENVLPNVE----GKDSLTKIARFLEGQEYYEEALNISPDQ--------D----QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHHHTTCHHHHHHHTGGGCC----CHHHHHHHHHHHHHTTCHHHHHHHCCCH--------H----HHHHHHHHHTCHH
T ss_pred             HhHHHHhCCHHHHHHHHHhcCC----chHHHHHHHHHHHhCCChHHheecCCCc--------c----hheehhhhcCCHH
Confidence            344556899999988 765543    1233477888888999999998776321        1    1133456789999


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      +|+++.+.+      .+...|..+...+.+.++++.|.+.|.++..          |..+...|...|+.+...+ +.+.
T Consensus       670 ~A~~~~~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~-~~~~  732 (814)
T 3mkq_A          670 LARDLLTDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVT-LAKD  732 (814)
T ss_dssp             HHHHHHTTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHH-HHHH
T ss_pred             HHHHHHHhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHH-HHHH
Confidence            999986543      4678899999999999999999999998765          2345555666676666555 3332


Q ss_pred             HHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 022531          177 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKS  211 (295)
Q Consensus       177 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  211 (295)
                      ....+      -++.-..+|.+.|++++|++++.+
T Consensus       733 a~~~~------~~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          733 AETTG------KFNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHTT------CHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHcC------chHHHHHHHHHcCCHHHHHHHHHH
Confidence            22222      122333344455666665555543

>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=97.44  E-value=0.0044  Score=49.59  Aligned_cols=64  Identities=19%  Similarity=0.081  Sum_probs=39.9

Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          185 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       185 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      +..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.|++....
T Consensus       276 ~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          276 LSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            44555555555555667777777776666653  55555556666666677777777777666653

>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=97.43  E-value=0.0013  Score=54.39  Aligned_cols=88  Identities=5%  Similarity=-0.042  Sum_probs=66.0

Q ss_pred             hcCCHHHHHHHHHHHHhc---cCCCC----HHhHHHHHHHHHhcCChHHHHHHHHHHhhh-----cCCCCCH-HHHHHHH
Q 022531          198 GLGNKDKIDQIWKSLRMT---KQKMT----SRNYICILSSYLMLGHLKEVGEIIDQWKQS-----ATSDFDI-SACNRLL  264 (295)
Q Consensus       198 ~~g~~~~a~~~~~~m~~~---~~~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~-----~~~~~~~-~~~~~l~  264 (295)
                      ..|++++|+.++++..+.   -+.|+    ..+++.|..+|...|++++|+.++++..+-     |...|++ .+++.|.
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            457889999998876542   22333    255788999999999999999999887542     3334443 4688999


Q ss_pred             HHHHccCChHHHHHHHHHHHh
Q 022531          265 GAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..|...|++++|..++++.++
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999988764

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.42  E-value=0.00021  Score=45.57  Aligned_cols=57  Identities=16%  Similarity=0.084  Sum_probs=33.0

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      ...+.+.|++++|...|++..+.. +.+.. .|..+..+|...|++++|.+.|++..+.
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~   64 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIEL   64 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            344555566666666666665543 23445 5666666666666666666666666554

>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=97.37  E-value=0.0011  Score=54.89  Aligned_cols=89  Identities=11%  Similarity=0.069  Sum_probs=68.0

Q ss_pred             HhcCCHHHHHHHHHHHHhCC---CCC----ChHhHHHHHHHHHccCCHHHHHHHHHHHhhc-----CCCCC-CHHHHHHH
Q 022531           90 MSVGQVEKVALVVEEIKRKN---VVP----DIFTYNLWISSCAATLNIDQVKKFLDEMSCD-----SGGSD-DWVKYVNL  156 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~~---~~p----~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-----~~~~~-~~~~~~~l  156 (295)
                      .+.|++++|+.++++..+..   ..|    ...+++.+...|...|++++|+.+++++..-     +...| ...+++.|
T Consensus       298 ~~~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nL  377 (429)
T 3qwp_A          298 KAHWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKV  377 (429)
T ss_dssp             HHTTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHH
T ss_pred             HhhccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHH
Confidence            35678999999999887531   122    2467888999999999999999999876541     22233 34568899


Q ss_pred             HHHHHhcCchhhHHHHHHHHHHH
Q 022531          157 VNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                      ...|...|++++|.. ++.+..+
T Consensus       378 a~~~~~~g~~~eA~~-~~~~Al~  399 (429)
T 3qwp_A          378 GKLQLHQGMFPQAMK-NLRLAFD  399 (429)
T ss_dssp             HHHHHHTTCHHHHHH-HHHHHHH
T ss_pred             HHHHHhcCCHHHHHH-HHHHHHH
Confidence            999999999999999 8777664

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=97.20  E-value=0.0051  Score=42.43  Aligned_cols=82  Identities=9%  Similarity=-0.082  Sum_probs=51.1

Q ss_pred             hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcC---CHHHHHHHHHHHHhccCCC--CHHhHHHHHHHHHhcCChHHH
Q 022531          166 LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG---NKDKIDQIWKSLRMTKQKM--TSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~~~~~~A  240 (295)
                      ...+.+ .+......+. ++..+...+..++++.+   +.++++.+++.+.+.. .|  +...+-.+.-+|.+.|++++|
T Consensus        14 l~~~~~-~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           14 LLKFEK-KFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHH-HHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHH-HHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            444555 4444444333 45566666666777766   5567888887777654 24  223333466667788888888


Q ss_pred             HHHHHHHhhh
Q 022531          241 GEIIDQWKQS  250 (295)
Q Consensus       241 ~~~~~~~~~~  250 (295)
                      .+.++.+.+.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            8888887774

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.19  E-value=0.014  Score=52.36  Aligned_cols=154  Identities=12%  Similarity=0.135  Sum_probs=100.2

Q ss_pred             HHHccCcHHHHHH-HHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHH
Q 022531           53 LYAGAKWTEKAEE-LFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID  131 (295)
Q Consensus        53 ~~~~~~~~~~a~~-~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~  131 (295)
                      .....+++++|.+ ++..     + |+......++..+.+.|.+++|.++.++       |.     .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~-----i-~~~~~~~~~~~~l~~~~~~~~a~~~~~~-------~~-----~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPN-----V-EGKDSLTKIARFLEGQEYYEEALNISPD-------QD-----QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGG-----C-CCHHHHHHHHHHHHHTTCHHHHHHHCCC-------HH-----HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhc-----C-CchHHHHHHHHHHHhCCChHHheecCCC-------cc-----hheehhhhcCCHH
Confidence            3345789999877 5522     1 1122337788888899999999876632       11     1133456789999


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHH
Q 022531          132 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKS  211 (295)
Q Consensus       132 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  211 (295)
                      .|.++.+.       ..+...|..+...+.+.++++.|.+ .|..+.+         |..+...|...|+.+...++-+.
T Consensus       670 ~A~~~~~~-------~~~~~~W~~la~~al~~~~~~~A~~-~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~  732 (814)
T 3mkq_A          670 LARDLLTD-------ESAEMKWRALGDASLQRFNFKLAIE-AFTNAHD---------LESLFLLHSSFNNKEGLVTLAKD  732 (814)
T ss_dssp             HHHHHHTT-------CCCHHHHHHHHHHHHHTTCHHHHHH-HHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHh-------hCcHhHHHHHHHHHHHcCCHHHHHH-HHHHccC---------hhhhHHHHHHcCCHHHHHHHHHH
Confidence            99988533       2466889999999999999999999 7775422         34455555667777766666665


Q ss_pred             HHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHH
Q 022531          212 LRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQW  247 (295)
Q Consensus       212 m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~  247 (295)
                      ....|.      ++....+|.+.|++++|.+++.++
T Consensus       733 a~~~~~------~~~A~~~~~~~g~~~~a~~~~~~~  762 (814)
T 3mkq_A          733 AETTGK------FNLAFNAYWIAGDIQGAKDLLIKS  762 (814)
T ss_dssp             HHHTTC------HHHHHHHHHHHTCHHHHHHHHHHT
T ss_pred             HHHcCc------hHHHHHHHHHcCCHHHHHHHHHHc
Confidence            555441      233444455566666666665543

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.17  E-value=0.0036  Score=39.49  Aligned_cols=65  Identities=11%  Similarity=-0.028  Sum_probs=38.6

Q ss_pred             CHHHHHHHHHHHHccCc---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           43 TSETYTALLHLYAGAKW---TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        43 ~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      |...+..+..++...++   .++|..+|++..+.+ +-++.+...+...+.+.|++++|+..|+++.+.
T Consensus         5 ~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~d-p~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            5 TATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLE-PYNEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHC-cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            55556666555543333   466666666666554 334556666666666666666666666666654

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=97.11  E-value=0.018  Score=40.75  Aligned_cols=106  Identities=14%  Similarity=0.201  Sum_probs=68.8

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      -.+.....|+++.|.++.+.+    .+...|..|.......|+++-|.++|.+...         +..+.-.|.-.|+.+
T Consensus        11 rF~LAL~lg~l~~A~e~a~~l----~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e   77 (177)
T 3mkq_B           11 RFDLALEYGNLDAALDEAKKL----NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVN   77 (177)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH----CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHH
T ss_pred             HHHHHHhcCCHHHHHHHHHHh----CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHH
Confidence            345566778888888877655    3567788888888888888888888876654         334555566667766


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      +..++-+.....|      -++.....+.-.|+++++.++|.+..
T Consensus        78 ~L~kla~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~  116 (177)
T 3mkq_B           78 KLSKMQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGG  116 (177)
T ss_dssp             HHHHHHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCC
Confidence            6655544444432      24555555666777777777775533

>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=97.00  E-value=0.02  Score=44.05  Aligned_cols=82  Identities=17%  Similarity=0.134  Sum_probs=42.4

Q ss_pred             HHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHhc-----CCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHcc-CCH
Q 022531           60 TEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSV-----GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT-LNI  130 (295)
Q Consensus        60 ~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-~~~  130 (295)
                      ...|...+++..+.+  |+   ...|..|...|.+.     |+.++|.+.|++..+.+..-+..++......+++. |+.
T Consensus       179 l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCH
Confidence            344555555555543  33   34555555555553     56666666666655532211244455555555553 556


Q ss_pred             HHHHHHHHHHhhc
Q 022531          131 DQVKKFLDEMSCD  143 (295)
Q Consensus       131 ~~a~~~~~~~~~~  143 (295)
                      +++...+++....
T Consensus       257 ~~a~~~L~kAL~a  269 (301)
T 3u64_A          257 AGFDEALDRALAI  269 (301)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcC
Confidence            6666666665553

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.99  E-value=0.018  Score=36.22  Aligned_cols=67  Identities=9%  Similarity=0.045  Sum_probs=49.7

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           76 SFNALMYNEMMTLYMSVGQ---VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      +.|+..+..+..++...++   .++|..++++..+.... +......+...+.+.|++++|+..|+++...
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~   72 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDS   72 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            4567777777777765544   68888888888875332 4666777777888888888888888888875

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.97  E-value=0.0081  Score=38.67  Aligned_cols=67  Identities=4%  Similarity=-0.217  Sum_probs=51.5

Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc------CCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          185 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTK------QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       185 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~------~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      +..-+..|...+...|++..|...|+...+.-      -.+....+..+..++.+.|+++.|..++++..+..
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            34456677888889999999999998876531      12345667788899999999999999999988743

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.96  E-value=0.013  Score=40.37  Aligned_cols=83  Identities=13%  Similarity=0.015  Sum_probs=56.8

Q ss_pred             cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC---CHHHHHHHHHHHHhCCCCC--ChHhHHHHHHHHHccCCHHHH
Q 022531           59 WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG---QVEKVALVVEEIKRKNVVP--DIFTYNLWISSCAATLNIDQV  133 (295)
Q Consensus        59 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~---~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~~~a  133 (295)
                      .+..+.+-|.+..+.| +++..+.-.+..++++++   +.++++.+|++..+.+ .|  +...+..+.-++.+.|++++|
T Consensus        13 ~l~~~~~~y~~e~~~~-~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~~A   90 (152)
T 1pc2_A           13 DLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHHccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHHHH
Confidence            4455666666666655 367777777777888777   5567888888777753 23  234455566667888888888


Q ss_pred             HHHHHHHhhc
Q 022531          134 KKFLDEMSCD  143 (295)
Q Consensus       134 ~~~~~~~~~~  143 (295)
                      .++++.+.+.
T Consensus        91 ~~y~~~lL~i  100 (152)
T 1pc2_A           91 LKYVRGLLQT  100 (152)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            8888887764

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.65  E-value=0.028  Score=36.08  Aligned_cols=62  Identities=8%  Similarity=0.028  Sum_probs=27.4

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC------CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKRKN------VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~------~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      -+..|...+.+.|+++.|...|++..+.-      -.+....+..+..++.+.|+++.|..+++++.+
T Consensus         7 dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            7 DCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            33344444444455555554444433210      012233444444455555555555555554443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.46  E-value=8.5e-07  Score=72.40  Aligned_cols=244  Identities=8%  Similarity=0.057  Sum_probs=135.2

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM   90 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~   90 (295)
                      +..|..|..+..+.+++.+|++-|-+.    .|+..|..+|.+..+.|.+++-...+....+..  .++.+=+.|+.+|+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyIkA----~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~--ke~~IDteLi~ayA  127 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYIKA----DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALA  127 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSCCC----SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTC--CSTTTTHHHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHHhC----CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccHHHHHHHHH
Confidence            334555666666666666666554322    345566667777777777777766665544432  23445556777777


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc-------------------CCCCCCHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD-------------------SGGSDDWV  151 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~-------------------~~~~~~~~  151 (295)
                      +.++..+..+.+    .   .||..-...+.+-|...|.++.|.-+|..+...                   .....++.
T Consensus       128 k~~rL~elEefl----~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~k  200 (624)
T 3lvg_A          128 KTNRLAELEEFI----N---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTR  200 (624)
T ss_dssp             TSCSSSTTTSTT----S---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSC
T ss_pred             hhCcHHHHHHHH----c---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChh
Confidence            777654433322    1   245545555666666666666555554433211                   01134455


Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHH
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  231 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  231 (295)
                      ||..+-.+|...+.+.-|.- .--.+   .+.++  -...++..|-..|.+++.+.+++.-.... +.....|+-|.-.|
T Consensus       201 tWKeV~~ACvd~~EfrLAqi-cGLni---Ivhad--eL~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILY  273 (624)
T 3lvg_A          201 TWKEVCFACVDGKEFRLAQM-CGLHI---VVHAD--ELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILY  273 (624)
T ss_dssp             SHHHHTHHHHHSCTTTTTTH-HHHHH---HCCSS--CCSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCchHHHHHHH-hcchh---cccHH--HHHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHH
Confidence            66666666666666665544 11111   11111  11234455667777777777777554322 44556788888888


Q ss_pred             HhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          232 LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       232 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      ++- +.++..+.++..-.    +.|+   -.+|++|-+..-|.++.-++..
T Consensus       274 sKY-~PeKlmEHlklf~s----riNi---pKviracE~ahLW~ElvfLY~~  316 (624)
T 3lvg_A          274 SKF-KPQKMREHLELFWS----RVNI---PKVLRAAEQAHLWAELVFLYDK  316 (624)
T ss_dssp             HSS-CTTHHHHHHTTSSS----SSCC---TTTHHHHTTTTCHHHHHHHHHH
T ss_pred             Hhc-CHHHHHHHHHHHHH----hccH---HHHHHHHHHHhhHHHHHHHHhc
Confidence            766 44444444443222    2232   2368889988888888877664

>3u64_A Protein TP_0956; tetratrico peptide repeat, protein-prote interaction, syphilis, lipoprotein, transport protein; 2.30A {Treponema pallidum subsp} PDB: 4di3_A 4di4_A*

Probab=96.35  E-value=0.021  Score=44.00  Aligned_cols=92  Identities=13%  Similarity=0.044  Sum_probs=75.6

Q ss_pred             hhHHHHHHhhcccCCCC---HHHHHHHHHHHHcc-----CcHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHhc-CCH
Q 022531           27 IHSGERYFEGLPLSAKT---SETYTALLHLYAGA-----KWTEKAEELFERVKQSNLSF--NALMYNEMMTLYMSV-GQV   95 (295)
Q Consensus        27 ~~~A~~~~~~~~~~~p~---~~~~~~li~~~~~~-----~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~-~~~   95 (295)
                      ...|...+++..+..|+   ...|..|...|.+.     |+.++|.+.|++.++.+  |  +..++......+++. |+.
T Consensus       179 l~~A~a~lerAleLDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~Ln--P~~~id~~v~YA~~l~~~~gd~  256 (301)
T 3u64_A          179 VHAAVMMLERACDLWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYC--SAHDPDHHITYADALCIPLNNR  256 (301)
T ss_dssp             HHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHC--CTTCSHHHHHHHHHTTTTTTCH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhC--CCCCchHHHHHHHHHHHhcCCH
Confidence            56777788888777775   67899999999994     99999999999999875  5  478888889999885 999


Q ss_pred             HHHHHHHHHHHhCCCC--CChHhHHHH
Q 022531           96 EKVALVVEEIKRKNVV--PDIFTYNLW  120 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~--p~~~~~~~l  120 (295)
                      +++.+.+++.......  |+....+.+
T Consensus       257 ~~a~~~L~kAL~a~p~~~P~~~lan~~  283 (301)
T 3u64_A          257 AGFDEALDRALAIDPESVPHNKLLVIL  283 (301)
T ss_dssp             HHHHHHHHHHHHCCGGGCSSCHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCCCCChhHHHHH
Confidence            9999999999998766  665444443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.28  E-value=0.036  Score=36.78  Aligned_cols=92  Identities=10%  Similarity=-0.002  Sum_probs=49.7

Q ss_pred             HHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHH---HHHHHHHHHhccCCC-CHHh-HHHHHHHH
Q 022531          157 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK---IDQIWKSLRMTKQKM-TSRN-YICILSSY  231 (295)
Q Consensus       157 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~---a~~~~~~m~~~~~~~-~~~~-~~~li~~~  231 (295)
                      +........+..+.+ .+......+. ++..+--.+..++.+..+...   ++.+++.+...+ .| ...- .-.|.-++
T Consensus         8 l~~~~~~~~l~~~~~-~y~~e~~~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~   84 (126)
T 1nzn_A            8 LNELVSVEDLLKFEK-KFQSEKAAGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGN   84 (126)
T ss_dssp             HHHHHHHHHHHHHHH-HHHHHHHHSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHH
T ss_pred             HhccCCHHHHHHHHH-HHHHHhccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHH
Confidence            333333444445555 4444433333 444455555556666665544   666777666543 23 2222 22455667


Q ss_pred             HhcCChHHHHHHHHHHhhhc
Q 022531          232 LMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       232 ~~~~~~~~A~~~~~~~~~~~  251 (295)
                      .+.|++++|.+.++.+.+..
T Consensus        85 yklg~Y~~A~~~~~~lL~~e  104 (126)
T 1nzn_A           85 YRLKEYEKALKYVRGLLQTE  104 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC
T ss_pred             HHhhhHHHHHHHHHHHHHhC
Confidence            77777777777777777643

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.19  E-value=0.15  Score=34.22  Aligned_cols=120  Identities=13%  Similarity=0.044  Sum_probs=60.7

Q ss_pred             cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-C----------------CCCChHhHHH
Q 022531           57 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK-N----------------VVPDIFTYNL  119 (295)
Q Consensus        57 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~----------------~~p~~~~~~~  119 (295)
                      .|.+++..++..+.....   +..-||-+|-.....-+-+-..++++..-+- .                ...+......
T Consensus        20 dG~v~qGveii~k~~~ss---ni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDis~C~NlKrVi~C~~~~n~~se~vd~   96 (172)
T 1wy6_A           20 DGYIDEGVKIVLEITKSS---TKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQNLKSVVECGVINNTLNEHVNK   96 (172)
T ss_dssp             TTCHHHHHHHHHHHHHHS---CHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSCTHHHHHHHHHTTCCCHHHHH
T ss_pred             hhhHHHHHHHHHHHcCCC---CccccceeeeecchhhchhHHHHHHHHHhhhcCcHhhhcHHHHHHHHHHhcchHHHHHH
Confidence            455555555555554432   3444555554444444444444444443221 0                0113344455


Q ss_pred             HHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcC
Q 022531          120 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  182 (295)
Q Consensus       120 li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  182 (295)
                      .++.....|+-++-.+++..+..  +.+|++.....+..+|.+.|+..+|.+ ++.+.-+.|.
T Consensus        97 ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~e-Ll~~AC~kG~  156 (172)
T 1wy6_A           97 ALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATT-LLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTTC
T ss_pred             HHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHH-HHHHHHHhhh
Confidence            55555666666666666666433  335556666666666666666666666 5555544443

>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=96.14  E-value=0.18  Score=34.55  Aligned_cols=51  Identities=14%  Similarity=0.169  Sum_probs=32.6

Q ss_pred             CCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          200 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       200 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      ++.++|.++|+.+.+.+-+. ...|....+--.+.|+++.|.+++......+
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~  124 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG  124 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC
Confidence            66777777777775553333 5555555555567777777777777766643

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.13  E-value=0.085  Score=35.01  Aligned_cols=86  Identities=12%  Similarity=-0.007  Sum_probs=57.1

Q ss_pred             ccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH---HHHHHHHHHhCCCCC--ChHhHHHHHHHHHccCCH
Q 022531           56 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK---VALVVEEIKRKNVVP--DIFTYNLWISSCAATLNI  130 (295)
Q Consensus        56 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~---a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~~~~  130 (295)
                      ....+..+.+-|.+....| .|+..+--.+..+++++.+...   ++.+++++.+.+ .|  .-.....|.-++.+.|++
T Consensus        13 ~~~~l~~~~~~y~~e~~~~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~-~p~~~Rd~lY~LAvg~yklg~Y   90 (126)
T 1nzn_A           13 SVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEY   90 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTS-CHHHHHHHHHHHHHHHHHTTCH
T ss_pred             CHHHHHHHHHHHHHHhccC-CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CcchHHHHHHHHHHHHHHhhhH
Confidence            3444555666666655545 3677777777778887776555   788888877753 13  233344456677888888


Q ss_pred             HHHHHHHHHHhhc
Q 022531          131 DQVKKFLDEMSCD  143 (295)
Q Consensus       131 ~~a~~~~~~~~~~  143 (295)
                      ++|..+++.+.+.
T Consensus        91 ~~A~~~~~~lL~~  103 (126)
T 1nzn_A           91 EKALKYVRGLLQT  103 (126)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            8888888887764

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.85  E-value=0.99  Score=41.00  Aligned_cols=253  Identities=11%  Similarity=0.033  Sum_probs=131.8

Q ss_pred             HHhccChhHHHHHHhhcccCC----CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCC-------CCCHHHHHHHHHHH
Q 022531           21 MTKVFGIHSGERYFEGLPLSA----KTSETYTALLHLYAGAKWTEKAEELFERVKQSNL-------SFNALMYNEMMTLY   89 (295)
Q Consensus        21 ~~~~~~~~~A~~~~~~~~~~~----p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-------~p~~~~~~~li~~~   89 (295)
                      ....|+.++++.+++......    +....-..+.-+.+.+|..+++..++.......-       .+....--++.-+.
T Consensus       384 lIh~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGl  463 (963)
T 4ady_A          384 VIHKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGL  463 (963)
T ss_dssp             HHTSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHH
T ss_pred             hhccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHH
Confidence            445677888888887766421    2223333344455556655567777776554320       01111222333333


Q ss_pred             HhcCC-HHHHHHHHHHHHhCCCCCChHhHH--HHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH--HHHhcC
Q 022531           90 MSVGQ-VEKVALVVEEIKRKNVVPDIFTYN--LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN--IYITAS  164 (295)
Q Consensus        90 ~~~~~-~~~a~~~~~~m~~~~~~p~~~~~~--~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~  164 (295)
                      +-.|. -+++...+..+....- +......  .+...+...|+.+....++..+...    .+..+...+..  ++...|
T Consensus       464 a~~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~----~~e~vrR~aalgLGll~~g  538 (963)
T 4ady_A          464 AAMGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQET----QHGNITRGLAVGLALINYG  538 (963)
T ss_dssp             HSTTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHC----SCHHHHHHHHHHHHHHTTT
T ss_pred             HhcCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhcc----CcHHHHHHHHHHHHhhhCC
Confidence            33332 2455555655554311 1111122  2233345667777777777776653    12233333333  444678


Q ss_pred             chhhHHHHHHHHHHHhcCCCccccHH---HHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHH
Q 022531          165 HLVNAESSTLVEAEKSITQRQWITYD---FLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVG  241 (295)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~  241 (295)
                      +.+.+.. +.+.+... ..|.. -|.   ++..+|+..|+.....+++..+.+.. ..+......+.-++...|+.+.+.
T Consensus       539 ~~e~~~~-li~~L~~~-~dp~v-Rygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~  614 (963)
T 4ady_A          539 RQELADD-LITKMLAS-DESLL-RYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVP  614 (963)
T ss_dssp             CGGGGHH-HHHHHHHC-SCHHH-HHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHH
T ss_pred             ChHHHHH-HHHHHHhC-CCHHH-HHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHH
Confidence            8888877 66655442 22222 232   34456777888887777888877642 222222222333444566666677


Q ss_pred             HHHHHHhhhcCCCCCHHHHHHHHHHHHccCCh-HHHHHHHHHHH
Q 022531          242 EIIDQWKQSATSDFDISACNRLLGAFSDVGLT-EKANEFHMLLL  284 (295)
Q Consensus       242 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~m~  284 (295)
                      ++++.+.+.+  .|.+..-..+.-+....|.. .++.+.+..+.
T Consensus       615 rlv~~L~~~~--d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          615 RIVQLLSKSH--NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             HHTTTGGGCS--CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHHHHHHhcC--CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            7776665543  45665555555555555554 46666777665

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.67  E-value=0.76  Score=38.12  Aligned_cols=92  Identities=9%  Similarity=0.035  Sum_probs=40.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhccCCCCH-----HhHHHHHHHHHhcCChHHHHHHHHHHhhh---cCCCCC--HHHHH
Q 022531          192 LIILYAGLGNKDKIDQIWKSLRMTKQKMTS-----RNYICILSSYLMLGHLKEVGEIIDQWKQS---ATSDFD--ISACN  261 (295)
Q Consensus       192 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-----~~~~~li~~~~~~~~~~~A~~~~~~~~~~---~~~~~~--~~~~~  261 (295)
                      |...|...|++.+|.+++..+...-.....     ..+...++.|...+++..|..++......   ....|+  ...+.
T Consensus       143 La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~  222 (445)
T 4b4t_P          143 LVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLEYYN  222 (445)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHH
T ss_pred             HHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHH
Confidence            444455555555555555554321111111     22334455555555665555555554211   111111  12334


Q ss_pred             HHHHHHHccCChHHHHHHHHHH
Q 022531          262 RLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                      ..+..+...+++.+|...|.++
T Consensus       223 ~~~~~~~~e~~y~~a~~~y~e~  244 (445)
T 4b4t_P          223 LLVKISLHKREYLEVAQYLQEI  244 (445)
T ss_dssp             HHHHHHHHHCCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHHHHH
Confidence            4444455555555555555444

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.23  E-value=2.1  Score=40.32  Aligned_cols=145  Identities=10%  Similarity=-0.028  Sum_probs=79.4

Q ss_pred             HHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-----------------
Q 022531           15 ATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF-----------------   77 (295)
Q Consensus        15 ~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-----------------   77 (295)
                      ..++..+.+.+..+-|.++....+.   +...-..+..++...|++++|.++|++.-. |+..                 
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~~~---~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~-~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWLNS---DPIAVYLKALIYLKSKEAVKAVRCFKTTSL-VLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHSCC---CHHHHHHHHHHHHHTTCHHHHHHHHHTCCC-SCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhccC---CcHHHHHHHHHHHhcCCHHHHHHHHHHHhh-hhcccchhhhhhccccccccc
Confidence            3466667777888888777665543   444446677888889999999999976531 1111                 


Q ss_pred             ------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-C-CCh--HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCC
Q 022531           78 ------NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV-V-PDI--FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGS  147 (295)
Q Consensus        78 ------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~-~-p~~--~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~  147 (295)
                            -..-|..++..+.+.+.++.+.+.-+...+... . ++.  ..|..+++++...|++++|...+-.+... .. 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~-~~-  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTT-PL-  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHS-SS-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCH-HH-
Confidence                  011244455555555666655555444433211 1 111  13555666666666666666666555543 11 


Q ss_pred             CCHHHHHHHHHHHHhcCch
Q 022531          148 DDWVKYVNLVNIYITASHL  166 (295)
Q Consensus       148 ~~~~~~~~l~~~~~~~~~~  166 (295)
                       -......++...+..|..
T Consensus       970 -r~~cLr~LV~~lce~~~~  987 (1139)
T 4fhn_B          970 -KKSCLLDFVNQLTKQGKI  987 (1139)
T ss_dssp             -CHHHHHHHHHHHHHHCCH
T ss_pred             -HHHHHHHHHHHHHhCCCh
Confidence             223334444444444433

>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=95.15  E-value=0.07  Score=43.45  Aligned_cols=74  Identities=11%  Similarity=0.087  Sum_probs=60.4

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHh-----CCCCCChHhHHH
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR-----KNVVPDIFTYNL  119 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~~~  119 (295)
                      .+...++..+...|+++++...+..+.... +.+...|..+|.++.+.|+..+|++.|++..+     .|+.|+..+-..
T Consensus       172 ~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~l  250 (388)
T 2ff4_A          172 LAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRAL  250 (388)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHHH
Confidence            355667788888999999999998888764 56788999999999999999999999988654     589998776543

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=95.08  E-value=0.57  Score=33.13  Aligned_cols=45  Identities=13%  Similarity=0.154  Sum_probs=22.2

Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                      +.|+++.|.++.+++      .+...|..|.....+.|+++-|...|.+..
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~   61 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQH   61 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhC
Confidence            445555555554443      134445555555555555555555554443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=95.00  E-value=0.0003  Score=57.85  Aligned_cols=216  Identities=13%  Similarity=0.100  Sum_probs=151.7

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      |+..|..+|+...+.|.+++-..++...++...+..+=+.|+-+|++.++..+..+++.       .|+..-...+..-|
T Consensus        82 Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~rL~elEefl~-------~~N~A~iq~VGDrc  154 (624)
T 3lvg_A           82 DPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTNRLAELEEFIN-------GPNNAHIQQVGDRC  154 (624)
T ss_dssp             CCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSCSSSTTTSTTS-------CCSSSCTHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhCcHHHHHHHHc-------CCCcccHHHHHHHH
Confidence            56778999999999999999999999988876677777899999999999765444432       35666666777777


Q ss_pred             HhcCCHHHHHHHHHHHHhC-------------------C-CCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCC
Q 022531           90 MSVGQVEKVALVVEEIKRK-------------------N-VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD  149 (295)
Q Consensus        90 ~~~~~~~~a~~~~~~m~~~-------------------~-~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~  149 (295)
                      ...|.++.|.-+|..+..-                   . -.-++.||..+-.+|...+.+.-|.-.--.+.-....-+ 
T Consensus       155 f~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~ACvd~~EfrLAqicGLniIvhadeL~-  233 (624)
T 3lvg_A          155 YDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCFACVDGKEFRLAQMCGLHIVVHADELE-  233 (624)
T ss_dssp             HHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHCCSSCCS-
T ss_pred             HHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHHHHhCchHHHHHHHhcchhcccHHHHH-
Confidence            7788777776666543211                   0 123678999999999999999887766555544322222 


Q ss_pred             HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHH
Q 022531          150 WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILS  229 (295)
Q Consensus       150 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  229 (295)
                           .++..|...|.+++-.. +++.-. .......-.|+.|.-.|++- ++++..+.++..   .-+.|..   .+|+
T Consensus       234 -----elv~~YE~~G~f~ELIs-LlEagl-glErAHmGmFTELaILYsKY-~PeKlmEHlklf---~sriNip---Kvir  299 (624)
T 3lvg_A          234 -----ELINYYQDRGYFEELIT-MLEAAL-GLERAHMGMFTELAILYSKF-KPQKMREHLELF---WSRVNIP---KVLR  299 (624)
T ss_dssp             -----GGGSSSSTTCCCTTSTT-THHHHT-TSTTCCHHHHHHHHHHHHSS-CTTHHHHHHTTS---SSSSCCT---TTHH
T ss_pred             -----HHHHHHHhCCCHHHHHH-HHHHHh-CCCchhHHHHHHHHHHHHhc-CHHHHHHHHHHH---HHhccHH---HHHH
Confidence                 46688999999999988 665443 23344567788888888876 455555554432   1133322   3788


Q ss_pred             HHHhcCChHHHHHHHHHH
Q 022531          230 SYLMLGHLKEVGEIIDQW  247 (295)
Q Consensus       230 ~~~~~~~~~~A~~~~~~~  247 (295)
                      +|.+..-|.++.-++...
T Consensus       300 acE~ahLW~ElvfLY~~y  317 (624)
T 3lvg_A          300 AAEQAHLWAELVFLYDKY  317 (624)
T ss_dssp             HHTTTTCHHHHHHHHHHH
T ss_pred             HHHHHhhHHHHHHHHhcc
Confidence            888888888877766543

>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=94.99  E-value=0.13  Score=41.81  Aligned_cols=128  Identities=8%  Similarity=-0.062  Sum_probs=84.8

Q ss_pred             CCCHHHHHHHHHHHH---hccChhHHHHHHhhcccC--CC---CHHHHHHHHHHHHccCcH-HHHHHHHHHHHhCCCCCC
Q 022531            8 VLSDSDYATRIDLMT---KVFGIHSGERYFEGLPLS--AK---TSETYTALLHLYAGAKWT-EKAEELFERVKQSNLSFN   78 (295)
Q Consensus         8 ~~~~~~~~~li~~~~---~~~~~~~A~~~~~~~~~~--~p---~~~~~~~li~~~~~~~~~-~~a~~~~~~m~~~~~~p~   78 (295)
                      ..|...|..++....   ..|+.+.|...++.....  +|   +..           ...| .....-++++.       
T Consensus       109 ~~D~~~f~~l~~~~~~~~~~~~~~~a~~~l~~Al~L~rG~~L~~~~-----------~~~w~~~~r~~l~~~~-------  170 (388)
T 2ff4_A          109 TCDLGRFVAEKTAGVHAAAAGRFEQASRHLSAALREWRGPVLDDLR-----------DFQFVEPFATALVEDK-------  170 (388)
T ss_dssp             GBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGGGT-----------TSTTHHHHHHHHHHHH-------
T ss_pred             cchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCCCCCCCC-----------chhHHHHHHHHHHHHH-------
Confidence            345555666555433   347788888777776554  22   211           0111 11112222221       


Q ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhh----cCCCCCCHHHHH
Q 022531           79 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVKYV  154 (295)
Q Consensus        79 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~  154 (295)
                      ..+...++..+...|++++|+..+..+.... +-+...+..+|.++.+.|+..+|++.|+....    +-|+.|+..+-.
T Consensus       171 ~~a~~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~~  249 (388)
T 2ff4_A          171 VLAHTAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  249 (388)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHHH
Confidence            2345567888899999999999999988753 34778999999999999999999999988644    238899887644

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.98  E-value=1.1  Score=42.06  Aligned_cols=191  Identities=11%  Similarity=-0.006  Sum_probs=110.5

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCC------------------
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGG------------------  146 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~------------------  146 (295)
                      ++..+...+..+-+.++..-.     +.+...-..+..++...|++++|..+|++.-..-+.                  
T Consensus       818 l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~~~~~~~~l~~~~~~~~~~~~~~  892 (1139)
T 4fhn_B          818 LVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSLVLYSHTSQFAVLREFQEIAEKY  892 (1139)
T ss_dssp             HHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCCSCTTCCCSCSSHHHHHHHHHTT
T ss_pred             HHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhcccchhhhhhcccccccccc
Confidence            444455555555554433221     223344455667788899999999999775321000                  


Q ss_pred             ---CCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcc----ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC
Q 022531          147 ---SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQW----ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM  219 (295)
Q Consensus       147 ---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  219 (295)
                         ..-..-|..++..+.+.+.++.+.+ +-....+.....+.    ..|..+..++...|++++|...+-.+.....+ 
T Consensus       893 ~~~~~l~~YY~hv~~LFe~~~~~~~vi~-fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r-  970 (1139)
T 4fhn_B          893 HHQNLLSCYYLHLSKKLFEESAYIDALE-FSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLK-  970 (1139)
T ss_dssp             TSCCSSHHHHHHHHHHHHHTSCCHHHHH-HHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSC-
T ss_pred             cccccHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHH-
Confidence               0011236778888889999999988 55555443322221    25778888899999999999888777655432 


Q ss_pred             CHHhHHHHHHHHHhcCChH------------HHHHHHHHHhhhc-CCCCCHHHHHHHHHHHHccCChHHHHHH-HHHH
Q 022531          220 TSRNYICILSSYLMLGHLK------------EVGEIIDQWKQSA-TSDFDISACNRLLGAFSDVGLTEKANEF-HMLL  283 (295)
Q Consensus       220 ~~~~~~~li~~~~~~~~~~------------~A~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~a~~~-~~~m  283 (295)
                       ...+..|+...|..|..+            +..+++..-.+.. .......-|..|-.-+...|++..|..+ |+.+
T Consensus       971 -~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          971 -KSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             -HHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHH
Confidence             345666777666666543            3333333222111 1111123355555556677887777655 4443

>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=94.67  E-value=0.66  Score=31.80  Aligned_cols=102  Identities=7%  Similarity=-0.098  Sum_probs=56.3

Q ss_pred             hHhHHHHHHHHHccCCH------HHHHHHHHHHhhcCCCCCCHH----HHHHHHH---HHHhcCchhhHHHHHHHHHHHh
Q 022531          114 IFTYNLWISSCAATLNI------DQVKKFLDEMSCDSGGSDDWV----KYVNLVN---IYITASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       114 ~~~~~~li~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~~----~~~~l~~---~~~~~~~~~~a~~~~~~~~~~~  180 (295)
                      ..+|-..+...-+.|++      ++..++|++...  .++|+..    -|--+.-   .+...++.++|.+ +|..+.+.
T Consensus        13 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           13 PEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARD-YFQMARAN   89 (161)
T ss_dssp             HHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHH-HHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHH-HHHHHHHH
Confidence            33444444444444555      555666666655  2444321    1111111   1123467788888 77777665


Q ss_pred             cCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC
Q 022531          181 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM  219 (295)
Q Consensus       181 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~  219 (295)
                       .+.-...|....+.-.+.|++.+|.+++......+.+|
T Consensus        90 -hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~  127 (161)
T 4h7y_A           90 -CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAVP  127 (161)
T ss_dssp             -CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBC
T ss_pred             -hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCc
Confidence             22224555555555667888888888888777765443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.67  E-value=0.38  Score=42.61  Aligned_cols=53  Identities=13%  Similarity=-0.107  Sum_probs=40.8

Q ss_pred             HHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 022531          229 SSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       229 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                      .-|...|+++.|+++-++.....  +.+..+|..|..+|...|+++.|+-.++.+
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~a--PseF~tW~~La~vYi~l~d~e~ALLtLNSc  397 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELA--LDSFESWYNLARCHIKKEEYEKALFAINSM  397 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHHhccCcHHHHHHHHHHHHhcC--chhhHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            33556788888888888877743  456778888888888888888888887776

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=94.53  E-value=0.3  Score=43.26  Aligned_cols=125  Identities=10%  Similarity=0.112  Sum_probs=81.6

Q ss_pred             HHHHHHHHhccC-hhHHHHHHhhcccCCCCHHHH--HHHHHHHHccC-cHHHHHHHHHHHHhC------CCCC-CHHH--
Q 022531           15 ATRIDLMTKVFG-IHSGERYFEGLPLSAKTSETY--TALLHLYAGAK-WTEKAEELFERVKQS------NLSF-NALM--   81 (295)
Q Consensus        15 ~~li~~~~~~~~-~~~A~~~~~~~~~~~p~~~~~--~~li~~~~~~~-~~~~a~~~~~~m~~~------~~~p-~~~~--   81 (295)
                      ..|+..+...++ ++.|..+|+.+....|...++  .+++..+...+ +--+|.+++.+..+.      ..++ +...  
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            445666666666 588999999998887854433  23333333332 233455555544321      1111 1111  


Q ss_pred             -H---HHHH----HHHHhcCCHHHHHHHHHHHHhCCCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHh
Q 022531           82 -Y---NEMM----TLYMSVGQVEKVALVVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMS  141 (295)
Q Consensus        82 -~---~~li----~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~  141 (295)
                       .   ..|+    ..+...|+++-|+++-++....  .| +-.+|..|..+|...|+++.|+-.+..+.
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence             1   1133    2356789999999999998885  44 47889999999999999999999998874

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=93.97  E-value=3.6  Score=37.51  Aligned_cols=226  Identities=8%  Similarity=-0.046  Sum_probs=122.6

Q ss_pred             HHHHHHhccChhHHHHHHhhcccC-C--------CCHHHHHHHHHHH--HccCcHHHHHHHHHHHHhCCCCCCHHHHH--
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLS-A--------KTSETYTALLHLY--AGAKWTEKAEELFERVKQSNLSFNALMYN--   83 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~-~--------p~~~~~~~li~~~--~~~~~~~~a~~~~~~m~~~~~~p~~~~~~--   83 (295)
                      +.-+....|.-+++..++...... .        +....-.++.-++  .-.++ +++.+.+..+....- +.....-  
T Consensus       417 laLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~~GS~~-eev~e~L~~~L~dd~-~~~~~~Aal  494 (963)
T 4ady_A          417 YGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAAMGSAN-IEVYEALKEVLYNDS-ATSGEAAAL  494 (963)
T ss_dssp             HHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHSTTCCC-HHHHHHHHHHHHTCC-HHHHHHHHH
T ss_pred             HHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHhcCCCC-HHHHHHHHHHHhcCC-HHHHHHHHH
Confidence            333445566666677766654432 1        1111222333333  33444 466666666665431 1111122  


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHH--HHHHHHHH
Q 022531           84 EMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKY--VNLVNIYI  161 (295)
Q Consensus        84 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~  161 (295)
                      +|...+.-.|+-+....++..+.+.. .-+..-+..+.-++...|+.+.+..+.+.+...  ..|...--  .++..+|+
T Consensus       495 ALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~~~~li~~L~~~--~dp~vRygaa~alglAya  571 (963)
T 4ady_A          495 GMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQELADDLITKMLAS--DESLLRYGGAFTIALAYA  571 (963)
T ss_dssp             HHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGGGHHHHHHHHHC--SCHHHHHHHHHHHHHHTT
T ss_pred             HHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHHHHHHHHHHHhC--CCHHHHHHHHHHHHHHhc
Confidence            33444557788888888888776641 112222333333455778999998888888763  12322221  24455677


Q ss_pred             hcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCCh-HHH
Q 022531          162 TASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL-KEV  240 (295)
Q Consensus       162 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~-~~A  240 (295)
                      ..|+.....+ ++..+... ...++.....+.-+....|+.+.+.++++.+.+.+ .|..+.-..+.-+....|.. .+|
T Consensus       572 GTGn~~aIq~-LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rlv~~L~~~~-d~~VR~gAalALGli~aGn~~~~a  648 (963)
T 4ady_A          572 GTGNNSAVKR-LLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRIVQLLSKSH-NAHVRCGTAFALGIACAGKGLQSA  648 (963)
T ss_dssp             TSCCHHHHHH-HHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHHTTTGGGCS-CHHHHHHHHHHHHHHTSSSCCHHH
T ss_pred             CCCCHHHHHH-HHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHHhccCCCcHHH
Confidence            8888877777 66666543 22233333333345555777777888887666654 45544444444455545443 567


Q ss_pred             HHHHHHHhhh
Q 022531          241 GEIIDQWKQS  250 (295)
Q Consensus       241 ~~~~~~~~~~  250 (295)
                      ..++..+..+
T Consensus       649 id~L~~L~~D  658 (963)
T 4ady_A          649 IDVLDPLTKD  658 (963)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHccC
Confidence            7788887653

>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=93.83  E-value=0.73  Score=29.04  Aligned_cols=49  Identities=8%  Similarity=0.137  Sum_probs=30.2

Q ss_pred             HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           95 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        95 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .-+..+-++.+....+.|++....+.+++|-+.+++..|..+|+.++.+
T Consensus        26 ~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K   74 (109)
T 1v54_E           26 AWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK   74 (109)
T ss_dssp             HHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH
Confidence            3345555555555566666666666666666666666666666666554

>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=93.71  E-value=0.77  Score=28.94  Aligned_cols=69  Identities=10%  Similarity=0.094  Sum_probs=51.5

Q ss_pred             HHHccC-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           53 LYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        53 ~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      .+.+.. +.=+..+-++.+...++.|++.+..+.+++|.+.+++..|+++|+-.+.+ ..+...+|..+++
T Consensus        18 ~F~~~~iD~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K-~~~~~~iY~~~lq   87 (109)
T 1v54_E           18 YFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ   87 (109)
T ss_dssp             HHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-hcCchhhHHHHHH
Confidence            333444 55567778888888888999999999999999999999999999887764 2233455776654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=93.23  E-value=0.77  Score=32.01  Aligned_cols=57  Identities=5%  Similarity=-0.212  Sum_probs=29.4

Q ss_pred             HHHHHHHhcCchhhHHHHHHHHHHHhc-CCCcc-------ccHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531          155 NLVNIYITASHLVNAESSTLVEAEKSI-TQRQW-------ITYDFLIILYAGLGNKDKIDQIWKSL  212 (295)
Q Consensus       155 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~-------~~~~~li~~~~~~g~~~~a~~~~~~m  212 (295)
                      .-+..+...|.++.|+- +...+.... .+|+.       .++..+.+++...|++.+|...|++.
T Consensus        25 dqik~L~d~~LY~sA~~-La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           25 DHVRDMAAAGLHSNVRL-LSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHTTCHHHHHH-HHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHH-HHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            33455556666666666 444433321 22221       13344555666666666666666664

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=92.59  E-value=1.5  Score=33.36  Aligned_cols=55  Identities=13%  Similarity=0.076  Sum_probs=37.8

Q ss_pred             HHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           53 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      ...+.|+++++++....-++.. |-|...-..|+..+|-.|+|+.|.+-++...+.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l   60 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL   60 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            3456677777777777666654 456666677777777777777777777766653

>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=92.34  E-value=1.7  Score=29.10  Aligned_cols=63  Identities=10%  Similarity=0.165  Sum_probs=43.4

Q ss_pred             CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           94 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      |.-+..+-++.+....+.|++......+++|-+.+|+..|..+|+.++.+.+  +...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~--~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcC--CchhhHHHHHH
Confidence            3445566666677777778888888888888888888888888887776533  33445665554

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=92.28  E-value=1.5  Score=33.22  Aligned_cols=252  Identities=12%  Similarity=0.024  Sum_probs=124.3

Q ss_pred             HHHHHHHHhccChhHHHHHHhhcccCC-C-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHH
Q 022531           15 ATRIDLMTKVFGIHSGERYFEGLPLSA-K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL--MYNEMMTLYM   90 (295)
Q Consensus        15 ~~li~~~~~~~~~~~A~~~~~~~~~~~-p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~li~~~~   90 (295)
                      ...+...++.|+++....+++.-.... . +..-+ +.+...+..|+.+-+..+    .+.|..|+..  .-.+.+...+
T Consensus         6 ~~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g~-t~L~~A~~~g~~~~v~~L----l~~g~~~~~~~~~g~t~L~~A~   80 (285)
T 1wdy_A            6 NHLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGGW-TPLHNAVQMSREDIVELL----LRHGADPVLRKKNGATPFLLAA   80 (285)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTCC-CHHHHHHHTTCHHHHHHH----HHTTCCTTCCCTTCCCHHHHHH
T ss_pred             chHHHHHHHcCCHHHHHHHHHcCCCcccccCCCCC-cHHHHHHHcCCHHHHHHH----HHcCCCCcccCCCCCCHHHHHH
Confidence            345667788999998888887543321 1 22222 334444566776544444    4445443321  1112334445


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCh---HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHH------------HHHH
Q 022531           91 SVGQVEKVALVVEEIKRKNVVPDI---FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV------------KYVN  155 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------------~~~~  155 (295)
                      ..|+.+    +++.+.+.|..++.   .-++. +...+..|+.+-...+++.     |..++..            .-..
T Consensus        81 ~~~~~~----~v~~Ll~~g~~~~~~~~~g~t~-L~~A~~~~~~~~~~~Ll~~-----g~~~~~~~~~~~~~~~~~~~g~t  150 (285)
T 1wdy_A           81 IAGSVK----LLKLFLSKGADVNECDFYGFTA-FMEAAVYGKVKALKFLYKR-----GANVNLRRKTKEDQERLRKGGAT  150 (285)
T ss_dssp             HHTCHH----HHHHHHHTTCCTTCBCTTCCBH-HHHHHHTTCHHHHHHHHHT-----TCCTTCCCCCCHHHHHTTCCCCC
T ss_pred             HcCCHH----HHHHHHHcCCCCCccCcccCCH-HHHHHHhCCHHHHHHHHHh-----CCCcccccccHHHHHhhccCCCc
Confidence            566654    44445555655442   22233 3344566776654444432     2222211            0012


Q ss_pred             HHHHHHhcCchhhHHHHHHHHHHHh-cCCCcc---ccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhH--HHHHH
Q 022531          156 LVNIYITASHLVNAESSTLVEAEKS-ITQRQW---ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNY--ICILS  229 (295)
Q Consensus       156 l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~--~~li~  229 (295)
                      .+...+..|+.+-+..     +.+. +..++.   .-.+.+.. .+..++.....++.+.+.+.|..++....  ...+.
T Consensus       151 ~L~~A~~~~~~~~v~~-----Ll~~~~~~~~~~~~~g~t~l~~-a~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~  224 (285)
T 1wdy_A          151 ALMDAAEKGHVEVLKI-----LLDEMGADVNACDNMGRNALIH-ALLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLI  224 (285)
T ss_dssp             HHHHHHHHTCHHHHHH-----HHHTSCCCTTCCCTTSCCHHHH-HHHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHH
T ss_pred             HHHHHHHcCCHHHHHH-----HHHhcCCCCCccCCCCCCHHHH-HHHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHH
Confidence            3444556677665444     3333 433332   22333333 34566666667777778888876664321  13455


Q ss_pred             HHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCCCC
Q 022531          230 SYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  293 (295)
Q Consensus       230 ~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~~  293 (295)
                      ..++.|+.+-+..+++..-.. ....|..-.+. +...++.|+.    ++.+.+++.|..|+..
T Consensus       225 ~A~~~~~~~~v~~Ll~~~g~~-~~~~~~~g~t~-l~~A~~~~~~----~i~~~Ll~~Ga~~~~~  282 (285)
T 1wdy_A          225 LAVEKKHLGLVQRLLEQEHIE-INDTDSDGKTA-LLLAVELKLK----KIAELLCKRGASTDCG  282 (285)
T ss_dssp             HHHHTTCHHHHHHHHHSSSCC-TTCCCTTSCCH-HHHHHHTTCH----HHHHHHHHHSSCSCCS
T ss_pred             HHHHcCCHHHHHHHHhccCCC-ccccCCCCCcH-HHHHHHcCcH----HHHHHHHHcCCCCCcc
Confidence            566778877655555421110 11122222223 3334455655    4555666778887753

>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=92.27  E-value=1.7  Score=29.06  Aligned_cols=70  Identities=10%  Similarity=0.091  Sum_probs=55.0

Q ss_pred             HHHHccC-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHH
Q 022531           52 HLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  122 (295)
Q Consensus        52 ~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  122 (295)
                      ..+.+.. +.=+..+-++.+...++.|++.+..+.+++|-+.+++..|+++|+-.+.+ ..+...+|..+++
T Consensus        60 ~~F~~~~iD~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K-~~~~~~iY~y~lq  130 (152)
T 2y69_E           60 TYFNKPDIDAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDK-AGPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHTCTTCCHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TTTCTTHHHHHHH
T ss_pred             HHcCCcCccHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHh-cCCchhhHHHHHH
Confidence            3344444 45567778888888999999999999999999999999999999988765 3344556777664

>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=92.27  E-value=1.7  Score=29.02  Aligned_cols=70  Identities=6%  Similarity=-0.103  Sum_probs=37.8

Q ss_pred             cCCCccccHHHHHHHHHhcCC---HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          181 ITQRQWITYDFLIILYAGLGN---KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       181 ~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      +..|+..+--.+..++.+..+   ..+++.+++.+...+..-....+-.|.-++.+.|++++|.+..+.+.+.
T Consensus        35 ~~~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           35 GPTATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GGGSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            333444444444445555443   3456666666665431111222334566677777777777777777663

>3esl_A Checkpoint serine/threonine-protein kinase BUB1; mitotic spindle checkpoint, TPR motif, all-alpha domain, MAD3-like domain; HET: NHE; 1.74A {Saccharomyces cerevisiae}

Probab=91.86  E-value=2.7  Score=30.39  Aligned_cols=52  Identities=8%  Similarity=-0.056  Sum_probs=36.0

Q ss_pred             CCHHHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          200 GNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       200 g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      +...+..++|..|...|+.... ..|......+...|++.+|.++|+.-++.+
T Consensus        93 ~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~  145 (202)
T 3esl_A           93 NNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENN  145 (202)
T ss_dssp             TCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             cccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            3366777788887777765443 335567777777788888888887776654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.35  E-value=5.5  Score=33.00  Aligned_cols=250  Identities=12%  Similarity=0.053  Sum_probs=125.2

Q ss_pred             cChhHHHHHHhhcccC------CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHH----Hhc
Q 022531           25 FGIHSGERYFEGLPLS------AK-TSETYTALLHLYAGAKWTEKAEELFERVKQS-NLSFNALMYNEMMTLY----MSV   92 (295)
Q Consensus        25 ~~~~~A~~~~~~~~~~------~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~~~----~~~   92 (295)
                      |+++.|.+.+-.+...      .+ +......++..|...|+++...+.+..+... |..+  .....+++.+    ...
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk--~ai~~~V~~~~~~l~~~  107 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLK--LSIQYMIQKVMEYLKSS  107 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSH--HHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhH--HHHHHHHHHHHHHHhcC
Confidence            6677777766444322      12 4556777778888888888877777665533 3222  2223333322    222


Q ss_pred             CCHHHH--HHHHHHHHhCCCCCChHh---------HHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCCC---HHHHHHHH
Q 022531           93 GQVEKV--ALVVEEIKRKNVVPDIFT---------YNLWISSCAATLNIDQVKKFLDEMSCDS-GGSDD---WVKYVNLV  157 (295)
Q Consensus        93 ~~~~~a--~~~~~~m~~~~~~p~~~~---------~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~---~~~~~~l~  157 (295)
                      ...+..  ..+.+.+.  .+... .+         ...|...+...|++.+|.+++..+.... +..+.   ...+...+
T Consensus       108 ~~~d~~~~~~~i~~l~--~vte~-kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~  184 (445)
T 4b4t_P          108 KSLDLNTRISVIETIR--VVTEN-KIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQM  184 (445)
T ss_dssp             CTTHHHHHHHHHHCCS--SSSSC-CCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHH
T ss_pred             CchhHHHHHHHHHHHH--HHhcc-chHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHH
Confidence            222221  11111111  12111 11         2345666777778888888777766531 21111   23455666


Q ss_pred             HHHHhcCchhhHHHHHHHHHHH----hcCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHHHhc-cCCCCHHhH----HH
Q 022531          158 NIYITASHLVNAESSTLVEAEK----SITQRQ--WITYDFLIILYAGLGNKDKIDQIWKSLRMT-KQKMTSRNY----IC  226 (295)
Q Consensus       158 ~~~~~~~~~~~a~~~~~~~~~~----~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~----~~  226 (295)
                      ..|...+++..|.. +...+..    ....|+  ...+..++..+...+++.+|-..|.+.... ...-+...+    ..
T Consensus       185 rl~l~~~d~~~a~~-~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~  263 (445)
T 4b4t_P          185 ELSILKGDYSQATV-LSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSH  263 (445)
T ss_dssp             HHHHHHTCHHHHHH-HHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHH-HHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHH
Confidence            77777777777777 6665432    111121  133445556666677777777666655332 111122222    22


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccC--ChHHHHHHHH
Q 022531          227 ILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG--LTEKANEFHM  281 (295)
Q Consensus       227 li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~a~~~~~  281 (295)
                      ++.+..-.+....-..++........ -++...|..++.+|....  +++.+.+.|.
T Consensus       264 ~v~~~iLa~~~~~~~~ll~~~~~~~~-~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~  319 (445)
T 4b4t_P          264 IVYFLVLSPYGNLQNDLIHKIQNDNN-LKKLESQESLVKLFTTNELMRWPIVQKTYE  319 (445)
T ss_dssp             HHHHHHHSSCSSTTHHHHHSHHHHSS-CHHHHHHHHHHHHHHHCCSSSHHHHHHHTC
T ss_pred             HHHHHHhCCCCchHHHHHHHHhhccc-ccccHHHHHHHHHHHhchHhhhHHHHHHHH
Confidence            33333334444444444444444433 255667777777776642  3444444443

>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=91.25  E-value=5.1  Score=32.51  Aligned_cols=26  Identities=12%  Similarity=0.109  Sum_probs=15.7

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVK   71 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~   71 (295)
                      ....|...|.+.|+.++..+++....
T Consensus        21 ~~~~l~~~~~~~~~~~~~~~~~~~~~   46 (394)
T 3txn_A           21 GILQQGELYKQEGKAKELADLIKVTR   46 (394)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            44556666666666666666665543

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=91.15  E-value=2  Score=35.38  Aligned_cols=125  Identities=12%  Similarity=0.126  Sum_probs=80.4

Q ss_pred             HHHHHHHHHHHHhCCC-CC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC--CChHhHHHHHHHHHccCCHHHHHH
Q 022531           60 TEKAEELFERVKQSNL-SF-NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--PDIFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        60 ~~~a~~~~~~m~~~~~-~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~~~~~~a~~  135 (295)
                      +++.........+... .. -..+...+...|.+.|++++|.+.|.++...-..  --...+-.+++.+...+++..+..
T Consensus       110 l~~l~~~~~~~~~~~~~e~e~~~~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~  189 (429)
T 4b4t_R          110 IKELNEKIQKLEEDDEGELEQAQAWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKE  189 (429)
T ss_dssp             HHHHHHHHHHHHHCCSCCCCCSSCCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHHHhhccccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHH
Confidence            4444444444443221 11 2336778999999999999999999999874322  235668888999999999999999


Q ss_pred             HHHHHhhcCCCCCCHHHHHHH----HHHHHhcCchhhHHHHHHHHHHHhcCCCc
Q 022531          136 FLDEMSCDSGGSDDWVKYVNL----VNIYITASHLVNAESSTLVEAEKSITQRQ  185 (295)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  185 (295)
                      .+.++.......+++..-+.+    ...+...+++..|.. .|.+........+
T Consensus       190 ~~~ka~~~~~~~~d~~~~~~lk~~~gl~~l~~r~f~~Aa~-~f~e~~~t~~~~e  242 (429)
T 4b4t_R          190 KLEAVNSMIEKGGDWERRNRYKTYYGIHCLAVRNFKEAAK-LLVDSLATFTSIE  242 (429)
T ss_dssp             HHHHHHHHHTTCCCTHHHHHHHHHHHHGGGGTSCHHHHHH-HHHHHHHHSCCSC
T ss_pred             HHHHHHHhhhcCCCHHHHHHHHHHHHHHHHHhChHHHHHH-HHHHHhccCCccc
Confidence            998876531222333322221    222345688999988 6766665544433

>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=90.90  E-value=7.5  Score=33.76  Aligned_cols=115  Identities=11%  Similarity=-0.020  Sum_probs=64.8

Q ss_pred             chhhHHHHHHHHHHHhcCCCccccHHH----HHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          165 HLVNAESSTLVEAEKSITQRQWITYDF----LIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       165 ~~~~a~~~~~~~~~~~~~~~~~~~~~~----li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      +.+.|.. .+........ .+......    +.......+...++...+......  .++.......++...+.|+++.|
T Consensus       229 d~~~A~~-~~~~~~~~~~-~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a  304 (618)
T 1qsa_A          229 DAENARL-MIPSLAQAQQ-LNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGL  304 (618)
T ss_dssp             CHHHHHH-HHHHHHHHTT-CCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             CHHHHHH-HHHhhhhccC-CCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHH
Confidence            5566766 5655543332 22222222    222222334244555566554332  34444444555666678999999


Q ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .+.|..|......  ...-.-=+..++...|+.++|..+|..+..
T Consensus       305 ~~~~~~l~~~~~~--~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          305 NTWLARLPMEAKE--KDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHHSCTTGGG--SHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHccccccc--cHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            9999888653321  222222256677888999999999888764

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=90.31  E-value=3.6  Score=31.27  Aligned_cols=53  Identities=13%  Similarity=0.141  Sum_probs=29.5

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHH
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  179 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  179 (295)
                      ..+.|+++++++....-++.  .|-|...-..+++.+|-.|+++.|.+ -++...+
T Consensus         7 ll~~g~L~~al~~~~~~VR~--~P~da~~R~~LfqLLcv~G~w~RA~~-QL~~~a~   59 (273)
T 1zbp_A            7 ALSEGQLQQALELLIEAIKA--SPKDASLRSSFIELLCIDGDFERADE-QLMQSIK   59 (273)
T ss_dssp             HTTTTCHHHHHHHHHHHHHT--CTTCHHHHHHHHHHHHHHTCHHHHHH-HHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHh--CCcCHHHHHHHHHHHHhcCCHHHHHH-HHHHHHH
Confidence            44556666666655555542  24455555566666666666666666 4444333

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.71  E-value=2.5  Score=26.50  Aligned_cols=85  Identities=9%  Similarity=-0.030  Sum_probs=52.4

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHH
Q 022531          129 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  208 (295)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  208 (295)
                      ..++|..+-+.+... +.  ...+--.=+..+...|++++|..     .....+.||...|-.|..  .+.|-.+++...
T Consensus        21 ~HqEA~tIAdwL~~~-~~--~E~v~lIR~sSLmNrG~Yq~Al~-----l~~~~c~pdlepw~ALce--~rlGl~s~le~r   90 (115)
T 2uwj_G           21 CHEEALCIAEWLERL-GQ--DEAARLIRISSLANQGRYQEALA-----FAHGNPWPALEPWFALCE--WHLGLGAALDRR   90 (115)
T ss_dssp             CHHHHHHHHHHHHHT-TC--HHHHHHHHHHHHHHTTCHHHHHG-----GGTTCCCGGGHHHHHHHH--HHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-Cc--HHHHHHHHHHHHHcchhHHHHHH-----hcCCCCCchHHHHHHHHH--HhcccHHHHHHH
Confidence            457777777776665 22  22222233445667788888877     344556777777766654  567777777777


Q ss_pred             HHHHHhccCCCCHHhH
Q 022531          209 WKSLRMTKQKMTSRNY  224 (295)
Q Consensus       209 ~~~m~~~~~~~~~~~~  224 (295)
                      +.++..+| .|....|
T Consensus        91 L~~la~sg-~p~~q~F  105 (115)
T 2uwj_G           91 LAGLGGSS-DPALADF  105 (115)
T ss_dssp             HHHHHTCS-SHHHHHH
T ss_pred             HHHHHhCC-CHHHHHH
Confidence            77777665 4444444

>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=89.41  E-value=2.7  Score=26.41  Aligned_cols=85  Identities=7%  Similarity=0.050  Sum_probs=52.4

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHH
Q 022531          129 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  208 (295)
Q Consensus       129 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  208 (295)
                      ..++|..+-+.+... +.  ...+--.=+..+...|++++|..     .....+.||...|-+|..  .+.|-.+++...
T Consensus        22 ~HqEA~tIAdwL~~~-~~--~E~v~lIR~sSLmNrG~Yq~Al~-----l~~~~c~pdlepw~ALce--~rlGl~s~le~r   91 (116)
T 2p58_C           22 YHEEANCIAEWLHLK-GE--EEAVQLIRLSSLMNRGDYASALQ-----QGNKLAYPDLEPWLALCE--YRLGLGSALESR   91 (116)
T ss_dssp             CHHHHHHHHHHHHHT-TC--HHHHHHHHHHHHHHTTCHHHHHH-----HHTTSCCGGGHHHHHHHH--HHHTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-Cc--HHHHHHHHHHHHHcchhHHHHHH-----hcCCCCCchHHHHHHHHH--HhcccHHHHHHH
Confidence            457777777776665 22  22222233445667788888877     445566777777766654  467777777777


Q ss_pred             HHHHHhccCCCCHHhH
Q 022531          209 WKSLRMTKQKMTSRNY  224 (295)
Q Consensus       209 ~~~m~~~~~~~~~~~~  224 (295)
                      +.++..+| .|....|
T Consensus        92 L~~la~sg-~p~~q~F  106 (116)
T 2p58_C           92 LNRLARSQ-DPRIQTF  106 (116)
T ss_dssp             HHHHTTCC-CHHHHHH
T ss_pred             HHHHHhCC-CHHHHHH
Confidence            76776665 4444444

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=89.27  E-value=3.7  Score=27.79  Aligned_cols=67  Identities=7%  Similarity=-0.050  Sum_probs=40.8

Q ss_pred             CCccccHHHHHHHHHhcCC---HHHHHHHHHHHHhccCCCCHHh-HHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          183 QRQWITYDFLIILYAGLGN---KDKIDQIWKSLRMTKQKMTSRN-YICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       183 ~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~~~~-~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      .++..+--.+..++.+..+   ..+++.+++.+...+. ....- .-.|.-++.+.|++++|.++.+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~-~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAE-SRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCC-STHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCc-cchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            3444444445555566554   4467777777766431 12333 234666778888888888888888774

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=88.52  E-value=2.6  Score=29.38  Aligned_cols=56  Identities=9%  Similarity=-0.028  Sum_probs=29.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCC-CCCCh-------HhHHHHHHHHHccCCHHHHHHHHHHH
Q 022531           85 MMTLYMSVGQVEKVALVVEEIKRKN-VVPDI-------FTYNLWISSCAATLNIDQVKKFLDEM  140 (295)
Q Consensus        85 li~~~~~~~~~~~a~~~~~~m~~~~-~~p~~-------~~~~~li~~~~~~~~~~~a~~~~~~~  140 (295)
                      =+..+...|.++.|+-+.+.+.... ..|+.       .++..+.+++...+++.+|...|++.
T Consensus        26 qik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           26 HVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            3445555666666665555543211 12221       23445555666666666666666664

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=88.34  E-value=4.4  Score=27.44  Aligned_cols=68  Identities=6%  Similarity=-0.039  Sum_probs=40.7

Q ss_pred             CCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           76 SFNALMYNEMMTLYMSVGQ---VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .|+..+--....+++++.+   ..+++.+++++.+.+..-.-.....|.-++.+.|++++|.++.+.+.+.
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~  106 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  106 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHT
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhc
Confidence            4566665566666666654   3456677777666432212333444555677777777777777777653

>3eiq_C Programmed cell death protein 4; PDCD4, anti-oncogene, apoptosis, cell cycle, nucleus, phosph RNA-binding, ATP-binding, helicase, hydrolase; 3.50A {Mus musculus}

Probab=88.19  E-value=7.2  Score=31.17  Aligned_cols=71  Identities=11%  Similarity=0.087  Sum_probs=37.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCChHhHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ--VEKVALVVEEIKRKNVVPDIFTYNL  119 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~  119 (295)
                      ....+|.-|...++.++|...++++.....  .......+|..-...++  -+.+-.++..+.. ++-+.......
T Consensus        56 ~~~~ii~EYf~~~d~~Ea~~~l~eL~~p~~--~~~~v~~~I~~aLdr~~~erE~~s~LLs~L~~-~~ls~~~i~~g  128 (358)
T 3eiq_C           56 TLTPIIQEYFEHGDTNEVAEMLRDLNLGEM--KSGVPVLAVSLALEGKASHREMTSKLLSDLCG-TVMSTNDVEKS  128 (358)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHTTTCCGG--GGGHHHHHHHHHTTSCHHHHHHHHHHHHTTTT-TSCCHHHHHHH
T ss_pred             HHHHHHHHHhcCCCHHHHHHHHHHhCCchh--HHHHHHHHHHHHhcCChHHHHHHHHHHHHHHh-CCCCHHHHHHH
Confidence            345667777777888888888877654332  12233334443333332  3445555555553 44433333333

>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=87.81  E-value=9.8  Score=30.88  Aligned_cols=232  Identities=11%  Similarity=0.036  Sum_probs=135.8

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCC---C---CHHHHHHHHHHHHcc-CcHHHHHHHHHHHHhCCCCCCHHHH--
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSA---K---TSETYTALLHLYAGA-KWTEKAEELFERVKQSNLSFNALMY--   82 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~---p---~~~~~~~li~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~~--   82 (295)
                      .....|...|.+.|+.++..+++......-   |   ....-..|+..+... +..+.-.++..+..+..- -...+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHH
Confidence            355678899999999999999998876641   2   456677888888774 334555555554443210 011223  


Q ss_pred             ----HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----hHhHHHHHHHHHccCCHHHHHHHHHHHhhcC-CCCCCHHH
Q 022531           83 ----NEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-----IFTYNLWISSCAATLNIDQVKKFLDEMSCDS-GGSDDWVK  152 (295)
Q Consensus        83 ----~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~  152 (295)
                          .-|+..|...|++.+|.+++.++.+.=-..|     ...+..-+..|...+++.++...+....... .+.+++.+
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i  178 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKV  178 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHH
Confidence                2678899999999999999998876311112     2346666778889999999999998876532 22233433


Q ss_pred             HHH----HHHHHH-hcCchhhHHHHHHHHHHHhcCCCc------cccHHHHHHHHHhcCCHHHHHHHHH-HHHhccCCCC
Q 022531          153 YVN----LVNIYI-TASHLVNAESSTLVEAEKSITQRQ------WITYDFLIILYAGLGNKDKIDQIWK-SLRMTKQKMT  220 (295)
Q Consensus       153 ~~~----l~~~~~-~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~-~m~~~~~~~~  220 (295)
                      ...    -...+. ..+++..|.. .|.+.........      ...|..|. +. -.++..+.-.++. .....-..|.
T Consensus       179 ~a~i~~~~Gi~~l~~~rdyk~A~~-~F~eaf~~f~~~~~~~~~~~lkYlvL~-aL-l~~~r~el~~~l~~~~~~~~~~pe  255 (394)
T 3txn_A          179 QGALDLQSGILHAADERDFKTAFS-YFYEAFEGFDSVDSVKALTSLKYMLLC-KI-MLGQSDDVNQLVSGKLAITYSGRD  255 (394)
T ss_dssp             HHHHHHHHHHHHHHTTSCHHHHHH-HHHHHHHHHTTTCHHHHHHHHHHHHHH-HH-HTTCGGGHHHHHHSHHHHTTCSHH
T ss_pred             HHHHHHHhhHHHHHhccCHHHHHH-HHHHHHhcccccccHHHHHHHHHHHHH-HH-HcCCHHHHHHHhccccccccCCcc
Confidence            221    223345 6899999999 6666654433222      12232222 22 2233333333322 1111112444


Q ss_pred             HHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          221 SRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       221 ~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                      ...+..++.+| ..+++....+++....
T Consensus       256 i~~l~~L~~a~-~~~dl~~f~~iL~~~~  282 (394)
T 3txn_A          256 IDAMKSVAEAS-HKRSLADFQAALKEYK  282 (394)
T ss_dssp             HHHHHHHHHHH-HTTCHHHHHHHHHHST
T ss_pred             HHHHHHHHHHH-HhCCHHHHHHHHHHHH
Confidence            44455566654 4566666666655543

>3eu9_A Huntingtin-interacting protein 14; epigenetics, ankyrin repeats, methyllyine binding, huntingti interacting protein 14, acyltransferase, ANK repeat; HET: HIS; 1.99A {Homo sapiens}

Probab=87.74  E-value=5.3  Score=29.16  Aligned_cols=17  Identities=12%  Similarity=-0.136  Sum_probs=9.8

Q ss_pred             HHHhccChhHHHHHHhh
Q 022531           20 LMTKVFGIHSGERYFEG   36 (295)
Q Consensus        20 ~~~~~~~~~~A~~~~~~   36 (295)
                      ..++.|+++....+++.
T Consensus        15 ~A~~~g~~~~~~~Ll~~   31 (240)
T 3eu9_A           15 KATQYGIYERCRELVEA   31 (240)
T ss_dssp             HHHHTTCHHHHHHHHHT
T ss_pred             HHHHcCChHHHHHHHHc
Confidence            34556666666666553

>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=87.58  E-value=4.7  Score=26.92  Aligned_cols=68  Identities=7%  Similarity=-0.014  Sum_probs=45.3

Q ss_pred             CCCHHHHHHHHHHHHhcCCH---HHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           76 SFNALMYNEMMTLYMSVGQV---EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~---~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .|+..+--....+++++.+.   .+++.+++++.+.+..-....+..+.-++.+.|++++|.++.+.+.+.
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            46666666667777776643   467778877776542112344555666788888888888888887763

>4a1g_A Mitotic checkpoint serine/threonine-protein kinas; cell cycle, transferase, spindle assembly checkpoint, mitosi repeat, KNL1, KMN network; 2.60A {Homo sapiens} PDB: 2lah_A

Probab=87.51  E-value=5.3  Score=27.42  Aligned_cols=46  Identities=17%  Similarity=0.179  Sum_probs=20.7

Q ss_pred             HHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          205 IDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       205 a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      ..++|..|...|+.... ..|......+...|++.+|.++|+.-++.
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~  130 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQN  130 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            44455555444443322 22334444444455555555555544443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=86.92  E-value=3.8  Score=25.74  Aligned_cols=89  Identities=7%  Similarity=-0.074  Sum_probs=59.1

Q ss_pred             ccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE  103 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~  103 (295)
                      ..+-++|..+-+.+...+-...+--+-+..+...|++++|..+.+.+.    .||...|-+|..  .+.|-.+++...+.
T Consensus        19 ~H~HqEA~tIAdwL~~~~~~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c----~pdlepw~ALce--~rlGl~s~le~rL~   92 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLGQDEAARLIRISSLANQGRYQEALAFAHGNP----WPALEPWFALCE--WHLGLGAALDRRLA   92 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTCHHHHHGGGTTCC----CGGGHHHHHHHH--HHTTCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHcchhHHHHHHhcCCCC----CchHHHHHHHHH--HhcccHHHHHHHHH
Confidence            345778888877776653322222233456778899999988876554    578888876654  47788888888887


Q ss_pred             HHHhCCCCCChHhHHH
Q 022531          104 EIKRKNVVPDIFTYNL  119 (295)
Q Consensus       104 ~m~~~~~~p~~~~~~~  119 (295)
                      ++..+|- |....|..
T Consensus        93 ~la~sg~-p~~q~Fa~  107 (115)
T 2uwj_G           93 GLGGSSD-PALADFAA  107 (115)
T ss_dssp             HHHTCSS-HHHHHHHH
T ss_pred             HHHhCCC-HHHHHHHH
Confidence            8877653 45555543

>2wvi_A Mitotic checkpoint serine/threonine-protein kinase BUB1 beta; tumor suppressor, TPR, apoptosis, cell division, cell cycle, kinetochore, transferase; 1.80A {Homo sapiens} PDB: 3si5_A

Probab=86.77  E-value=2.2  Score=29.69  Aligned_cols=54  Identities=11%  Similarity=0.094  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCH
Q 022531          203 DKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDI  257 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~  257 (295)
                      +...++|..|...|+.... ..|......+...|++.+|.++|..-++.+- .|-.
T Consensus        77 ~~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~A-~P~~  131 (164)
T 2wvi_A           77 NEPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQKA-EPLE  131 (164)
T ss_dssp             SCHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-BSHH
T ss_pred             CCHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHH
Confidence            4466677777777765443 3355666677777788888887777766543 3533

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=85.13  E-value=9.6  Score=28.60  Aligned_cols=218  Identities=11%  Similarity=0.021  Sum_probs=103.6

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChH---hHHHHHHHHH
Q 022531           49 ALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF---TYNLWISSCA  125 (295)
Q Consensus        49 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~---~~~~li~~~~  125 (295)
                      +.+...++.|+++.+..+++.-.......+..- .+.+...+..|+.+-    ++.+.+.|..|+..   -.+ .+...+
T Consensus         7 ~~L~~A~~~g~~~~v~~Ll~~g~~~~~~~~~~g-~t~L~~A~~~g~~~~----v~~Ll~~g~~~~~~~~~g~t-~L~~A~   80 (285)
T 1wdy_A            7 HLLIKAVQNEDVDLVQQLLEGGANVNFQEEEGG-WTPLHNAVQMSREDI----VELLLRHGADPVLRKKNGAT-PFLLAA   80 (285)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTTCCTTCCCTTTC-CCHHHHHHHTTCHHH----HHHHHHTTCCTTCCCTTCCC-HHHHHH
T ss_pred             hHHHHHHHcCCHHHHHHHHHcCCCcccccCCCC-CcHHHHHHHcCCHHH----HHHHHHcCCCCcccCCCCCC-HHHHHH
Confidence            445556678887766655543222211112111 234555566777654    44445556554432   222 333445


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccc-------------cH
Q 022531          126 ATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI-------------TY  189 (295)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------------~~  189 (295)
                      ..|+.+-+..++    +. |..++   ..-. ..+...+..|+.+-...     +.+.+..++..             -.
T Consensus        81 ~~~~~~~v~~Ll----~~-g~~~~~~~~~g~-t~L~~A~~~~~~~~~~~-----Ll~~g~~~~~~~~~~~~~~~~~~~g~  149 (285)
T 1wdy_A           81 IAGSVKLLKLFL----SK-GADVNECDFYGF-TAFMEAAVYGKVKALKF-----LYKRGANVNLRRKTKEDQERLRKGGA  149 (285)
T ss_dssp             HHTCHHHHHHHH----HT-TCCTTCBCTTCC-BHHHHHHHTTCHHHHHH-----HHHTTCCTTCCCCCCHHHHHTTCCCC
T ss_pred             HcCCHHHHHHHH----Hc-CCCCCccCcccC-CHHHHHHHhCCHHHHHH-----HHHhCCCcccccccHHHHHhhccCCC
Confidence            567765444443    33 33332   2222 23444556676654433     55556555432             11


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHH---hHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHH--HHHHHH
Q 022531          190 DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR---NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDIS--ACNRLL  264 (295)
Q Consensus       190 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~--~~~~l~  264 (295)
                      + .+...+..|+.+-+..+++.   .|..++..   -.+.+ ...+..++.....++++.+.+.+. .++..  .-.+.+
T Consensus       150 t-~L~~A~~~~~~~~v~~Ll~~---~~~~~~~~~~~g~t~l-~~a~~~~~~~~~~~i~~~Ll~~g~-~~~~~~~~g~t~L  223 (285)
T 1wdy_A          150 T-ALMDAAEKGHVEVLKILLDE---MGADVNACDNMGRNAL-IHALLSSDDSDVEAITHLLLDHGA-DVNVRGERGKTPL  223 (285)
T ss_dssp             C-HHHHHHHHTCHHHHHHHHHT---SCCCTTCCCTTSCCHH-HHHHHCSCTTTHHHHHHHHHHTTC-CSSCCCTTSCCHH
T ss_pred             c-HHHHHHHcCCHHHHHHHHHh---cCCCCCccCCCCCCHH-HHHHHccccchHHHHHHHHHHcCC-CCCCcCCCCCcHH
Confidence            2 33344566776554444431   25544432   22333 334455665555566666666553 34332  122344


Q ss_pred             HHHHccCChHHHHHHHHHHHh-cCCCCCCC
Q 022531          265 GAFSDVGLTEKANEFHMLLLQ-KNCAPTNA  293 (295)
Q Consensus       265 ~~~~~~g~~~~a~~~~~~m~~-~g~~p~~~  293 (295)
                      ...+..|+.+-    ++.+++ .|..++..
T Consensus       224 ~~A~~~~~~~~----v~~Ll~~~g~~~~~~  249 (285)
T 1wdy_A          224 ILAVEKKHLGL----VQRLLEQEHIEINDT  249 (285)
T ss_dssp             HHHHHTTCHHH----HHHHHHSSSCCTTCC
T ss_pred             HHHHHcCCHHH----HHHHHhccCCCcccc
Confidence            55566677654    444444 56666643

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=84.62  E-value=11  Score=28.63  Aligned_cols=210  Identities=8%  Similarity=-0.036  Sum_probs=97.9

Q ss_pred             hccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022531           23 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV  102 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  102 (295)
                      +..+..+..+++..-....+|..-++.|..+ +..|+.+-+..+++.    |..++...-.+.+...+..|+.+-+    
T Consensus         8 ~~~~~~~v~~lL~~~~~~~~d~~g~t~L~~A-~~~g~~~~v~~Ll~~----g~~~~~~~g~t~L~~A~~~g~~~~v----   78 (285)
T 3kea_A            8 NTWKSKQLKSFLSSKDTFKADVHGHSASYYA-IADNNVRLVCTLLNA----GALKNLLENEFPLHQAATLEDTKIV----   78 (285)
T ss_dssp             GGCCHHHHHHHHHSTTTTCCCTTSCCHHHHH-HHTTCHHHHHHHHHT----TGGGSCCTTCCHHHHHTTSSSCHHH----
T ss_pred             HhcCHHHHHHHHHhCCCCccCCCCCCHHHHH-HHcCCHHHHHHHHhC----CCCCCCCCCCCHHHHHHHcCCHHHH----
Confidence            4456666777775532223454445544444 456777665555543    4333222122344555566765544    


Q ss_pred             HHHHhCCCCCChH---hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH---HHHHHHHHHHHhcCchhhHHHHHHHH
Q 022531          103 EEIKRKNVVPDIF---TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW---VKYVNLVNIYITASHLVNAESSTLVE  176 (295)
Q Consensus       103 ~~m~~~~~~p~~~---~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~  176 (295)
                      +.+.+.|..++..   -++. +...+..|+.+-+..+++.     |..++.   .-+.+.+...+..|+.+-+..     
T Consensus        79 ~~Ll~~ga~~~~~d~~g~t~-L~~A~~~g~~~~v~~Ll~~-----ga~~~~~~~~g~~t~L~~A~~~~~~~~v~~-----  147 (285)
T 3kea_A           79 KILLFSGLDDSQFDDKGNTA-LYYAVDSGNMQTVKLFVKK-----NWRLMFYGKTGWKTSFYHAVMLNDVSIVSY-----  147 (285)
T ss_dssp             HHHHHTTCCTTCCCTTSCCH-HHHHHHTTCHHHHHHHHHH-----CGGGGGCSSSGGGSHHHHHHHTTCHHHHHH-----
T ss_pred             HHHHHCCCCCCCcCCCCCcH-HHHHHHcCCHHHHHHHHhc-----CCCCCccCCCCCCCHHHHHHHcCCHHHHHH-----
Confidence            3444556554432   2333 3334556776655555443     222221   111234455556676654444     


Q ss_pred             HHHhcCCCccc-cHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCC
Q 022531          177 AEKSITQRQWI-TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF  255 (295)
Q Consensus       177 ~~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~  255 (295)
                      +.+.+..+... .-.+.+...+..|+.+-+.-+++.-..... .+..-.+..+...+..|+.+-    ++.+.+.|. .+
T Consensus       148 Ll~~g~~~~~~~~g~t~L~~A~~~g~~~~v~~Ll~~gad~n~-~~~~g~t~~L~~A~~~~~~~~----v~~Ll~~ga-d~  221 (285)
T 3kea_A          148 FLSEIPSTFDLAILLSCIHITIKNGHVDMMILLLDYMTSTNT-NNSLLFIPDIKLAIDNKDIEM----LQALFKYDI-NI  221 (285)
T ss_dssp             HHTTSCTTCCCSTHHHHHHHHHHTTCHHHHHHHHHHHHHTCT-TCCCBCCTTHHHHHHHTCHHH----HHHHTTSCB-CS
T ss_pred             HHhCCCccccccCCccHHHHHHHcChHHHHHHHHHcCCCCCc-ccCCCCChHHHHHHHcCCHHH----HHHHHHcCC-CC
Confidence            44445443221 233444455677777766555554322221 111122233444555666543    344444443 34


Q ss_pred             CHH
Q 022531          256 DIS  258 (295)
Q Consensus       256 ~~~  258 (295)
                      +..
T Consensus       222 ~~~  224 (285)
T 3kea_A          222 YSA  224 (285)
T ss_dssp             TTT
T ss_pred             CCC
Confidence            443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=84.17  E-value=14  Score=29.20  Aligned_cols=112  Identities=8%  Similarity=-0.019  Sum_probs=55.8

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHH----HHHHHHhCCCCCCHHHHHHHHHH
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEE----LFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~----~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      +|.++..-|.+.+++++|.+++-.             =...+.+.|+...+-+    +++.+.+.++++|......|+..
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~-------------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L  103 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILAS-------------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGC  103 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-------------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHH-------------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            444555555555555555554322             1223334455444333    33555566677777766666666


Q ss_pred             HHhcCCHH-HHHHHHHHHH----hCC--CCCChHhHHHHHHHHHccCCHHHHHHHH
Q 022531           89 YMSVGQVE-KVALVVEEIK----RKN--VVPDIFTYNLWISSCAATLNIDQVKKFL  137 (295)
Q Consensus        89 ~~~~~~~~-~a~~~~~~m~----~~~--~~p~~~~~~~li~~~~~~~~~~~a~~~~  137 (295)
                      +.....-+ .=.++.+++.    +.|  ..-|......+...|.+.+++.+|...|
T Consensus       104 ~~~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~  159 (336)
T 3lpz_A          104 LRLFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHL  159 (336)
T ss_dssp             HTTSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHhCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHH
Confidence            65544211 0111222221    112  2234555566667777777777776665

>2zu6_B Programmed cell death protein 4; protein-protein complex, ATP-binding, helicase, hydrolase, initiation factor, nucleotide-binding; 2.80A {Homo sapiens} PDB: 3eij_A

Probab=83.40  E-value=14  Score=28.76  Aligned_cols=26  Identities=15%  Similarity=0.240  Sum_probs=17.3

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHh
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQ   72 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~   72 (295)
                      ...++.-|...|+.++|...++++..
T Consensus         6 ~~~ii~EYf~~~d~~Ea~~~l~el~~   31 (307)
T 2zu6_B            6 LTPIIQEYFEHGDTNEVAEMLRDLNL   31 (307)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHhCC
Confidence            34566667677777777777776543

>1k1a_A B-cell lymphoma 3-encoded protein; BCL-3, NF-kappab transcription factors, ikappab proteins; 1.86A {Homo sapiens} SCOP: d.211.1.1 PDB: 1k1b_A

Probab=82.89  E-value=11  Score=27.55  Aligned_cols=82  Identities=10%  Similarity=0.003  Sum_probs=35.8

Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHh--HHHHHHHHHccCC
Q 022531           54 YAGAKWTEKAEELFERVKQSNLSFNALM--YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT--YNLWISSCAATLN  129 (295)
Q Consensus        54 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~li~~~~~~~~  129 (295)
                      .++.|+.+.+..+++.+.+.|..++...  -.+.+...+..|+.+    +++.+.+.|..++...  -.+.+...+..|+
T Consensus        16 A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t~l~~A~~~~~   91 (241)
T 1k1a_A           16 AVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPS----VVRLLVTAGASPMALDRHGQTAAHLACEHRS   91 (241)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTSCCHHHHHHHTTC
T ss_pred             HHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHH----HHHHHHHcCCCccccCCCCCCHHHHHHHcCC
Confidence            3455666666666665555443332211  112333344455543    3333444444433211  1122333345566


Q ss_pred             HHHHHHHHHH
Q 022531          130 IDQVKKFLDE  139 (295)
Q Consensus       130 ~~~a~~~~~~  139 (295)
                      .+-+..+++.
T Consensus        92 ~~~~~~Ll~~  101 (241)
T 1k1a_A           92 PTCLRALLDS  101 (241)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHc
Confidence            6555555444

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=80.80  E-value=22  Score=29.18  Aligned_cols=60  Identities=15%  Similarity=0.050  Sum_probs=29.3

Q ss_pred             HHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc--cccHHHHHHHHHhcCCHHHHHHHHHHH
Q 022531          152 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ--WITYDFLIILYAGLGNKDKIDQIWKSL  212 (295)
Q Consensus       152 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m  212 (295)
                      +...+...|.+.|+++.|.+ .+.++......+.  ...+-..++.+...+++..+...+++.
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~-~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka  194 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEK-TLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAV  194 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHH-HHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHH-HHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHH
Confidence            33445555555555555555 5555444332221  233444445555555555555555544

>4aez_C MAD3, mitotic spindle checkpoint component MAD3; cell cycle, KEN-BOX, D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}

Probab=80.64  E-value=13  Score=27.36  Aligned_cols=49  Identities=14%  Similarity=0.108  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          203 DKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                      ++..++|..|...|+.... ..|......+...|++.+|.++|+.-++.+
T Consensus       131 ~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~  180 (223)
T 4aez_C          131 DEPVELFSFLAHHHIGQESSIFYEEYANYFESRGLFQKADEVYQKGKRMK  180 (223)
T ss_dssp             SCHHHHHHHHHHTTCSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHCCcchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            4666777777766665443 335566666677777777777777766654

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=80.50  E-value=19  Score=28.17  Aligned_cols=163  Identities=11%  Similarity=-0.024  Sum_probs=75.7

Q ss_pred             HHHHHHHHHHHHhCCCCC-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHH-
Q 022531           95 VEKVALVVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS-  172 (295)
Q Consensus        95 ~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~-  172 (295)
                      .++.++-++.-.+.|--= --.+|.++..-|.+.+++++|++++..--                ..+.+.|+...|.++ 
T Consensus        13 ~~r~l~rl~~~I~~G~yYEAhQ~~Rtl~~Ry~~~~~~~eAidlL~~ga----------------~~ll~~~Q~~sa~DLa   76 (312)
T 2wpv_A           13 LAKTLQRFENKIKAGDYYEAHQTLRTIANRYVRSKSYEHAIELISQGA----------------LSFLKAKQGGSGTDLI   76 (312)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH----------------HHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHH----------------HHHHHCCCcchHHHHH
Confidence            444444444444443110 12345556666666666666666543321                223334554444441 


Q ss_pred             --HHHHHHHhcCCCccccHHHHHHHHHhcCCHH-HHHHHHHHHHh----ccC--CCCHHhHHHHHHHHHhcCChHHHHHH
Q 022531          173 --TLVEAEKSITQRQWITYDFLIILYAGLGNKD-KIDQIWKSLRM----TKQ--KMTSRNYICILSSYLMLGHLKEVGEI  243 (295)
Q Consensus       173 --~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~-~a~~~~~~m~~----~~~--~~~~~~~~~li~~~~~~~~~~~A~~~  243 (295)
                        +.+...+.+.+++......++..+......+ .-.++++++.+    .|-  .-++.....+...|.+.|++.+|...
T Consensus        77 ~llvev~~~~~~~~~~~~~~rl~~l~~~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H  156 (312)
T 2wpv_A           77 FYLLEVYDLAEVKVDDISVARLVRLIAELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERY  156 (312)
T ss_dssp             HHHHHHHHHTTCCCSHHHHHHHHHHHTTCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHH
Confidence              2333334555666656666666555433211 22334444432    211  12344455666677777777766554


Q ss_pred             HHHHhhhcCCCCCHHHHHHHHHHHHcc---CChHHHHH
Q 022531          244 IDQWKQSATSDFDISACNRLLGAFSDV---GLTEKANE  278 (295)
Q Consensus       244 ~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~  278 (295)
                      |  +.  +. .-+...+..++.-+...   |...++--
T Consensus       157 ~--i~--~~-~~s~~~~a~~l~~w~~~~~~~~~~e~dl  189 (312)
T 2wpv_A          157 F--ML--GT-HDSMIKYVDLLWDWLCQVDDIEDSTVAE  189 (312)
T ss_dssp             H--HT--SC-HHHHHHHHHHHHHHHHHTTCCCHHHHHH
T ss_pred             H--Hh--CC-CccHHHHHHHHHHHHHhcCCCCcchHHH
Confidence            3  21  10 11345555555555444   55555433

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

No hit with e-value below 0.005

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	295
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.89
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.8
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.74
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.52
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.51
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.48
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.47
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.44
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.39
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.36
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.33
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	99.12
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.11
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.11
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.03
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.96
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.91
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.9
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.84
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.83
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.83
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.82
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.82
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.76
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.74
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.71
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.66
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.62
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.6
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.53
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.41
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.39
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.39
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.35
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.32
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.3
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.3
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.29
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.27
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.21
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.21
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.17
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.16
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.16
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.07
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.01
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.87
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.73
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.71
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.68
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.67
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.45
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.4
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.32
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.7
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.37
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.12
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.38
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.3
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	93.69
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	93.28
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	86.87
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	83.76
d1u9pa1	36	Arc repressor {Salmonella bacteriophage P22 [TaxId	81.56

>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=99.89  E-value=7.6e-20  Score=147.79  Aligned_cols=273  Identities=11%  Similarity=0.006  Sum_probs=222.5

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCC-----------
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF-----------   77 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-----------   77 (295)
                      ++..+..+...+.+.|++++|...|+...+..| +..+|..+..++.+.|++++|+..+..........           
T Consensus        32 ~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~  111 (388)
T d1w3ba_          32 NTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQEAIEHYRHALRLKPDFIDGYINLAAAL  111 (388)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccccccccccccccccccccccccccccccc
Confidence            467788888889999999999999998877767 67788889999999999999988887776543111           


Q ss_pred             --------------------------------------------------------CHHHHHHHHHHHHhcCCHHHHHHH
Q 022531           78 --------------------------------------------------------NALMYNEMMTLYMSVGQVEKVALV  101 (295)
Q Consensus        78 --------------------------------------------------------~~~~~~~li~~~~~~~~~~~a~~~  101 (295)
                                                                              +...+..+...+...|++++|...
T Consensus       112 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~  191 (388)
T d1w3ba_         112 VAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFAVAWSNLGCVFNAQGEIWLAIHH  191 (388)
T ss_dssp             HHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchhHHHHhhcccccccCcHHHHHHH
Confidence                                                                    234556666777788889999999


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhc
Q 022531          102 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  181 (295)
Q Consensus       102 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (295)
                      +++..+... -+..++..+...+...|++++|...+++....  .+.+...+..+..++.+.|++++|.. .+++..+..
T Consensus       192 ~~~al~~~p-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~al~~~  267 (388)
T d1w3ba_         192 FEKAVTLDP-NFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVYYEQGLIDLAID-TYRRAIELQ  267 (388)
T ss_dssp             HHHHHHHCT-TCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTC
T ss_pred             HHHHHHhCc-ccHHHHHHHhhhhhccccHHHHHHHHHHhHHH--hhhHHHHHHHHHHHHHHCCCHHHHHH-HHHHHHHhC
Confidence            988877532 24667888888999999999999999998875  34567778888999999999999999 888887755


Q ss_pred             CCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHH
Q 022531          182 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN  261 (295)
Q Consensus       182 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~  261 (295)
                      +. +..+|..+...+...|++++|++.++...... +.+...+..+...+...|++++|++.|++..+..  +.+..+|.
T Consensus       268 p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--p~~~~~~~  343 (388)
T d1w3ba_         268 PH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHS  343 (388)
T ss_dssp             SS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHH
T ss_pred             CC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHH
Confidence            43 56788889999999999999999999887664 5566778889999999999999999999988743  34677899


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHhcCCCCCC
Q 022531          262 RLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       262 ~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      .+..+|.+.|++++|...|++.++  +.|+.
T Consensus       344 ~la~~~~~~g~~~~A~~~~~~al~--l~P~~  372 (388)
T d1w3ba_         344 NLASVLQQQGKLQEALMHYKEAIR--ISPTF  372 (388)
T ss_dssp             HHHHHHHTTTCCHHHHHHHHHHHT--TCTTC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--hCCCC
Confidence            999999999999999999999987  55654

>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=99.87  E-value=6.8e-19  Score=142.12  Aligned_cols=266  Identities=13%  Similarity=0.054  Sum_probs=222.4

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV   95 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~   95 (295)
                      +...+.+.|++++|.+.|+++.+..| +...+..+...+.+.|++++|...|++..+.+ |-+..+|..+..+|.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccc
Confidence            44567789999999999999988777 78899999999999999999999999998875 45678999999999999999


Q ss_pred             HHHHHHHHHHHhCCCC----------------------------------------------------------------
Q 022531           96 EKVALVVEEIKRKNVV----------------------------------------------------------------  111 (295)
Q Consensus        96 ~~a~~~~~~m~~~~~~----------------------------------------------------------------  111 (295)
                      ++|+..+....+....                                                                
T Consensus        84 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          84 QEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhc
Confidence            9999998876543211                                                                


Q ss_pred             --C-ChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcccc
Q 022531          112 --P-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT  188 (295)
Q Consensus       112 --p-~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  188 (295)
                        | +...+..+...+...|++++|...+++....  .+.+..++..+...+...|++++|.. .+.......+. +...
T Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~  239 (388)
T d1w3ba_         164 TQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL--DPNFLDAYINLGNVLKEARIFDRAVA-AYLRALSLSPN-HAVV  239 (388)
T ss_dssp             HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCTTHHHH-HHHHHHHHCTT-CHHH
T ss_pred             cCcchhHHHHhhcccccccCcHHHHHHHHHHHHHh--CcccHHHHHHHhhhhhccccHHHHHH-HHHHhHHHhhh-HHHH
Confidence              1 2344555666777889999999999998874  35567788999999999999999999 88877665543 5667


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHH
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFS  268 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~  268 (295)
                      +..+...+.+.|++++|+..|++..+.. +-+...+..+..++...|++++|.+.++......  +.+...+..+..++.
T Consensus       240 ~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~  316 (388)
T d1w3ba_         240 HGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKR  316 (388)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC--CccchhhhHHHHHHH
Confidence            8888899999999999999999988764 3346678889999999999999999999988864  467888999999999


Q ss_pred             ccCChHHHHHHHHHHHhcCCCCCC
Q 022531          269 DVGLTEKANEFHMLLLQKNCAPTN  292 (295)
Q Consensus       269 ~~g~~~~a~~~~~~m~~~g~~p~~  292 (295)
                      ..|++++|...|++.++  +.|+.
T Consensus       317 ~~~~~~~A~~~~~~al~--~~p~~  338 (388)
T d1w3ba_         317 EQGNIEEAVRLYRKALE--VFPEF  338 (388)
T ss_dssp             TTTCHHHHHHHHHHHTT--SCTTC
T ss_pred             HCCCHHHHHHHHHHHHH--hCCCC
Confidence            99999999999999887  45654

>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=99.80  E-value=1.3e-16  Score=126.07  Aligned_cols=257  Identities=12%  Similarity=-0.011  Sum_probs=201.9

Q ss_pred             HHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC
Q 022531           16 TRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ   94 (295)
Q Consensus        16 ~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~   94 (295)
                      -....+.+.|++++|...|+.+.+..| +..+|..+..++...|++++|...|++..+.. +-+...|..+...|...|+
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            356677899999999999999998878 78899999999999999999999999998764 4467899999999999999


Q ss_pred             HHHHHHHHHHHHhCCCCCChH----------------hHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 022531           95 VEKVALVVEEIKRKNVVPDIF----------------TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  158 (295)
Q Consensus        95 ~~~a~~~~~~m~~~~~~p~~~----------------~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  158 (295)
                      +++|.+.+++.....  |+..                .....+..+...+.+.++...|.+........++..++..+..
T Consensus       103 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~  180 (323)
T d1fcha_         103 QRQACEILRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGV  180 (323)
T ss_dssp             HHHHHHHHHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHH
T ss_pred             ccccccchhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHH
Confidence            999999999987642  2211                1111223344556778888888887765344556778889999


Q ss_pred             HHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChH
Q 022531          159 IYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLK  238 (295)
Q Consensus       159 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~  238 (295)
                      .+...|++++|.. .++......+. +..+|..+...|...|++++|++.|++..+.. +-+...+..+..+|.+.|+++
T Consensus       181 ~~~~~~~~~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~  257 (323)
T d1fcha_         181 LFNLSGEYDKAVD-CFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHR  257 (323)
T ss_dssp             HHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHHhhhhc-ccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHH
Confidence            9999999999999 88888776544 66788899999999999999999999988753 234567888999999999999


Q ss_pred             HHHHHHHHHhhhcCC---------CCCHHHHHHHHHHHHccCChHHHHH
Q 022531          239 EVGEIIDQWKQSATS---------DFDISACNRLLGAFSDVGLTEKANE  278 (295)
Q Consensus       239 ~A~~~~~~~~~~~~~---------~~~~~~~~~l~~~~~~~g~~~~a~~  278 (295)
                      +|++.|++..+-...         ......|..+-.++...|+.+.+..
T Consensus       258 ~A~~~~~~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~~  306 (323)
T d1fcha_         258 EAVEHFLEALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGA  306 (323)
T ss_dssp             HHHHHHHHHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHH
T ss_pred             HHHHHHHHHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999999988763211         1122356667777777777765543

>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=99.74  E-value=2.4e-15  Score=118.64  Aligned_cols=233  Identities=10%  Similarity=-0.090  Sum_probs=184.7

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHc
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  126 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~  126 (295)
                      +-.....+.+.|++++|...|+++.+.. |-+..+|..+..+|...|++++|...|++..+.... +...+..+...+..
T Consensus        22 ~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~   99 (323)
T d1fcha_          22 PFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELKPD-NQTALMALAVSFTN   99 (323)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccccc-cccccccccccccc
Confidence            3456778889999999999999999875 456889999999999999999999999998875332 56778889999999


Q ss_pred             cCCHHHHHHHHHHHhhcCCCCCCH-------------HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC-CccccHHHH
Q 022531          127 TLNIDQVKKFLDEMSCDSGGSDDW-------------VKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQWITYDFL  192 (295)
Q Consensus       127 ~~~~~~a~~~~~~~~~~~~~~~~~-------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l  192 (295)
                      .|++++|.+.+++...........             ......+..+...+.+.+|.+ .+.......+. .+..++..+
T Consensus       100 ~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~~~al~~~p~~~~~~~~~~l  178 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYTPAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKE-LFLAAVRLDPTSIDPDVQCGL  178 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTSTTTGGGCC---------------CTTHHHHHHHHHHHHHH-HHHHHHHHSTTSCCHHHHHHH
T ss_pred             cccccccccchhhHHHhccchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHH-HHHHHHHHhhcccccccchhh
Confidence            999999999999987642111000             011122334445667778888 77766654433 345667788


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCC
Q 022531          193 IILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGL  272 (295)
Q Consensus       193 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  272 (295)
                      ...+...|++++|+..|++..... +-+...|..+..+|...|++++|.+.|++..+..  +-+..+|..+..+|.+.|+
T Consensus       179 ~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~~g~  255 (323)
T d1fcha_         179 GVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIRSRYNLGISCINLGA  255 (323)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh--hccHHHHHHHHHHHHHCCC
Confidence            889999999999999999987764 3356778889999999999999999999998854  3467789999999999999


Q ss_pred             hHHHHHHHHHHHh
Q 022531          273 TEKANEFHMLLLQ  285 (295)
Q Consensus       273 ~~~a~~~~~~m~~  285 (295)
                      +++|...|++.++
T Consensus       256 ~~~A~~~~~~al~  268 (323)
T d1fcha_         256 HREAVEHFLEALN  268 (323)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999999886

>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=99.52  E-value=7.5e-12  Score=97.85  Aligned_cols=214  Identities=8%  Similarity=0.005  Sum_probs=97.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCChHhHHHHHHHH
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKRKNVVPDIFTYNLWISSC  124 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  124 (295)
                      .|+.+...+.+.+..++|+++++++++.+ |-+..+|+....++...| ++++|+..+++..+.... +..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhHHH
Confidence            44444444555555555555555555543 233445555555554443 355555555555443221 344455555555


Q ss_pred             HccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCC---
Q 022531          125 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN---  201 (295)
Q Consensus       125 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~---  201 (295)
                      .+.|++++|+..++++.+.  .+.+..+|..+..++.+.|++++|.+ .+..+.+..+. +...|+.+...+.+.+.   
T Consensus       123 ~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~-~~~~al~~~p~-n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQ-YVDQLLKEDVR-NNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCSCS
T ss_pred             HhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHH-HHHHHHHHCCc-cHHHHHHHHHHHHHccccch
Confidence            5555555555555555542  23344555555555555555555555 55554443322 33444444444333332   


Q ss_pred             ---HHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHH
Q 022531          202 ---KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  267 (295)
Q Consensus       202 ---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  267 (295)
                         +++|++.+....+.. +-+...|..+...+ .....+++.+.++...+......+...+..++..|
T Consensus       199 ~~~~~~ai~~~~~al~~~-P~~~~~~~~l~~ll-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y  265 (315)
T d2h6fa1         199 RAVLEREVQYTLEMIKLV-PHNESAWNYLKGIL-QDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIY  265 (315)
T ss_dssp             HHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHH-TTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHH
T ss_pred             hhhhHHhHHHHHHHHHhC-CCchHHHHHHHHHH-HhcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHH
Confidence               344555554444432 11333333333322 22334444555544443322222333344444444

>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=99.51  E-value=3.2e-11  Score=95.31  Aligned_cols=273  Identities=11%  Similarity=0.018  Sum_probs=196.7

Q ss_pred             HHHHHHHHHHHhccChhHHHHHHhhcccCCCC------HHHHHHHHHHHHccCcHHHHHHHHHHHHhC----CCCC-CHH
Q 022531           12 SDYATRIDLMTKVFGIHSGERYFEGLPLSAKT------SETYTALLHLYAGAKWTEKAEELFERVKQS----NLSF-NAL   80 (295)
Q Consensus        12 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~   80 (295)
                      .........+...|++++|.++|++.....|+      ...++.+..++...|++++|...|++..+.    +-.+ ...
T Consensus        13 e~~~lrA~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~   92 (366)
T d1hz4a_          13 EFNALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALW   92 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHH
Confidence            34455567778999999999999987766553      346788889999999999999999987653    1111 234


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHh----CCCCC--C-hHhHHHHHHHHHccCCHHHHHHHHHHHhhcC---CCCCCH
Q 022531           81 MYNEMMTLYMSVGQVEKVALVVEEIKR----KNVVP--D-IFTYNLWISSCAATLNIDQVKKFLDEMSCDS---GGSDDW  150 (295)
Q Consensus        81 ~~~~li~~~~~~~~~~~a~~~~~~m~~----~~~~p--~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~  150 (295)
                      ++..+...+...|++..+...+.+...    .+..+  . ...+..+...+...|+++.+...+.......   +.....
T Consensus        93 ~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  172 (366)
T d1hz4a_          93 SLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQL  172 (366)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHH
Confidence            566777889999999999999987653    21111  1 2345566778889999999999998876532   222334


Q ss_pred             HHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCc------cccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCC---H
Q 022531          151 VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ------WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT---S  221 (295)
Q Consensus       151 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~  221 (295)
                      ..+......+...++...+.. .+...........      ...+..+...+...|++++|...++.........+   .
T Consensus       173 ~~~~~~~~~~~~~~~~~~a~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  251 (366)
T d1hz4a_         173 QCLAMLIQCSLARGDLDNARS-QLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQ  251 (366)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGH
T ss_pred             HHHHHHHHHHHhhhhHHHHHH-HHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHH
Confidence            456667777888999999888 6666554332211      23455566678889999999999988755432222   2


Q ss_pred             HhHHHHHHHHHhcCChHHHHHHHHHHhhh----cCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          222 RNYICILSSYLMLGHLKEVGEIIDQWKQS----ATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       222 ~~~~~li~~~~~~~~~~~A~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ..+..+..++...|++++|.+.+++....    +..+....++..+..+|...|++++|.+.+++.++
T Consensus       252 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         252 GQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            33556788999999999999999987642    22112345788889999999999999999998765

>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=99.48  E-value=4.8e-11  Score=93.01  Aligned_cols=221  Identities=12%  Similarity=0.073  Sum_probs=164.8

Q ss_pred             hhHHHHHHhhcccCCC-CHHHHHHHHHHHHc--------------cCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh
Q 022531           27 IHSGERYFEGLPLSAK-TSETYTALLHLYAG--------------AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   91 (295)
Q Consensus        27 ~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~--------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~   91 (295)
                      .+.+..+|+.+....| +...|..-+..+-+              .+..++|..+|++..+...+.+...|...+..+.+
T Consensus        32 ~~Rv~~vyerAl~~~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~  111 (308)
T d2onda1          32 TKRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHh
Confidence            3456677877776645 66777766655433              23457888999998876555567788888888999


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH-HHhcCchhhHH
Q 022531           92 VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI-YITASHLVNAE  170 (295)
Q Consensus        92 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~a~  170 (295)
                      .|++++|..+|+++.+.........|...+..+.+.|+++.|.++|+++.+.  .+.+...|...... +...|+.+.|.
T Consensus       112 ~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~  189 (308)
T d2onda1         112 RMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAF  189 (308)
T ss_dssp             TTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHH
T ss_pred             cccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHH
Confidence            9999999999999887644333457888888999999999999999998875  23444555444443 33457889999


Q ss_pred             HHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhcc-CCCC--HHhHHHHHHHHHhcCChHHHHHHHHHH
Q 022531          171 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK-QKMT--SRNYICILSSYLMLGHLKEVGEIIDQW  247 (295)
Q Consensus       171 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~--~~~~~~li~~~~~~~~~~~A~~~~~~~  247 (295)
                      . +++.+....+. +...|...+......|+.+.|..+|++..... ..|.  ...|...+.--...|+.+.+.++++++
T Consensus       190 ~-i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~  267 (308)
T d2onda1         190 K-IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             H-HHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             H-HHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9 88888876543 56788888888899999999999999876653 2332  346777777778889999999999888


Q ss_pred             hhhc
Q 022531          248 KQSA  251 (295)
Q Consensus       248 ~~~~  251 (295)
                      .+..
T Consensus       268 ~~~~  271 (308)
T d2onda1         268 FTAF  271 (308)
T ss_dssp             HHHT
T ss_pred             HHHC
Confidence            7754

>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=99.47  E-value=3.5e-11  Score=93.79  Aligned_cols=221  Identities=10%  Similarity=0.067  Sum_probs=167.5

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh--------------cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHH
Q 022531           60 TEKAEELFERVKQSNLSFNALMYNEMMTLYMS--------------VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  125 (295)
Q Consensus        60 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~--------------~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  125 (295)
                      .+.+..+|+++... ++-++..|..-+..+.+              .+..++|..+|++..+...+.+...|...+....
T Consensus        32 ~~Rv~~vyerAl~~-~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~  110 (308)
T d2onda1          32 TKRVMFAYEQCLLV-LGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEE  110 (308)
T ss_dssp             HHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence            35567778877765 24456677665554332              2345789999999887644445667888888899


Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHH-HHhcCCHHH
Q 022531          126 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIIL-YAGLGNKDK  204 (295)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~~~~g~~~~  204 (295)
                      +.|+++.|..+|+++... .......+|...+..+.+.|+.+.|.+ ++.......+. +...|...... +...|+.+.
T Consensus       111 ~~~~~~~a~~i~~~~l~~-~~~~~~~~w~~~~~~~~~~~~~~~ar~-i~~~al~~~~~-~~~~~~~~a~~e~~~~~~~~~  187 (308)
T d2onda1         111 SRMKYEKVHSIYNRLLAI-EDIDPTLVYIQYMKFARRAEGIKSGRM-IFKKAREDART-RHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             HTTCHHHHHHHHHHHHTS-SSSCTHHHHHHHHHHHHHHHCHHHHHH-HHHHHHTSTTC-CTHHHHHHHHHHHHTSCCHHH
T ss_pred             hcccHHHHHHHHHHHHHH-hcCChHHHHHHHHHHHHHcCChHHHHH-HHHHHHHhCCC-cHHHHHHHHHHHHHhccCHHH
Confidence            999999999999999874 222234578899999999999999999 88888776544 33344433332 345689999


Q ss_pred             HHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCC--HHHHHHHHHHHHccCChHHHHHHHHH
Q 022531          205 IDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD--ISACNRLLGAFSDVGLTEKANEFHML  282 (295)
Q Consensus       205 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~  282 (295)
                      |..+|+.+.... +.+...+...+..+...|+++.|..+|++..+.....|+  ...|...+.--...|+.+.+..++++
T Consensus       188 a~~i~e~~l~~~-p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r  266 (308)
T d2onda1         188 AFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh-hhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            999999998763 446678889999999999999999999998886543343  45788888877889999999999998


Q ss_pred             HHh
Q 022531          283 LLQ  285 (295)
Q Consensus       283 m~~  285 (295)
                      +.+
T Consensus       267 ~~~  269 (308)
T d2onda1         267 RFT  269 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            865

>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=99.44  E-value=3.5e-11  Score=94.01  Aligned_cols=216  Identities=6%  Similarity=-0.009  Sum_probs=170.5

Q ss_pred             HHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccC-cHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531           11 DSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus        11 ~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      ...|+.+-..+.+.+.+++|+++++.+.+..| +...|+....++...| ++++|+..+++..+.. +-+..+|+.+...
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~  121 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  121 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHH
Confidence            44667777788899999999999999999888 7889999999988866 5999999999998875 4578899999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc---
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH---  165 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~---  165 (295)
                      +.+.|++++|+..++++.+.... +...|..+...+.+.|++++|++.++++.+.  .+.+..+|+.+..++.+.+.   
T Consensus       122 ~~~l~~~~eAl~~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~--~p~n~~a~~~r~~~l~~~~~~~~  198 (315)
T d2h6fa1         122 VEWLRDPSQELEFIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYND  198 (315)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCS
T ss_pred             HHhhccHHHHHHHHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHH--CCccHHHHHHHHHHHHHccccch
Confidence            99999999999999999986432 6888999999999999999999999999985  35577788888777777665   


Q ss_pred             ---hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCC-CHHhHHHHHHHHHh
Q 022531          166 ---LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLM  233 (295)
Q Consensus       166 ---~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~  233 (295)
                         +++|.+ .+.......+. +...|+.+...+.. ...+++.+.++...+....+ +...+..++..|..
T Consensus       199 ~~~~~~ai~-~~~~al~~~P~-~~~~~~~l~~ll~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         199 RAVLEREVQ-YTLEMIKLVPH-NESAWNYLKGILQD-RGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             HHHHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHTT-TCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             hhhhHHhHH-HHHHHHHhCCC-chHHHHHHHHHHHh-cChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence               467777 67766666543 67777777665544 44678888888776653332 34445566666643

>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=99.39  E-value=2.4e-12  Score=101.71  Aligned_cols=260  Identities=7%  Similarity=-0.037  Sum_probs=181.8

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHH----------HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHL----------YAGAKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~----------~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      ++....+.+..++|+++++.+....| +...|+..-..          +...|++++|+.+++...+.+ +-+...|..+
T Consensus        35 ~~~~~~~~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~  113 (334)
T d1dcea1          35 VFQKRQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHR  113 (334)
T ss_dssp             HHHHHHTTCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHh
Confidence            33333444446899999999988778 45566543332          223455889999999998775 5577888888


Q ss_pred             HHHHHhcC--CHHHHHHHHHHHHhCCCCCChHhHH-HHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 022531           86 MTLYMSVG--QVEKVALVVEEIKRKNVVPDIFTYN-LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  162 (295)
Q Consensus        86 i~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~-~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  162 (295)
                      ..++...+  ++++|+..+++..+... ++...+. .....+...+.+++|+..++.+...  .+-+..+|+.+..++.+
T Consensus       114 ~~~~~~~~~~~~~~a~~~~~~al~~~~-~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~--~p~~~~a~~~l~~~~~~  190 (334)
T d1dcea1         114 CWLLSRLPEPNWARELELCARFLEADE-RNFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQ  190 (334)
T ss_dssp             HHHHHTCSSCCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHH
T ss_pred             hHHHHHhccccHHHHHHHHHHHHhhCc-hhhhhhhhHHHHHHHhccccHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHH
Confidence            88777765  58999999999988533 2455544 4446677889999999999998875  35678889999999999


Q ss_pred             cCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHH
Q 022531          163 ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGE  242 (295)
Q Consensus       163 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~  242 (295)
                      .|++++|.. .+.......+.     ...+...+...+..+++...+....... .++...+..+...+...++.++|..
T Consensus       191 ~~~~~~A~~-~~~~~~~~~~~-----~~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~  263 (334)
T d1dcea1         191 LHPQPDSGP-QGRLPENVLLK-----ELELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCK  263 (334)
T ss_dssp             HSCCCCSSS-CCSSCHHHHHH-----HHHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHH
T ss_pred             hcCHHHHHH-HHHHhHHhHHH-----HHHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHH
Confidence            999988876 33332222111     1123333455666777777777666553 3344455566777777788888888


Q ss_pred             HHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHhcCCCCC
Q 022531          243 IIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  291 (295)
Q Consensus       243 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~~g~~p~  291 (295)
                      .+.+..+..  +.+..+|..+..++...|+.++|.++++++.+  +.|+
T Consensus       264 ~~~~~~~~~--p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~--ldP~  308 (334)
T d1dcea1         264 ELQELEPEN--KWCLLTIILLMRALDPLLYEKETLQYFSTLKA--VDPM  308 (334)
T ss_dssp             HHHHHCTTC--HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH--HCGG
T ss_pred             HHHHHHhhC--chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--HCcc
Confidence            888777643  34567778888888888888998888888877  4454

>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=99.36  E-value=2.6e-11  Score=91.90  Aligned_cols=215  Identities=11%  Similarity=-0.009  Sum_probs=142.6

Q ss_pred             hhHHHHHHhhcccCC----C-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHH
Q 022531           27 IHSGERYFEGLPLSA----K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV  101 (295)
Q Consensus        27 ~~~A~~~~~~~~~~~----p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~  101 (295)
                      .+.|+.-++++....    + ...+|..+..+|.+.|++++|...|++.++.. |-++.+|+.+..+|.+.|++++|+..
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            344444444444431    2 45688888999999999999999999998764 45788999999999999999999999


Q ss_pred             HHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhc
Q 022531          102 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  181 (295)
Q Consensus       102 ~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  181 (295)
                      |++..+.... +..++..+..++...|++++|...|+...+.  .+.+......+..++.+.+..+.+.. +...... .
T Consensus        94 ~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~-~  168 (259)
T d1xnfa_          94 FDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEV-LKQHFEK-S  168 (259)
T ss_dssp             HHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHH-HHHHHHH-S
T ss_pred             hhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHH-HHHHhhc-c
Confidence            9999885332 4667888888999999999999999998875  23445554455555666666555555 3333322 2


Q ss_pred             CCCccccHHHHHHHHHhcCC----HHHHHHHHHHHHhccCCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHhhhc
Q 022531          182 TQRQWITYDFLIILYAGLGN----KDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       182 ~~~~~~~~~~li~~~~~~g~----~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~  251 (295)
                       .+....++ ++..+.....    .+.+...+......  .|+ ..++..+...|...|++++|.+.|+......
T Consensus       169 -~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         169 -DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             -CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             -chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence             22222222 2333322222    23333332222211  122 2456678889999999999999999988743

>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=99.33  E-value=3e-11  Score=91.54  Aligned_cols=217  Identities=13%  Similarity=-0.013  Sum_probs=112.1

Q ss_pred             cHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHH
Q 022531           59 WTEKAEELFERVKQSN-LSF--NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK  135 (295)
Q Consensus        59 ~~~~a~~~~~~m~~~~-~~p--~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~  135 (295)
                      +.+.++.-+++..... ..+  ...+|..+..+|.+.|++++|+..|++..+... -+..+|..+..++.+.|++++|+.
T Consensus        14 ~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p-~~~~a~~~lg~~~~~~g~~~~A~~   92 (259)
T d1xnfa_          14 QQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRP-DMPEVFNYLGIYLTQAGNFDAAYE   92 (259)
T ss_dssp             HHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCC-CCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCC-CCHHHHhhhchHHHHHHHHHHhhh
Confidence            3444555555555432 111  123566666677777777777777777666422 245666667777777777777777


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          136 FLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      .|+++...  .+.+..++..+..+|...|++++|.. .++...+..+. +......+...+.+.+..+....+.......
T Consensus        93 ~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  168 (259)
T d1xnfa_          93 AFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQD-DLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  168 (259)
T ss_dssp             HHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             hhhHHHHH--HhhhhhhHHHHHHHHHHHhhHHHHHH-HHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhcc
Confidence            77776664  23345566666677777777777777 66666554432 3333333333444445444444444444332


Q ss_pred             cCCCCHHhHHHHHHHHHhcC----ChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          216 KQKMTSRNYICILSSYLMLG----HLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       216 ~~~~~~~~~~~li~~~~~~~----~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      .  +....+. ++..+....    ..+.+...+.......  +-...+|..+...|...|++++|...|++.+.
T Consensus       169 ~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~  237 (259)
T d1xnfa_         169 D--KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLA--EHLSETNFYLGKYYLSLGDLDSATALFKLAVA  237 (259)
T ss_dssp             C--CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             c--hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcC--cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            2  2211221 222222111    1222222222211111  11233555666677777777777777777665

>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=99.12  E-value=1.3e-09  Score=84.01  Aligned_cols=167  Identities=7%  Similarity=-0.090  Sum_probs=78.9

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCChHh
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQS----NLSF-NALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NV-VPDIFT  116 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~-~p~~~~  116 (295)
                      |......|...|++++|.+.|.+..+.    +-++ -..+|+.+..+|.+.|++++|.+.+++..+.    |. .....+
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~  119 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANF  119 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHH
Confidence            444555666666666666666655431    1111 1235566666666666666666666654331    10 001223


Q ss_pred             HHHHHHHHH-ccCCHHHHHHHHHHHhhc---CCCCCC-HHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCcccc---
Q 022531          117 YNLWISSCA-ATLNIDQVKKFLDEMSCD---SGGSDD-WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT---  188 (295)
Q Consensus       117 ~~~li~~~~-~~~~~~~a~~~~~~~~~~---~~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~---  188 (295)
                      +..+...|. ..|++++|+..+++....   .+.++. ..++..+...+.+.|++++|.+ .++++...........   
T Consensus       120 ~~~l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~-~~~~~~~~~~~~~~~~~~~  198 (290)
T d1qqea_         120 KFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASD-IYSKLIKSSMGNRLSQWSL  198 (290)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHH-HHHHHHHhCccchhhhhhH
Confidence            444444442 346666666666554432   111110 1234455555666666666666 5555444332221111   


Q ss_pred             ---HHHHHHHHHhcCCHHHHHHHHHHHHh
Q 022531          189 ---YDFLIILYAGLGNKDKIDQIWKSLRM  214 (295)
Q Consensus       189 ---~~~li~~~~~~g~~~~a~~~~~~m~~  214 (295)
                         +...+..+...|+++.|...+++..+
T Consensus       199 ~~~~~~~~~~~l~~~d~~~A~~~~~~~~~  227 (290)
T d1qqea_         199 KDYFLKKGLCQLAATDAVAAARTLQEGQS  227 (290)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGC
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence               12233334445556666555555443

>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=99.11  E-value=1.6e-10  Score=91.03  Aligned_cols=233  Identities=9%  Similarity=-0.066  Sum_probs=172.4

Q ss_pred             hccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccC--cHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHhcCCHHHH
Q 022531           23 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK--WTEKAEELFERVKQSNLSFNALMYNE-MMTLYMSVGQVEKV   98 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~-li~~~~~~~~~~~a   98 (295)
                      ..|.+++|+.+|+......| +...|..+..++...+  ++++|...++++.+.. +++...+.. ....+...+.+++|
T Consensus        85 ~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~A  163 (334)
T d1dcea1          85 SAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEE  163 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHH
Confidence            34557899999999887777 7888888888877765  4899999999998875 456776654 44677788999999


Q ss_pred             HHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Q 022531           99 ALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAE  178 (295)
Q Consensus        99 ~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (295)
                      +..+++..+.+.. +...|..+...+.+.|++++|...+......   .|..   ..+...+...+..+++.. .+....
T Consensus       164 l~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~---~~~~~~~~~l~~~~~a~~-~~~~~l  235 (334)
T d1dcea1         164 LAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV---LLKE---LELVQNAFFTDPNDQSAW-FYHRWL  235 (334)
T ss_dssp             HHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH---HHHH---HHHHHHHHHHCSSCSHHH-HHHHHH
T ss_pred             HHHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh---HHHH---HHHHHHHHHhcchhHHHH-HHHHHH
Confidence            9999999887543 6788999999999999998887666554432   1211   233445566778888888 666665


Q ss_pred             HhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHH
Q 022531          179 KSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDIS  258 (295)
Q Consensus       179 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~  258 (295)
                      ...+ ++...+..+...+...|+.++|...+.+..... +-+...+..+..++...|+.++|.+.++...+..  +.+..
T Consensus       236 ~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld--P~~~~  311 (334)
T d1dcea1         236 LGRA-EPLFRCELSVEKSTVLQSELESCKELQELEPEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD--PMRAA  311 (334)
T ss_dssp             HSCC-CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC--GGGHH
T ss_pred             HhCc-chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--cccHH
Confidence            5443 355667777778888899999999998776543 1234566778889999999999999999998853  22455


Q ss_pred             HHHHHHHHHH
Q 022531          259 ACNRLLGAFS  268 (295)
Q Consensus       259 ~~~~l~~~~~  268 (295)
                      .|+.|...+.
T Consensus       312 y~~~L~~~~~  321 (334)
T d1dcea1         312 YLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666655554

>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=99.11  E-value=1e-07  Score=74.53  Aligned_cols=239  Identities=11%  Similarity=-0.008  Sum_probs=168.4

Q ss_pred             HHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHHHhcCCHHHHHHHHHHHHhCC----CCC-Ch
Q 022531           45 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-----ALMYNEMMTLYMSVGQVEKVALVVEEIKRKN----VVP-DI  114 (295)
Q Consensus        45 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~----~~p-~~  114 (295)
                      .........+...|++++|++++++..+.. +.+     ..+++.+...|...|++++|+..|++..+..    ..+ ..
T Consensus        13 e~~~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~   91 (366)
T d1hz4a_          13 EFNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYAL   91 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHH
Confidence            344445677889999999999999988753 222     3467788889999999999999999876531    111 13


Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhc---CCCC--C-CHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCC----
Q 022531          115 FTYNLWISSCAATLNIDQVKKFLDEMSCD---SGGS--D-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR----  184 (295)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~---~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----  184 (295)
                      ..+..+...+...|++..+...+.+....   ....  + ....+..+...+...|+++.+.. .+..........    
T Consensus        92 ~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~  170 (366)
T d1hz4a_          92 WSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEA-SARSGIEVLSSYQPQQ  170 (366)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHTTTSCGGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHH-HHHHHHHHhhhhhhhh
Confidence            44666677788999999999988876531   0111  1 22355667788999999999999 777776644332    


Q ss_pred             ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccC--CCC----HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCC--CC
Q 022531          185 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ--KMT----SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD--FD  256 (295)
Q Consensus       185 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~----~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~--~~  256 (295)
                      ....+..+...+...++..++...+.+......  ...    ...+..+...+...|+.+.|...+....+.....  ..
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  250 (366)
T d1hz4a_         171 QLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFL  250 (366)
T ss_dssp             GHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGG
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHH
Confidence            223445556677788999999988877644221  111    1234556777889999999999999876543211  22


Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHh
Q 022531          257 ISACNRLLGAFSDVGLTEKANEFHMLLLQ  285 (295)
Q Consensus       257 ~~~~~~l~~~~~~~g~~~~a~~~~~~m~~  285 (295)
                      ...+..+..++...|++++|...+++.+.
T Consensus       251 ~~~~~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         251 QGQWRNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            34566788899999999999999998764

>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=99.03  E-value=2.6e-08  Score=71.45  Aligned_cols=123  Identities=13%  Similarity=-0.032  Sum_probs=91.0

Q ss_pred             HHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 022531           18 IDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   97 (295)
Q Consensus        18 i~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~   97 (295)
                      ...+...|+++.|++.|+.+..  |+..+|..+..++...|++++|++.|++.++.+ +-+...|..+..+|.+.|++++
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            4556778888888888887643  677788888888888888888888888888775 4567788888888888888888


Q ss_pred             HHHHHHHHHhCCCC--------------CC-hHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           98 VALVVEEIKRKNVV--------------PD-IFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        98 a~~~~~~m~~~~~~--------------p~-~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      |++.|++.......              ++ ..++..+..++.+.|++++|.+.|......
T Consensus        89 A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~  149 (192)
T d1hh8a_          89 AIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  149 (192)
T ss_dssp             HHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            88888887643110              01 234455666677778888888777776653

>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=98.96  E-value=2.1e-08  Score=77.01  Aligned_cols=212  Identities=10%  Similarity=-0.081  Sum_probs=136.6

Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-hHhHHHHHHHHHccCCHHH
Q 022531           58 KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVPD-IFTYNLWISSCAATLNIDQ  132 (295)
Q Consensus        58 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~----~~~p~-~~~~~~li~~~~~~~~~~~  132 (295)
                      +++++|.++|.+.               ...|...|++++|.+.|.+..+.    +-.++ ..+|..+..+|.+.|++++
T Consensus        31 ~~~~~Aa~~y~~a---------------a~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~   95 (290)
T d1qqea_          31 YKFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVN   95 (290)
T ss_dssp             HHHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             ccHHHHHHHHHHH---------------HHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHH
Confidence            3567777776654               56688888899998888877652    22222 3568888888889999999


Q ss_pred             HHHHHHHHhhc----CCCCCCHHHHHHHHHHHHh-cCchhhHHHHHHHHHHHhcC---CC--ccccHHHHHHHHHhcCCH
Q 022531          133 VKKFLDEMSCD----SGGSDDWVKYVNLVNIYIT-ASHLVNAESSTLVEAEKSIT---QR--QWITYDFLIILYAGLGNK  202 (295)
Q Consensus       133 a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~---~~--~~~~~~~li~~~~~~g~~  202 (295)
                      |...+++...-    +.......++..+...|.. .|++++|.+ .+....+...   .+  ...++..+...+...|++
T Consensus        96 A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~-~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y  174 (290)
T d1qqea_          96 AVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAID-CYELAGEWYAQDQSVALSNKCFIKCADLKALDGQY  174 (290)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHH-HHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChH
Confidence            98888875442    1111224456666667744 588999988 7776653211   11  134577788888999999


Q ss_pred             HHHHHHHHHHHhccCCCCH------HhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCC---HHHHHHHHHHHHc--cC
Q 022531          203 DKIDQIWKSLRMTKQKMTS------RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD---ISACNRLLGAFSD--VG  271 (295)
Q Consensus       203 ~~a~~~~~~m~~~~~~~~~------~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~--~g  271 (295)
                      ++|+..|++..........      ..+...+.++...|+++.|.+.+++..+....-++   ......++.++..  .+
T Consensus       175 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~d~~~A~~~~~~~~~~~~~~~~sre~~~l~~l~~a~~~~d~e  254 (290)
T d1qqea_         175 IEASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSE  254 (290)
T ss_dssp             HHHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHHHhCccchhhhhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCccchHHHHHHHHHHHHHHhcCHH
Confidence            9999999887665322111      12334555677888999999998888764321122   2345666766655  34


Q ss_pred             ChHHHHHHHHHHHh
Q 022531          272 LTEKANEFHMLLLQ  285 (295)
Q Consensus       272 ~~~~a~~~~~~m~~  285 (295)
                      .+++|...|+++.+
T Consensus       255 ~~~eai~~y~~~~~  268 (290)
T d1qqea_         255 QLSEHCKEFDNFMR  268 (290)
T ss_dssp             THHHHHHHHTTSSC
T ss_pred             HHHHHHHHHHHHhh
Confidence            57777777765543

>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=98.91  E-value=1.2e-07  Score=67.95  Aligned_cols=87  Identities=15%  Similarity=-0.012  Sum_probs=44.3

Q ss_pred             HHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCH
Q 022531           51 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  130 (295)
Q Consensus        51 i~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~  130 (295)
                      ...+...|+++.|++.|+++    .+|++.+|..+..+|...|++++|++.|++..+... -+...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp-~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhh-hhhhhHHHHHHHHHhhccH
Confidence            33444555555555555443    134445555555555555555555555555554322 1344455555555555555


Q ss_pred             HHHHHHHHHHhh
Q 022531          131 DQVKKFLDEMSC  142 (295)
Q Consensus       131 ~~a~~~~~~~~~  142 (295)
                      ++|++.|++...
T Consensus        87 ~~A~~~~~kAl~   98 (192)
T d1hh8a_          87 DLAIKDLKEALI   98 (192)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            555555555443

>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=98.90  E-value=4.5e-08  Score=64.06  Aligned_cols=88  Identities=14%  Similarity=-0.035  Sum_probs=41.9

Q ss_pred             HHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHH
Q 022531           19 DLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   97 (295)
Q Consensus        19 ~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~   97 (295)
                      ..+.+.|++++|+..|+......| +...|..+..++.+.|++++|+..+++..+.+ +.+...|..+..++...|++++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHH
Confidence            344444555555555544444433 44444444445545555555555555444433 3344444444444555555555


Q ss_pred             HHHHHHHHHh
Q 022531           98 VALVVEEIKR  107 (295)
Q Consensus        98 a~~~~~~m~~  107 (295)
                      |+..|++..+
T Consensus        90 A~~~~~~a~~   99 (117)
T d1elwa_          90 AKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHT
T ss_pred             HHHHHHHHHH
Confidence            5555544444

>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=98.84  E-value=7.1e-08  Score=66.86  Aligned_cols=92  Identities=15%  Similarity=0.018  Sum_probs=53.4

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC
Q 022531           50 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  129 (295)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  129 (295)
                      ....|.+.|++++|+..|++..+.+ +-+...|..+..+|...|++++|+..|++..+... -+..+|..+..++...|+
T Consensus        16 ~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p-~~~~a~~~~g~~~~~~g~   93 (159)
T d1a17a_          16 QANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDK-KYIKGYYRRAASNMALGK   93 (159)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcc-cchHHHHHHHHHHHHcCC
Confidence            3445556666666666666666554 34455666666666666666666666666655421 134556666666666666


Q ss_pred             HHHHHHHHHHHhhc
Q 022531          130 IDQVKKFLDEMSCD  143 (295)
Q Consensus       130 ~~~a~~~~~~~~~~  143 (295)
                      +++|...+++....
T Consensus        94 ~~eA~~~~~~a~~~  107 (159)
T d1a17a_          94 FRAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            66666666665553

>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=3.4e-08  Score=71.26  Aligned_cols=97  Identities=7%  Similarity=-0.063  Sum_probs=46.3

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMT   87 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~   87 (295)
                      |+...+......+.+.|++++|+..|+......| +...|+.+..+|.+.|++++|+..|++.++.+ +-+..+|..+..
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~-p~~~~a~~~lg~   80 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQ   80 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhC-CCcHHHHHHHHH
Confidence            3444444444555555555555555544444433 44445555555555555555555555544432 123444444555


Q ss_pred             HHHhcCCHHHHHHHHHHHH
Q 022531           88 LYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        88 ~~~~~~~~~~a~~~~~~m~  106 (295)
                      +|.+.|++++|+..|++..
T Consensus        81 ~~~~l~~~~~A~~~~~~al   99 (201)
T d2c2la1          81 CQLEMESYDEAIANLQRAY   99 (201)
T ss_dssp             HHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHH
Confidence            5555555555555554443

>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=1.8e-07  Score=61.07  Aligned_cols=93  Identities=10%  Similarity=-0.019  Sum_probs=72.9

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccC
Q 022531           49 ALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL  128 (295)
Q Consensus        49 ~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~  128 (295)
                      .-...+.+.|++++|+..|++.++.. |-+...|..+..+|...|++++|+..+++..+.+. .+...|..+..++...|
T Consensus         8 ~~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~~g~~~~~~~   85 (117)
T d1elwa_           8 EKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAALEFLN   85 (117)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhcc-chhhHHHHHHHHHHHcc
Confidence            34566777888888888888887765 55677888888888888888888888888887643 36677888888888888


Q ss_pred             CHHHHHHHHHHHhhc
Q 022531          129 NIDQVKKFLDEMSCD  143 (295)
Q Consensus       129 ~~~~a~~~~~~~~~~  143 (295)
                      ++++|+..|++..+.
T Consensus        86 ~~~~A~~~~~~a~~~  100 (117)
T d1elwa_          86 RFEEAKRTYEEGLKH  100 (117)
T ss_dssp             CHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHHHHh
Confidence            888888888888764

>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=98.82  E-value=7.7e-06  Score=61.25  Aligned_cols=224  Identities=13%  Similarity=-0.009  Sum_probs=111.4

Q ss_pred             HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCChHhHHH
Q 022531           44 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYNL  119 (295)
Q Consensus        44 ~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~  119 (295)
                      +..+..|...+-+.+++++|++.|++..+.|   +...+..|...|..    ..+...|...++.....+.   ......
T Consensus         2 p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~   75 (265)
T d1ouva_           2 PKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHL   75 (265)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhc
Confidence            3445555555556666666666666666555   44555555555554    4456666666666555432   122222


Q ss_pred             HHHHHH----ccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchhhHHHHHHHHHHHhcCCCccccHHH
Q 022531          120 WISSCA----ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYDF  191 (295)
Q Consensus       120 li~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  191 (295)
                      +...+.    ...+.+.|...++..... |.   ......+...+..    ......+.. .+.....   ..+...+..
T Consensus        76 l~~~~~~~~~~~~~~~~a~~~~~~a~~~-g~---~~a~~~l~~~~~~~~~~~~~~~~a~~-~~~~~~~---~~~~~~~~~  147 (265)
T d1ouva_          76 LGNLYYSGQGVSQNTNKALQYYSKACDL-KY---AEGCASLGGIYHDGKVVTRDFKKAVE-YFTKACD---LNDGDGCTI  147 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHT-TC---HHHHHHHHHHHHHCSSSCCCHHHHHH-HHHHHHH---TTCHHHHHH
T ss_pred             cccccccccccchhhHHHHHHHhhhhhh-hh---hhHHHhhcccccCCCcccchhHHHHH-Hhhhhhc---ccccchhhh
Confidence            222222    134556666666665543 21   1112222222222    122233333 2222211   223444555


Q ss_pred             HHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHh----cCChHHHHHHHHHHhhhcCCCCCHHHHHHH
Q 022531          192 LIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKEVGEIIDQWKQSATSDFDISACNRL  263 (295)
Q Consensus       192 li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l  263 (295)
                      |...|..    ..+...+..+++...+.|   +......+...|..    ..+.+.|..+|....+.+    +...+..|
T Consensus       148 L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g----~~~a~~~L  220 (265)
T d1ouva_         148 LGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE----NGGGCFNL  220 (265)
T ss_dssp             HHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT----CHHHHHHH
T ss_pred             hhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc----CHHHHHHH
Confidence            5555553    345556666666555543   33344444444443    456777777777766643    23445556


Q ss_pred             HHHHHc----cCChHHHHHHHHHHHhcCC
Q 022531          264 LGAFSD----VGLTEKANEFHMLLLQKNC  288 (295)
Q Consensus       264 ~~~~~~----~g~~~~a~~~~~~m~~~g~  288 (295)
                      ...|..    ..+.++|.++|++..+.|-
T Consensus       221 G~~y~~G~g~~~n~~~A~~~~~kAa~~g~  249 (265)
T d1ouva_         221 GAMQYNGEGVTRNEKQAIENFKKGCKLGA  249 (265)
T ss_dssp             HHHHHTTSSSSCCSTTHHHHHHHHHHHTC
T ss_pred             HHHHHcCCCCccCHHHHHHHHHHHHHCcC
Confidence            666654    3367777777777766654

>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=98.82  E-value=1.3e-07  Score=65.44  Aligned_cols=94  Identities=11%  Similarity=-0.002  Sum_probs=65.1

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhc
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   92 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~   92 (295)
                      +......|.+.|++++|...|+......| +...|..+..++...|++++|...|++.++.+ +-+..+|..+..++...
T Consensus        13 l~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          13 LKTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHc
Confidence            33445566677777777777777766655 66677777777777777777777777776654 34556777777777777


Q ss_pred             CCHHHHHHHHHHHHhC
Q 022531           93 GQVEKVALVVEEIKRK  108 (295)
Q Consensus        93 ~~~~~a~~~~~~m~~~  108 (295)
                      |++++|...|++..+.
T Consensus        92 g~~~eA~~~~~~a~~~  107 (159)
T d1a17a_          92 GKFRAALRDYETVVKV  107 (159)
T ss_dssp             TCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHc
Confidence            7777777777777664

>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=98.76  E-value=1.1e-07  Score=68.53  Aligned_cols=98  Identities=10%  Similarity=0.012  Sum_probs=59.5

Q ss_pred             CCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-ChHhHHHH
Q 022531           42 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP-DIFTYNLW  120 (295)
Q Consensus        42 p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~l  120 (295)
                      |+...+...+..+.+.|++++|+..|++.++.. |.++..|+.+..+|.+.|++++|+..|++..+.  .| +..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            444555555666666666666666666666553 445566666666666666666666666666553  23 34556666


Q ss_pred             HHHHHccCCHHHHHHHHHHHhh
Q 022531          121 ISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~~~~  142 (295)
                      ..+|.+.|++++|+..|+++..
T Consensus        79 g~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            6666666666666666665543

>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=98.74  E-value=1.3e-05  Score=60.02  Aligned_cols=224  Identities=12%  Similarity=-0.037  Sum_probs=157.7

Q ss_pred             CHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHc----cCcHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 022531           10 SDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALMYNEM   85 (295)
Q Consensus        10 ~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~l   85 (295)
                      ||..+..|...+-+.+++++|.+.|+...+.+ +...+..|...|..    ..+...|...++.....+   ++.....+
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g-~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l   76 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK-ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLL   76 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhcc
Confidence            56778888888889999999999999987643 66677778888776    668999999999998887   45555566


Q ss_pred             HHHHHh----cCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHH----ccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 022531           86 MTLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA----ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  157 (295)
Q Consensus        86 i~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  157 (295)
                      ...+..    ..+.+.|...+++..+.|..   .....+...+.    .......+...+......    .+...+..+.
T Consensus        77 ~~~~~~~~~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~L~  149 (265)
T d1ouva_          77 GNLYYSGQGVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL----NDGDGCTILG  149 (265)
T ss_dssp             HHHHHHTSSSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHH
T ss_pred             ccccccccccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc----cccchhhhhh
Confidence            555543    56789999999998887643   22222333332    234567777777776653    4566777788


Q ss_pred             HHHHhc----CchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHh----cCCHHHHHHHHHHHHhccCCCCHHhHHHHHH
Q 022531          158 NIYITA----SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILS  229 (295)
Q Consensus       158 ~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~  229 (295)
                      ..|...    .+...+.. ++....+.+   +......+...|..    ..+.++|+.+|++..+.|   ++..+..|..
T Consensus       150 ~~~~~~~~~~~~~~~~~~-~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~  222 (265)
T d1ouva_         150 SLYDAGRGTPKDLKKALA-SYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGA  222 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHH-HHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHH
T ss_pred             hhhccCCCcccccccchh-hhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHH
Confidence            888763    34455555 555544433   44555566655554    568999999999998876   3445556777


Q ss_pred             HHHh----cCChHHHHHHHHHHhhhc
Q 022531          230 SYLM----LGHLKEVGEIIDQWKQSA  251 (295)
Q Consensus       230 ~~~~----~~~~~~A~~~~~~~~~~~  251 (295)
                      .|.+    ..+.++|.++|++....|
T Consensus       223 ~y~~G~g~~~n~~~A~~~~~kAa~~g  248 (265)
T d1ouva_         223 MQYNGEGVTRNEKQAIENFKKGCKLG  248 (265)
T ss_dssp             HHHTTSSSSCCSTTHHHHHHHHHHHT
T ss_pred             HHHcCCCCccCHHHHHHHHHHHHHCc
Confidence            7764    447889999999988766

>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=98.71  E-value=4.7e-08  Score=63.40  Aligned_cols=89  Identities=11%  Similarity=-0.058  Sum_probs=49.6

Q ss_pred             HHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCC
Q 022531           50 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  129 (295)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~  129 (295)
                      +...+.+.|++++|...|++....+ |-+..+|..+..++.+.|++++|+..|++..+... .+...+..+...|...|+
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p-~~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhccccccccccc-ccccchHHHHHHHHHCCC
Confidence            4445555566666666666655543 22455566666666666666666666665555321 134555555556666666


Q ss_pred             HHHHHHHHHHH
Q 022531          130 IDQVKKFLDEM  140 (295)
Q Consensus       130 ~~~a~~~~~~~  140 (295)
                      +++|++.+++.
T Consensus       100 ~~~A~~~l~~~  110 (112)
T d1hxia_         100 ANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            66666655543

>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=98.66  E-value=1.4e-07  Score=61.99  Aligned_cols=92  Identities=11%  Similarity=0.039  Sum_probs=47.3

Q ss_pred             HHHHHHHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCc---HHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHH
Q 022531           16 TRIDLMTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKW---TEKAEELFERVKQSNLSFN-ALMYNEMMTLYM   90 (295)
Q Consensus        16 ~li~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~   90 (295)
                      .+++.+...+++++|.+.|+......| +..++..+..++.+.++   +++|+.+|+++...+..|+ ..+|..|..+|.
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y~   83 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNY   83 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHHH
Confidence            345555555555555555555555444 45555555555554332   3345555555554432222 124455555555


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 022531           91 SVGQVEKVALVVEEIKR  107 (295)
Q Consensus        91 ~~~~~~~a~~~~~~m~~  107 (295)
                      +.|++++|++.|++..+
T Consensus        84 ~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          84 RLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HHhhhHHHHHHHHHHHH
Confidence            55555555555555555

>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=98.62  E-value=2.5e-07  Score=60.74  Aligned_cols=95  Identities=14%  Similarity=0.038  Sum_probs=76.3

Q ss_pred             HHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCC---HHHHHHHHHHHHhCCCCCC-hHhHHHHHHH
Q 022531           48 TALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ---VEKVALVVEEIKRKNVVPD-IFTYNLWISS  123 (295)
Q Consensus        48 ~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~  123 (295)
                      ..++..+...+++++|.+.|++....+ +.++.++..+..++.+.++   +++|+.+|+++...+..|+ ..++..+..+
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~-p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~   81 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAG-SVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVG   81 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHH
Confidence            457778888899999999999998876 5678888889999887654   4569999999887654444 3467778888


Q ss_pred             HHccCCHHHHHHHHHHHhhc
Q 022531          124 CAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~  143 (295)
                      |.+.|++++|.+.|+++.+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            99999999999999998875

>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=98.60  E-value=6.2e-07  Score=57.90  Aligned_cols=94  Identities=7%  Similarity=-0.126  Sum_probs=76.7

Q ss_pred             cHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHH
Q 022531          188 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  267 (295)
Q Consensus       188 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~  267 (295)
                      .+..+...+.+.|++++|+..|++..... +-+...|..+..++.+.|++++|+..|+...+..  +.+...|..+..+|
T Consensus        18 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~la~~y   94 (112)
T d1hxia_          18 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSH   94 (112)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc--cccccchHHHHHHH
Confidence            34455667788999999999999887764 2357778888889999999999999999988854  45788888999999


Q ss_pred             HccCChHHHHHHHHHHH
Q 022531          268 SDVGLTEKANEFHMLLL  284 (295)
Q Consensus       268 ~~~g~~~~a~~~~~~m~  284 (295)
                      ...|++++|.+.+++.+
T Consensus        95 ~~~g~~~~A~~~l~~~l  111 (112)
T d1hxia_          95 TNEHNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHh
Confidence            99999999999988764

>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=98.53  E-value=3.3e-06  Score=58.81  Aligned_cols=82  Identities=2%  Similarity=-0.133  Sum_probs=52.3

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  159 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  159 (295)
                      .+|+.+..+|.+.|++++|+..++...+... .+..++..+..++...|++++|...|+++.+..  |.+..+...+..+
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p-~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--P~n~~~~~~l~~~  139 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDS-NNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVC  139 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccc-cchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHH
Confidence            3566677777777777777777777776532 256667777777777777777777777776641  3345444444444


Q ss_pred             HHhcC
Q 022531          160 YITAS  164 (295)
Q Consensus       160 ~~~~~  164 (295)
                      ..+.+
T Consensus       140 ~~~~~  144 (170)
T d1p5qa1         140 QQRIR  144 (170)
T ss_dssp             HHHHH
T ss_pred             HHHHH
Confidence            43333

>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=98.41  E-value=3.2e-06  Score=55.87  Aligned_cols=96  Identities=13%  Similarity=0.075  Sum_probs=61.1

Q ss_pred             HHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC-CC-----hHhHHHH
Q 022531           47 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PD-----IFTYNLW  120 (295)
Q Consensus        47 ~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~-p~-----~~~~~~l  120 (295)
                      +..+...+.+.|++++|+..|++.++.+ +.+..++..+..+|.+.|++++|+..++++.+.... +.     ..+|..+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~l   85 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYARI   85 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHHH
Confidence            4456666777777777777777777664 445667777777777777777777777776542110 01     1345555


Q ss_pred             HHHHHccCCHHHHHHHHHHHhhc
Q 022531          121 ISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus       121 i~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      ...+...+++++|+..|.+....
T Consensus        86 g~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          86 GNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHhc
Confidence            66666667777777777766543

>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=98.39  E-value=2.2e-05  Score=54.48  Aligned_cols=132  Identities=6%  Similarity=-0.170  Sum_probs=84.7

Q ss_pred             HhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHH
Q 022531          115 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  194 (295)
Q Consensus       115 ~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  194 (295)
                      ..+......+.+.|++++|+..|.+........+...              .... . ....+.       ..+|+.+..
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~--------------~~~~-~-~~~~~~-------~~~~~nla~   70 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFS--------------NEEA-Q-KAQALR-------LASHLNLAM   70 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCC--------------SHHH-H-HHHHHH-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccc--------------hHHH-h-hhchhH-------HHHHHHHHH
Confidence            3445556677888888888888888776422111100              0000 0 111111       135677888


Q ss_pred             HHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCC
Q 022531          195 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGL  272 (295)
Q Consensus       195 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  272 (295)
                      +|.+.|++++|+..++...... +.+...+..+..+|...|++++|...|+...+..  +-|..+...+-.+..+.+.
T Consensus        71 ~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--P~n~~~~~~l~~~~~~~~~  145 (170)
T d1p5qa1          71 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVCQQRIRR  145 (170)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHH
Confidence            8889999999999998887764 3366778888889999999999999999988754  2355555555554444333

>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=98.39  E-value=1.9e-07  Score=77.19  Aligned_cols=108  Identities=13%  Similarity=-0.056  Sum_probs=38.6

Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHH
Q 022531          117 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILY  196 (295)
Q Consensus       117 ~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  196 (295)
                      +..+...+.+.|+.+.|...+......    ....++..+...+...|++++|.. .+.+.....+. +..+|+.|...+
T Consensus       123 ~~~lg~~~~~~~~~~~A~~~~~~al~~----~~~~~~~~LG~l~~~~~~~~~A~~-~y~~A~~l~P~-~~~~~~~Lg~~~  196 (497)
T d1ya0a1         123 SSQLGIISNKQTHTSAIVKPQSSSCSY----ICQHCLVHLGDIARYRNQTSQAES-YYRHAAQLVPS-NGQPYNQLAILA  196 (497)
T ss_dssp             --------------------CCHHHHH----HHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-BSHHHHHHHHHH
T ss_pred             HHHhHHHHHhCCCHHHHHHHHHHHhCC----CHHHHHHHHHHHHHHcccHHHHHH-HHHHHHHHCCC-chHHHHHHHHHH
Confidence            344444444444444444444333321    011234444445555555555555 44444443322 344455555555


Q ss_pred             HhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHH
Q 022531          197 AGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  231 (295)
Q Consensus       197 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~  231 (295)
                      ...|+..+|...|.+..... .|-...+..|...+
T Consensus       197 ~~~~~~~~A~~~y~ral~~~-~~~~~a~~nL~~~~  230 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVK-FPFPAASTNLQKAL  230 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSS-BCCHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhCC-CCCHHHHHHHHHHH
Confidence            55555555555555444432 23333444444443

>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=98.35  E-value=9.5e-06  Score=56.28  Aligned_cols=132  Identities=6%  Similarity=-0.029  Sum_probs=76.2

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHh---CCCCC-----------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQ---SNLSF-----------NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV  111 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~---~~~~p-----------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~  111 (295)
                      .+...+..+.+.|++.+|...|++...   ....+           ...+|+.+..+|.+.|++++|+..+++..+... 
T Consensus        17 ~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p-   95 (168)
T d1kt1a1          17 IVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDS-   95 (168)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhccc-
Confidence            344444555555555555555554432   11111           123456677777788888888888887776532 


Q ss_pred             CChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHh
Q 022531          112 PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  180 (295)
Q Consensus       112 p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  180 (295)
                      .+..+|..+..++...|++++|...|.++...  .|.+..+...+-.+..+.+...+..+-.+..|++.
T Consensus        96 ~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l--~P~n~~~~~~l~~~~~~~~~~~e~~kk~~~~~f~~  162 (168)
T d1kt1a1          96 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQIFMCQKKAKEHNERDRRTYANMFKK  162 (168)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHhh
Confidence            35667777777888888888888888887763  24455555555554444444433222144444443

>d1b89a_ a.118.1.3 (A:) Clathrin heavy chain proximal leg segment {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: ARM repeat
family: Clathrin heavy chain proximal leg segment
domain: Clathrin heavy chain proximal leg segment
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.32  E-value=0.00032  Score=53.91  Aligned_cols=213  Identities=8%  Similarity=-0.021  Sum_probs=126.7

Q ss_pred             CCHHHHHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 022531            9 LSDSDYATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL   88 (295)
Q Consensus         9 ~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~   88 (295)
                      |+...-..+.+.|.+.|.++.|..+|..+.       -|..++..+.+.++++.|.+++.+.   +   +..+|..+...
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~-------d~~rl~~~~v~l~~~~~avd~~~k~---~---~~~~~k~~~~~   78 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS-------NFGRLASTLVHLGEYQAAVDGARKA---N---STRTWKEVCFA   78 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT-------CHHHHHHHHHTTTCHHHHHHHHHHH---T---CHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC-------CHHHHHHHHHhhccHHHHHHHHHHc---C---CHHHHHHHHHH
Confidence            444455568888999999999999998877       4888888999999999998887644   2   57789999999


Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      +.+.....-+     ++...+...+......++..|-..|.+++...+++.....  ..++...++-++..|++.+.- .
T Consensus        79 l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~--~~~~~~~~~~L~~lyak~~~~-k  150 (336)
T d1b89a_          79 CVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQ-K  150 (336)
T ss_dssp             HHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--TTCCHHHHHHHHHHHHTTCHH-H
T ss_pred             HHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC--CccchHHHHHHHHHHHHhChH-H
Confidence            9888766543     2333334456666778899999999999999999987642  356777888899999887543 2


Q ss_pred             HHHHHHHHHHHhcCCC--------ccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHH
Q 022531          169 AESSTLVEAEKSITQR--------QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  240 (295)
Q Consensus       169 a~~~~~~~~~~~~~~~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A  240 (295)
                      ..+ .+... .....+        ....|..++-.|.+.|.+++|..+.-   +.  .++.......+..+.+..+.+..
T Consensus       151 l~e-~l~~~-s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~  223 (336)
T d1b89a_         151 MRE-HLELF-WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVELY  223 (336)
T ss_dssp             HHH-HHHHH-STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHH
T ss_pred             HHH-HHHhc-cccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHHH
Confidence            222 22211 111110        11234445555555566555544332   11  33333344455666666666666


Q ss_pred             HHHHHHHhh
Q 022531          241 GEIIDQWKQ  249 (295)
Q Consensus       241 ~~~~~~~~~  249 (295)
                      .+++....+
T Consensus       224 ~~~i~~yL~  232 (336)
T d1b89a_         224 YRAIQFYLE  232 (336)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            665555443

>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=98.30  E-value=5.2e-06  Score=54.78  Aligned_cols=95  Identities=13%  Similarity=0.044  Sum_probs=63.1

Q ss_pred             HHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCC-CC-----HHhHHH
Q 022531          153 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT-----SRNYIC  226 (295)
Q Consensus       153 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~~-----~~~~~~  226 (295)
                      +..+...+.+.|++++|.. .|.+..+..+. +...+..+..+|.+.|++++|++.++++.+.... +.     ..+|..
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~-~y~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~~   84 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALK-HYDKAKELDPT-NMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHH-HHHHHHHhCcc-cHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHHH
Confidence            4456667777788888887 77777665543 5667777777777788888888777776543211 11     134555


Q ss_pred             HHHHHHhcCChHHHHHHHHHHhh
Q 022531          227 ILSSYLMLGHLKEVGEIIDQWKQ  249 (295)
Q Consensus       227 li~~~~~~~~~~~A~~~~~~~~~  249 (295)
                      +...+...+++++|.+.|.....
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~  107 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLA  107 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHh
Confidence            66666777777777777776655

>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-05  Score=53.34  Aligned_cols=63  Identities=8%  Similarity=-0.079  Sum_probs=43.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhc
Q 022531           80 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  143 (295)
Q Consensus        80 ~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~  143 (295)
                      .+|+.+..+|.+.|++++|+..+++..+.. +.+..+|..+..++...|++++|+..|++..+.
T Consensus        68 ~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          68 SCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHhcccchhhhhhhcccccc-chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            355666777777777777777777766643 225666777777777777777777777776664

>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=98.29  E-value=8.7e-06  Score=57.04  Aligned_cols=123  Identities=7%  Similarity=-0.088  Sum_probs=71.6

Q ss_pred             HHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHH
Q 022531           17 RIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   96 (295)
Q Consensus        17 li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~   96 (295)
                      ........|++++|.+.|.......+....-     .+ ..+.+  +...-..+...    ....+..+...+.+.|+++
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~-----~~-~~~~w--~~~~r~~l~~~----~~~a~~~la~~~~~~g~~~   84 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLD-----DL-RDFQF--VEPFATALVED----KVLAHTAKAEAEIACGRAS   84 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTG-----GG-TTSTT--HHHHHHHHHHH----HHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccccc-----cC-cchHH--HHHHHHHHHHH----HHHHHHHHHHHHHHCCCch
Confidence            3356677888888888888776652211000     00 00000  00111111111    1345667777777778888


Q ss_pred             HHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhh----cCCCCCCHHH
Q 022531           97 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVK  152 (295)
Q Consensus        97 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  152 (295)
                      +|+..++++.+... -+...|..++.++.+.|+.++|+..|+++..    .-|+.|+..+
T Consensus        85 ~Al~~~~~al~~~P-~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          85 AVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHhCC-ccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            88887777777532 2566777777788888888887777777533    1267777654

>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=98.27  E-value=1.4e-05  Score=55.43  Aligned_cols=110  Identities=9%  Similarity=-0.035  Sum_probs=65.4

Q ss_pred             HHHHHHHccCcHHHHHHHHHHHHhCC--------------C-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 022531           49 ALLHLYAGAKWTEKAEELFERVKQSN--------------L-SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD  113 (295)
Q Consensus        49 ~li~~~~~~~~~~~a~~~~~~m~~~~--------------~-~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~  113 (295)
                      .....+.+.|++++|+..|.+.++..              + +.....|..+..+|.+.|++++|+..+++..+... .+
T Consensus        32 ~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p-~~  110 (169)
T d1ihga1          32 NIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP-SN  110 (169)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT-TC
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh-hh
Confidence            34444555666666666665543210              0 11344566667777777777777777777776532 24


Q ss_pred             hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 022531          114 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  161 (295)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  161 (295)
                      ..+|..+..++.+.|++++|+..|+++.+.  .+.+..+...+..+..
T Consensus       111 ~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~~~~  156 (169)
T d1ihga1         111 TKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQ  156 (169)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHH
T ss_pred             hhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHH
Confidence            566777777777777777777777777764  2344445544444433

>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=98.21  E-value=2e-05  Score=54.60  Aligned_cols=108  Identities=6%  Similarity=-0.087  Sum_probs=85.6

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccC----------------CC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCC
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLS----------------AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNL   75 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~----------------~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   75 (295)
                      .+......+.+.|++++|+..|.+....                .| ....|..+..++.+.|++++|+..+++.++.. 
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-  107 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  107 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-
Confidence            3455667778899999999988765331                13 45577888999999999999999999999876 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC-ChHhHHHHHHH
Q 022531           76 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP-DIFTYNLWISS  123 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~  123 (295)
                      +.++.+|..+..+|.+.|++++|+..|++..+.  .| +......+..+
T Consensus       108 p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l--~p~n~~~~~~l~~~  154 (169)
T d1ihga1         108 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKV  154 (169)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHH
Confidence            567889999999999999999999999999985  34 44444444443

>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=98.21  E-value=2.2e-05  Score=53.44  Aligned_cols=99  Identities=14%  Similarity=-0.006  Sum_probs=81.5

Q ss_pred             HHHHHHHHHHhccChhHHHHHHhhcccCC------CC-----------HHHHHHHHHHHHccCcHHHHHHHHHHHHhCCC
Q 022531           13 DYATRIDLMTKVFGIHSGERYFEGLPLSA------KT-----------SETYTALLHLYAGAKWTEKAEELFERVKQSNL   75 (295)
Q Consensus        13 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~------p~-----------~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~   75 (295)
                      .+..-...+.+.|++++|...|.......      ++           ..+|+.+..+|.+.|++++|++.+++.++.+ 
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~~-   97 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-   97 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhcccccc-
Confidence            34445677889999999999998765431      11           2467778999999999999999999999875 


Q ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCh
Q 022531           76 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI  114 (295)
Q Consensus        76 ~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~  114 (295)
                      |.+..+|..+..++...|++++|+..|++..+.  .|+.
T Consensus        98 p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l--~P~n  134 (153)
T d2fbna1          98 KNNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNN  134 (153)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTC
T ss_pred             chhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh--CCCC
Confidence            568899999999999999999999999999885  4543

>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=98.17  E-value=5.2e-06  Score=56.10  Aligned_cols=96  Identities=11%  Similarity=0.013  Sum_probs=62.5

Q ss_pred             HHhccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHcc----------CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 022531           21 MTKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGA----------KWTEKAEELFERVKQSNLSFNALMYNEMMTLY   89 (295)
Q Consensus        21 ~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~----------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~   89 (295)
                      |-+.+.+++|+..|+......| +..++..+..++...          +.+++|+..|++..+.+ |.+..+|..+..+|
T Consensus         7 ~~r~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y   85 (145)
T d1zu2a1           7 FDRILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAY   85 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHH
Confidence            4556778888888888887777 777888888777643          34567777777777664 44566777777777


Q ss_pred             HhcCC-----------HHHHHHHHHHHHhCCCCCChHhHHH
Q 022531           90 MSVGQ-----------VEKVALVVEEIKRKNVVPDIFTYNL  119 (295)
Q Consensus        90 ~~~~~-----------~~~a~~~~~~m~~~~~~p~~~~~~~  119 (295)
                      ...|+           +++|.+.|++..+  +.|+...|..
T Consensus        86 ~~~g~~~~~~~~~~~~~~~A~~~~~kal~--l~P~~~~~~~  124 (145)
T d1zu2a1          86 TSFAFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYLK  124 (145)
T ss_dssp             HHHHHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHH
T ss_pred             HHcccchhhHHHHHHhHHHhhhhhhcccc--cCCCHHHHHH
Confidence            65442           3455555555554  2344444433

>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=98.16  E-value=1.7e-06  Score=64.71  Aligned_cols=51  Identities=8%  Similarity=-0.018  Sum_probs=25.6

Q ss_pred             hccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhC
Q 022531           23 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS   73 (295)
Q Consensus        23 ~~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~   73 (295)
                      +.|++++|+..++...+..| |...+..+...++..|++++|...|+...+.
T Consensus         8 ~~G~l~eAl~~l~~al~~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l   59 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKL   59 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            34555555555555444444 4445555555555555555555555554443

>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=0.00014  Score=50.12  Aligned_cols=145  Identities=5%  Similarity=-0.122  Sum_probs=89.8

Q ss_pred             hHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHH
Q 022531          114 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  193 (295)
Q Consensus       114 ~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li  193 (295)
                      ...+......+.+.|++++|...|.+........+...              .+....  ...+       ...+|+.+.
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~--------------~~~~~~--~~~~-------~~~~~~Nla   71 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLS--------------EKESKA--SESF-------LLAAFLNLA   71 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCC--------------HHHHHH--HHHH-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccc--------------hhhhhh--cchh-------HHHHHHhHH
Confidence            34555666777788888888888877654211111100              000000  1100       123566677


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCCh
Q 022531          194 ILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLT  273 (295)
Q Consensus       194 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  273 (295)
                      .+|.+.|++++|+..++...... +.+...|..+..++...|++++|...|.+.....  +.+......+-.+....+..
T Consensus        72 ~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~--P~n~~~~~~l~~~~~~~~~~  148 (168)
T d1kt1a1          72 MCYLKLREYTKAVECCDKALGLD-SANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN--PQNKAARLQIFMCQKKAKEH  148 (168)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC--TTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhhhcccchhhhhhhhhcc-cchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHhH
Confidence            88888999999999998887764 4566778888889999999999999999888743  34555665555555454433


Q ss_pred             H-HHHHHHHHHH
Q 022531          274 E-KANEFHMLLL  284 (295)
Q Consensus       274 ~-~a~~~~~~m~  284 (295)
                      . ...+++..|.
T Consensus       149 ~e~~kk~~~~~f  160 (168)
T d1kt1a1         149 NERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            3 3344444443

>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=6.8e-05  Score=52.32  Aligned_cols=68  Identities=9%  Similarity=-0.013  Sum_probs=52.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH-----hcCCCCCC
Q 022531          223 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL-----QKNCAPTN  292 (295)
Q Consensus       223 ~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m~-----~~g~~p~~  292 (295)
                      .+..+...+...|++++|+..++++....  +-+...|..++.+|...|+..+|++.|+++.     +.|+.|+.
T Consensus        69 a~~~la~~~~~~g~~~~Al~~~~~al~~~--P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~  141 (179)
T d2ff4a2          69 AHTAKAEAEIACGRASAVIAELEALTFEH--PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGP  141 (179)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCH
T ss_pred             HHHHHHHHHHHCCCchHHHHHHHHHHHhC--CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCH
Confidence            45567778888888888888888887754  4577788888888888888888888888863     35777764

>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=98.01  E-value=1.4e-05  Score=59.68  Aligned_cols=125  Identities=10%  Similarity=0.070  Sum_probs=77.5

Q ss_pred             HHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-hHhHHHHHHHHHccCCHHH
Q 022531           54 YAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQ  132 (295)
Q Consensus        54 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~~~~~~  132 (295)
                      ..+.|++++|+..+++.++.. |-|...+..+...++..|++++|.+.|+...+.  .|+ ...+..+...+...+..++
T Consensus         6 aL~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~   82 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKD   82 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHH
Confidence            346788888888888888775 567788888888888888888888888888774  344 3334433333333333322


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCC
Q 022531          133 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  183 (295)
Q Consensus       133 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  183 (295)
                      +..-....... +.+++...+......+.+.|+.++|.+ .+..+.+..+.
T Consensus        83 a~~~~~~~~~~-~~p~~~~~~l~~a~~~~~~gd~~~A~~-~~~~a~e~~p~  131 (264)
T d1zbpa1          83 FAQGAATAKVL-GENEELTKSLVSFNLSMVSQDYEQVSE-LALQIEELRQE  131 (264)
T ss_dssp             HTTSCCCEECC-CSCHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHCCC
T ss_pred             HHHHhhhhhcc-cCchHHHHHHHHHHHHHhCCCHHHHHH-HHHHHHhcCCC
Confidence            22211111111 223334444555666777888888888 77776665443

>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=97.87  E-value=4.5e-05  Score=62.58  Aligned_cols=136  Identities=6%  Similarity=-0.223  Sum_probs=75.4

Q ss_pred             ccChhHHHHHHhhcccCCC-CHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHH
Q 022531           24 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV  102 (295)
Q Consensus        24 ~~~~~~A~~~~~~~~~~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~  102 (295)
                      .+.++.|+..+.......| +...+..+...+.+.|+.+.|...+.+.....   ...++..+...+...|++++|...|
T Consensus        99 ~~~Y~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y  175 (497)
T d1ya0a1          99 SGFYTQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYY  175 (497)
T ss_dssp             HHHHHHHHHHHTC-------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHH
Confidence            3445555555554444333 56677777777888888888877776655432   1346777788888888888888888


Q ss_pred             HHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc
Q 022531          103 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH  165 (295)
Q Consensus       103 ~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  165 (295)
                      ++..+... -+...|+.+...+...|+..+|...|.+....  .+|...++..|...+.+..+
T Consensus       176 ~~A~~l~P-~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~--~~~~~~a~~nL~~~~~~~~~  235 (497)
T d1ya0a1         176 RHAAQLVP-SNGQPYNQLAILASSKGDHLTTIFYYCRSIAV--KFPFPAASTNLQKALSKALE  235 (497)
T ss_dssp             HHHHHHCT-TBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS--SBCCHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHCC-CchHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHHhhh
Confidence            88887532 24577888888888888888888888888763  36777788888877766543

>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=0.0049  Score=47.10  Aligned_cols=243  Identities=9%  Similarity=-0.013  Sum_probs=152.7

Q ss_pred             HHHHHHHHHhccChhHHHHHHhhcccCCCCHHHHHHHHHHHHccCcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcC
Q 022531           14 YATRIDLMTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG   93 (295)
Q Consensus        14 ~~~li~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~   93 (295)
                      |..++..+.+.++++.|.+++...    -+..+|..+..+|.+.....-+     .+.......++.....++..|-..|
T Consensus        43 ~~rl~~~~v~l~~~~~avd~~~k~----~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~  113 (336)
T d1b89a_          43 FGRLASTLVHLGEYQAAVDGARKA----NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRG  113 (336)
T ss_dssp             HHHHHHHHHTTTCHHHHHHHHHHH----TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhccHHHHHHHHHHc----CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcC
Confidence            445666666777777776666533    3677898999999888776543     2223334456677788999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCH--------HHHHHHHHHHHhcCc
Q 022531           94 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW--------VKYVNLVNIYITASH  165 (295)
Q Consensus        94 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~~~  165 (295)
                      .+++...+++..... -.++...++.++..|++.+ .++..+.++.....  ..+..        ..|.-++-.|.+.|+
T Consensus       114 ~~e~Li~~Le~~~~~-~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~--y~~~k~~~~c~~~~l~~elv~Ly~~~~~  189 (336)
T d1b89a_         114 YFEELITMLEAALGL-ERAHMGMFTELAILYSKFK-PQKMREHLELFWSR--VNIPKVLRAAEQAHLWAELVFLYDKYEE  189 (336)
T ss_dssp             CHHHHHHHHHHHTTS-TTCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTT--SCHHHHHHHHHTTTCHHHHHHHHHHTTC
T ss_pred             ChHHHHHHHHHHHcC-CccchHHHHHHHHHHHHhC-hHHHHHHHHhcccc--CCHHHHHHHHHHcCChHHHHHHHHhcCC
Confidence            999999999987653 3456778889999998865 45555554443221  11111        124456667777777


Q ss_pred             hhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHH-----------hHHHHHHHHHhc
Q 022531          166 LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR-----------NYICILSSYLML  234 (295)
Q Consensus       166 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-----------~~~~li~~~~~~  234 (295)
                      ++.|...+..      ..++..-...++..+.+.++.+...++.....+.  .|+..           .-..++..+.+.
T Consensus       190 ~~~A~~~~i~------~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~  261 (336)
T d1b89a_         190 YDNAIITMMN------HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKV  261 (336)
T ss_dssp             HHHHHHHHHH------STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHT
T ss_pred             HHHHHHHHHH------cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhc
Confidence            7777662111      1223444455666677777777666666655442  23211           012355555666


Q ss_pred             CChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHH
Q 022531          235 GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHM  281 (295)
Q Consensus       235 ~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  281 (295)
                      +++.....+++.....+    +..+.+++...|...++++.-....+
T Consensus       262 ~~l~li~p~Le~v~~~n----~~~vn~al~~lyie~~d~~~l~~~i~  304 (336)
T d1b89a_         262 KQLPLVKPYLRSVQNHN----NKSVNESLNNLFITEEDYQALRTSID  304 (336)
T ss_dssp             TCTTTTHHHHHHHHTTC----CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcC----hHHHHHHHHHHHhCcchhHHHHHHHH
Confidence            66666666666654433    34678999999999999766554443

>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=97.71  E-value=0.00029  Score=47.79  Aligned_cols=90  Identities=7%  Similarity=-0.068  Sum_probs=49.8

Q ss_pred             HHHccCcHHHHHHHHHHHHhC--CCCC---------CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CCCCC---
Q 022531           53 LYAGAKWTEKAEELFERVKQS--NLSF---------NALMYNEMMTLYMSVGQVEKVALVVEEIKRK-----NVVPD---  113 (295)
Q Consensus        53 ~~~~~~~~~~a~~~~~~m~~~--~~~p---------~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~-----~~~p~---  113 (295)
                      .+...|++++|+..|++.++.  ..+.         ....|+.+..+|...|++++|+..+++..+.     ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            344456666666666655431  1100         1345666666777777777776666665431     11111   


Q ss_pred             --hHhHHHHHHHHHccCCHHHHHHHHHHHhh
Q 022531          114 --IFTYNLWISSCAATLNIDQVKKFLDEMSC  142 (295)
Q Consensus       114 --~~~~~~li~~~~~~~~~~~a~~~~~~~~~  142 (295)
                        ...+..+..+|...|++++|+..|++...
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence              12455566777777777777777776543

>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=97.68  E-value=0.00023  Score=47.67  Aligned_cols=36  Identities=8%  Similarity=0.037  Sum_probs=17.8

Q ss_pred             ccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 022531          126 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  163 (295)
Q Consensus       126 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  163 (295)
                      +.+.+++|...|+...+.  .|.+..++..+..++...
T Consensus         9 r~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~~   44 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLEL   44 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHHh
Confidence            334455555555555543  244445555555555433

>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=97.67  E-value=0.00036  Score=47.29  Aligned_cols=55  Identities=11%  Similarity=-0.133  Sum_probs=29.2

Q ss_pred             HHHccCCHHHHHHHHHHHhhcCCCCC----------CHHHHHHHHHHHHhcCchhhHHHHHHHHHH
Q 022531          123 SCAATLNIDQVKKFLDEMSCDSGGSD----------DWVKYVNLVNIYITASHLVNAESSTLVEAE  178 (295)
Q Consensus       123 ~~~~~~~~~~a~~~~~~~~~~~~~~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  178 (295)
                      .+.+.|++++|+..|++...-....|          ...+|+.+..+|.+.|++++|.. .+.+..
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~-~~~~al   82 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALH-SADKAL   82 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhH-hhhhhh
Confidence            34455666666666666544211111          12355666666666666666666 555444

>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=97.45  E-value=0.00029  Score=43.29  Aligned_cols=63  Identities=10%  Similarity=0.025  Sum_probs=32.6

Q ss_pred             HHHHHHHHHHccCcHHHHHHHHHHHHhCC-----CCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 022531           46 TYTALLHLYAGAKWTEKAEELFERVKQSN-----LSF-NALMYNEMMTLYMSVGQVEKVALVVEEIKRK  108 (295)
Q Consensus        46 ~~~~li~~~~~~~~~~~a~~~~~~m~~~~-----~~p-~~~~~~~li~~~~~~~~~~~a~~~~~~m~~~  108 (295)
                      .+..+...+.+.|++++|...|++..+..     ..+ ...+++.|..++.+.|++++|+..+++..+.
T Consensus         7 dc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           7 DSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            33445555555555555555555543210     011 1345556666666666666666666665553

>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=97.40  E-value=0.00073  Score=41.38  Aligned_cols=73  Identities=7%  Similarity=-0.145  Sum_probs=46.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcc-----CCCC-HHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHH
Q 022531          189 YDFLIILYAGLGNKDKIDQIWKSLRMTK-----QKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR  262 (295)
Q Consensus       189 ~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~~~-~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~  262 (295)
                      +-.+...+.+.|++++|+..|++..+..     ..++ ..++..+..++.+.|++++|++.++++.+..  +-+..+++.
T Consensus         8 c~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~--P~~~~a~~N   85 (95)
T d1tjca_           8 SFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELD--PEHQRANGN   85 (95)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhC--cCCHHHHHH
Confidence            4456667777888888888887765432     1111 2456667777888888888888888877743  234545544


Q ss_pred             H
Q 022531          263 L  263 (295)
Q Consensus       263 l  263 (295)
                      +
T Consensus        86 l   86 (95)
T d1tjca_          86 L   86 (95)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=97.32  E-value=0.0067  Score=38.37  Aligned_cols=141  Identities=12%  Similarity=0.009  Sum_probs=81.0

Q ss_pred             HHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHH
Q 022531          124 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  203 (295)
Q Consensus       124 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  203 (295)
                      +.-.|..+++.+++.+....    .+..-||.++.-....-+-+...+ +++.+   |...|.          ...++..
T Consensus        12 ~ildG~ve~Gveii~k~~~s----s~~~E~NW~ICNiidt~dC~~v~~-~Ld~I---G~~FDl----------s~C~Nlk   73 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS----STKSEYNWFICNLLESIDCRYMFQ-VLDKI---GSYFDL----------DKCQNLK   73 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH----SCHHHHTHHHHHHHHHCCHHHHHH-HHHHH---GGGSCG----------GGCSCTH
T ss_pred             HHHhhhHHhHHHHHHHHccc----CCccccceeeeecccccchHHHHH-HHHHH---hhhcCc----------hhhhcHH
Confidence            34557777777777776664    234445555554444444444444 44433   222222          1233333


Q ss_pred             HHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 022531          204 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  283 (295)
Q Consensus       204 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~m  283 (295)
                      .....+-.+     ..+...+...+..+..+|+-+.-.+++..+.+.+  +|++...-.+..+|.+-|...++.+++.+.
T Consensus        74 ~vv~C~~~~-----n~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~--~i~~~~llkia~A~kkig~~re~nell~~A  146 (161)
T d1wy6a1          74 SVVECGVIN-----NTLNEHVNKALDILVIQGKRDKLEEIGREILKNN--EVSASILVAIANALRRVGDERDATTLLIEA  146 (161)
T ss_dssp             HHHHHHHHT-----TCCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C--CSCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHh-----cchHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHhcchhhHHHHHHHH
Confidence            333333322     2234455666777777777777777777766644  456666677777777788777777777777


Q ss_pred             HhcCCC
Q 022531          284 LQKNCA  289 (295)
Q Consensus       284 ~~~g~~  289 (295)
                      -++|++
T Consensus       147 Ce~G~K  152 (161)
T d1wy6a1         147 CKKGEK  152 (161)
T ss_dssp             HHTTCH
T ss_pred             HHHhHH
Confidence            777764

>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=96.70  E-value=0.032  Score=35.99  Aligned_cols=14  Identities=0%  Similarity=0.278  Sum_probs=6.8

Q ss_pred             CHHHHHHHHHHHhh
Q 022531          129 NIDQVKKFLDEMSC  142 (295)
Q Consensus       129 ~~~~a~~~~~~~~~  142 (295)
                      +.++|.++|++..+
T Consensus        74 d~~~A~~~~~~aa~   87 (133)
T d1klxa_          74 DLRKAAQYYSKACG   87 (133)
T ss_dssp             CHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHhhhhc
Confidence            34455555555444

>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=96.37  E-value=0.056  Score=34.79  Aligned_cols=48  Identities=10%  Similarity=-0.017  Sum_probs=20.8

Q ss_pred             CcHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHh----cCCHHHHHHHHHHHHhC
Q 022531           58 KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQVEKVALVVEEIKRK  108 (295)
Q Consensus        58 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~~~~~~a~~~~~~m~~~  108 (295)
                      .+.++|+..+++..+.|   ++.....|...|..    ..+.++|+++|++..+.
T Consensus        37 ~~~~~a~~~~~~aa~~g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~   88 (133)
T d1klxa_          37 INKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGL   88 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHhhhhccc---chhhhhhHHHhhhhccccchhhHHHHHHHhhhhcc
Confidence            34444555554444444   23333333333332    23344455555444443

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.12  E-value=0.071  Score=33.62  Aligned_cols=140  Identities=12%  Similarity=0.187  Sum_probs=94.9

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCChHhHHHHHHHHHccCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchhh
Q 022531           89 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  168 (295)
Q Consensus        89 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  168 (295)
                      +.-.|..++..+++.+....   .+..-||-+|--....-+-+...++++.+-+-..+.|-.. ...++.++...+...+
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDls~C~N-lk~vv~C~~~~n~~se   87 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDLDKCQN-LKSVVECGVINNTLNE   87 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCGGGCSC-THHHHHHHHHTTCCCH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCchhhhc-HHHHHHHHHHhcchHH
Confidence            44567888888988888764   3455566666666666777777788877766422222221 2244555555444333


Q ss_pred             HHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHh
Q 022531          169 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  248 (295)
Q Consensus       169 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~  248 (295)
                                         ..+.-++.....|+-++..++++.+.+.+ +|++.....+..+|.+.|...++-+++.+.-
T Consensus        88 -------------------~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~AC  147 (161)
T d1wy6a1          88 -------------------HVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEAC  147 (161)
T ss_dssp             -------------------HHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             -------------------HHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHH
Confidence                               22334455677888888888988876654 7888888889999999999999999999888


Q ss_pred             hhcC
Q 022531          249 QSAT  252 (295)
Q Consensus       249 ~~~~  252 (295)
                      +.|.
T Consensus       148 e~G~  151 (161)
T d1wy6a1         148 KKGE  151 (161)
T ss_dssp             HTTC
T ss_pred             HHhH
Confidence            8764

>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=95.38  E-value=0.14  Score=32.23  Aligned_cols=49  Identities=8%  Similarity=0.045  Sum_probs=27.1

Q ss_pred             CHHHHHHHHHHHHhccCCCCH-HhHHHHHHHHHhcCChHHHHHHHHHHhhh
Q 022531          201 NKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQS  250 (295)
Q Consensus       201 ~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~~~~~~A~~~~~~~~~~  250 (295)
                      +.++++.+++++...+ +.+. ..+-.|.-+|.+.|++++|.+.++.+.+.
T Consensus        53 d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          53 DERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             HHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            3456666666665432 1122 23334555666667777777777666664

>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=94.30  E-value=0.26  Score=29.32  Aligned_cols=63  Identities=10%  Similarity=-0.024  Sum_probs=49.1

Q ss_pred             CHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHH
Q 022531          201 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  265 (295)
Q Consensus       201 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~  265 (295)
                      +.-++.+-++.+....+-|++....+.+++|-|.+++..|.++|+..+.+..  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4446666777777778899999999999999999999999999998877653  34556766664

>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=93.69  E-value=0.35  Score=28.73  Aligned_cols=45  Identities=7%  Similarity=0.104  Sum_probs=22.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Q 022531           62 KAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIK  106 (295)
Q Consensus        62 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~~~~~~a~~~~~~m~  106 (295)
                      ++.+-++.+...++.|++.+..+.+++|.+.+++..|+++|+-.+
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK   68 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVK   68 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            344444444444455555555555555555555555555554444

>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=93.28  E-value=0.53  Score=29.52  Aligned_cols=67  Identities=15%  Similarity=0.021  Sum_probs=34.7

Q ss_pred             CCHHHHHHHHHHHHhcC---chhhHHHHHHHHHHHhcCCCccccHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 022531          148 DDWVKYVNLVNIYITAS---HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  215 (295)
Q Consensus       148 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  215 (295)
                      ++..+--...-++.+..   +.+++.. +++.+....+......+..|..+|.+.|++++|.+.++.+.+.
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~-lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~i  102 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVK-ILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  102 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHH-HHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHH-HHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            33334334444444432   3445566 5555554432211234445556666777777777777766654

>d1uoha_ d.211.1.1 (A:) 26S proteasome non-ATPase regulatory subunit 10, gankyrin {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a+b)
fold: beta-hairpin-alpha-hairpin repeat
superfamily: Ankyrin repeat
family: Ankyrin repeat
domain: 26S proteasome non-ATPase regulatory subunit 10, gankyrin
species: Human (Homo sapiens) [TaxId: 9606]

Probab=86.87  E-value=2.9  Score=28.80  Aligned_cols=20  Identities=15%  Similarity=-0.034  Sum_probs=12.0

Q ss_pred             HHHHHHccCcHHHHHHHHHH
Q 022531           50 LLHLYAGAKWTEKAEELFER   69 (295)
Q Consensus        50 li~~~~~~~~~~~a~~~~~~   69 (295)
                      ++.-.+..|+.+...+++..
T Consensus         6 ~~~~~a~~G~~~~v~~~l~~   25 (223)
T d1uoha_           6 MVCNLAYSGKLEELKESILA   25 (223)
T ss_dssp             HHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHh
Confidence            34445667777766666654

>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=83.76  E-value=8  Score=29.94  Aligned_cols=84  Identities=13%  Similarity=0.032  Sum_probs=53.6

Q ss_pred             hcCCHHHHHHHHHHHHhccCCCCHHhHHHHHHHHHhcCChHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHccCChHHHH
Q 022531          198 GLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKAN  277 (295)
Q Consensus       198 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  277 (295)
                      ..+..+.+...+......+  .+.......+....+.+++..+...+..|......  ...-.-=+..++...|+.+.|.
T Consensus       264 ~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~~~--~~r~~YW~gRa~~~~G~~~~A~  339 (450)
T d1qsaa1         264 GNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEAKE--KDEWRYWQADLLLERGREAEAK  339 (450)
T ss_dssp             STTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTGGG--SHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHHHHHHHhcCccccc--HHHHHHHHHHHHHHcCChhhHH
Confidence            3455667777766655443  34444445566667778888888888877543221  2222223677888889988888


Q ss_pred             HHHHHHHh
Q 022531          278 EFHMLLLQ  285 (295)
Q Consensus       278 ~~~~~m~~  285 (295)
                      .+|.....
T Consensus       340 ~~~~~~a~  347 (450)
T d1qsaa1         340 EILHQLMQ  347 (450)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhc
Confidence            88887653

>d1u9pa1 a.43.1.1 (A:72-107) Arc repressor {Salmonella bacteriophage P22 [TaxId: 10754]}

class: All alpha proteins
fold: Ribbon-helix-helix
superfamily: Ribbon-helix-helix
family: Arc/Mnt-like phage repressors
domain: Arc repressor
species: Salmonella bacteriophage P22 [TaxId: 10754]

Probab=81.56  E-value=1.4  Score=19.51  Aligned_cols=32  Identities=9%  Similarity=0.241  Sum_probs=17.3

Q ss_pred             HHHHHHHhhhcCCCCCHHHHHHHHHHHHccCC
Q 022531          241 GEIIDQWKQSATSDFDISACNRLLGAFSDVGL  272 (295)
Q Consensus       241 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  272 (295)
                      +.+.+...+.+....|...|..++..+.+.|+
T Consensus         4 ldlvrkvaeeng~s~ns~iy~~vmes~kkegr   35 (36)
T d1u9pa1           4 LDLVRKVAEENGRSVNSEIYQRVMESFKKEGR   35 (36)
T ss_dssp             HHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHcCcchhHHHHHHHHHHHHHccC
Confidence            34444444433444566666666666666554