Citrus Sinensis ID: 023952

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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-----
Protein Sequence
MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
Secondary Structure (PSIPRED)
ccccccccHHHHHHHccccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccHHHHHHHHHccccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHccccHHHHHHHHHHHHHcccccccccc
Secondary Structure Prediction (SSPRO)
ccccccHHHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccccc
Coil and Loop (DISEMBL)
mtkvfgihsgeryfeglplsaktsETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKrknvvpdifTYNLWISSCAATLNIDQVKKFLDemscdsggsddwvKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGafsdvgltEKANEFHMLLLQkncaptnasg
Flexible Loop (DISEMBL)
mtkvfgihsgeryfegLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLqkncaptnasg
Low Complexity Region (SEG)
MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
Disordered region (IsUnstruct)
****FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN********
Disordered Region (DISOPRED)
MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT****
Disordered Region (DISEMBL)
MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
Disordered Region (DISPRO)
*TKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT****
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG
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	275	2.2.26 [Sep-21-2011]
Q94B59	409	Pentatricopeptide repeat-	yes	no	0.989	0.665	0.619	1e-99
O22714	491	Pentatricopeptide repeat-	no	no	0.934	0.523	0.378	1e-45
Q3E911	491	Pentatricopeptide repeat-	no	no	0.967	0.541	0.315	3e-34
Q9SY07	532	Pentatricopeptide repeat-	no	no	0.970	0.501	0.295	1e-33
Q8LPS6	524	Pentatricopeptide repeat-	no	no	0.981	0.515	0.283	5e-31
Q9FZ24	537	Pentatricopeptide repeat-	no	no	0.967	0.495	0.293	1e-30
Q9SKU6	490	Pentatricopeptide repeat-	no	no	0.956	0.536	0.299	1e-29
Q93WC5	502	Pentatricopeptide repeat-	no	no	0.923	0.505	0.304	2e-28
Q84JR3	492	Pentatricopeptide repeat-	no	no	0.981	0.548	0.290	5e-28
Q9C7F1	566	Putative pentatricopeptid	no	no	0.912	0.443	0.283	2e-20

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

 Score =  362 bits (930), Expect = 1e-99,   Method: Compositional matrix adjust.
 Identities = 169/273 (61%), Positives = 220/273 (80%), Gaps = 1/273 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA 59
           ++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K TE+AE LF+R+ +S+ L+F A
Sbjct: 133 ISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQTERAEALFKRIIESDSLTFGA 192

Query: 60  LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE 119
           + YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNLW+SSCAAT NID+++K L+E
Sbjct: 193 ITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNLWLSSCAATFNIDELRKILEE 252

Query: 120 MSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL 179
           M  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEKSI+QR+WITYDFL+IL+ GL
Sbjct: 253 MRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEKSISQREWITYDFLMILHTGL 312

Query: 180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
           GNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E  EII QWK+S T++FD SA
Sbjct: 313 GNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLREAEEIIHQWKESKTTEFDASA 372

Query: 240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 272
           C R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 373 CLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 405

Arabidopsis thaliana (taxid: 3702)

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

 Score =  183 bits (464), Expect = 1e-45,   Method: Compositional matrix adjust.
 Identities = 98/259 (37%), Positives = 155/259 (59%), Gaps = 2/259 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           + K   I +GE YF  LP ++KT  TY +LL+ Y     TEKAE L  ++K+ N++ +++
Sbjct: 100 VAKAREITAGENYFVDLPETSKTELTYGSLLNCYCKELLTEKAEGLLNKMKELNITPSSM 159

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
            YN +MTLY   G+ EKV  +++E+K +NV+PD +TYN+W+ + AAT +I  V++ ++EM
Sbjct: 160 SYNSLMTLYTKTGETEKVPAMIQELKAENVMPDSYTYNVWMRALAATNDISGVERVIEEM 219

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
           + D   + DW  Y N+ +IY+ A     AE + L E E   TQR +  Y FLI LY  LG
Sbjct: 220 NRDGRVAPDWTTYSNMASIYVDAGLSQKAEKA-LQELEMKNTQRDFTAYQFLITLYGRLG 278

Query: 181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
              ++ +IW+SLR+   K ++  Y+ ++   + L  L     +  +W Q+  S +DI   
Sbjct: 279 KLTEVYRIWRSLRLAIPKTSNVAYLNMIQVLVKLNDLPGAETLFKEW-QANCSTYDIRIV 337

Query: 241 NRLLGAFSDVGLTEKANEF 259
           N L+GA++  GL +KANE 
Sbjct: 338 NVLIGAYAQEGLIQKANEL 356

Arabidopsis thaliana (taxid: 3702)

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

 Score =  145 bits (366), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 87/276 (31%), Positives = 141/276 (51%), Gaps = 10/276 (3%)

Query: 1   MTKVFGIHSGERYFEGL---PLSAKTSET-YTALLHLYAGAKWTEKAEELFERVKQSNLS 56
           + K  G+  GE YFE L    +S + +++ Y  LL  Y   K  ++AE L E++      
Sbjct: 116 IIKTHGLKQGEEYFEKLLHSSVSMRVAKSAYLPLLRAYVKNKMVKEAEALMEKLNGLGFL 175

Query: 57  FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF 116
                +NEMM LY + GQ EKV +VV  +K   +  ++ +YNLW+++C     +  V+  
Sbjct: 176 VTPHPFNEMMKLYEASGQYEKVVMVVSMMKGNKIPRNVLSYNLWMNACCEVSGVAAVETV 235

Query: 117 LDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV--EAEKSITQRQWITYDFLII 174
             EM  D      W     L N+YI +      E + LV  +AEK + +   + Y FLI 
Sbjct: 236 YKEMVGDKSVEVGWSSLCTLANVYIKSGF---DEKARLVLEDAEKMLNRSNRLGYFFLIT 292

Query: 175 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD 234
           LYA LGNK+ + ++W+  +    +++  NYIC+LSS +  G L+E   +  +W ++   +
Sbjct: 293 LYASLGNKEGVVRLWEVSKSVCGRISCVNYICVLSSLVKTGDLEEAERVFSEW-EAQCFN 351

Query: 235 FDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP 270
           +D+   N LLGA+   G   KA   H  +L++   P
Sbjct: 352 YDVRVSNVLLGAYVRNGEIRKAESLHGCVLERGGTP 387

Arabidopsis thaliana (taxid: 3702)

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

 Score =  143 bits (361), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 80/271 (29%), Positives = 155/271 (57%), Gaps = 4/271 (1%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           ++K+ G++S E++FE +P   +     T+LLH Y   K ++KAE LFE++ +     + L
Sbjct: 139 ISKIRGLNSAEKFFEDMPDQMRGHAACTSLLHSYVQNKLSDKAEALFEKMGECGFLKSCL 198

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
            YN M+++Y+S GQ EKV ++++E+K +   PDI TYNLW+++ A+  +++  +K   + 
Sbjct: 199 PYNHMLSMYISRGQFEKVPVLIKELKIR-TSPDIVTYNLWLTAFASGNDVEGAEKVYLK- 256

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
           + +   + DWV Y  L N+Y    ++  A  + L E EK ++++  + Y  LI L+A LG
Sbjct: 257 AKEEKLNPDWVTYSVLTNLYAKTDNVEKARLA-LKEMEKLVSKKNRVAYASLISLHANLG 315

Query: 181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
           +KD ++  WK ++ + +KM    Y+ ++S+ + LG  ++   + D+W +S +   D    
Sbjct: 316 DKDGVNLTWKKVKSSFKKMNDAEYLSMISAVVKLGEFEQAKGLYDEW-ESVSGTGDARIP 374

Query: 241 NRLLGAFSDVGLTEKANEFHMLLLQKNCAPT 271
           N +L  + +        +F+  +++K   P+
Sbjct: 375 NLILAEYMNRDEVLLGEKFYERIVEKGINPS 405

Arabidopsis thaliana (taxid: 3702)

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

 Score =  134 bits (338), Expect = 5e-31,   Method: Compositional matrix adjust.
 Identities = 77/272 (28%), Positives = 142/272 (52%), Gaps = 2/272 (0%)

Query: 3   KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY 62
           KV GI   E +F  LP + K    Y +LL+ Y  AK  EKAE L   ++    + + L +
Sbjct: 148 KVRGIPDAEEFFLQLPENFKDRRVYGSLLNAYVRAKSREKAEALLNTMRDKGYALHPLPF 207

Query: 63  NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC 122
           N MMTLYM++ + +KV  +V E+K+K++  DI++YN+W+SSC +  ++++++    +M  
Sbjct: 208 NVMMTLYMNLREYDKVDAMVFEMKQKDIRLDIYSYNIWLSSCGSLGSVEKMELVYQQMKS 267

Query: 123 DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK 182
           D     +W  +  +  +YI       AE + L + E  IT R  I Y +L+ LY  LGNK
Sbjct: 268 DVSIYPNWTTFSTMATMYIKMGETEKAEDA-LRKVEARITGRNRIPYHYLLSLYGSLGNK 326

Query: 183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR 242
            ++ ++W   +     + +  Y  ++SS + +G ++   ++ ++W     S +D    N 
Sbjct: 327 KELYRVWHVYKSVVPSIPNLGYHALVSSLVRMGDIEGAEKVYEEW-LPVKSSYDPRIPNL 385

Query: 243 LLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 274
           L+ A+      E A      +++    P++++
Sbjct: 386 LMNAYVKNDQLETAEGLFDHMVEMGGKPSSST 417

Arabidopsis thaliana (taxid: 3702)

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

 Score =  133 bits (335), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 79/269 (29%), Positives = 144/269 (53%), Gaps = 3/269 (1%)

Query: 3   KVFGIHSGERYFEGLPLSAKTSE-TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALM 61
           K  G+ + E YF  L  SAK  + TY AL++ Y      EKA+  FE + + N   N+L 
Sbjct: 150 KTKGLEAAENYFNNLDPSAKNHQSTYGALMNCYCVELEEEKAKAHFEIMDELNFVNNSLP 209

Query: 62  YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS 121
           +N MM++YM + Q EKV ++V+ +K++ + P   TY++W+ SC +  ++D ++K +DEM 
Sbjct: 210 FNNMMSMYMRLSQPEKVPVLVDAMKQRGISPCGVTYSIWMQSCGSLNDLDGLEKIIDEMG 269

Query: 122 CDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN 181
            DS     W  + NL  IY T + L     S L   E+ +      ++ FL+ LYAG+  
Sbjct: 270 KDSEAKTTWNTFSNLAAIY-TKAGLYEKADSALKSMEEKMNPNNRDSHHFLMSLYAGISK 328

Query: 182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN 241
             ++ ++W+SL+  + ++ + +Y+ +L +   LG L  + +I  +W +S    +D+   N
Sbjct: 329 GPEVYRVWESLKKARPEVNNLSYLVMLQAMSKLGDLDGIKKIFTEW-ESKCWAYDMRLAN 387

Query: 242 RLLGAFSDVGLTEKANEFHMLLLQKNCAP 270
             +  +    + E+A +     ++K+  P
Sbjct: 388 IAINTYLKGNMYEEAEKILDGAMKKSKGP 416

Arabidopsis thaliana (taxid: 3702)

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

 Score =  130 bits (327), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 80/267 (29%), Positives = 142/267 (53%), Gaps = 4/267 (1%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           + KV G+   E++FE +P+  +    Y ALL+ YA  K   KAE++F+ +K+       L
Sbjct: 116 IAKVGGLGEAEKFFETIPMERRNYHLYGALLNCYASKKVLHKAEQVFQEMKELGFLKGCL 175

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
            YN M+ LY+  G+   V  ++ E++ + V PDIFT N  + + +   +++ ++KFL   
Sbjct: 176 PYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAYSVVSDVEGMEKFLMRC 235

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI-TQRQWITYDFLIILYAGL 179
             D G   DW  Y +  N YI A  L       L ++E+ +  Q++   Y+ L+  Y   
Sbjct: 236 EADQGLHLDWRTYADTANGYIKAG-LTEKALEMLRKSEQMVNAQKRKHAYEVLMSFYGAA 294

Query: 180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
           G K+++ ++W SL        +  YI ++S+ L +  ++EV +I+++W ++  S FDI  
Sbjct: 295 GKKEEVYRLW-SLYKELDGFYNTGYISVISALLKMDDIEEVEKIMEEW-EAGHSLFDIRI 352

Query: 240 CNRLLGAFSDVGLTEKANEFHMLLLQK 266
            + L+  +   G+ EKA E   +L+QK
Sbjct: 353 PHLLITGYCKKGMMEKAEEVVNILVQK 379

Arabidopsis thaliana (taxid: 3702)

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

 Score =  126 bits (316), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 78/256 (30%), Positives = 129/256 (50%), Gaps = 2/256 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           + K  G+ + E YF  L  S K   TY +LL+ Y   K   KA+  FE +   N   N+L
Sbjct: 117 IAKSKGLEAAETYFNSLDDSIKNQSTYGSLLNCYCVEKEEVKAKAHFENMVDLNHVSNSL 176

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
            +N +M +YM +GQ EKV  +V  +K K++ P   TY++WI SC +  ++D V+K LDEM
Sbjct: 177 PFNNLMAMYMGLGQPEKVPALVVAMKEKSITPCDITYSMWIQSCGSLKDLDGVEKVLDEM 236

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
             +  G   W  + NL  IYI       AE + L   E ++       Y FLI LY G+ 
Sbjct: 237 KAEGEGIFSWNTFANLAAIYIKVGLYGKAEEA-LKSLENNMNPDVRDCYHFLINLYTGIA 295

Query: 181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
           N  ++ ++W  L+     + + +Y+ +L +   L  +  V ++  +W +S    +D+   
Sbjct: 296 NASEVYRVWDLLKKRYPNVNNSSYLTMLRALSKLDDIDGVKKVFAEW-ESTCWTYDMRMA 354

Query: 241 NRLLGAFSDVGLTEKA 256
           N  + ++    + E+A
Sbjct: 355 NVAISSYLKQNMYEEA 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 =  124 bits (312), Expect = 5e-28,   Method: Compositional matrix adjust.
 Identities = 79/272 (29%), Positives = 138/272 (50%), Gaps = 2/272 (0%)

Query: 3   KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY 62
           +V+G  + E YFE L    K  +TY ALL+ Y   +  EK+   FE++K+     ++L Y
Sbjct: 105 RVYGFVTAEEYFENLKEQYKNDKTYGALLNCYVRQQNVEKSLLHFEKMKEMGFVTSSLTY 164

Query: 63  NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC 122
           N +M LY ++GQ EKV  V+EE+K +NV PD ++Y + I++  A  +++++   L +M  
Sbjct: 165 NNIMCLYTNIGQHEKVPKVLEEMKEENVAPDNYSYRICINAFGAMYDLERIGGTLRDMER 224

Query: 123 DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK 182
               + DW  Y      YI       A    L  +E  + ++    Y+ LI LYA LG K
Sbjct: 225 RQDITMDWNTYAVAAKFYIDGGDCDRA-VELLKMSENRLEKKDGEGYNHLITLYARLGKK 283

Query: 183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR 242
            ++ ++W   +   ++  +++Y+ +L S + +  L E  E++ +WK S    +D    N 
Sbjct: 284 IEVLRLWDLEKDVCKRRINQDYLTVLQSLVKIDALVEAEEVLTEWKSSGNC-YDFRVPNT 342

Query: 243 LLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 274
           ++  +    + EKA      L ++  A T  S
Sbjct: 343 VIRGYIGKSMEEKAEAMLEDLARRGKATTPES 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 = 99.4 bits (246), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 74/261 (28%), Positives = 132/261 (50%), Gaps = 10/261 (3%)

Query: 4   VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTE-KAEELFERVKQSNLSFNALMY 62
           V G+   E++FE +P +A+    YT+LL+ YA +  T  KAE  F++++   L    + Y
Sbjct: 117 VVGLEEAEKFFESIPKNARGDSVYTSLLNSYARSDKTLCKAEATFQKMRDLGLLLRPVPY 176

Query: 63  NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC 122
           N MM+LY ++   EKV  ++ E+K  +V  D  T N  +   +A  ++ +++KFL++   
Sbjct: 177 NAMMSLYSALKNREKVEELLLEMKDNDVEADNVTVNNVLKLYSAVCDVTEMEKFLNKWEG 236

Query: 123 DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT-YDFLIILYAGLGN 181
             G   +W   +++   Y+ A     A    L   E+ + Q+   + YD L+ LY   GN
Sbjct: 237 IHGIKLEWHTTLDMAKAYLRARSSGKA-MKMLRLTEQLVDQKSLKSAYDHLMKLYGEAGN 295

Query: 182 KDKIDQIWKSLRMTKQKMTSRN---YICILSSYLMLGHLKEVGEIIDQWKQSATSDFDIS 238
           ++++ ++WK   + K K+  R+   Y  ++ S L +  +    EI   W +S   +FD  
Sbjct: 296 REEVLRVWK---LYKSKIGERDNNGYRTVIRSLLKVDDIVGAEEIYKVW-ESLPLEFDHR 351

Query: 239 ACNRLLGAFSDVGLTEKANEF 259
               L   + D G+TEKA + 
Sbjct: 352 IPTMLASGYRDRGMTEKAEKL 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	275
255563224	426	pentatricopeptide repeat-containing prot	0.989	0.638	0.753	1e-124
224141193	355	predicted protein [Populus trichocarpa]	0.974	0.754	0.766	1e-122
356525847	395	PREDICTED: pentatricopeptide repeat-cont	0.974	0.678	0.712	1e-113
359484901	396	PREDICTED: pentatricopeptide repeat-cont	0.996	0.691	0.697	1e-113
356554749	399	PREDICTED: pentatricopeptide repeat-cont	0.978	0.674	0.706	1e-113
449438238	406	PREDICTED: pentatricopeptide repeat-cont	0.992	0.672	0.652	1e-106
297806979	410	hypothetical protein ARALYDRAFT_487758 [	0.989	0.663	0.626	6e-99
9955532	402	putative protein [Arabidopsis thaliana]	0.989	0.676	0.619	5e-98
18415979	409	pentatricopeptide repeat-containing prot	0.989	0.665	0.619	7e-98
21592522	409	unknown [Arabidopsis thaliana]	0.989	0.665	0.619	8e-98

>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 =  449 bits (1154), Expect = e-124,   Method: Compositional matrix adjust.
 Identities = 205/272 (75%), Positives = 240/272 (88%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           MTKVFGI + ERYFEGLP++ KTSETYTALLH YAG K   KAEEL+ER+K SNLSF AL
Sbjct: 152 MTKVFGIDAAERYFEGLPITVKTSETYTALLHSYAGVKQLGKAEELYERIKGSNLSFTAL 211

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
            YNEMMTLYMSVGQVEKV+LVVEE+KR+ + PDIFTYNLWISSCAA LNIDQV + LDEM
Sbjct: 212 TYNEMMTLYMSVGQVEKVSLVVEELKRQKIAPDIFTYNLWISSCAAILNIDQVTRILDEM 271

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
             DSG +DDW++Y+++ NIY+ A HLVN ESS +VEAEKSITQR+WITYDFLIILYAGL 
Sbjct: 272 KHDSGCNDDWLRYIDIANIYVKAGHLVNTESSAVVEAEKSITQREWITYDFLIILYAGLR 331

Query: 181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
           +KDK+DQIWKSLRMTKQKMT+RN++CILSSY+MLGHLKE GE++DQWK+S T+DFD+SAC
Sbjct: 332 DKDKVDQIWKSLRMTKQKMTNRNFVCILSSYMMLGHLKEAGEVLDQWKKSTTTDFDLSAC 391

Query: 241 NRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 272
           +RLL AFS  GLTE AN+FHMLL+++NC PTN
Sbjct: 392 SRLLDAFSGSGLTEIANDFHMLLIERNCDPTN 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 =  444 bits (1143), Expect = e-122,   Method: Compositional matrix adjust.
 Identities = 207/270 (76%), Positives = 239/270 (88%), Gaps = 2/270 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           MTKVFG+ + ERYF+GLPL+AKT+ETYTALLH YA AK  EKAEE ++R+K SNL F AL
Sbjct: 86  MTKVFGVDAAERYFDGLPLAAKTTETYTALLHSYAAAKLIEKAEEFYKRIKGSNLPFTAL 145

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
           MYNEMMTLYMSVGQ+EKV+ VVEE+K + V PDIFTYNLWISSCAA LNID+V++ LDEM
Sbjct: 146 MYNEMMTLYMSVGQLEKVSQVVEELKHQKVAPDIFTYNLWISSCAAALNIDKVRRILDEM 205

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESST--LVEAEKSITQRQWITYDFLIILYAG 178
           S DSG +DDW++Y+ +VNIY+TA HLVNAESST  +VEAEK ITQR+WITYDFL+ILYAG
Sbjct: 206 SQDSGVNDDWMRYIKIVNIYVTAGHLVNAESSTAAVVEAEKKITQREWITYDFLVILYAG 265

Query: 179 LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDIS 238
           LG KDKIDQIWKSLRMT QKMTSRN++CILSSYLMLGHLKEVGEI+DQWKQS T+DFDIS
Sbjct: 266 LGKKDKIDQIWKSLRMTNQKMTSRNFVCILSSYLMLGHLKEVGEIVDQWKQSTTTDFDIS 325

Query: 239 ACNRLLGAFSDVGLTEKANEFHMLLLQKNC 268
           ACNRLL A S +GLTE AN FHMLL+++NC
Sbjct: 326 ACNRLLDAISCLGLTEIANNFHMLLIERNC 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 =  413 bits (1062), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 191/268 (71%), Positives = 228/268 (85%)

Query: 2   TKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALM 61
           TKVFGI + ERYFEGLPL+ KT+ETYTALLH YAGAK T+KAEEL++R+K SNLSF+AL 
Sbjct: 124 TKVFGIDAAERYFEGLPLATKTAETYTALLHSYAGAKLTKKAEELYQRIKDSNLSFDALT 183

Query: 62  YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS 121
           YNEMMTLYMSVGQ EKV  VVEE+K++ V PDIFTYNLWIS CAA LNID+V++ LDEMS
Sbjct: 184 YNEMMTLYMSVGQFEKVPSVVEELKQQKVSPDIFTYNLWISYCAAILNIDEVRRILDEMS 243

Query: 122 CDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN 181
             +G ++ W++Y+NL NIYI+  HL NA S+TLVE EK ITQRQWITYDFLIILY GLG+
Sbjct: 244 HGAGSNESWIRYLNLANIYISVGHLDNASSNTLVETEKRITQRQWITYDFLIILYGGLGS 303

Query: 182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN 241
           KDK+DQIW SLRMTKQKM SRNYICI+SSYLMLGH KEVGE+IDQWKQS T+DFD+ AC 
Sbjct: 304 KDKLDQIWNSLRMTKQKMISRNYICIISSYLMLGHTKEVGEVIDQWKQSTTTDFDMLACK 363

Query: 242 RLLGAFSDVGLTEKANEFHMLLLQKNCA 269
           +++ AF D+GL E AN  +M+L++KN +
Sbjct: 364 KIMVAFRDMGLAEIANNLNMILIEKNLS 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 =  412 bits (1060), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 191/274 (69%), Positives = 234/274 (85%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           MT+VFGI + ERYFEGLP +AKTSETYTALLH YAGAK  EKAEEL+ER+K+SN+  N L
Sbjct: 122 MTRVFGIDAAERYFEGLPSAAKTSETYTALLHSYAGAKLAEKAEELYERIKESNVPLNIL 181

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
           +YNEMMTLYMSVGQVEKV+LVVEE+KR+ VVPD+FTYNLW+SSCAATL+ID V++ L EM
Sbjct: 182 LYNEMMTLYMSVGQVEKVSLVVEELKRQKVVPDLFTYNLWVSSCAATLDIDGVRRILKEM 241

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
           S +S  +D WV+Y NL NIYI A HLVN+ S+++VEA  + TQR WITYDFLIILYAGLG
Sbjct: 242 SNNSSANDGWVRYRNLANIYIMAGHLVNSASNSVVEAGTNTTQRDWITYDFLIILYAGLG 301

Query: 181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
           NKDKIDQIWKSL+MTKQK+ SR+Y+CILSSY+MLGH+K+VG +ID+WK+S T+DFDIS  
Sbjct: 302 NKDKIDQIWKSLKMTKQKIKSRSYVCILSSYVMLGHIKDVGIVIDEWKKSTTTDFDISVF 361

Query: 241 NRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 274
            RLL AF+++ L E+A  FH LL++K+C PT+ S
Sbjct: 362 YRLLDAFAELRLIEEAETFHKLLIRKSCLPTDES 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 =  412 bits (1059), Expect = e-113,   Method: Compositional matrix adjust.
 Identities = 190/269 (70%), Positives = 230/269 (85%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           MT+VFGI + ERYFEGLPL+ KT+ETYTALLH YAGAK TEKAEEL++R+K SNLSF+AL
Sbjct: 127 MTQVFGIDAAERYFEGLPLATKTTETYTALLHSYAGAKLTEKAEELYQRIKDSNLSFDAL 186

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
            YNEMMTLYMSVGQ EKV +VVEE+K++ V PDIFTYNLWISSCAA LNID+V++ LDEM
Sbjct: 187 TYNEMMTLYMSVGQFEKVPIVVEELKQQKVSPDIFTYNLWISSCAAILNIDEVRRILDEM 246

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
           S  +G ++ W++Y+NL NIYI+ +HL NA S+TLVE EK ITQRQWITYDFLIILY GLG
Sbjct: 247 SHGAGSNESWIRYLNLANIYISVAHLDNASSNTLVETEKRITQRQWITYDFLIILYGGLG 306

Query: 181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
           +KDK+DQIW SL MTKQKM SRNY+CI+SSYLMLG  KEVGE+IDQWKQS T+DFD+ AC
Sbjct: 307 SKDKLDQIWNSLGMTKQKMISRNYMCIISSYLMLGLTKEVGEVIDQWKQSTTTDFDMLAC 366

Query: 241 NRLLGAFSDVGLTEKANEFHMLLLQKNCA 269
            ++L AF D+GL E AN  +++L++KN +
Sbjct: 367 KKILVAFRDIGLAEIANNLNVILIEKNLS 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 =  391 bits (1004), Expect = e-106,   Method: Compositional matrix adjust.
 Identities = 178/273 (65%), Positives = 231/273 (84%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
           MTKVFG+ + ERYFEGLP+ AKT ETYTALLH +AG+K T+KAE L+E++K+S++   AL
Sbjct: 134 MTKVFGVDAAERYFEGLPIDAKTCETYTALLHSFAGSKLTDKAETLYEKMKESDIPLTAL 193

Query: 61  MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
            +NEMMTLY S+GQVEKV+ +V+++K++ V PDIFTYNLWISS AA LNID VK+ L+EM
Sbjct: 194 PFNEMMTLYTSIGQVEKVSSIVDDLKQRMVHPDIFTYNLWISSLAAALNIDGVKQILNEM 253

Query: 121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
           + +   +++WV+Y+ LVNIY+ +++L+++ES+++VE+   I+QR+WITYD LIILYAGLG
Sbjct: 254 NHNPNSNENWVRYIELVNIYVKSANLLHSESNSVVESVSGISQREWITYDLLIILYAGLG 313

Query: 181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
           NKDKIDQIW+SLRMTKQKMTSRNYICI+S YLML  LKE+GE+IDQWKQS T+DFDIS+C
Sbjct: 314 NKDKIDQIWRSLRMTKQKMTSRNYICIVSCYLMLDDLKEIGEVIDQWKQSTTTDFDISSC 373

Query: 241 NRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA 273
           NRL+ AF + GL EKAN F  +L+QKNC PT A
Sbjct: 374 NRLVNAFIEAGLHEKANSFVNVLIQKNCEPTEA 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 =  366 bits (940), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 171/273 (62%), Positives = 221/273 (80%), Gaps = 1/273 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA 59
           ++KVFGI + ERYFEGL + AKT+ETYT+LLH YAG+K TE+AE LF+R+ +++ LSF A
Sbjct: 134 ISKVFGIDAAERYFEGLHIDAKTTETYTSLLHAYAGSKQTERAEALFKRIIETDSLSFGA 193

Query: 60  LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE 119
           + YNEMMTLYMSVGQVEKV  V++ +K K V PDIFTYNLW+SSCAAT NID++++ L+E
Sbjct: 194 ITYNEMMTLYMSVGQVEKVPEVIQVLKHKKVSPDIFTYNLWLSSCAATFNIDELRRILEE 253

Query: 120 MSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL 179
           M  D+  ++ WV+Y+NL +IYI +S + NAES++ VEAEKSI+QR+WITYDFL+IL+ GL
Sbjct: 254 MRHDASSNEGWVRYINLTSIYINSSRVTNAESTSPVEAEKSISQREWITYDFLMILHTGL 313

Query: 180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
           GNK  IDQIWKSL  T QK++SR+YIC+LSSYLMLGHL+E  EII QWK+S T++FD SA
Sbjct: 314 GNKVMIDQIWKSLGNTNQKLSSRSYICVLSSYLMLGHLREAEEIIHQWKESKTTEFDASA 373

Query: 240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 272
           C R+L AF DVGL   A+ FH+LL+   C+  N
Sbjct: 374 CLRILNAFRDVGLEGVASGFHLLLVYNKCSLEN 406

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  363 bits (931), Expect = 5e-98,   Method: Compositional matrix adjust.
 Identities = 169/273 (61%), Positives = 220/273 (80%), Gaps = 1/273 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA 59
           ++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K TE+AE LF+R+ +S+ L+F A
Sbjct: 126 ISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQTERAEALFKRIIESDSLTFGA 185

Query: 60  LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE 119
           + YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNLW+SSCAAT NID+++K L+E
Sbjct: 186 ITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNLWLSSCAATFNIDELRKILEE 245

Query: 120 MSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL 179
           M  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEKSI+QR+WITYDFL+IL+ GL
Sbjct: 246 MRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEKSISQREWITYDFLMILHTGL 305

Query: 180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
           GNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E  EII QWK+S T++FD SA
Sbjct: 306 GNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLREAEEIIHQWKESKTTEFDASA 365

Query: 240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 272
           C R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 366 CLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 398

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

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 =  362 bits (930), Expect = 7e-98,   Method: Compositional matrix adjust.
 Identities = 169/273 (61%), Positives = 220/273 (80%), Gaps = 1/273 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA 59
           ++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K TE+AE LF+R+ +S+ L+F A
Sbjct: 133 ISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQTERAEALFKRIIESDSLTFGA 192

Query: 60  LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE 119
           + YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNLW+SSCAAT NID+++K L+E
Sbjct: 193 ITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNLWLSSCAATFNIDELRKILEE 252

Query: 120 MSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL 179
           M  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEKSI+QR+WITYDFL+IL+ GL
Sbjct: 253 MRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEKSISQREWITYDFLMILHTGL 312

Query: 180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
           GNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E  EII QWK+S T++FD SA
Sbjct: 313 GNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLREAEEIIHQWKESKTTEFDASA 372

Query: 240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 272
           C R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 373 CLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 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 =  362 bits (930), Expect = 8e-98,   Method: Compositional matrix adjust.
 Identities = 169/273 (61%), Positives = 220/273 (80%), Gaps = 1/273 (0%)

Query: 1   MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA 59
           ++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K TE+AE LF+R+ +S+ L+F A
Sbjct: 133 ISKVFGIDAAERYFEGLHIDSKTAETYTSLLHAYAASKQTERAEALFKRIIESDSLTFGA 192

Query: 60  LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE 119
           + YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNLW+SSCAAT NID+++K L+E
Sbjct: 193 ITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNLWLSSCAATFNIDELRKILEE 252

Query: 120 MSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL 179
           M  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEKSI+QR+WITYDFL+IL+ GL
Sbjct: 253 MRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEKSISQREWITYDFLMILHTGL 312

Query: 180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
           GNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E  EII QWK+S T++FD SA
Sbjct: 313 GNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLREAEEIIHQWKESKTTEFDASA 372

Query: 240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 272
           C R+L AF DVGL   A+ FH++L+   C+  N
Sbjct: 373 CLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 405

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	275
TAIR|locus:2184807	409	AT5G09450 "AT5G09450" [Arabido	0.989	0.665	0.619	2.5e-90
TAIR|locus:2036586	491	AT1G60770 [Arabidopsis thalian	0.930	0.521	0.379	5.6e-45
TAIR|locus:2140220	532	AT4G02820 "AT4G02820" [Arabido	0.967	0.5	0.301	5.1e-35
TAIR|locus:2146390	491	AT5G27460 "AT5G27460" [Arabido	0.967	0.541	0.316	1.1e-34
TAIR|locus:2204808	537	AT1G02370 "AT1G02370" [Arabido	0.967	0.495	0.289	2.3e-32
TAIR|locus:2051379	490	AT2G20710 [Arabidopsis thalian	0.956	0.536	0.299	9.8e-32
TAIR|locus:2204793	524	AT1G02150 [Arabidopsis thalian	0.883	0.463	0.302	1.5e-31
TAIR|locus:2141360	502	AT4G01990 [Arabidopsis thalian	0.923	0.505	0.300	2.7e-31
TAIR|locus:504955535	492	AT4G21705 "AT4G21705" [Arabido	0.981	0.548	0.290	2.4e-29
TAIR|locus:2010459	566	AT1G28020 "AT1G28020" [Arabido	0.92	0.446	0.276	6.5e-23

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

 Score = 901 (322.2 bits), Expect = 2.5e-90, P = 2.5e-90
 Identities = 169/273 (61%), Positives = 220/273 (80%)

Query:     1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA 59
             ++KVFGI + ERYFEGL + +KT+ETYT+LLH YA +K TE+AE LF+R+ +S+ L+F A
Sbjct:   133 ISKVFGIDAAERYFEGLDIDSKTAETYTSLLHAYAASKQTERAEALFKRIIESDSLTFGA 192

Query:    60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE 119
             + YNEMMTLYMSVGQVEKV  V+E +K+K V PDIFTYNLW+SSCAAT NID+++K L+E
Sbjct:   193 ITYNEMMTLYMSVGQVEKVPEVIEVLKQKKVSPDIFTYNLWLSSCAATFNIDELRKILEE 252

Query:   120 MSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL 179
             M  D+  ++ WV+Y++L +IYI +S + NAES+  VEAEKSI+QR+WITYDFL+IL+ GL
Sbjct:   253 MRHDASSNEGWVRYIDLTSIYINSSRVTNAESTLPVEAEKSISQREWITYDFLMILHTGL 312

Query:   180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
             GNK  IDQIWKSLR T Q ++SR+YIC+LSSYLMLGHL+E  EII QWK+S T++FD SA
Sbjct:   313 GNKVMIDQIWKSLRNTNQILSSRSYICVLSSYLMLGHLREAEEIIHQWKESKTTEFDASA 372

Query:   240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN 272
             C R+L AF DVGL   A+ FH++L+   C+  N
Sbjct:   373 CLRILNAFRDVGLEGIASGFHLILVHNKCSLEN 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 = 473 (171.6 bits), Expect = 5.6e-45, P = 5.6e-45
 Identities = 98/258 (37%), Positives = 155/258 (60%)

Query:     1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
             + K   I +GE YF  LP ++KT  TY +LL+ Y     TEKAE L  ++K+ N++ +++
Sbjct:   100 VAKAREITAGENYFVDLPETSKTELTYGSLLNCYCKELLTEKAEGLLNKMKELNITPSSM 159

Query:    61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
              YN +MTLY   G+ EKV  +++E+K +NV+PD +TYN+W+ + AAT +I  V++ ++EM
Sbjct:   160 SYNSLMTLYTKTGETEKVPAMIQELKAENVMPDSYTYNVWMRALAATNDISGVERVIEEM 219

Query:   121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
             + D   + DW  Y N+ +IY+ A     AE + L E E   TQR +  Y FLI LY  LG
Sbjct:   220 NRDGRVAPDWTTYSNMASIYVDAGLSQKAEKA-LQELEMKNTQRDFTAYQFLITLYGRLG 278

Query:   181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
                ++ +IW+SLR+   K ++  Y+ ++   + L  L     +  +W Q+  S +DI   
Sbjct:   279 KLTEVYRIWRSLRLAIPKTSNVAYLNMIQVLVKLNDLPGAETLFKEW-QANCSTYDIRIV 337

Query:   241 NRLLGAFSDVGLTEKANE 258
             N L+GA++  GL +KANE
Sbjct:   338 NVLIGAYAQEGLIQKANE 355

GO:0005739 "mitochondrion" evidence=ISM;IDA

GO:0008150 "biological_process" evidence=ND

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

 Score = 379 (138.5 bits), Expect = 5.1e-35, P = 5.1e-35
 Identities = 82/272 (30%), Positives = 155/272 (56%)

Query:     1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
             ++K+ G++S E++FE +P   +     T+LLH Y   K ++KAE LFE++ +     + L
Sbjct:   139 ISKIRGLNSAEKFFEDMPDQMRGHAACTSLLHSYVQNKLSDKAEALFEKMGECGFLKSCL 198

Query:    61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
              YN M+++Y+S GQ EKV ++++E+K +   PDI TYNLW+++ A+  +++  +K   + 
Sbjct:   199 PYNHMLSMYISRGQFEKVPVLIKELKIRTS-PDIVTYNLWLTAFASGNDVEGAEKVYLKA 257

Query:   121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
               +   + DWV Y  L N+Y    ++  A  + L E EK ++++  + Y  LI L+A LG
Sbjct:   258 K-EEKLNPDWVTYSVLTNLYAKTDNVEKARLA-LKEMEKLVSKKNRVAYASLISLHANLG 315

Query:   181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ-SATSDFDISA 239
             +KD ++  WK ++ + +KM    Y+ ++S+ + LG  ++   + D+W+  S T D  I  
Sbjct:   316 DKDGVNLTWKKVKSSFKKMNDAEYLSMISAVVKLGEFEQAKGLYDEWESVSGTGDARIP- 374

Query:   240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT 271
              N +L  + +        +F+  +++K   P+
Sbjct:   375 -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 = 376 (137.4 bits), Expect = 1.1e-34, P = 1.1e-34
 Identities = 86/272 (31%), Positives = 138/272 (50%)

Query:     3 KVFGIHSGERYFEGL---PLSAKTSET-YTALLHLYAGAKWTEKAEELFERVKQSNLSFN 58
             K  G+  GE YFE L    +S + +++ Y  LL  Y   K  ++AE L E++        
Sbjct:   118 KTHGLKQGEEYFEKLLHSSVSMRVAKSAYLPLLRAYVKNKMVKEAEALMEKLNGLGFLVT 177

Query:    59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLD 118
                +NEMM LY + GQ EKV +VV  +K   +  ++ +YNLW+++C     +  V+    
Sbjct:   178 PHPFNEMMKLYEASGQYEKVVMVVSMMKGNKIPRNVLSYNLWMNACCEVSGVAAVETVYK 237

Query:   119 EMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG 178
             EM  D      W     L N+YI +     A    L +AEK + +   + Y FLI LYA 
Sbjct:   238 EMVGDKSVEVGWSSLCTLANVYIKSGFDEKARL-VLEDAEKMLNRSNRLGYFFLITLYAS 296

Query:   179 LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDIS 238
             LGNK+ + ++W+  +    +++  NYIC+LSS +  G L+E   +  +W ++   ++D+ 
Sbjct:   297 LGNKEGVVRLWEVSKSVCGRISCVNYICVLSSLVKTGDLEEAERVFSEW-EAQCFNYDVR 355

Query:   239 ACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP 270
               N LLGA+   G   KA   H  +L++   P
Sbjct:   356 VSNVLLGAYVRNGEIRKAESLHGCVLERGGTP 387

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 356 (130.4 bits), Expect = 2.3e-32, P = 2.3e-32
 Identities = 78/269 (28%), Positives = 144/269 (53%)

Query:     3 KVFGIHSGERYFEGLPLSAKTSE-TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALM 61
             K  G+ + E YF  L  SAK  + TY AL++ Y      EKA+  FE + + N   N+L 
Sbjct:   150 KTKGLEAAENYFNNLDPSAKNHQSTYGALMNCYCVELEEEKAKAHFEIMDELNFVNNSLP 209

Query:    62 YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS 121
             +N MM++YM + Q EKV ++V+ +K++ + P   TY++W+ SC +  ++D ++K +DEM 
Sbjct:   210 FNNMMSMYMRLSQPEKVPVLVDAMKQRGISPCGVTYSIWMQSCGSLNDLDGLEKIIDEMG 269

Query:   122 CDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN 181
              DS     W  + NL  IY T + L     S L   E+ +      ++ FL+ LYAG+  
Sbjct:   270 KDSEAKTTWNTFSNLAAIY-TKAGLYEKADSALKSMEEKMNPNNRDSHHFLMSLYAGISK 328

Query:   182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN 241
               ++ ++W+SL+  + ++ + +Y+ +L +   LG L  + +I  +W+    + +D+   N
Sbjct:   329 GPEVYRVWESLKKARPEVNNLSYLVMLQAMSKLGDLDGIKKIFTEWESKCWA-YDMRLAN 387

Query:   242 RLLGAFSDVGLTEKANEFHMLLLQKNCAP 270
               +  +    + E+A +     ++K+  P
Sbjct:   388 IAINTYLKGNMYEEAEKILDGAMKKSKGP 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:2051379 AT2G20710 [Arabidopsis thaliana (taxid:3702)]

 Score = 348 (127.6 bits), Expect = 9.8e-32, P = 9.8e-32
 Identities = 80/267 (29%), Positives = 142/267 (53%)

Query:     1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
             + KV G+   E++FE +P+  +    Y ALL+ YA  K   KAE++F+ +K+       L
Sbjct:   116 IAKVGGLGEAEKFFETIPMERRNYHLYGALLNCYASKKVLHKAEQVFQEMKELGFLKGCL 175

Query:    61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
              YN M+ LY+  G+   V  ++ E++ + V PDIFT N  + + +   +++ ++KFL   
Sbjct:   176 PYNVMLNLYVRTGKYTMVEKLLREMEDETVKPDIFTVNTRLHAYSVVSDVEGMEKFLMRC 235

Query:   121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT-QRQWITYDFLIILYAGL 179
               D G   DW  Y +  N YI A  L       L ++E+ +  Q++   Y+ L+  Y   
Sbjct:   236 EADQGLHLDWRTYADTANGYIKAG-LTEKALEMLRKSEQMVNAQKRKHAYEVLMSFYGAA 294

Query:   180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA 239
             G K+++ ++W SL        +  YI ++S+ L +  ++EV +I+++W ++  S FDI  
Sbjct:   295 GKKEEVYRLW-SLYKELDGFYNTGYISVISALLKMDDIEEVEKIMEEW-EAGHSLFDIRI 352

Query:   240 CNRLLGAFSDVGLTEKANEFHMLLLQK 266
              + L+  +   G+ EKA E   +L+QK
Sbjct:   353 PHLLITGYCKKGMMEKAEEVVNILVQK 379

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

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

 Score = 348 (127.6 bits), Expect = 1.5e-31, P = 1.5e-31
 Identities = 74/245 (30%), Positives = 132/245 (53%)

Query:     3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY 62
             KV GI   E +F  LP + K    Y +LL+ Y  AK  EKAE L   ++    + + L +
Sbjct:   148 KVRGIPDAEEFFLQLPENFKDRRVYGSLLNAYVRAKSREKAEALLNTMRDKGYALHPLPF 207

Query:    63 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC 122
             N MMTLYM++ + +KV  +V E+K+K++  DI++YN+W+SSC +  ++++++    +M  
Sbjct:   208 NVMMTLYMNLREYDKVDAMVFEMKQKDIRLDIYSYNIWLSSCGSLGSVEKMELVYQQMKS 267

Query:   123 DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK 182
             D     +W  +  +  +YI       AE + L + E  IT R  I Y +L+ LY  LGNK
Sbjct:   268 DVSIYPNWTTFSTMATMYIKMGETEKAEDA-LRKVEARITGRNRIPYHYLLSLYGSLGNK 326

Query:   183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR 242
              ++ ++W   +     + +  Y  ++SS + +G ++   ++ ++W     S +D    N 
Sbjct:   327 KELYRVWHVYKSVVPSIPNLGYHALVSSLVRMGDIEGAEKVYEEWLP-VKSSYDPRIPNL 385

Query:   243 LLGAF 247
             L+ A+
Sbjct:   386 LMNAY 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 = 344 (126.2 bits), Expect = 2.7e-31, P = 2.7e-31
 Identities = 77/256 (30%), Positives = 130/256 (50%)

Query:     1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL 60
             + K  G+ + E YF  L  S K   TY +LL+ Y   K   KA+  FE +   N   N+L
Sbjct:   117 IAKSKGLEAAETYFNSLDDSIKNQSTYGSLLNCYCVEKEEVKAKAHFENMVDLNHVSNSL 176

Query:    61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEM 120
              +N +M +YM +GQ EKV  +V  +K K++ P   TY++WI SC +  ++D V+K LDEM
Sbjct:   177 PFNNLMAMYMGLGQPEKVPALVVAMKEKSITPCDITYSMWIQSCGSLKDLDGVEKVLDEM 236

Query:   121 SCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG 180
               +  G   W  + NL  IYI       AE + L   E ++       Y FLI LY G+ 
Sbjct:   237 KAEGEGIFSWNTFANLAAIYIKVGLYGKAEEA-LKSLENNMNPDVRDCYHFLINLYTGIA 295

Query:   181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC 240
             N  ++ ++W  L+     + + +Y+ +L +   L  +  V ++  +W+ +  + +D+   
Sbjct:   296 NASEVYRVWDLLKKRYPNVNNSSYLTMLRALSKLDDIDGVKKVFAEWESTCWT-YDMRMA 354

Query:   241 NRLLGAFSDVGLTEKA 256
             N  + ++    + E+A
Sbjct:   355 NVAISSYLKQNMYEEA 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 = 327 (120.2 bits), Expect = 2.4e-29, P = 2.4e-29
 Identities = 79/272 (29%), Positives = 138/272 (50%)

Query:     3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY 62
             +V+G  + E YFE L    K  +TY ALL+ Y   +  EK+   FE++K+     ++L Y
Sbjct:   105 RVYGFVTAEEYFENLKEQYKNDKTYGALLNCYVRQQNVEKSLLHFEKMKEMGFVTSSLTY 164

Query:    63 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC 122
             N +M LY ++GQ EKV  V+EE+K +NV PD ++Y + I++  A  +++++   L +M  
Sbjct:   165 NNIMCLYTNIGQHEKVPKVLEEMKEENVAPDNYSYRICINAFGAMYDLERIGGTLRDMER 224

Query:   123 DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK 182
                 + DW  Y      YI       A    L  +E  + ++    Y+ LI LYA LG K
Sbjct:   225 RQDITMDWNTYAVAAKFYIDGGDCDRAVE-LLKMSENRLEKKDGEGYNHLITLYARLGKK 283

Query:   183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR 242
              ++ ++W   +   ++  +++Y+ +L S + +  L E  E++ +WK S    +D    N 
Sbjct:   284 IEVLRLWDLEKDVCKRRINQDYLTVLQSLVKIDALVEAEEVLTEWKSSGNC-YDFRVPNT 342

Query:   243 LLGAFSDVGLTEKANEFHMLLLQKNCAPTNAS 274
             ++  +    + EKA      L ++  A T  S
Sbjct:   343 VIRGYIGKSMEEKAEAMLEDLARRGKATTPES 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 = 272 (100.8 bits), Expect = 6.5e-23, P = 6.5e-23
 Identities = 71/257 (27%), Positives = 129/257 (50%)

Query:     4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTE-KAEELFERVKQSNLSFNALMY 62
             V G+   E++FE +P +A+    YT+LL+ YA +  T  KAE  F++++   L    + Y
Sbjct:   117 VVGLEEAEKFFESIPKNARGDSVYTSLLNSYARSDKTLCKAEATFQKMRDLGLLLRPVPY 176

Query:    63 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC 122
             N MM+LY ++   EKV  ++ E+K  +V  D  T N  +   +A  ++ +++KFL++   
Sbjct:   177 NAMMSLYSALKNREKVEELLLEMKDNDVEADNVTVNNVLKLYSAVCDVTEMEKFLNKWEG 236

Query:   123 DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT-YDFLIILYAGLGN 181
               G   +W   +++   Y+ A     A    L   E+ + Q+   + YD L+ LY   GN
Sbjct:   237 IHGIKLEWHTTLDMAKAYLRARSSGKA-MKMLRLTEQLVDQKSLKSAYDHLMKLYGEAGN 295

Query:   182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN 241
             ++++ ++WK  +    +  +  Y  ++ S L +  +    EI   W +S   +FD     
Sbjct:   296 REEVLRVWKLYKSKIGERDNNGYRTVIRSLLKVDDIVGAEEIYKVW-ESLPLEFDHRIPT 354

Query:   242 RLLGAFSDVGLTEKANE 258
              L   + D G+TEKA +
Sbjct:   355 MLASGYRDRGMTEKAEK 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	0.6190	0.9890	0.6650	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	275
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-06
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	1e-05
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	0.002

>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: 58  NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA 105
           + + 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 = 46.0 bits (109), Expect = 1e-05
 Identities = 28/102 (27%), Positives = 49/102 (48%), Gaps = 4/102 (3%)

Query: 3   KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY 62
           K F I    R  +G+ L   +   Y++L+   + AK  +KA EL+E +K   L       
Sbjct: 667 KAFEILQDARK-QGIKLGTVS---YSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM 722

Query: 63  NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC 104
           N ++T      Q+ K   V+ E+KR  + P+  TY++ + + 
Sbjct: 723 NALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS 764

Length = 1060

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

 Score = 38.7 bits (90), Expect = 0.002
 Identities = 29/101 (28%), Positives = 50/101 (49%), Gaps = 10/101 (9%)

Query: 28  TALLHLYAGAKW--TEKAEELFERVKQSNL-SFNALMYNEMMTLYMSVGQVEKVALVVEE 84
           TAL+ LY+  KW   E A  +F+R+ + NL S+NAL+       Y + G+  K   + E 
Sbjct: 364 TALVDLYS--KWGRMEDARNVFDRMPRKNLISWNALIAG-----YGNHGRGTKAVEMFER 416

Query: 85  IKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSG 125
           +  + 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	275
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	99.93
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.89
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	99.88
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.84
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.82
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.8
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.77
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.74
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.73
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.73
KOG1126	638	consensus DNA-binding cell division cycle control	99.72
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.7
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.69
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.69
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.69
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.68
PRK12370	553	invasion protein regulator; Provisional	99.67
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.67
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.66
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.66
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.66
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.65
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.65
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.64
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.62
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.62
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.61
PF13041	50	PPR_2: PPR repeat family	99.61
PRK14574	822	hmsH outer membrane protein; Provisional	99.6
PF13041	50	PPR_2: PPR repeat family	99.6
PRK12370	553	invasion protein regulator; Provisional	99.59
PRK14574	822	hmsH outer membrane protein; Provisional	99.58
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.57
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.52
KOG1126	638	consensus DNA-binding cell division cycle control	99.51
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.49
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.48
KOG1129	478	consensus TPR repeat-containing protein [General f	99.47
KOG2076	895	consensus RNA polymerase III transcription factor	99.47
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.46
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.46
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.46
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.45
KOG2003	840	consensus TPR repeat-containing protein [General f	99.45
PRK11189	296	lipoprotein NlpI; Provisional	99.43
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.41
KOG2003	840	consensus TPR repeat-containing protein [General f	99.4
PRK11189	296	lipoprotein NlpI; Provisional	99.35
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.35
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.34
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.33
KOG1129	478	consensus TPR repeat-containing protein [General f	99.31
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.3
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.29
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.28
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.27
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.27
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.24
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.24
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.18
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.18
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.18
KOG1125	579	consensus TPR repeat-containing protein [General f	99.17
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.17
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.14
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.13
KOG2076	895	consensus RNA polymerase III transcription factor	99.12
PF12854	34	PPR_1: PPR repeat	99.11
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	99.06
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.06
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.05
PLN02789	320	farnesyltranstransferase	99.02
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	99.02
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.01
PF12854	34	PPR_1: PPR repeat	99.01
PLN02789	320	farnesyltranstransferase	99.0
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.99
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.96
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.96
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.93
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.92
KOG1125	579	consensus TPR repeat-containing protein [General f	98.87
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.87
PRK15359	144	type III secretion system chaperone protein SscB;	98.87
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.84
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.82
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.82
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.81
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.76
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	98.76
PRK04841	903	transcriptional regulator MalT; Provisional	98.75
PRK15359	144	type III secretion system chaperone protein SscB;	98.75
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.74
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.73
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.72
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.71
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.7
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.69
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.69
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.68
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.67
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.65
KOG4340	459	consensus Uncharacterized conserved protein [Funct	98.64
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.63
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.62
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.62
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.61
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.59
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.58
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.58
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.57
KOG2047	835	consensus mRNA splicing factor [RNA processing and	98.57
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.56
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.55
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.55
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.54
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	98.53
KOG3785	557	consensus Uncharacterized conserved protein [Funct	98.49
PRK04841	903	transcriptional regulator MalT; Provisional	98.49
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	98.48
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	98.47
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.45
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.43
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.42
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.41
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.4
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.4
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.4
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.39
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	98.37
KOG2376	652	consensus Signal recognition particle, subunit Srp	98.36
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.35
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.33
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	98.33
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.31
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.28
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.25
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.24
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.24
KOG3616	1636	consensus Selective LIM binding factor [Transcript	98.22
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.22
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	98.21
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.2
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	98.19
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.19
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.17
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	98.16
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.13
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.13
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	98.12
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.09
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	98.09
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.07
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.06
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.06
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.03
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.03
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.97
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.95
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.95
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	97.95
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.94
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.94
KOG0553	304	consensus TPR repeat-containing protein [General f	97.93
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.92
PF12688	120	TPR_5: Tetratrico peptide repeat	97.89
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.86
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.85
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.83
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.82
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.8
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.8
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.77
KOG0553	304	consensus TPR repeat-containing protein [General f	97.76
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.75
PF12688	120	TPR_5: Tetratrico peptide repeat	97.71
KOG3941	406	consensus Intermediate in Toll signal transduction	97.71
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.7
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.7
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.67
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.63
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.63
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.62
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	97.6
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.59
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.57
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.56
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.52
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.52
PRK10803	263	tol-pal system protein YbgF; Provisional	97.51
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.49
PF13371	73	TPR_9: Tetratricopeptide repeat	97.45
PRK10803	263	tol-pal system protein YbgF; Provisional	97.39
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.34
COG3118	304	Thioredoxin domain-containing protein [Posttransla	97.3
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.3
PF13371	73	TPR_9: Tetratricopeptide repeat	97.25
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.24
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.14
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	97.13
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	97.13
PRK15331	165	chaperone protein SicA; Provisional	97.1
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	97.04
PRK15331	165	chaperone protein SicA; Provisional	97.01
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	97.01
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.01
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.86
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.86
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.84
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.82
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.81
PRK11906	458	transcriptional regulator; Provisional	96.76
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.76
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.75
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.74
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.72
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.69
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.58
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	96.49
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.46
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.45
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	96.45
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.44
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	96.44
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.41
COG3629	280	DnrI DNA-binding transcriptional activator of the	96.4
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	96.39
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.39
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	96.37
COG3898	531	Uncharacterized membrane-bound protein [Function u	96.36
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	96.35
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.3
COG0457	291	NrfG FOG: TPR repeat [General function prediction	96.28
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	96.27
smart00299	140	CLH Clathrin heavy chain repeat homology.	96.25
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	96.25
KOG3941	406	consensus Intermediate in Toll signal transduction	96.25
KOG2041	1189	consensus WD40 repeat protein [General function pr	96.21
PF13428	44	TPR_14: Tetratricopeptide repeat	96.2
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.19
KOG4555	175	consensus TPR repeat-containing protein [Function	96.18
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.16
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	96.13
KOG4555	175	consensus TPR repeat-containing protein [Function	96.13
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.11
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	96.05
PF13512	142	TPR_18: Tetratricopeptide repeat	96.04
KOG2610	491	consensus Uncharacterized conserved protein [Funct	96.0
PF13428	44	TPR_14: Tetratricopeptide repeat	95.98
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.97
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	95.96
PF13512	142	TPR_18: Tetratricopeptide repeat	95.91
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.86
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	95.73
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.69
KOG1585	308	consensus Protein required for fusion of vesicles	95.64
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.43
PRK11906	458	transcriptional regulator; Provisional	95.34
PF13431	34	TPR_17: Tetratricopeptide repeat	95.14
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	95.13
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.05
KOG4570	418	consensus Uncharacterized conserved protein [Funct	95.01
PF13929	292	mRNA_stabil: mRNA stabilisation	94.93
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.91
KOG1585	308	consensus Protein required for fusion of vesicles	94.78
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.78
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.67
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	94.65
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.56
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	94.54
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	94.49
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	94.37
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	94.36
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	94.11
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.08
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.0
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	93.97
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	93.84
COG4105	254	ComL DNA uptake lipoprotein [General function pred	93.8
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	93.72
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	93.68
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	93.66
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.59
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	93.31
PF13431	34	TPR_17: Tetratricopeptide repeat	93.11
KOG1550	552	consensus Extracellular protein SEL-1 and related	93.02
COG4105	254	ComL DNA uptake lipoprotein [General function pred	92.96
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.86
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	92.85
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	92.76
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.58
PF13929	292	mRNA_stabil: mRNA stabilisation	92.25
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	92.19
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	92.09
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	91.91
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	91.88
KOG4570	418	consensus Uncharacterized conserved protein [Funct	91.69
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	91.22
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	90.97
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.18
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	90.08
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	90.01
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	89.65
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	89.56
KOG2063	877	consensus Vacuolar assembly/sorting proteins VPS39	89.53
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	89.06
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	89.02
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	88.83
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.82
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	88.57
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	88.23
COG4455	273	ImpE Protein of avirulence locus involved in tempe	88.21
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	88.08
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	87.65
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	87.49
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	87.08
PHA02875	413	ankyrin repeat protein; Provisional	86.96
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	86.76
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	86.69
KOG1586	288	consensus Protein required for fusion of vesicles	86.64
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	86.28
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	86.27
PRK09687	280	putative lyase; Provisional	86.25
COG1747	711	Uncharacterized N-terminal domain of the transcrip	86.19
PF09477	116	Type_III_YscG: Bacterial type II secretion system	85.86
PF07163	309	Pex26: Pex26 protein; InterPro: IPR010797 This fam	85.81
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	85.29
PF10579	80	Rapsyn_N: Rapsyn N-terminal myristoylation and lin	85.27
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	85.06
PF14689	62	SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical do	85.0
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	84.76
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	84.68
COG3947	361	Response regulator containing CheY-like receiver a	84.44
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	84.26
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	84.13
smart00638	574	LPD_N Lipoprotein N-terminal Domain.	83.81
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	83.75
PF11846	193	DUF3366: Domain of unknown function (DUF3366); Int	83.56
KOG4648	536	consensus Uncharacterized conserved protein, conta	83.47
PF08311	126	Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro	83.02
KOG2659	228	consensus LisH motif-containing protein [Cytoskele	82.94
COG3947	361	Response regulator containing CheY-like receiver a	82.73
cd08819	88	CARD_MDA5_2 Caspase activation and recruitment dom	82.62
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	82.37
KOG4077	149	consensus Cytochrome c oxidase, subunit Va/COX6 [E	82.08
KOG4648	536	consensus Uncharacterized conserved protein, conta	81.89
KOG4234	271	consensus TPR repeat-containing protein [General f	81.48
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	81.36
PF13762	145	MNE1: Mitochondrial splicing apparatus component	81.21
KOG1550	552	consensus Extracellular protein SEL-1 and related	81.12
PF11848	48	DUF3368: Domain of unknown function (DUF3368); Int	80.82
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	80.39
PF12862	94	Apc5: Anaphase-promoting complex subunit 5	80.22

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=3e-52  Score=363.94  Aligned_cols=271  Identities=18%  Similarity=0.163  Sum_probs=209.9

Q ss_pred             ccccChhhHHHHhhccccCC--CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      |++|++++|.++|++|...+  ||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|+.||.+|++.|++++|.
T Consensus       483 ~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~  562 (1060)
T PLN03218        483 AKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAF  562 (1060)
T ss_pred             HhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            56777777777777777653  6777777777777777777777777777777777777777777777777777777777


Q ss_pred             HHHHHHhh--CCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952           80 LVVEEIKR--KNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus        80 ~~~~~m~~--~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      ++|++|.+  .|+.||..+|++++.+|++.|++++|.++|++|.+. +++|+..+|+.+|.+|++.|++++|.+ ++++|
T Consensus       563 ~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M~e~-gi~p~~~tynsLI~ay~k~G~~deAl~-lf~eM  640 (1060)
T PLN03218        563 DVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMIHEY-NIKGTPEVYTIAVNSCSQKGDWDFALS-IYDDM  640 (1060)
T ss_pred             HHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc-CCCCChHHHHHHHHHHHhcCCHHHHHH-HHHHH
Confidence            77777765  467777777777777777777777777777777776 677777777777777777777777777 77777


Q ss_pred             HHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCH
Q 023952          158 EKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDI  237 (275)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  237 (275)
                      ...+..||..+|+.++.+|++.|++++|.++|++|.+.|+.|+..+|+.+|.+|++.|++++|.++|++|.+.+. .||.
T Consensus       641 ~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~-~Pdv  719 (1060)
T PLN03218        641 KKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKL-RPTV  719 (1060)
T ss_pred             HHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCCH
Confidence            777777777777777777777777777777777777777777877888888888888888888888888777653 5788


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCCC
Q 023952          238 SACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  275 (275)
Q Consensus       238 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~ty  275 (275)
                      .+|+.||.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       720 vtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty  757 (1060)
T PLN03218        720 STMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITY  757 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            88888888888888888888888888888888877665

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1.8e-51  Score=359.08  Aligned_cols=273  Identities=18%  Similarity=0.185  Sum_probs=254.4

Q ss_pred             CccccChhhHHHHhhccccCC--CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHH
Q 023952            1 MTKVFGIHSGERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKV   78 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a   78 (275)
                      +|+.|+++.|.++|++|.+.+  ||..+|+.||.+|++.|++++|.++|++|.+.|+.||..+|++||.+|++.|++++|
T Consensus       447 ~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~eeA  526 (1060)
T PLN03218        447 CASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKA  526 (1060)
T ss_pred             HHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            367899999999999998775  799999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952           79 ALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD-SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus        79 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      +++|++|.+.|+.||..||+.+|.+|++.|++++|.++|++|... .++.||..+|++++.+|++.|++++|.+ +++.|
T Consensus       527 l~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~e-lf~~M  605 (1060)
T PLN03218        527 FGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKE-VYQMI  605 (1060)
T ss_pred             HHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHH-HHHHH
Confidence            999999999999999999999999999999999999999999752 3788999999999999999999999999 99999


Q ss_pred             HHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCH
Q 023952          158 EKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDI  237 (275)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  237 (275)
                      .+.+..|+..+|+.+|.+|++.|++++|.++|++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.+.+. .||.
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~-~pd~  684 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGI-KLGT  684 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC-CCCH
Confidence            999999999999999999999999999999999999999999999999999999999999999999999999875 6999


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCCC
Q 023952          238 SACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  275 (275)
Q Consensus       238 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~ty  275 (275)
                      .+|+.||.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       685 ~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~Pdvvty  722 (1060)
T PLN03218        685 VSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTM  722 (1060)
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHH
Confidence            99999999999999999999999999999999998765

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

Probab=100.00  E-value=1.1e-47  Score=331.10  Aligned_cols=262  Identities=14%  Similarity=0.184  Sum_probs=207.7

Q ss_pred             CccccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHH------------------
Q 023952            1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY------------------   62 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~------------------   62 (275)
                      ++++|++++|.++|++|+.  ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..+|                  
T Consensus       168 y~k~g~~~~A~~lf~~m~~--~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~  245 (697)
T PLN03081        168 HVKCGMLIDARRLFDEMPE--RNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQ  245 (697)
T ss_pred             HhcCCCHHHHHHHHhcCCC--CCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHH
Confidence            4789999999999999987  89999999999999999999999999999888777765555                  


Q ss_pred             -----------------HHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCC
Q 023952           63 -----------------NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSG  125 (275)
Q Consensus        63 -----------------~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~  125 (275)
                                       |+||.+|++.|++++|.++|++|.+    +|..+|+.++.+|++.|+.++|.++|++|.+. |
T Consensus       246 l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~----~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~-g  320 (697)
T PLN03081        246 LHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPE----KTTVAWNSMLAGYALHGYSEEALCLYYEMRDS-G  320 (697)
T ss_pred             HHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCCC----CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHc-C
Confidence                             5666677777777777777777753    46677777777777777777777777777765 6


Q ss_pred             CCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHH
Q 023952          126 GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI  205 (275)
Q Consensus       126 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  205 (275)
                      +.||..||++++.+|++.|++++|.+ ++..|.+.+..||..+|++|+.+|++.|++++|.++|++|.    .||..+|+
T Consensus       321 ~~pd~~t~~~ll~a~~~~g~~~~a~~-i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~n  395 (697)
T PLN03081        321 VSIDQFTFSIMIRIFSRLALLEHAKQ-AHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISWN  395 (697)
T ss_pred             CCCCHHHHHHHHHHHHhccchHHHHH-HHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeHH
Confidence            77777777777777777777777777 77777777777777777777777777777777777777774    46777788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh-cCCCCCCCCC
Q 023952          206 CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ-KNCAPTNASG  275 (275)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~~~~p~~~ty  275 (275)
                      .||.+|++.|+.++|.++|++|.+.|. .||..||+.++.+|.+.|.+++|.++|+.|.+ .|+.|+..+|
T Consensus       396 ~lI~~y~~~G~~~~A~~lf~~M~~~g~-~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y  465 (697)
T PLN03081        396 ALIAGYGNHGRGTKAVEMFERMIAEGV-APNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHY  465 (697)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccch
Confidence            888888888888888888888877764 57888888888888888888888888888865 5788877665

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=3.4e-46  Score=328.77  Aligned_cols=267  Identities=14%  Similarity=0.118  Sum_probs=228.3

Q ss_pred             CccccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      ++++|++++|.++|++|+.  ||..+||.+|.+|++.|++++|.++|++|.+.|+.||..||+.++.+|++.|+++.|.+
T Consensus       232 y~k~g~~~~A~~lf~~m~~--~d~~s~n~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~  309 (857)
T PLN03077        232 YVKCGDVVSARLVFDRMPR--RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGRE  309 (857)
T ss_pred             HhcCCCHHHHHHHHhcCCC--CCcchhHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHH
Confidence            4789999999999999986  89999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      ++..|.+.|+.||..+|+.|+.+|++.|++++|.++|++|..     ||..+|++++.+|++.|++++|.+ +|++|...
T Consensus       310 l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~-----~d~~s~n~li~~~~~~g~~~~A~~-lf~~M~~~  383 (857)
T PLN03077        310 MHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMET-----KDAVSWTAMISGYEKNGLPDKALE-TYALMEQD  383 (857)
T ss_pred             HHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCC-----CCeeeHHHHHHHHHhCCCHHHHHH-HHHHHHHh
Confidence            999999999999999999999999999999999999888763     677888888888888888888888 88888888


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--------
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT--------  232 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--------  232 (275)
                      +..||..||+.++.+|++.|++++|.++++.|.+.|+.|+..+++.||.+|++.|++++|.++|++|.+.+.        
T Consensus       384 g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~  463 (857)
T PLN03077        384 NVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIA  463 (857)
T ss_pred             CCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHH
Confidence            888888888888888888888888888888887777777777777777777777777777776666543210        


Q ss_pred             ---------------------C----------------------------------------------------------
Q 023952          233 ---------------------S----------------------------------------------------------  233 (275)
Q Consensus       233 ---------------------~----------------------------------------------------------  233 (275)
                                           .                                                          
T Consensus       464 ~~~~~g~~~eA~~lf~~m~~~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~~g~~~~~~~~naLi~~y~k~G~~~~A  543 (857)
T PLN03077        464 GLRLNNRCFEALIFFRQMLLTLKPNSVTLIAALSACARIGALMCGKEIHAHVLRTGIGFDGFLPNALLDLYVRCGRMNYA  543 (857)
T ss_pred             HHHHCCCHHHHHHHHHHHHhCCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHHhCCCccceechHHHHHHHHcCCHHHH
Confidence                                 0                                                          


Q ss_pred             -------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCCC
Q 023952          234 -------DFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  275 (275)
Q Consensus       234 -------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~ty  275 (275)
                             .+|..+|+.+|.+|++.|+.++|.++|++|.+.|+.||..||
T Consensus       544 ~~~f~~~~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~  592 (857)
T PLN03077        544 WNQFNSHEKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTF  592 (857)
T ss_pred             HHHHHhcCCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccH
Confidence                   356677888888888889999999999999999999998886

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

Probab=100.00  E-value=1e-45  Score=318.98  Aligned_cols=252  Identities=16%  Similarity=0.188  Sum_probs=229.1

Q ss_pred             CccccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      ++++|++++|.++|++|+.  +|..+||.||.+|++.|++++|.++|++|.+.|+.||..||++++.+|++.|++++|.+
T Consensus       269 y~k~g~~~~A~~vf~~m~~--~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~  346 (697)
T PLN03081        269 YSKCGDIEDARCVFDGMPE--KTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQ  346 (697)
T ss_pred             HHHCCCHHHHHHHHHhCCC--CChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHH
Confidence            3689999999999999986  79999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      ++..|.+.|+.||..+++.|+++|++.|++++|.++|++|.+     ||..+|++||.+|++.|+.++|.+ +|++|...
T Consensus       347 i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~-----~d~~t~n~lI~~y~~~G~~~~A~~-lf~~M~~~  420 (697)
T PLN03081        347 AHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMPR-----KNLISWNALIAGYGNHGRGTKAVE-MFERMIAE  420 (697)
T ss_pred             HHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCCC-----CCeeeHHHHHHHHHHcCCHHHHHH-HHHHHHHh
Confidence            999999999999999999999999999999999999999864     788999999999999999999999 99999999


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh-ccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHH
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM-TKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA  239 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  239 (275)
                      +..||..||+.++.+|++.|..++|.++|+.|.+ .|+.|+..+|+.++.+|++.|++++|.+++++|.    ..|+..+
T Consensus       421 g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~----~~p~~~~  496 (697)
T PLN03081        421 GVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAP----FKPTVNM  496 (697)
T ss_pred             CCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCC----CCCCHHH
Confidence            9999999999999999999999999999999976 6899999999999999999999999999988763    3566666


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      |+.|+.+|...|+++.|..+++++.
T Consensus       497 ~~~Ll~a~~~~g~~~~a~~~~~~l~  521 (697)
T PLN03081        497 WAALLTACRIHKNLELGRLAAEKLY  521 (697)
T ss_pred             HHHHHHHHHHcCCcHHHHHHHHHHh
Confidence            6666666666666665555555553

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=1.1e-45  Score=325.45  Aligned_cols=262  Identities=15%  Similarity=0.180  Sum_probs=246.2

Q ss_pred             CccccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            1 MTKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      ++++|+++.|.++|++|++  ||..+||.+|.+|++.|++++|.++|++|...|+.||..||+.++.+|++.++++.+.+
T Consensus       131 ~~~~g~~~~A~~~f~~m~~--~d~~~~n~li~~~~~~g~~~~A~~~f~~M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~  208 (857)
T PLN03077        131 FVRFGELVHAWYVFGKMPE--RDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGRE  208 (857)
T ss_pred             HHhCCChHHHHHHHhcCCC--CCeeEHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHhCCccchhhHHH
Confidence            3689999999999999997  89999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      ++..|.+.|+.||..+++.|+.+|++.|+++.|.++|++|..     ||..+|+++|.+|++.|+.++|.+ ++.+|...
T Consensus       209 ~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~-----~d~~s~n~li~~~~~~g~~~eAl~-lf~~M~~~  282 (857)
T PLN03077        209 VHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPR-----RDCISWNAMISGYFENGECLEGLE-LFFTMREL  282 (857)
T ss_pred             HHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCC-----CCcchhHHHHHHHHhCCCHHHHHH-HHHHHHHc
Confidence            999999999999999999999999999999999999999864     688899999999999999999999 99999999


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHH
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC  240 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  240 (275)
                      +..||..||+.++.+|++.|+.+.+.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|.     .||..+|
T Consensus       283 g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~-----~~d~~s~  357 (857)
T PLN03077        283 SVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME-----TKDAVSW  357 (857)
T ss_pred             CCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCC-----CCCeeeH
Confidence            99999999999999999999999999999999999999999999999999999999999999999874     4788899


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCCC
Q 023952          241 NRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  275 (275)
Q Consensus       241 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~ty  275 (275)
                      +.+|.+|++.|++++|.++|++|.+.|+.||..||
T Consensus       358 n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~  392 (857)
T PLN03077        358 TAMISGYEKNGLPDKALETYALMEQDNVSPDEITI  392 (857)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeH
Confidence            99999999999999999999999999999998875

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.94  E-value=3.4e-23  Score=168.51  Aligned_cols=260  Identities=12%  Similarity=0.072  Sum_probs=149.4

Q ss_pred             ccChhhHHHHhhccccCCC-----CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-----TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKV   78 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a   78 (275)
                      .|++++|..+++.+...++     ....+..+...|.+.|++++|..+|+++.+.. +++..+++.++..+.+.|++++|
T Consensus        82 ~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A  160 (389)
T PRK11788         82 RGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKA  160 (389)
T ss_pred             cCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHH
Confidence            4555555555555544321     12345555555555566666666666555432 33455566666666666666666


Q ss_pred             HHHHHHHhhCCCCCch----hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHH
Q 023952           79 ALVVEEIKRKNVVPDI----FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        79 ~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      ++.++.+.+.+..+..    ..+..+...+.+.|++++|...|+++.+.  .+.+...+..+...|.+.|++++|.+ .+
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~~~~~g~~~~A~~-~~  237 (389)
T PRK11788        161 IDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARALLKKALAA--DPQCVRASILLGDLALAQGDYAAAIE-AL  237 (389)
T ss_pred             HHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhH--CcCCHHHHHHHHHHHHHCCCHHHHHH-HH
Confidence            6666666554322211    12334445555666666666666666552  23344455566666666666666666 66


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          155 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      .++....+.....+++.++.+|...|++++|...++++.+.  .|+...+..++..+.+.|++++|..+++++.+.   .
T Consensus       238 ~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~--~p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~---~  312 (389)
T PRK11788        238 ERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE--YPGADLLLALAQLLEEQEGPEAAQALLREQLRR---H  312 (389)
T ss_pred             HHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCchHHHHHHHHHHHhCCHHHHHHHHHHHHHh---C
Confidence            66655443333445566666666667777777766666554  345455566666677777777777777766653   3


Q ss_pred             CCHHHHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCCCC
Q 023952          235 FDISACNRLLGAFSD---VGLTEKANEFHMLLLQKNCAPTN  272 (275)
Q Consensus       235 ~~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~~  272 (275)
                      |+...++.++..+..   .|+.+++..++++|.++++.|++
T Consensus       313 P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p  353 (389)
T PRK11788        313 PSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKP  353 (389)
T ss_pred             cCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCC
Confidence            566666666655553   44666777777777766666665

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.93  E-value=8.1e-23  Score=166.28  Aligned_cols=262  Identities=13%  Similarity=0.024  Sum_probs=217.6

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHhhccCCHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSVGQVEKV   78 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~a   78 (275)
                      ..|++++|+..|+++....| +..++..+...+...|++++|..+++.+...+..++   ...+..+...|.+.|++++|
T Consensus        47 ~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~~~A  126 (389)
T PRK11788         47 LNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLLDRA  126 (389)
T ss_pred             hcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            45889999999999998777 677899999999999999999999999987642222   35688899999999999999


Q ss_pred             HHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhcCchHHHHHHHHH
Q 023952           79 ALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITASHLVNAESSTLV  155 (275)
Q Consensus        79 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~  155 (275)
                      +.+|+++.+.. .++..++..++..+.+.|++++|.+.++.+.+....++.   ...+..+...+.+.|++++|.. .++
T Consensus       127 ~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~-~~~  204 (389)
T PRK11788        127 EELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARA-LLK  204 (389)
T ss_pred             HHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHH-HHH
Confidence            99999999863 346778999999999999999999999999875211111   1245677888899999999999 899


Q ss_pred             HHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 023952          156 EAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF  235 (275)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  235 (275)
                      ++.+..+. +...+..+...+.+.|++++|.++++++.+.+......++..++.+|...|++++|...++++.+..   |
T Consensus       205 ~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~---p  280 (389)
T PRK11788        205 KALAADPQ-CVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEY---P  280 (389)
T ss_pred             HHHhHCcC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC---C
Confidence            88776543 5667788889999999999999999999876433334667889999999999999999999998853   5


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 023952          236 DISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  272 (275)
Q Consensus       236 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  272 (275)
                      +...+..++..+.+.|++++|..+++++.+.  .|+.
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~--~P~~  315 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQALLREQLRR--HPSL  315 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHHHHHHHHHh--CcCH
Confidence            5566788999999999999999999998875  4654

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

Probab=99.89  E-value=2.7e-20  Score=166.46  Aligned_cols=253  Identities=12%  Similarity=0.029  Sum_probs=126.3

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|+..|+.+....| +...+..+...+.+.|++++|...|+++.+.. +.+..++..++..+...|++++|.+++
T Consensus       614 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  692 (899)
T TIGR02917       614 AGDLNKAVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIA  692 (899)
T ss_pred             cCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4555555555555544333 44455555555555555555555555555432 233445555555555555555555555


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC-------------------------------CCCCCHH
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDS-------------------------------GGSDDWV  131 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-------------------------------~~~~~~~  131 (275)
                      +.+.+.+. ++...+..+...+...|++++|...|+++....                               ..+.+..
T Consensus       693 ~~~~~~~~-~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~~~~~~  771 (899)
T TIGR02917       693 KSLQKQHP-KAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTHPNDAV  771 (899)
T ss_pred             HHHHhhCc-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHH
Confidence            55544432 233444444444444455555555554444320                               1233444


Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHH
Q 023952          132 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  211 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  211 (275)
                      .+..+...|.+.|++++|.. .++++....+. +...++.+...+...|+ .+|+.++++..+.. +-+...+..+...+
T Consensus       772 ~~~~la~~~~~~g~~~~A~~-~~~~~~~~~p~-~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~-~~~~~~~~~~~~~~  847 (899)
T TIGR02917       772 LRTALAELYLAQKDYDKAIK-HYRTVVKKAPD-NAVVLNNLAWLYLELKD-PRALEYAEKALKLA-PNIPAILDTLGWLL  847 (899)
T ss_pred             HHHHHHHHHHHCcCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhC-CCCcHHHHHHHHHH
Confidence            44444455555555555555 44444443332 34444445555555555 44555555444331 11223344455555


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          212 LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       212 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      ...|++++|..+++++.+.+  +.+..++..+..++.+.|+.++|.+++++|+
T Consensus       848 ~~~g~~~~A~~~~~~a~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       848 VEKGEADRALPLLRKAVNIA--PEAAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHcCCHHHHHHHHHHHHhhC--CCChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            56666666666666666543  2355555556666666666666666666554

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=99.88  E-value=1e-19  Score=162.78  Aligned_cols=253  Identities=13%  Similarity=0.096  Sum_probs=153.2

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|+.++|..+|+++....| +...+..++..+.+.|++++|..+++.+.+.. +.+...|..+...+.+.|++++|+..|
T Consensus       546 ~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~  624 (899)
T TIGR02917       546 TGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAA-PDSPEAWLMLGRAQLAAGDLNKAVSSF  624 (899)
T ss_pred             cCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4455555555555444333 44455555555555566666666665555432 345556666666666666666666666


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                      +++.+.+. .+...+..+...+...|++++|..+|+++.+.  .+.+..++..++..+...|++++|.+ +++.+....+
T Consensus       625 ~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~  700 (899)
T TIGR02917       625 KKLLALQP-DSALALLLLADAYAVMKNYAKAITSLKRALEL--KPDNTEAQIGLAQLLLAAKRTESAKK-IAKSLQKQHP  700 (899)
T ss_pred             HHHHHhCC-CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhhCc
Confidence            66655432 23445555666666666666666666666552  24445556666666666666666666 5665555443


Q ss_pred             CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHH
Q 023952          163 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR  242 (275)
Q Consensus       163 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (275)
                      . +...+..+...+...|++++|.+.|+.+...  .|+..++..+...+.+.|++++|.+.++++.+..  +.+...+..
T Consensus       701 ~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~--~~~~~~~~~  775 (899)
T TIGR02917       701 K-AALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH--PNDAVLRTA  775 (899)
T ss_pred             C-ChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CCCHHHHHH
Confidence            2 4455666666667777777777777766654  3444556666677777777777777777776643  346666777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhc
Q 023952          243 LLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       243 li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      +...|...|++++|...|+++.+.
T Consensus       776 la~~~~~~g~~~~A~~~~~~~~~~  799 (899)
T TIGR02917       776 LAELYLAQKDYDKAIKHYRTVVKK  799 (899)
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHh
Confidence            777777777777777777777654

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=99.84  E-value=1.6e-17  Score=142.47  Aligned_cols=253  Identities=10%  Similarity=-0.024  Sum_probs=132.7

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|+..|+++....| +...|..+...+.+.|++++|...+++..+.. +.+...+..+...+...|++++|...+
T Consensus        89 ~g~~~~A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~  167 (656)
T PRK15174         89 SSQPDAVLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLA  167 (656)
T ss_pred             cCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHH
Confidence            4555555555555554444 34455555555555555555555555554432 223444444555555555555555555


Q ss_pred             HHHh---------------------------------hCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC
Q 023952           83 EEIK---------------------------------RKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD  129 (275)
Q Consensus        83 ~~m~---------------------------------~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  129 (275)
                      +.+.                                 +....++......+...+...|++++|...++++...  .+.+
T Consensus       168 ~~~~~~~P~~~~a~~~~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~--~p~~  245 (656)
T PRK15174        168 RTQAQEVPPRGDMIATCLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALAR--GLDG  245 (656)
T ss_pred             HHHHHhCCCCHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCC
Confidence            4443                                 3322122222333344455555555555555555542  2344


Q ss_pred             HHHHHHHHHHHHhcCchHH----HHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-hhhH
Q 023952          130 WVKYVNLVNIYITASHLVN----AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNY  204 (275)
Q Consensus       130 ~~~~~~l~~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~  204 (275)
                      ...+..+...|.+.|++++    |.. .++......+. +...+..+...+...|++++|...+++..+.  .|+ ...+
T Consensus       246 ~~~~~~Lg~~l~~~G~~~eA~~~A~~-~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l--~P~~~~a~  321 (656)
T PRK15174        246 AALRRSLGLAYYQSGRSREAKLQAAE-HWRHALQFNSD-NVRIVTLYADALIRTGQNEKAIPLLQQSLAT--HPDLPYVR  321 (656)
T ss_pred             HHHHHHHHHHHHHcCCchhhHHHHHH-HHHHHHhhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHH
Confidence            4555556666666666654    455 55555544432 4555666666666666666666666666554  232 3344


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          205 ICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..+...+.+.|++++|...++++.+..  +.+...+..+..++...|+.++|...|++..+
T Consensus       322 ~~La~~l~~~G~~~eA~~~l~~al~~~--P~~~~~~~~~a~al~~~G~~deA~~~l~~al~  380 (656)
T PRK15174        322 AMYARALRQVGQYTAASDEFVQLAREK--GVTSKWNRYAAAALLQAGKTSEAESVFEHYIQ  380 (656)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC--ccchHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555666666666666666666666532  11222233344556666666666666666554

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.84  E-value=2e-17  Score=141.79  Aligned_cols=253  Identities=11%  Similarity=-0.022  Sum_probs=160.3

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|+.+++......| +...+..++.+....|++++|...|+++.+.. |.+...+..+...+.+.|++++|+..
T Consensus        54 ~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~~~l~~~l~~~-P~~~~a~~~la~~l~~~g~~~~Ai~~  132 (656)
T PRK15174         54 RKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVLQVVNKLLAVN-VCQPEDVLLVASVLLKSKQYATVADL  132 (656)
T ss_pred             hcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHH
Confidence            67999999999999887766 56677777888888999999999999999875 55677899999999999999999999


Q ss_pred             HHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           82 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      +++..+... .+...+..+...+...|++++|...++.+...  .+.+...+..+ ..+.+.|++++|.. .++.+....
T Consensus       133 l~~Al~l~P-~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~--~P~~~~a~~~~-~~l~~~g~~~eA~~-~~~~~l~~~  207 (656)
T PRK15174        133 AEQAWLAFS-GNSQIFALHLRTLVLMDKELQAISLARTQAQE--VPPRGDMIATC-LSFLNKSRLPEDHD-LARALLPFF  207 (656)
T ss_pred             HHHHHHhCC-CcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh--CCCCHHHHHHH-HHHHHcCCHHHHHH-HHHHHHhcC
Confidence            999998532 24667788888899999999999999887653  23333333333 23566677777777 666655543


Q ss_pred             CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHH----HHHHHHHHHhcCCCCCCH
Q 023952          162 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE----VGEIIDQWKQSATSDFDI  237 (275)
Q Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~----a~~~~~~~~~~~~~~~~~  237 (275)
                      +.++...+..+...+...|++++|...+++..+.. ..+...+..+...+.+.|++++    |...|++..+..  +.+.
T Consensus       208 ~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~~Lg~~l~~~G~~~eA~~~A~~~~~~Al~l~--P~~~  284 (656)
T PRK15174        208 ALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRRSLGLAYYQSGRSREAKLQAAEHWRHALQFN--SDNV  284 (656)
T ss_pred             CCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCchhhHHHHHHHHHHHHhhC--CCCH
Confidence            33333333333444555555555555555544432 1122333334444444444442    344444444321  1233


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          238 SACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       238 ~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      ..+..+...+...|++++|...+++..
T Consensus       285 ~a~~~lg~~l~~~g~~~eA~~~l~~al  311 (656)
T PRK15174        285 RIVTLYADALIRTGQNEKAIPLLQQSL  311 (656)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            334444444444444444444444433

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

Probab=99.82  E-value=3.8e-19  Score=138.00  Aligned_cols=254  Identities=15%  Similarity=0.105  Sum_probs=115.8

Q ss_pred             cccChhhHHHHhhc-cccC-CC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHH
Q 023952            3 KVFGIHSGERYFEG-LPLS-AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         3 ~~g~~~~A~~~~~~-~~~~-~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      +.|++++|++++++ +... +| |...|..+.......++++.|...++++...+. -++..+..++.. ...+++++|.
T Consensus        20 ~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~-~~~~~~~~l~~l-~~~~~~~~A~   97 (280)
T PF13429_consen   20 QRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDK-ANPQDYERLIQL-LQDGDPEEAL   97 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccc-cccccccccc
Confidence            57899999999965 4444 34 677777778888889999999999999988762 356677788877 7999999999


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      +++....+..  +++..+..++..+.+.++++++..+++.+......+++...|..+...+.+.|+.++|++ .+++..+
T Consensus        98 ~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~-~~~~al~  174 (280)
T PF13429_consen   98 KLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALR-DYRKALE  174 (280)
T ss_dssp             ----------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHH-HHHHHHH
T ss_pred             cccccccccc--cccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHH
Confidence            9998876653  566778888999999999999999999987654456788889999999999999999999 9999988


Q ss_pred             ccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHH
Q 023952          160 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA  239 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  239 (275)
                      ..|. |....+.++..+...|+.+++.++++...+.. ..++..+..+..+|...|+.++|..+|++..+..  +.|...
T Consensus       175 ~~P~-~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~--p~d~~~  250 (280)
T PF13429_consen  175 LDPD-DPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN--PDDPLW  250 (280)
T ss_dssp             H-TT--HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS--TT-HHH
T ss_pred             cCCC-CHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc--cccccc
Confidence            7765 67778889999999999999999998887764 4566677899999999999999999999998865  468888


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ...+..++...|+.++|..+.++...
T Consensus       251 ~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  251 LLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             HHHHHHHHT-----------------
T ss_pred             cccccccccccccccccccccccccc
Confidence            88999999999999999999887653

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

Probab=99.82  E-value=1.1e-16  Score=137.20  Aligned_cols=254  Identities=9%  Similarity=-0.034  Sum_probs=207.1

Q ss_pred             cChhhHHHHhhccccC---CC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            5 FGIHSGERYFEGLPLS---AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~---~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      +++++|++.|+.....   .| ....|+.+...+...|++++|+..|+...+.. +-+...|..+...+...|++++|+.
T Consensus       308 ~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA~~  386 (615)
T TIGR00990       308 ESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRVTQSYIKRASMNLELGDPDKAEE  386 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHCCCHHHHHH
Confidence            5788999999987754   24 56788999999999999999999999988764 3346688899999999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      .|++..+... .+..+|..+...+...|++++|...|++....  .+.+...+..+..++.+.|++++|+. .++.....
T Consensus       387 ~~~~al~~~p-~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~-~~~~al~~  462 (615)
T TIGR00990       387 DFDKALKLNS-EDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDL--DPDFIFSHIQLGVTQYKEGSIASSMA-TFRRCKKN  462 (615)
T ss_pred             HHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CccCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHHh
Confidence            9999988643 25778888999999999999999999999874  46677888889999999999999999 89888776


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhh------HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN------YICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~------~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      .+. +...|+.+...+...|++++|.+.|++........+...      ++.....+...|++++|.+++++..+..  +
T Consensus       463 ~P~-~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~--p  539 (615)
T TIGR00990       463 FPE-APDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIID--P  539 (615)
T ss_pred             CCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC--C
Confidence            543 677888899999999999999999999876532211111      1122223445799999999999988753  3


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      .+...+..+...+...|++++|...|++..+.
T Consensus       540 ~~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l  571 (615)
T TIGR00990       540 ECDIAVATMAQLLLQQGDVDEALKLFERAAEL  571 (615)
T ss_pred             CcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            45667889999999999999999999988653

>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=5e-16  Score=133.26  Aligned_cols=256  Identities=11%  Similarity=-0.066  Sum_probs=176.5

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      +.|++++|++.|++.....|+...|..+..+|.+.|++++|+..++...+.+ +.+...|..+..+|...|++++|+.-|
T Consensus       139 ~~~~~~~Ai~~y~~al~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~~~  217 (615)
T TIGR00990       139 RNKDFNKAIKLYSKAIECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALLDL  217 (615)
T ss_pred             HcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            4578888888888877767777788888888888888888888888877654 334556666666777777766665433


Q ss_pred             --------------------------------------------------------------------------------
Q 023952           83 --------------------------------------------------------------------------------   82 (275)
Q Consensus        83 --------------------------------------------------------------------------------   82 (275)
                                                                                                      
T Consensus       218 ~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l  297 (615)
T TIGR00990       218 TASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKPENLPSVTFVGNYLQSFRPKPRPAGLEDSNELDEETGNGQLQL  297 (615)
T ss_pred             HHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHccCCcchhhhhcccccccccccchHHH
Confidence                                                                                            


Q ss_pred             --------------------HHHhhCC-CCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 023952           83 --------------------EEIKRKN-VVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  140 (275)
Q Consensus        83 --------------------~~m~~~~-~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  140 (275)
                                          +...+.+ ..| +...+..+...+...|++++|...|++..+.  .+.....|..+...+
T Consensus       298 ~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~  375 (615)
T TIGR00990       298 GLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMN  375 (615)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHH
Confidence                                2222211 112 1233445555556677777777777777653  234455677777777


Q ss_pred             HhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHH
Q 023952          141 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  220 (275)
Q Consensus       141 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  220 (275)
                      ...|++++|.. .++.+....+. +...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|
T Consensus       376 ~~~g~~~eA~~-~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~~~~g~~~eA  452 (615)
T TIGR00990       376 LELGDPDKAEE-DFDKALKLNSE-DPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQYKEGSIASS  452 (615)
T ss_pred             HHCCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHHHHCCCHHHH
Confidence            77788888887 77766655432 56677777777888888888888888776643 22345566677777888888888


Q ss_pred             HHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          221 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ...|++..+..  +.+...|+.+...+...|++++|...|++.++.
T Consensus       453 ~~~~~~al~~~--P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l  496 (615)
T TIGR00990       453 MATFRRCKKNF--PEAPDVYNYYGELLLDQNKFDEAIEKFDTAIEL  496 (615)
T ss_pred             HHHHHHHHHhC--CCChHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            88888877643  345667777888888888888888888887653

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

Probab=99.77  E-value=2.3e-16  Score=127.10  Aligned_cols=257  Identities=15%  Similarity=0.092  Sum_probs=217.3

Q ss_pred             cccChhhHHHHhhccccCCCC-HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKT-SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      .+|++..|++.|++.....|+ ...|..|...|...+.+++|...+.+..... +..+..+..|...|-..|.++-|+..
T Consensus       230 ~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~  308 (966)
T KOG4626|consen  230 AQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDT  308 (966)
T ss_pred             hcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHH
Confidence            368888999999998887775 7789999999999999999999998876653 34567888888889999999999999


Q ss_pred             HHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           82 VEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        82 ~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      |++..+.  .|+ ...|+.|..++-..|+..+|...|.+....  .+......+.|...|...|.+++|.. ++.....-
T Consensus       309 Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l--~p~hadam~NLgni~~E~~~~e~A~~-ly~~al~v  383 (966)
T KOG4626|consen  309 YKRALEL--QPNFPDAYNNLANALKDKGSVTEAVDCYNKALRL--CPNHADAMNNLGNIYREQGKIEEATR-LYLKALEV  383 (966)
T ss_pred             HHHHHhc--CCCchHHHhHHHHHHHhccchHHHHHHHHHHHHh--CCccHHHHHHHHHHHHHhccchHHHH-HHHHHHhh
Confidence            9999984  455 568999999999999999999999998873  45667788899999999999999999 88877765


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHH
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA  239 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  239 (275)
                      .+. -....+.|...|-+.|++++|+.-+++..+  +.|+- ..|+.+...|-..|+.+.|.+.+.+...-.  +.-...
T Consensus       384 ~p~-~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr--I~P~fAda~~NmGnt~ke~g~v~~A~q~y~rAI~~n--Pt~AeA  458 (966)
T KOG4626|consen  384 FPE-FAAAHNNLASIYKQQGNLDDAIMCYKEALR--IKPTFADALSNMGNTYKEMGDVSAAIQCYTRAIQIN--PTFAEA  458 (966)
T ss_pred             Chh-hhhhhhhHHHHHHhcccHHHHHHHHHHHHh--cCchHHHHHHhcchHHHHhhhHHHHHHHHHHHHhcC--cHHHHH
Confidence            543 356788899999999999999999998876  56664 678899999999999999999999988743  234567


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  272 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  272 (275)
                      ++.|...|...|++.+|.+-+++.++  ++||.
T Consensus       459 hsNLasi~kDsGni~~AI~sY~~aLk--lkPDf  489 (966)
T KOG4626|consen  459 HSNLASIYKDSGNIPEAIQSYRTALK--LKPDF  489 (966)
T ss_pred             HhhHHHHhhccCCcHHHHHHHHHHHc--cCCCC
Confidence            89999999999999999999999876  67775

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.74  E-value=1.4e-14  Score=117.56  Aligned_cols=250  Identities=10%  Similarity=0.042  Sum_probs=147.4

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHH--HHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYT--ALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~--~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      .|+++.|.+.|.++.+..|+...+.  .....+...|+++.|...++.+.+.. |-++.....+...|.+.|++++|.++
T Consensus       131 ~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~  209 (398)
T PRK10747        131 RGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHGVDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDI  209 (398)
T ss_pred             CCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHH
Confidence            3444444444444444333322211  11334444444444444444444433 23344444444444444555555554


Q ss_pred             HHHHhhCCCCCch-------hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHH
Q 023952           82 VEEIKRKNVVPDI-------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        82 ~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      +..+.+.+..++.       .+|..++.......+.+...++++.+.+  ..+.+......+...+...|+.++|.+ .+
T Consensus       210 l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~lp~--~~~~~~~~~~~~A~~l~~~g~~~~A~~-~L  286 (398)
T PRK10747        210 LPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKNQSR--KTRHQVALQVAMAEHLIECDDHDTAQQ-II  286 (398)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHhCCH--HHhCCHHHHHHHHHHHHHCCCHHHHHH-HH
Confidence            4444444332111       1112222222222333333334443332  123455566677888888999999999 77


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          155 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      .+..+..  |+...  .++.+....++.+++.+..+...+.. +-|+..+..+...|.+.+++++|.+.|+...+.   .
T Consensus       287 ~~~l~~~--~~~~l--~~l~~~l~~~~~~~al~~~e~~lk~~-P~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~---~  358 (398)
T PRK10747        287 LDGLKRQ--YDERL--VLLIPRLKTNNPEQLEKVLRQQIKQH-GDTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ---R  358 (398)
T ss_pred             HHHHhcC--CCHHH--HHHHhhccCCChHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc---C
Confidence            7776643  33321  12334445689999999998887753 234456778899999999999999999999874   5


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      |+...+..+...+.+.|+.++|.+++++-..
T Consensus       359 P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~  389 (398)
T PRK10747        359 PDAYDYAWLADALDRLHKPEEAAAMRRDGLM  389 (398)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            8888888899999999999999999988754

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.73  E-value=1.4e-14  Score=132.29  Aligned_cols=256  Identities=10%  Similarity=0.028  Sum_probs=174.8

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHH---------------
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMM---------------   66 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li---------------   66 (275)
                      +.|++++|++.|+++....| +...+..+...+...|++++|++.|++..+.. +.+...+..+.               
T Consensus       363 ~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~~~~~~~A~~~l  441 (1157)
T PRK11447        363 KANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYRQQSPEKALAFI  441 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhcCHHHHHHHH
Confidence            56889999999999888766 67788889999999999999999999988754 23344443332               


Q ss_pred             ---------------------------HHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHH
Q 023952           67 ---------------------------TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE  119 (275)
Q Consensus        67 ---------------------------~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  119 (275)
                                                 ..+...|++++|++.|++..+.... +...+..+...|.+.|++++|...+++
T Consensus       442 ~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~P~-~~~~~~~LA~~~~~~G~~~~A~~~l~~  520 (1157)
T PRK11447        442 ASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALDPG-SVWLTYRLAQDLRQAGQRSQADALMRR  520 (1157)
T ss_pred             HhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence                                       2344568888888888888875432 455667778888888889999888888


Q ss_pred             HhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc---------------------------------------
Q 023952          120 MSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS---------------------------------------  160 (275)
Q Consensus       120 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---------------------------------------  160 (275)
                      +.+.  .+.+...+..+...+.+.++.++|.. .++.+...                                       
T Consensus       521 al~~--~P~~~~~~~a~al~l~~~~~~~~Al~-~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~  597 (1157)
T PRK11447        521 LAQQ--KPNDPEQVYAYGLYLSGSDRDRAALA-HLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLR  597 (1157)
T ss_pred             HHHc--CCCCHHHHHHHHHHHHhCCCHHHHHH-HHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHH
Confidence            7763  23344433333333344444444443 32221100                                       


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHH
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC  240 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  240 (275)
                      ..+.+...+..+...+...|++++|++.|++..+.. +.+...+..+...|...|++++|.+.++...+..  +.+...+
T Consensus       598 ~~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~~~-P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~~--p~~~~~~  674 (1157)
T PRK11447        598 QQPPSTRIDLTLADWAQQRGDYAAARAAYQRVLTRE-PGNADARLGLIEVDIAQGDLAAARAQLAKLPATA--NDSLNTQ  674 (1157)
T ss_pred             hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHhccC--CCChHHH
Confidence            112234455566777778888888888888877653 2245667778888888888888888888776543  2345556


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          241 NRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       241 ~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ..+..++...|++++|.+++++++..
T Consensus       675 ~~la~~~~~~g~~~eA~~~~~~al~~  700 (1157)
T PRK11447        675 RRVALAWAALGDTAAAQRTFNRLIPQ  700 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHhhh
Confidence            66777778888888888888887654

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.73  E-value=1.1e-14  Score=132.96  Aligned_cols=258  Identities=10%  Similarity=-0.053  Sum_probs=204.7

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      ..|++++|++.|++.....| +...+..+...|.+.|++++|...|+++.+.. +.++..+..+...+...++.++|+..
T Consensus       473 ~~g~~~eA~~~~~~Al~~~P~~~~~~~~LA~~~~~~G~~~~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~  551 (1157)
T PRK11447        473 NQGKWAQAAELQRQRLALDPGSVWLTYRLAQDLRQAGQRSQADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAH  551 (1157)
T ss_pred             HCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            46899999999999888777 68888999999999999999999999988754 34566666666677889999999999


Q ss_pred             HHHHhhCCCCCchhh---------HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHH
Q 023952           82 VEEIKRKNVVPDIFT---------YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  152 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~---------~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  152 (275)
                      ++.+......++...         +..+...+...|+.++|..+++.      .+++...+..+...+.+.|++++|+. 
T Consensus       552 l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~eA~~~l~~------~p~~~~~~~~La~~~~~~g~~~~A~~-  624 (1157)
T PRK11447        552 LNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAEAEALLRQ------QPPSTRIDLTLADWAQQRGDYAAARA-  624 (1157)
T ss_pred             HHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHHHHHHHHh------CCCCchHHHHHHHHHHHcCCHHHHHH-
Confidence            988765433333221         23456678889999999999872      25566777889999999999999999 


Q ss_pred             HHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          153 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .++.+....+. +...+..++..|...|++++|.+.++.+.+.  .|+ ......+...+...|++++|.++++.+....
T Consensus       625 ~y~~al~~~P~-~~~a~~~la~~~~~~g~~~eA~~~l~~ll~~--~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~  701 (1157)
T PRK11447        625 AYQRVLTREPG-NADARLGLIEVDIAQGDLAAARAQLAKLPAT--ANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQA  701 (1157)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhC
Confidence            99988887654 7788899999999999999999999988764  343 4556677888899999999999999998753


Q ss_pred             CCCC----CHHHHHHHHHHHHhcCChHHHHHHHHHHHh-cCCCCC
Q 023952          232 TSDF----DISACNRLLGAFSDVGLTEKANEFHMLLLQ-KNCAPT  271 (275)
Q Consensus       232 ~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~~~~p~  271 (275)
                      ...|    +...+..+...+...|+.++|...|++... .|+.|.
T Consensus       702 ~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~~~~~~~~  746 (1157)
T PRK11447        702 KSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMVASGITPT  746 (1157)
T ss_pred             ccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhcCCCCC
Confidence            2212    224566668889999999999999998853 455554

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

Probab=99.72  E-value=1.7e-15  Score=122.69  Aligned_cols=252  Identities=16%  Similarity=0.101  Sum_probs=201.8

Q ss_pred             ChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-----------------------------
Q 023952            6 GIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNL-----------------------------   55 (275)
Q Consensus         6 ~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----------------------------   55 (275)
                      +..+|+..|+.++.+.+ +.++...+..+|...+++++|+++|+.+.+..-                             
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            45789999999777666 456677788999999999999999999876430                             


Q ss_pred             ----CCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH
Q 023952           56 ----SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW  130 (275)
Q Consensus        56 ----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  130 (275)
                          +-.+.+|.++..+|.-.++.+.|++.|++..+.  .| ...+|+.+..=+....++|.|...|+.....  .+.+-
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                125678888888999999999999999999884  45 6788988888889999999999999988762  34455


Q ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHH
Q 023952          131 VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSS  210 (275)
Q Consensus       131 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  210 (275)
                      ..|.-+...|.+.++++.|+- .|+.+..-.+. +.+....+...+.+.|+.++|++++++...... -|+..--.-+..
T Consensus       490 nAwYGlG~vy~Kqek~e~Ae~-~fqkA~~INP~-nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~-kn~l~~~~~~~i  566 (638)
T KOG1126|consen  490 NAWYGLGTVYLKQEKLEFAEF-HFQKAVEINPS-NSVILCHIGRIQHQLKRKDKALQLYEKAIHLDP-KNPLCKYHRASI  566 (638)
T ss_pred             HHHHhhhhheeccchhhHHHH-HHHhhhcCCcc-chhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCC-CCchhHHHHHHH
Confidence            566677888999999999998 88888776665 667777788889999999999999998876532 244444456667


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          211 YLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       211 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      +...+++++|.+.++++++-  .+.+...+..+...|.+.|+.+.|+.-|.-+.+.
T Consensus       567 l~~~~~~~eal~~LEeLk~~--vP~es~v~~llgki~k~~~~~~~Al~~f~~A~~l  620 (638)
T KOG1126|consen  567 LFSLGRYVEALQELEELKEL--VPQESSVFALLGKIYKRLGNTDLALLHFSWALDL  620 (638)
T ss_pred             HHhhcchHHHHHHHHHHHHh--CcchHHHHHHHHHHHHHHccchHHHHhhHHHhcC
Confidence            77889999999999999884  3456777888899999999999999888777653

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.70  E-value=3.4e-14  Score=110.06  Aligned_cols=248  Identities=16%  Similarity=0.134  Sum_probs=194.9

Q ss_pred             HHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCC
Q 023952           10 GERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKN   89 (275)
Q Consensus        10 A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   89 (275)
                      |.-+|+..+   .+..+|.+||.++++--..++|.+++++-.+...+.+..+||.+|.+-.-..    ..++..+|.+..
T Consensus       196 AdL~~E~~P---KT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~----~K~Lv~EMisqk  268 (625)
T KOG4422|consen  196 ADLLFETLP---KTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSV----GKKLVAEMISQK  268 (625)
T ss_pred             HHHHHhhcC---CCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhc----cHHHHHHHHHhh
Confidence            335666665   4788999999999999999999999999998888899999999998644332    378999999999


Q ss_pred             CCCchhhHHHHHHHHHhhCCHHHH----HHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHH-HHHHHHHHHHHcc---
Q 023952           90 VVPDIFTYNLWISSCAATLNIDQV----KKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN-AESSTLVEAEKSI---  161 (275)
Q Consensus        90 ~~p~~~~~~~ll~~~~~~~~~~~a----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~---  161 (275)
                      +.||..|||+++.+..+.|+++.|    .+++.+|++- |+.|+..+|..+|..+++.++..+ +.. ++.++....   
T Consensus       269 m~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKei-GVePsLsSyh~iik~f~re~dp~k~as~-~i~dI~N~ltGK  346 (625)
T KOG4422|consen  269 MTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEI-GVEPSLSSYHLIIKNFKRESDPQKVASS-WINDIQNSLTGK  346 (625)
T ss_pred             cCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHh-CCCcchhhHHHHHHHhcccCCchhhhHH-HHHHHHHhhccC
Confidence            999999999999999999987654    5677889888 999999999999999999888755 444 555555422   


Q ss_pred             -CCc----chhhHHHHHHHHHccCCHHHHHHHHHHHHhc----cCCCChh---hHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          162 -TQR----QWITYDFLIILYAGLGNKDKIDQIWKSLRMT----KQKMTSR---NYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       162 -~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~~~---~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                       .+|    |..-|..-+..|.+..+.+-|.++-.-+...    .+.|+..   -|..+....|+...++.-...++.|..
T Consensus       347 ~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP  426 (625)
T KOG4422|consen  347 TFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVP  426 (625)
T ss_pred             cccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence             122    3344556667788888988888876655322    1233321   245677788889999999999999987


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          230 SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       230 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                      +-. -|+..+...++.+.-..|.++-..+++..++..|
T Consensus       427 ~~y-~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~~g  463 (625)
T KOG4422|consen  427 SAY-FPHSQTMIHLLRALDVANRLEVIPRIWKDSKEYG  463 (625)
T ss_pred             cee-cCCchhHHHHHHHHhhcCcchhHHHHHHHHHHhh
Confidence            654 4788888889999999999999999998888766

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.69  E-value=1.1e-13  Score=112.51  Aligned_cols=257  Identities=11%  Similarity=0.001  Sum_probs=188.9

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHH-HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHH--HHHHHhhccCCHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTAL-LHLYAGAKWTEKAEELFERVKQSNLSFNALMYN--EMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~--~li~~~~~~g~~~~a~~   80 (275)
                      .|+++.|++.+...+...+++..+..+ .....+.|+++.|...+.++.+..  |+.....  .....+...|+++.|.+
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 EGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELA--DNDQLPVEITRVRIQLARNENHAARH  174 (398)
T ss_pred             CCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CcchHHHHHHHHHHHHHCCCHHHHHH
Confidence            489999999998876654444444444 445589999999999999998753  5654333  33668889999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH------HHHHHHHHHHHhcCchHHHHHHHH
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW------VKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      .++++.+.... +......+...|.+.|++++|..++..+.+.....+..      .+|..++.......+.+...+ ++
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            99999997643 56788889999999999999999999999863332221      122333333333334444444 44


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          155 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      +.+.... +.++.....+...+...|+.++|.+++++..+.  .|+...  .++.+....++.+++.+..+...+..  +
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 236677788899999999999999999988774  445422  34455556799999999999999865  4


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCC
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  273 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  273 (275)
                      -|...+..+...|.+.|++++|.+.|+...+.  .|+..
T Consensus       326 ~~~~l~l~lgrl~~~~~~~~~A~~~le~al~~--~P~~~  362 (398)
T PRK10747        326 DTPLLWSTLGQLLMKHGEWQEASLAFRAALKQ--RPDAY  362 (398)
T ss_pred             CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHH
Confidence            56677888999999999999999999999874  56643

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

Probab=99.69  E-value=1.8e-13  Score=102.29  Aligned_cols=224  Identities=13%  Similarity=0.092  Sum_probs=174.0

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHhhccCCHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFN--ALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~--~~~~~~li~~~~~~g~~~~a~   79 (275)
                      +...|+|.++|-+|.+..| +..+--+|.+.|-+.|..++|+++.+.+.++. .+-+  ....-.|..-|...|-+|.|+
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            3567899999999988665 67788889999999999999999999988752 1111  234456777788999999999


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH---HHHHHHHHHHhcCchHHHHHHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV---KYVNLVNIYITASHLVNAESSTLVE  156 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~~~~l~~~~~~~g~~~~a~~~~~~~  156 (275)
                      .+|..+.+.+. .-......|+..|-...+|++|+.+-+++.+.++-+-+..   .|.-+...+....+.+.|.. .+.+
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            99999988643 2456778899999999999999999998887633333322   35566666667888899998 7877


Q ss_pred             HHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          157 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       157 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      ..+..++ ++..--.+.+.+...|+++.|.+.|+.+.+.+...-+.+...|..+|...|+.++...++..+.+.
T Consensus       206 Alqa~~~-cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~  278 (389)
T COG2956         206 ALQADKK-CVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMET  278 (389)
T ss_pred             HHhhCcc-ceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            7776654 444444566778899999999999999988766666677888999999999999999888887764

>TIGR00540 hemY_coli hemY protein

Probab=99.69  E-value=1.1e-13  Score=112.95  Aligned_cols=254  Identities=10%  Similarity=0.043  Sum_probs=139.7

Q ss_pred             ccChhhHHHHhhccccCCCCH-hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHhhccCCHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTS-ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA--LMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~   80 (275)
                      .|+++.|++.+....+..|+. ..+-.......+.|+.+.|.+.+.+..+..  |+.  ...-.....+...|+++.|.+
T Consensus        97 ~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~--p~~~l~~~~~~a~l~l~~~~~~~Al~  174 (409)
T TIGR00540        97 EGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELA--GNDNILVEIARTRILLAQNELHAARH  174 (409)
T ss_pred             CCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--CcCchHHHHHHHHHHHHCCCHHHHHH
Confidence            355555666555554444432 222333445555556666666655554432  222  222223445555555555555


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC------------------------------------
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDS------------------------------------  124 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~------------------------------------  124 (275)
                      .++.+.+..+. +...+..+...+...|++++|.+.+..+.+.+                                    
T Consensus       175 ~l~~l~~~~P~-~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~  253 (409)
T TIGR00540       175 GVDKLLEMAPR-HKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWK  253 (409)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHH
Confidence            55555554322 33445555555555555555555555554431                                    


Q ss_pred             CCC----CCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhH-HHHHHHHHccCCHHHHHHHHHHHHhccCCC
Q 023952          125 GGS----DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY-DFLIILYAGLGNKDKIDQIWKSLRMTKQKM  199 (275)
Q Consensus       125 ~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  199 (275)
                      ..+    .+...+..+...+...|+.++|.+ ++.+..+..+......+ ..........++.+.+.+.++...+.  .|
T Consensus       254 ~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~-~l~~~l~~~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~--~p  330 (409)
T TIGR00540       254 NQPRHRRHNIALKIALAEHLIDCDDHDSAQE-IIFDGLKKLGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN--VD  330 (409)
T ss_pred             HCCHHHhCCHHHHHHHHHHHHHCCChHHHHH-HHHHHHhhCCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh--CC
Confidence            111    144555556666667777777777 66666665543221111 11111223345666676666665543  34


Q ss_pred             Ch---hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          200 TS---RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       200 ~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      +.   ....++...|.+.|++++|.+.|+....... .|+...+..+...+.+.|+.++|.+++++..
T Consensus       331 ~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~-~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l  397 (409)
T TIGR00540       331 DKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKE-QLDANDLAMAADAFDQAGDKAEAAAMRQDSL  397 (409)
T ss_pred             CChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhc-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            33   3445677788888888888888884322222 4677777788888888888888888887754

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=99.68  E-value=5.5e-13  Score=117.94  Aligned_cols=235  Identities=11%  Similarity=-0.004  Sum_probs=185.2

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+..++.. ++.++|...+.+.....  |+......+...+...|++++|+..|+++...  .|+...+..+..
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            67788888888877 78889999888877654  66555445556667899999999999998664  445555667778


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  182 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  182 (275)
                      .+.+.|++++|...+++..+.  .++....+..+.....+.|++++|.. .+++.....+  +...|..+...+.+.|++
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--GLGDNALYWWLHAQRYIPGQPELALN-DLTRSLNIAP--SANAYVARATIYRQRHNV  625 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHhCCCHHHHHH-HHHHHHHhCC--CHHHHHHHHHHHHHCCCH
Confidence            888999999999999998874  24444444444445556699999999 8888877664  467888888999999999


Q ss_pred             HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 023952          183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  262 (275)
                      ++|+..+++..... +-+...++.+...+...|++++|+..+++..+..  +-+...+..+..++...|++++|...+++
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            99999999988763 2245567778888999999999999999998854  45777888999999999999999999999


Q ss_pred             HHhcCCCCCC
Q 023952          263 LLQKNCAPTN  272 (275)
Q Consensus       263 m~~~~~~p~~  272 (275)
                      ..+  ..|+.
T Consensus       703 Al~--l~P~~  710 (987)
T PRK09782        703 VID--DIDNQ  710 (987)
T ss_pred             HHh--cCCCC
Confidence            876  34554

>PRK12370 invasion protein regulator; Provisional

Probab=99.67  E-value=1.3e-13  Score=116.69  Aligned_cols=251  Identities=9%  Similarity=0.001  Sum_probs=179.7

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHHHH---------cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCC
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHLYA---------GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ   74 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~---------~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~   74 (275)
                      +++++|+++|++.....| +...|..+..++.         ..+++++|...+++..+.+ +-+...+..+...+...|+
T Consensus       275 ~~~~~A~~~~~~Al~ldP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~ld-P~~~~a~~~lg~~~~~~g~  353 (553)
T PRK12370        275 YSLQQALKLLTQCVNMSPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATELD-HNNPQALGLLGLINTIHSE  353 (553)
T ss_pred             HHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHccC
Confidence            456789999999888777 5667776665554         2345889999999998875 5578888888888999999


Q ss_pred             HHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHH
Q 023952           75 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      +++|+..|++..+.+.. +...+..+...+...|++++|...++++.+.  .|.+...+..++..+...|++++|.. .+
T Consensus       354 ~~~A~~~~~~Al~l~P~-~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~~~~~~~~~~~g~~eeA~~-~~  429 (553)
T PRK12370        354 YIVGSLLFKQANLLSPI-SADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAGITKLWITYYHTGIDDAIR-LG  429 (553)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHhccCHHHHHH-HH
Confidence            99999999999986432 4567888888899999999999999998875  23333334445555677899999999 88


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 023952          155 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN-YICILSSYLMLGHLKEVGEIIDQWKQSATS  233 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~-~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  233 (275)
                      ++.....++.+...+..+...+...|+.++|...+.++...  .|+... .+.+...|...|  +.|...++.+.+....
T Consensus       430 ~~~l~~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~  505 (553)
T PRK12370        430 DELRSQHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQ--EITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQR  505 (553)
T ss_pred             HHHHHhccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhc--cchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhH
Confidence            77766543334556677788888999999999999887553  444333 445555667777  4788878777664332


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          234 DFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       234 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                      .+....+  +-..+.-.|+-+.+..+ +++.+.|
T Consensus       506 ~~~~~~~--~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        506 IDNNPGL--LPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             hhcCchH--HHHHHHHHhhhHHHHHH-HHhhccc
Confidence            3333333  34445556666665555 7776543

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

Probab=99.67  E-value=1.1e-15  Score=118.69  Aligned_cols=218  Identities=14%  Similarity=0.069  Sum_probs=113.1

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .++++.|++.++++...++ +...+..++.. ...+++++|.++++...++.  +++..+..++..+.+.++++++.+++
T Consensus        57 ~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~~~~~A~~~~~~~~~~~--~~~~~l~~~l~~~~~~~~~~~~~~~l  133 (280)
T PF13429_consen   57 LGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDGDPEEALKLAEKAYERD--GDPRYLLSALQLYYRLGDYDEAEELL  133 (280)
T ss_dssp             ----------------------------------------------------------------H-HHHTT-HHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccc-cccccccccccccccccccc--cccchhhHHHHHHHHHhHHHHHHHHH
Confidence            4789999999999988765 57778888888 79999999999998876653  57778888999999999999999999


Q ss_pred             HHHhhCC-CCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           83 EEIKRKN-VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        83 ~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      +.+.+.. .+++...|..+...+.+.|+.++|+..+++..+.  .|.+..+...++..+...|+.+++.+ ++.......
T Consensus       134 ~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~--~P~~~~~~~~l~~~li~~~~~~~~~~-~l~~~~~~~  210 (280)
T PF13429_consen  134 EKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRKALEL--DPDDPDARNALAWLLIDMGDYDEARE-ALKRLLKAA  210 (280)
T ss_dssp             HHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHHHHHH---TT-HHHHHHHHHHHCTTCHHHHHHH-HHHHHHHH-
T ss_pred             HHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHCCChHHHHH-HHHHHHHHC
Confidence            9987642 3567788888999999999999999999999985  35568889999999999999999988 787776665


Q ss_pred             CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          162 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                       +.|...+..+..+|...|++++|..+|++..... +.|+.....+..++...|+.++|.++.++..+
T Consensus       211 -~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~~~~~~a~~l~~~g~~~~A~~~~~~~~~  276 (280)
T PF13429_consen  211 -PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPLWLLAYADALEQAGRKDEALRLRRQALR  276 (280)
T ss_dssp             -HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHT-----------------
T ss_pred             -cCHHHHHHHHHHHhcccccccccccccccccccc-cccccccccccccccccccccccccccccccc
Confidence             3366678889999999999999999999988753 34777788899999999999999999887654

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.66  E-value=3.4e-13  Score=101.73  Aligned_cols=201  Identities=9%  Similarity=0.063  Sum_probs=121.6

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      ....+..+...+...|++++|.+.+++..+... .+...+..+...+...|++++|.+.+++..+.  .+.+...+..+.
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~  106 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHDP-DDYLAYLALALYYQQLGELEKAEDSFRRALTL--NPNNGDVLNNYG  106 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCHHHHHHHH
Confidence            345556666666666666666666666655421 13445555666666666666666666666653  234445556666


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCc-chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCC
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH  216 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  216 (275)
                      ..+...|++++|.+ .+.........+ ....+..+...+...|++++|...+.+..+.. +.+...+..+...+...|+
T Consensus       107 ~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~  184 (234)
T TIGR02521       107 TFLCQQGKYEQAMQ-QFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQID-PQRPESLLELAELYYLRGQ  184 (234)
T ss_pred             HHHHHcccHHHHHH-HHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCChHHHHHHHHHHHHcCC
Confidence            66666677777766 666655432211 23345555666667777777777777665542 2234456666677777777


Q ss_pred             HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          217 LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       217 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +++|...+++..+..  +.+...+..+...+...|+.++|..+.+.+..
T Consensus       185 ~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       185 YKDARAYLERYQQTY--NQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            777777777766642  34455555666667777777777777666543

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.

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.66  E-value=2.3e-13  Score=105.54  Aligned_cols=263  Identities=14%  Similarity=0.149  Sum_probs=152.1

Q ss_pred             CccccChhhHHHHhhccccC-C-CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHH-
Q 023952            1 MTKVFGIHSGERYFEGLPLS-A-KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK-   77 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~-~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~-   77 (275)
                      |||....+.|.+++++.... + -+..+||.+|.+-+-..+    .+++.+|....+.||..|+|+++++.++.|+++. 
T Consensus       217 l~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNalL~c~akfg~F~~a  292 (625)
T KOG4422|consen  217 LCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNALLSCAAKFGKFEDA  292 (625)
T ss_pred             HHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHHHHHHHHHhcchHHH
Confidence            45666677777777765543 2 366677777655432222    6667777777777777777777777777776553 


Q ss_pred             ---HHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHH-HHHHHHHHhhc-C--CCCC----CHHHHHHHHHHHHhcCch
Q 023952           78 ---VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ-VKKFLDEMSCD-S--GGSD----DWVKYVNLVNIYITASHL  146 (275)
Q Consensus        78 ---a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~-a~~~~~~~~~~-~--~~~~----~~~~~~~l~~~~~~~g~~  146 (275)
                         |.+++.+|++-|+.|...+|..+|..+++-++..+ +..++.++... .  .++|    +...|..-+..|.+..+.
T Consensus       293 r~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~  372 (625)
T KOG4422|consen  293 RKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKFFQSAMSICSSLRDL  372 (625)
T ss_pred             HHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHHHHHHHHHHHHhhhH
Confidence               45566667777777777777777776666655432 33333333321 0  1111    222233344444444444


Q ss_pred             HHHHHH-----------------------------------------HHHHHHHccCCcchhhHHHHHHHHHccCCHHHH
Q 023952          147 VNAESS-----------------------------------------TLVEAEKSITQRQWITYDFLIILYAGLGNKDKI  185 (275)
Q Consensus       147 ~~a~~~-----------------------------------------~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  185 (275)
                      +.|.++                                         .+..+......|+..+...++++....+.++-.
T Consensus       373 ~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~i  452 (625)
T KOG4422|consen  373 ELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIHLLRALDVANRLEVI  452 (625)
T ss_pred             HHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHHHHHHHhhcCcchhH
Confidence            444441                                         344444444456666667777777778888877


Q ss_pred             HHHHHHHHhccC-------------------CCC-----------------------------------hhhHHHHHHHH
Q 023952          186 DQIWKSLRMTKQ-------------------KMT-----------------------------------SRNYICILSSY  211 (275)
Q Consensus       186 ~~~~~~m~~~~~-------------------~p~-----------------------------------~~~~~~li~~~  211 (275)
                      -++|..+...|.                   .|+                                   ....+.+.-.+
T Consensus       453 pRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll  532 (625)
T KOG4422|consen  453 PRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKCAADIKEAYESQPIRQRAQDWPATSLNCIAILL  532 (625)
T ss_pred             HHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHHHHHHHHHHHhhHHHHHhccCChhHHHHHHHHH
Confidence            777777665542                   221                                   11224445556


Q ss_pred             HhcCCHHHHHHHHHHHHhcCCCCCCHHHHH---HHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          212 LMLGHLKEVGEIIDQWKQSATSDFDISACN---RLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       212 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~---~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                      .|.|+.++|.++|..+.+++..-|-....|   -+++.-...+....|..+++-|...+
T Consensus       533 ~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~lQ~a~~~n  591 (625)
T KOG4422|consen  533 LRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVLQLASAFN  591 (625)
T ss_pred             HHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHHHHHHHcC
Confidence            677888888888887755443223333334   44555566677777777777775544

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.66  E-value=3.8e-13  Score=118.98  Aligned_cols=250  Identities=8%  Similarity=-0.141  Sum_probs=194.4

Q ss_pred             cChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEE   84 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~   84 (275)
                      |+.++|+..|.+.....|+......+...+.+.|++++|...|+.+...  +|+...+..+...+.+.|++++|.+.+++
T Consensus       490 ~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~all~~Gd~~eA~~~l~q  567 (987)
T PRK09782        490 TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTAQAAGNGAARDRWLQQ  567 (987)
T ss_pred             CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            6778899988777666676555445566667999999999999997654  45566677778889999999999999999


Q ss_pred             HhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc
Q 023952           85 IKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR  164 (275)
Q Consensus        85 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  164 (275)
                      ..+.+.. +...+..+.....+.|++++|...+++..+.   .|+...+..+..++.+.|+.++|+. .+.......+. 
T Consensus       568 AL~l~P~-~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l---~P~~~a~~~LA~~l~~lG~~deA~~-~l~~AL~l~Pd-  641 (987)
T PRK09782        568 AEQRGLG-DNALYWWLHAQRYIPGQPELALNDLTRSLNI---APSANAYVARATIYRQRHNVPAAVS-DLRAALELEPN-  641 (987)
T ss_pred             HHhcCCc-cHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh---CCCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHHhCCC-
Confidence            9986422 2233333334445569999999999999874   4678889999999999999999999 99988887755 


Q ss_pred             chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 023952          165 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  244 (275)
Q Consensus       165 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  244 (275)
                      +...++.+...+...|++++|+..+++..+.. +-+...+..+..++...|++++|...+++..+..  +-+..+.-...
T Consensus       642 ~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~-P~~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~--P~~a~i~~~~g  718 (987)
T PRK09782        642 NSNYQAALGYALWDSGDIAQSREMLERAHKGL-PDDPALIRQLAYVNQRLDDMAATQHYARLVIDDI--DNQALITPLTP  718 (987)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC--CCCchhhhhhh
Confidence            67788888889999999999999999988753 2355678899999999999999999999998753  22334444455


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 023952          245 GAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       245 ~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +...+..+++.|.+-+++...
T Consensus       719 ~~~~~~~~~~~a~~~~~r~~~  739 (987)
T PRK09782        719 EQNQQRFNFRRLHEEVGRRWT  739 (987)
T ss_pred             HHHHHHHHHHHHHHHHHHHhh
Confidence            566666667777776666543

>TIGR00540 hemY_coli hemY protein

Probab=99.66  E-value=4.5e-13  Score=109.38  Aligned_cols=221  Identities=10%  Similarity=0.036  Sum_probs=144.4

Q ss_pred             ccChhhHHHHhhccccCCCCH--hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTS--ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~--~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      .|+.+.|.++|.+..+..|+.  ...-.....+...|+++.|...++.+.+.. |-++..+..+...+.+.|++++|.++
T Consensus       131 ~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~  209 (409)
T TIGR00540       131 RGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDI  209 (409)
T ss_pred             CCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHH
Confidence            355566666665554433332  222233555555666666666666655553 33445555555566666666655555


Q ss_pred             HHHHhhCCCC------------------------------------C-----chhhHHHHHHHHHhhCCHHHHHHHHHHH
Q 023952           82 VEEIKRKNVV------------------------------------P-----DIFTYNLWISSCAATLNIDQVKKFLDEM  120 (275)
Q Consensus        82 ~~~m~~~~~~------------------------------------p-----~~~~~~~ll~~~~~~~~~~~a~~~~~~~  120 (275)
                      +..+.+.+..                                    |     +...+..+...+...|+.++|.+++++.
T Consensus       210 l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~  289 (409)
T TIGR00540       210 IDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLNWWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDG  289 (409)
T ss_pred             HHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHH
Confidence            5555443221                                    2     4455666677788889999999999999


Q ss_pred             hhcCCCCCCHHHHHHHHHHH--HhcCchHHHHHHHHHHHHHccCCcch--hhHHHHHHHHHccCCHHHHHHHHHHHHhcc
Q 023952          121 SCDSGGSDDWVKYVNLVNIY--ITASHLVNAESSTLVEAEKSITQRQW--ITYDFLIILYAGLGNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       121 ~~~~~~~~~~~~~~~l~~~~--~~~g~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  196 (275)
                      .+.  .+++......++..+  ...++.+.+.+ .++...+..+. |.  ....++...+.+.|++++|.+.|+......
T Consensus       290 l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~-~~e~~lk~~p~-~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~  365 (409)
T TIGR00540       290 LKK--LGDDRAISLPLCLPIPRLKPEDNEKLEK-LIEKQAKNVDD-KPKCCINRALGQLLMKHGEFIEAADAFKNVAACK  365 (409)
T ss_pred             Hhh--CCCcccchhHHHHHhhhcCCCChHHHHH-HHHHHHHhCCC-ChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhh
Confidence            884  233332111133332  34577788888 77776665543 44  666788999999999999999999644444


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          197 QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       197 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      ..|+...+..+...+.+.|+.++|.+++++...
T Consensus       366 ~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       366 EQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             cCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            689999999999999999999999999998644

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.

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

Probab=99.65  E-value=3.3e-14  Score=114.85  Aligned_cols=249  Identities=10%  Similarity=-0.006  Sum_probs=160.1

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhccCCHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-ALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      |++.+|..-+.+..+..| =...|+.|...+-..|+.-.|++.|++....+  |+ ...|-.|...|...+.+++|+..|
T Consensus       198 Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkld--P~f~dAYiNLGnV~ke~~~~d~Avs~Y  275 (966)
T KOG4626|consen  198 GRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLD--PNFLDAYINLGNVYKEARIFDRAVSCY  275 (966)
T ss_pred             cccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCC--CcchHHHhhHHHHHHHHhcchHHHHHH
Confidence            555555555555444444 25566666666666666666666666665543  33 445666666666666677776666


Q ss_pred             HHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           83 EEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        83 ~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      .+....  .|+ ...+..+...|...|+++.|+..|++....  -|.-...|+.|..++...|++.+|.+ .+.......
T Consensus       276 ~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~--~P~F~~Ay~NlanALkd~G~V~ea~~-cYnkaL~l~  350 (966)
T KOG4626|consen  276 LRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALEL--QPNFPDAYNNLANALKDKGSVTEAVD-CYNKALRLC  350 (966)
T ss_pred             HHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhc--CCCchHHHhHHHHHHHhccchHHHHH-HHHHHHHhC
Confidence            665553  333 445666666666777777777777776653  23335567777777777777777777 676666555


Q ss_pred             CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHH
Q 023952          162 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC  240 (275)
Q Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  240 (275)
                      +. .....+.|...|...|.+++|..+|....+.  .|. ...++.|...|-+.|++++|+..+++...-  .+.-...|
T Consensus       351 p~-hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI--~P~fAda~  425 (966)
T KOG4626|consen  351 PN-HADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRI--KPTFADAL  425 (966)
T ss_pred             Cc-cHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhc--CchHHHHH
Confidence            43 4556667777777777777777777766553  333 345677777777777777777777777652  22234567


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          241 NRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       241 ~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +.+...|...|+++.|.+.+.+.+.
T Consensus       426 ~NmGnt~ke~g~v~~A~q~y~rAI~  450 (966)
T KOG4626|consen  426 SNMGNTYKEMGDVSAAIQCYTRAIQ  450 (966)
T ss_pred             HhcchHHHHhhhHHHHHHHHHHHHh
Confidence            7777777777777777777776654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.65  E-value=1.2e-12  Score=114.74  Aligned_cols=257  Identities=8%  Similarity=-0.039  Sum_probs=187.8

Q ss_pred             cccChhhHHHHhhccccCC-CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSA-KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      ..|+.++|++++.+..... .+...+..+...+...|++++|..+|++..+.. |.+...+..+...+...|++++|+..
T Consensus        27 ~~g~~~~A~~~~~~~~~~~~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~l~~~g~~~eA~~~  105 (765)
T PRK10049         27 WAGQDAEVITVYNRYRVHMQLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLE-PQNDDYQRGLILTLADAGQYDEALVK  105 (765)
T ss_pred             HcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4688999999999987633 467779999999999999999999999988764 45677788888999999999999999


Q ss_pred             HHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHH------
Q 023952           82 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV------  155 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~------  155 (275)
                      +++..+... .+.. +..+..++...|+.++|...++++.+.  .|.+...+..+...+...|..++|++ .++      
T Consensus       106 l~~~l~~~P-~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~--~P~~~~~~~~la~~l~~~~~~e~Al~-~l~~~~~~p  180 (765)
T PRK10049        106 AKQLVSGAP-DKAN-LLALAYVYKRAGRHWDELRAMTQALPR--APQTQQYPTEYVQALRNNRLSAPALG-AIDDANLTP  180 (765)
T ss_pred             HHHHHHhCC-CCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCChHHHHH-HHHhCCCCH
Confidence            999988632 2445 888888889999999999999999884  45566666677777777777665554 333      


Q ss_pred             ----------------------------------------HHHHc-cCCcchh-hHH----HHHHHHHccCCHHHHHHHH
Q 023952          156 ----------------------------------------EAEKS-ITQRQWI-TYD----FLIILYAGLGNKDKIDQIW  189 (275)
Q Consensus       156 ----------------------------------------~~~~~-~~~~~~~-~~~----~l~~~~~~~~~~~~a~~~~  189 (275)
                                                              .+... ...|+.. .+.    ..+..+...|++++|+..|
T Consensus       181 ~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~g~~~eA~~~~  260 (765)
T PRK10049        181 AEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLARDRYKDVISEY  260 (765)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence                                                    22211 1112211 110    1122345678999999999


Q ss_pred             HHHHhccCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          190 KSLRMTKQK-MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--DISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       190 ~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      +.+.+.+.. |+. ....+...|...|++++|...|+++.+.....+  .......+..++...|++++|..+++++.+.
T Consensus       261 ~~ll~~~~~~P~~-a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~~~l~~~~~~  339 (765)
T PRK10049        261 QRLKAEGQIIPPW-AQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGALTVTAHTINN  339 (765)
T ss_pred             HHhhccCCCCCHH-HHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHHHHHHHHhhc
Confidence            998876532 332 222357789999999999999999876432111  1345666777889999999999999998764

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.64  E-value=1.6e-12  Score=114.01  Aligned_cols=162  Identities=10%  Similarity=-0.049  Sum_probs=97.3

Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCC-CCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc---chhhHHHHHHHHHcc
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGS-DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR---QWITYDFLIILYAGL  179 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~  179 (275)
                      +...|++++|+..|+++.+. +.+ |+. ....+...|...|++++|+. .++.+....+..   .......+..++...
T Consensus       247 Ll~~g~~~eA~~~~~~ll~~-~~~~P~~-a~~~la~~yl~~g~~e~A~~-~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~  323 (765)
T PRK10049        247 LLARDRYKDVISEYQRLKAE-GQIIPPW-AQRWVASAYLKLHQPEKAQS-ILTELFYHPETIADLSDEELADLFYSLLES  323 (765)
T ss_pred             HHHhhhHHHHHHHHHHhhcc-CCCCCHH-HHHHHHHHHHhcCCcHHHHH-HHHHHhhcCCCCCCCChHHHHHHHHHHHhc
Confidence            44556777777777777664 211 221 12224566777777777777 676665433221   123344455566777


Q ss_pred             CCHHHHHHHHHHHHhccC-----------CCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023952          180 GNKDKIDQIWKSLRMTKQ-----------KMTS---RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  245 (275)
Q Consensus       180 ~~~~~a~~~~~~m~~~~~-----------~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  245 (275)
                      |++++|..+++.+.....           .|+.   ..+..+...+...|++++|+++++++....  +.+...+..+..
T Consensus       324 g~~~eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~--P~n~~l~~~lA~  401 (765)
T PRK10049        324 ENYPGALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNA--PGNQGLRIDYAS  401 (765)
T ss_pred             ccHHHHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHH
Confidence            777777777777665421           1221   123445566677777777777777776643  345666777777


Q ss_pred             HHHhcCChHHHHHHHHHHHhcCCCCCC
Q 023952          246 AFSDVGLTEKANEFHMLLLQKNCAPTN  272 (275)
Q Consensus       246 ~~~~~g~~~~a~~~~~~m~~~~~~p~~  272 (275)
                      .+...|++++|++.+++.++  ..|+.
T Consensus       402 l~~~~g~~~~A~~~l~~al~--l~Pd~  426 (765)
T PRK10049        402 VLQARGWPRAAENELKKAEV--LEPRN  426 (765)
T ss_pred             HHHhcCCHHHHHHHHHHHHh--hCCCC
Confidence            77777777777777777665  33554

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.62  E-value=2.5e-12  Score=96.96  Aligned_cols=202  Identities=15%  Similarity=0.033  Sum_probs=169.9

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      ....+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.+++..+.... +...+..+..
T Consensus        30 ~~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~~~  107 (234)
T TIGR02521        30 AAKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLNPN-NGDVLNNYGT  107 (234)
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CHHHHHHHHH
Confidence            46778899999999999999999999988764 456788899999999999999999999999986433 5567788888


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  182 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  182 (275)
                      .+...|++++|.+.+++.......+.....+..+...+...|++++|.. .+.+.....+. +...+..+...+...|++
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            9999999999999999998752333455677788899999999999999 88888776544 566788888999999999


Q ss_pred             HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      ++|...+++..+. ...+...+..+...+...|+.+.|..+.+.+..
T Consensus       186 ~~A~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       186 KDARAYLERYQQT-YNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            9999999998876 344566677788888999999999999888765

Members of this family are designated PilF in ref (PubMed:8973346) and PilW in ref (PubMed:15612916). This outer membrane protein is required both for pilus stability and for pilus function such as adherence to human cells. Members of this family contain copies of the TPR (tetratricopeptide repeat) domain.

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

Probab=99.62  E-value=7e-12  Score=96.43  Aligned_cols=260  Identities=10%  Similarity=-0.026  Sum_probs=165.2

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++..|+++..+-.+.++ ....|..-..+--+.|+.+.+-.++.+..+.--.++...+-+........|+++.|..-.
T Consensus        97 eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~v  176 (400)
T COG3071          97 EGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARENV  176 (400)
T ss_pred             cCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHHH
Confidence            3666666666666554443 333444445555566666666666666655422344444555555555555555555555


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC--------------------------------------
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDS--------------------------------------  124 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--------------------------------------  124 (275)
                      .++.+.+.. ++........+|.+.|++.....++.++.+.+                                      
T Consensus       177 ~~ll~~~pr-~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~~  255 (400)
T COG3071         177 DQLLEMTPR-HPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKNQ  255 (400)
T ss_pred             HHHHHhCcC-ChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHhc
Confidence            555554332 34445555555555555555555555555441                                      


Q ss_pred             --CCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChh
Q 023952          125 --GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR  202 (275)
Q Consensus       125 --~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  202 (275)
                        ....++..-.+++.-+.++|+.++|.+ +..+..+....|..    ...-.+.+.++.+.-++..++-.... +-++.
T Consensus       256 pr~lr~~p~l~~~~a~~li~l~~~~~A~~-~i~~~Lk~~~D~~L----~~~~~~l~~~d~~~l~k~~e~~l~~h-~~~p~  329 (400)
T COG3071         256 PRKLRNDPELVVAYAERLIRLGDHDEAQE-IIEDALKRQWDPRL----CRLIPRLRPGDPEPLIKAAEKWLKQH-PEDPL  329 (400)
T ss_pred             cHHhhcChhHHHHHHHHHHHcCChHHHHH-HHHHHHHhccChhH----HHHHhhcCCCCchHHHHHHHHHHHhC-CCChh
Confidence              122233444456666777888888888 66666666655541    11224556677777777666544331 22346


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCC
Q 023952          203 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  273 (275)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  273 (275)
                      .+.+|...|.+.+.+.+|...|+...+.   .|+..+|+.+.+++.+.|+..+|.++.++....-.+|+.-
T Consensus       330 L~~tLG~L~~k~~~w~kA~~~leaAl~~---~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~~~~~  397 (400)
T COG3071         330 LLSTLGRLALKNKLWGKASEALEAALKL---RPSASDYAELADALDQLGEPEEAEQVRREALLLTRQPNLP  397 (400)
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHhc---CCChhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcCCCCc
Confidence            7888999999999999999999987763   5899999999999999999999999999988766666653

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

Probab=99.61  E-value=6.6e-13  Score=103.84  Aligned_cols=195  Identities=13%  Similarity=0.053  Sum_probs=147.6

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  139 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  139 (275)
                      .|..++..-|+-.++.++|..+|+...+.+.+ ....|+.+..-|....+...|.+.++.+++  ..|.|-..|..|.++
T Consensus       331 ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~-~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyRAWYGLGQa  407 (559)
T KOG1155|consen  331 ETCCIIANYYSLRSEHEKAVMYFKRALKLNPK-YLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYRAWYGLGQA  407 (559)
T ss_pred             cceeeehhHHHHHHhHHHHHHHHHHHHhcCcc-hhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHHHHhhhhHH
Confidence            44445555666778889999999998886543 456788888889999999999999999887  457888888899999


Q ss_pred             HHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHH
Q 023952          140 YITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE  219 (275)
Q Consensus       140 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  219 (275)
                      |.-.+...-|+- .+++.....|. |...|.+|...|.+.+++++|++-|......| ..+...+..|.+.|-+.++.++
T Consensus       408 Yeim~Mh~YaLy-YfqkA~~~kPn-DsRlw~aLG~CY~kl~~~~eAiKCykrai~~~-dte~~~l~~LakLye~l~d~~e  484 (559)
T KOG1155|consen  408 YEIMKMHFYALY-YFQKALELKPN-DSRLWVALGECYEKLNRLEEAIKCYKRAILLG-DTEGSALVRLAKLYEELKDLNE  484 (559)
T ss_pred             HHHhcchHHHHH-HHHHHHhcCCC-chHHHHHHHHHHHHhccHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHHHHhHHH
Confidence            988888888888 77777665544 78899999999999999999999998887765 3456778889999999999999


Q ss_pred             HHHHHHHHHhc----CCCCC-CHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          220 VGEIIDQWKQS----ATSDF-DISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       220 a~~~~~~~~~~----~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                      |.+.|.+..+.    |...+ .+....-|..-+.+.+++++|....
T Consensus       485 Aa~~yek~v~~~~~eg~~~~~t~ka~~fLA~~f~k~~~~~~As~Ya  530 (559)
T KOG1155|consen  485 AAQYYEKYVEVSELEGEIDDETIKARLFLAEYFKKMKDFDEASYYA  530 (559)
T ss_pred             HHHHHHHHHHHHHhhcccchHHHHHHHHHHHHHHhhcchHHHHHHH
Confidence            98888877652    22223 2223333556666777777665543

>PF13041 PPR_2: PPR repeat family

Probab=99.61  E-value=2.4e-15  Score=84.12  Aligned_cols=49  Identities=27%  Similarity=0.587  Sum_probs=24.5

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      ||+.+||++|.+|++.|++++|.++|++|.+.|+.||..||+.+|++|+
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            4444555555555555555555555555555555555555555554444

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.60  E-value=4.3e-12  Score=110.28  Aligned_cols=257  Identities=12%  Similarity=0.025  Sum_probs=145.2

Q ss_pred             ccChhhHHHHhhccccCC-CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSA-KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|+.++|+..+++..... ........+...+...|++++|.++|+++.+.. |-++..+..++..+...++.++|++.+
T Consensus        81 ~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~Aiely~kaL~~d-P~n~~~l~gLa~~y~~~~q~~eAl~~l  159 (822)
T PRK14574         81 AGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQALALWQSSLKKD-PTNPDLISGMIMTQADAGRGGVVLKQA  159 (822)
T ss_pred             cCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHhhcCCHHHHHHHH
Confidence            345555555555544210 122222222345555556666666666555543 233444555555555556666666666


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHH----------
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS----------  152 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~----------  152 (275)
                      +.+...  .|+...+..++..+...++..+|++.++++.+.  .|.+...+..+...+.+.|-...|.++          
T Consensus       160 ~~l~~~--dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~--~P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~f~~  235 (822)
T PRK14574        160 TELAER--DPTVQNYMTLSYLNRATDRNYDALQASSEAVRL--APTSEEVLKNHLEILQRNRIVEPALRLAKENPNLVSA  235 (822)
T ss_pred             HHhccc--CcchHHHHHHHHHHHhcchHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccccCH
Confidence            555553  334444433333333334444466666666553  244455555555555555544444431          


Q ss_pred             -------------------------------------HHHHHHHc-cCCcch-hhH-HH---HHHHHHccCCHHHHHHHH
Q 023952          153 -------------------------------------TLVEAEKS-ITQRQW-ITY-DF---LIILYAGLGNKDKIDQIW  189 (275)
Q Consensus       153 -------------------------------------~~~~~~~~-~~~~~~-~~~-~~---l~~~~~~~~~~~~a~~~~  189 (275)
                                                           -++.+... ...|.. ..| .+   .+-++...+++.++++.|
T Consensus       236 ~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y  315 (822)
T PRK14574        236 EHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEY  315 (822)
T ss_pred             HHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence                                                 01111110 011211 111 11   223567788888899999


Q ss_pred             HHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          190 KSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT----SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       190 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +.|...+.+....+-..+..+|...++.++|..++..+.....    .+++......|..+|...+++++|..+++++.+
T Consensus       316 ~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~  395 (822)
T PRK14574        316 EAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSE  395 (822)
T ss_pred             HHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHh
Confidence            9888877655556777899999999999999999999866431    123444457789999999999999999999986

>PF13041 PPR_2: PPR repeat family

Probab=99.60  E-value=4.9e-15  Score=82.87  Aligned_cols=50  Identities=24%  Similarity=0.327  Sum_probs=48.6

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   71 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   71 (275)
                      ||..+||++|++|++.|++++|.++|++|.+.|++||..||++||++|++
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            78999999999999999999999999999999999999999999999975

>PRK12370 invasion protein regulator; Provisional

Probab=99.59  E-value=3.1e-12  Score=108.30  Aligned_cols=232  Identities=10%  Similarity=-0.059  Sum_probs=172.9

Q ss_pred             CHhHHHHHHHHHHc-----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhh---------ccCCHHHHHHHHHHHhhC
Q 023952           23 TSETYTALLHLYAG-----AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM---------SVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        23 ~~~~~~~li~~~~~-----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~---------~~g~~~~a~~~~~~m~~~   88 (275)
                      +...|...+.+-..     .+.+++|...|++..+.. |-+...|..+..++.         ..+++++|...+++..+.
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            56666666665322     234679999999998875 334556666655443         335589999999999986


Q ss_pred             CCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhh
Q 023952           89 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT  168 (275)
Q Consensus        89 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  168 (275)
                      +.. +..++..+...+...|++++|...|+++.+.  .|.+...+..+...+...|++++|.. .++......+.. ...
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-TINECLKLDPTR-AAA  408 (553)
T ss_pred             CCC-CHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHhcCCCC-hhh
Confidence            543 6677888888889999999999999999884  36667788899999999999999999 899888876653 333


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Q 023952          169 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  247 (275)
Q Consensus       169 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  247 (275)
                      +..++..+...|++++|...+++..+.. .| ++..+..+...+...|++++|...+.++....  +.+....+.+...|
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            3334445666899999999999887653 34 34456677888899999999999999986642  23445566666777


Q ss_pred             HhcCChHHHHHHHHHHHh
Q 023952          248 SDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       248 ~~~g~~~~a~~~~~~m~~  265 (275)
                      ...|  +.|...++.+.+
T Consensus       486 ~~~g--~~a~~~l~~ll~  501 (553)
T PRK12370        486 CQNS--ERALPTIREFLE  501 (553)
T ss_pred             hccH--HHHHHHHHHHHH
Confidence            8777  478887777654

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.58  E-value=1.6e-11  Score=106.74  Aligned_cols=84  Identities=7%  Similarity=-0.037  Sum_probs=64.6

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      ..|++++|+++|+++....| +...+..++..+.+.++.++|++.++.+....  |+...+..++..+...++..+|++.
T Consensus       114 ~~gdyd~Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~d--p~~~~~l~layL~~~~~~~~~AL~~  191 (822)
T PRK14574        114 NEKRWDQALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERD--PTVQNYMTLSYLNRATDRNYDALQA  191 (822)
T ss_pred             HcCCHHHHHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccC--cchHHHHHHHHHHHhcchHHHHHHH
Confidence            35889999999999988877 67778888889999999999999999888764  5656665555555445666568888


Q ss_pred             HHHHhhC
Q 023952           82 VEEIKRK   88 (275)
Q Consensus        82 ~~~m~~~   88 (275)
                      ++++.+.
T Consensus       192 ~ekll~~  198 (822)
T PRK14574        192 SSEAVRL  198 (822)
T ss_pred             HHHHHHh
Confidence            8887664

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

Probab=99.57  E-value=2.2e-11  Score=91.36  Aligned_cols=259  Identities=12%  Similarity=0.095  Sum_probs=201.0

Q ss_pred             cccChhhHHHHhhccccCCCC------HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKT------SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   76 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~   76 (275)
                      +.|.+|.|+++.+.+..+ ||      ....-.|.+-|...|-+|+|+.+|..+.+.+ .--......|+..|-...+|+
T Consensus        81 sRGEvDRAIRiHQ~L~~s-pdlT~~qr~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~  158 (389)
T COG2956          81 SRGEVDRAIRIHQTLLES-PDLTFEQRLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWE  158 (389)
T ss_pred             hcchHHHHHHHHHHHhcC-CCCchHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHH
Confidence            469999999999988775 32      4455667888999999999999999998865 234567788999999999999


Q ss_pred             HHHHHHHHHhhCCCCCch----hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHH
Q 023952           77 KVALVVEEIKRKNVVPDI----FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  152 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  152 (275)
                      +|+++-+++.+.+-++..    ..|.-|...+.-..+.+.|..++.+..+.  .+.++..--.+.+.+...|++..|.+ 
T Consensus       159 KAId~A~~L~k~~~q~~~~eIAqfyCELAq~~~~~~~~d~A~~~l~kAlqa--~~~cvRAsi~lG~v~~~~g~y~~AV~-  235 (389)
T COG2956         159 KAIDVAERLVKLGGQTYRVEIAQFYCELAQQALASSDVDRARELLKKALQA--DKKCVRASIILGRVELAKGDYQKAVE-  235 (389)
T ss_pred             HHHHHHHHHHHcCCccchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHhh--CccceehhhhhhHHHHhccchHHHHH-
Confidence            999999999987655442    34556666666678899999999998874  35556666677888999999999999 


Q ss_pred             HHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 023952          153 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  232 (275)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  232 (275)
                      .++.+.+..+.--..+...|..+|.+.|++++....+..+.+....++  .-..+-..-....-.+.|...+.+-...  
T Consensus       236 ~~e~v~eQn~~yl~evl~~L~~~Y~~lg~~~~~~~fL~~~~~~~~g~~--~~l~l~~lie~~~G~~~Aq~~l~~Ql~r--  311 (389)
T COG2956         236 ALERVLEQNPEYLSEVLEMLYECYAQLGKPAEGLNFLRRAMETNTGAD--AELMLADLIELQEGIDAAQAYLTRQLRR--  311 (389)
T ss_pred             HHHHHHHhChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHccCCcc--HHHHHHHHHHHhhChHHHHHHHHHHHhh--
Confidence            999998888776677888999999999999999999999887644444  4444555555555666777776666553  


Q ss_pred             CCCCHHHHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCCC
Q 023952          233 SDFDISACNRLLGAFSD---VGLTEKANEFHMLLLQKNCAPT  271 (275)
Q Consensus       233 ~~~~~~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~  271 (275)
                       +|+...+..++..-..   -|...+-...++.|....++-+
T Consensus       312 -~Pt~~gf~rl~~~~l~daeeg~~k~sL~~lr~mvge~l~~~  352 (389)
T COG2956         312 -KPTMRGFHRLMDYHLADAEEGRAKESLDLLRDMVGEQLRRK  352 (389)
T ss_pred             -CCcHHHHHHHHHhhhccccccchhhhHHHHHHHHHHHHhhc
Confidence             5899999999987654   3456777788888876655433

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

Probab=99.52  E-value=1.8e-11  Score=95.93  Aligned_cols=220  Identities=13%  Similarity=0.074  Sum_probs=167.6

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC--Cch----------------------
Q 023952           39 WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--PDI----------------------   94 (275)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p~~----------------------   94 (275)
                      +.+++.+-.+.....|++-+...-+....+.-...++++|+.+|+++.+..+-  -|.                      
T Consensus       242 q~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~  321 (559)
T KOG1155|consen  242 QHEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQN  321 (559)
T ss_pred             HHHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHH
Confidence            44444444555555555444443344444444556666666666666654210  022                      


Q ss_pred             ---------hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc
Q 023952           95 ---------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ  165 (275)
Q Consensus        95 ---------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  165 (275)
                               .|+.++.+-|+-.++.++|...|+...+-  .|.....|+.+..-|....+...|.+ .++...+-.+. |
T Consensus       322 v~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkL--Np~~~~aWTLmGHEyvEmKNt~AAi~-sYRrAvdi~p~-D  397 (559)
T KOG1155|consen  322 VSNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKL--NPKYLSAWTLMGHEYVEMKNTHAAIE-SYRRAVDINPR-D  397 (559)
T ss_pred             HHHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhc--CcchhHHHHHhhHHHHHhcccHHHHH-HHHHHHhcCch-h
Confidence                     34444556667778899999999999884  35667788899999999999999999 89888776654 8


Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023952          166 WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  245 (275)
Q Consensus       166 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  245 (275)
                      -..|-.|.++|.-.+.+.=|+-+|++..... +-|+..|.+|..+|.+.++.++|++.|.....-+  +.+...+..|.+
T Consensus       398 yRAWYGLGQaYeim~Mh~YaLyYfqkA~~~k-PnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~--dte~~~l~~Lak  474 (559)
T KOG1155|consen  398 YRAWYGLGQAYEIMKMHFYALYYFQKALELK-PNDSRLWVALGECYEKLNRLEEAIKCYKRAILLG--DTEGSALVRLAK  474 (559)
T ss_pred             HHHHhhhhHHHHHhcchHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcc--ccchHHHHHHHH
Confidence            8999999999999999999999999988753 3477899999999999999999999999998865  456678999999


Q ss_pred             HHHhcCChHHHHHHHHHHHh
Q 023952          246 AFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       246 ~~~~~g~~~~a~~~~~~m~~  265 (275)
                      .|-+.++.++|.+.|.+-++
T Consensus       475 Lye~l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  475 LYEELKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHHHHHhHHHHHHHHHHHHH
Confidence            99999999999999887765

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

Probab=99.51  E-value=1.9e-12  Score=105.39  Aligned_cols=224  Identities=10%  Similarity=-0.015  Sum_probs=177.9

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCC-----------------------------
Q 023952           39 WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKN-----------------------------   89 (275)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----------------------------   89 (275)
                      +..+|...|..+... +.-+..+...+..+|...+++++|+++|+.+.+..                             
T Consensus       334 ~~~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~  412 (638)
T KOG1126|consen  334 NCREALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQD  412 (638)
T ss_pred             HHHHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHH
Confidence            568899999985554 33445677888999999999999999999965431                             


Q ss_pred             ----CCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc
Q 023952           90 ----VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ  165 (275)
Q Consensus        90 ----~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  165 (275)
                          -+-.+.+|.++.+.|.-.++.+.|++.|++..+.  -+....+|+.+-.-+.....+|.|.. .|+....-.+. +
T Consensus       413 Li~~~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQl--dp~faYayTLlGhE~~~~ee~d~a~~-~fr~Al~~~~r-h  488 (638)
T KOG1126|consen  413 LIDTDPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQL--DPRFAYAYTLLGHESIATEEFDKAMK-SFRKALGVDPR-H  488 (638)
T ss_pred             HHhhCCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhcc--CCccchhhhhcCChhhhhHHHHhHHH-HHHhhhcCCch-h
Confidence                0114689999999999999999999999999873  24477889988888999999999999 77766553332 4


Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 023952          166 WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  244 (275)
Q Consensus       166 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  244 (275)
                      -..|.-+...|.+.++++.|+-.|++..+.  .| +.+....+...+-+.|+.|+|++++++.....  +.|+..--.-+
T Consensus       489 YnAwYGlG~vy~Kqek~e~Ae~~fqkA~~I--NP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld--~kn~l~~~~~~  564 (638)
T KOG1126|consen  489 YNAWYGLGTVYLKQEKLEFAEFHFQKAVEI--NPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD--PKNPLCKYHRA  564 (638)
T ss_pred             hHHHHhhhhheeccchhhHHHHHHHhhhcC--CccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC--CCCchhHHHHH
Confidence            456666778899999999999999988774  55 45566778888999999999999999998754  44665555567


Q ss_pred             HHHHhcCChHHHHHHHHHHHhcCCCCCCC
Q 023952          245 GAFSDVGLTEKANEFHMLLLQKNCAPTNA  273 (275)
Q Consensus       245 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  273 (275)
                      ..+...+++++|+..++++++  +.|+.+
T Consensus       565 ~il~~~~~~~eal~~LEeLk~--~vP~es  591 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKE--LVPQES  591 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHH--hCcchH
Confidence            888899999999999999986  556543

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

Probab=99.49  E-value=2.6e-10  Score=87.99  Aligned_cols=228  Identities=13%  Similarity=0.028  Sum_probs=165.2

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHH
Q 023952           36 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK  115 (275)
Q Consensus        36 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  115 (275)
                      -.|++.+|+++..+-.+.+-. ....|..-..+--+.|+.+.+-.++.+..+.--.++....-+........|+.+.|..
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~-p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~  174 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQ-PVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAARE  174 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcc-hHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHH
Confidence            359999999999998887633 3556777778888999999999999999986445666677777788899999999999


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcch-------hhHH------------------
Q 023952          116 FLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQW-------ITYD------------------  170 (275)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-------~~~~------------------  170 (275)
                      -..++.+.  -+.+..+.....++|.+.|++..... ++..+.+.+.-.+.       .+|.                  
T Consensus       175 ~v~~ll~~--~pr~~~vlrLa~r~y~~~g~~~~ll~-~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~  251 (400)
T COG3071         175 NVDQLLEM--TPRHPEVLRLALRAYIRLGAWQALLA-ILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTW  251 (400)
T ss_pred             HHHHHHHh--CcCChHHHHHHHHHHHHhccHHHHHH-HHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHH
Confidence            99998874  46778889999999999999999999 87777776553322       2333                  


Q ss_pred             ----------------HHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          171 ----------------FLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       171 ----------------~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                                      +++.-+.++|+.++|.++..+..+.+..|+    -...-.+.+.++.+.-++..+.-.+...  
T Consensus       252 W~~~pr~lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~h~--  325 (400)
T COG3071         252 WKNQPRKLRNDPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQHP--  325 (400)
T ss_pred             HHhccHHhhcChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHhCC--
Confidence                            334445556666666666666555554444    1222334455555555555555555432  


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCCC
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  275 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~ty  275 (275)
                      -+...+.+|...|.+.+.+.+|...|+..++  ..|+.++|
T Consensus       326 ~~p~L~~tLG~L~~k~~~w~kA~~~leaAl~--~~~s~~~~  364 (400)
T COG3071         326 EDPLLLSTLGRLALKNKLWGKASEALEAALK--LRPSASDY  364 (400)
T ss_pred             CChhHHHHHHHHHHHhhHHHHHHHHHHHHHh--cCCChhhH
Confidence            3446688899999999999999999997665  56666553

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

Probab=99.48  E-value=3.4e-12  Score=107.04  Aligned_cols=232  Identities=12%  Similarity=0.106  Sum_probs=157.4

Q ss_pred             CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHH
Q 023952           21 AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  100 (275)
Q Consensus        21 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  100 (275)
                      .|+.+||..+|.-|+..|+.+.|- +|.-|.-+..+.+...++.++.++...++.+.+.           .|.+.||+.|
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            488999999999999999999999 9999988888889999999999999999888776           6788899999


Q ss_pred             HHHHHhhCCHHH---HHHHHHHHhhcC---CC-CCCHHHH-------------HHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952          101 ISSCAATLNIDQ---VKKFLDEMSCDS---GG-SDDWVKY-------------VNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus       101 l~~~~~~~~~~~---a~~~~~~~~~~~---~~-~~~~~~~-------------~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      +.+|...||...   +++.+..+..+.   |+ .|....+             ...+....-.|.++.+++ ++..    
T Consensus        90 l~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllk-ll~~----  164 (1088)
T KOG4318|consen   90 LKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLK-LLAK----  164 (1088)
T ss_pred             HHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHH-HHhh----
Confidence            999999998654   333333333210   11 1111111             122222333344444443 2211    


Q ss_pred             cCCcc-hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHH
Q 023952          161 ITQRQ-WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA  239 (275)
Q Consensus       161 ~~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  239 (275)
                      .|... ..+...+++-+...  ..-.+++....+...-.|++.+|..++..-.-.|+.+.|..++.+|++.|. +.+...
T Consensus       165 ~Pvsa~~~p~~vfLrqnv~~--ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gf-pir~Hy  241 (1088)
T KOG4318|consen  165 VPVSAWNAPFQVFLRQNVVD--NTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGF-PIRAHY  241 (1088)
T ss_pred             CCcccccchHHHHHHHhccC--CchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCC-Cccccc
Confidence            11100 00111123332222  222333333332222268999999999999999999999999999999985 466666


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCCCC
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNASG  275 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~ty  275 (275)
                      |..|+-+   .+...-+..+++-|.+.|+.|++.||
T Consensus       242 FwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~  274 (1088)
T KOG4318|consen  242 FWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQ  274 (1088)
T ss_pred             chhhhhc---CccchHHHHHHHHHHHhcCCCCcchh
Confidence            6666644   78888899999999999999999986

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

Probab=99.47  E-value=1.8e-11  Score=92.10  Aligned_cols=234  Identities=10%  Similarity=-0.067  Sum_probs=195.3

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHh
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  106 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  106 (275)
                      -+.+.++|.+.|-+.+|...|+.-...  .|-+.||-.|-+.|.+..+.+.|+.+|.+-.+. ++-|.....-..+.+-.
T Consensus       226 k~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~-fP~~VT~l~g~ARi~ea  302 (478)
T KOG1129|consen  226 KQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDS-FPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhc-CCchhhhhhhhHHHHHH
Confidence            356789999999999999999987765  377889999999999999999999999998875 33344444567777888


Q ss_pred             hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHH
Q 023952          107 TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKID  186 (275)
Q Consensus       107 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  186 (275)
                      .++.++|.++|+...+.  .+.++.....+...|.-.++.+-|+. .++.+.+-|.. +...|+.+.-+|.-.++++-++
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            99999999999998884  46777777888889999999999999 99999998876 7789999988888999999999


Q ss_pred             HHHHHHHhccCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          187 QIWKSLRMTKQKMTS--RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       187 ~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      --|.+....--.|+.  ..|-.+....+..|++..|.+.|+-...+.  ..+...++.|.-.-.+.|+++.|+.+++...
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            999887765444543  456677777788999999999999888764  4577889999988899999999999999876


Q ss_pred             hcCCCCC
Q 023952          265 QKNCAPT  271 (275)
Q Consensus       265 ~~~~~p~  271 (275)
                      .  +.|+
T Consensus       457 s--~~P~  461 (478)
T KOG1129|consen  457 S--VMPD  461 (478)
T ss_pred             h--hCcc
Confidence            5  4454

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

Probab=99.47  E-value=1.7e-10  Score=97.23  Aligned_cols=117  Identities=11%  Similarity=0.057  Sum_probs=85.5

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|.+++.++....| +...|..|...|-+.|+.+++...+--.-..+ +-|...|..+.....+.|++++|.-.|
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            4999999999999887766 89999999999999999999988876655443 556788888888888888888888888


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      .+.++... ++....---...|-+.|+...|...|.++..
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            88777532 2333333344445556666666555555554

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

Probab=99.46  E-value=5.3e-11  Score=95.49  Aligned_cols=259  Identities=12%  Similarity=-0.027  Sum_probs=200.7

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .+++.+..++++.+.+..| ....+..-|.++...|+..+-..+=..+.+. .|-.+.+|-++..-|...|+.++|.++|
T Consensus       257 ~c~f~~c~kit~~lle~dpfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~  335 (611)
T KOG1173|consen  257 GCRFKECLKITEELLEKDPFHLPCLPLHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEARRYF  335 (611)
T ss_pred             cChHHHHHHHhHHHHhhCCCCcchHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHH
Confidence            4678888888888777654 6767777788888999888777777777776 3567889999999999999999999999


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                      .+....+.. =...|.....+|+-.|..++|...+..+-+-  ++-..--+--+.--|.+.++++.|.+ +|.+.....|
T Consensus       336 SKat~lD~~-fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~LYlgmey~~t~n~kLAe~-Ff~~A~ai~P  411 (611)
T KOG1173|consen  336 SKATTLDPT-FGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSLYLGMEYMRTNNLKLAEK-FFKQALAIAP  411 (611)
T ss_pred             HHHhhcCcc-ccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHHHHHHHHHHhccHHHHHH-HHHHHHhcCC
Confidence            987764322 1357888999999999999999998887662  22222223334556888999999999 8887766554


Q ss_pred             CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc--cCC----CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC
Q 023952          163 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT--KQK----MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD  236 (275)
Q Consensus       163 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~----p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  236 (275)
                      . |+...+-+.-.....+.+.+|..+|+.....  .+.    ....+++.|..+|.+.+.+++|+..+++.....  +.+
T Consensus       412 ~-Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~--~k~  488 (611)
T KOG1173|consen  412 S-DPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLS--PKD  488 (611)
T ss_pred             C-cchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcC--CCc
Confidence            4 7778887777777788999999999876521  011    133457889999999999999999999998854  578


Q ss_pred             HHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 023952          237 ISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  272 (275)
Q Consensus       237 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  272 (275)
                      ..++.++.-.|...|+++.|.+.|.+.+-  +.||.
T Consensus       489 ~~~~asig~iy~llgnld~Aid~fhKaL~--l~p~n  522 (611)
T KOG1173|consen  489 ASTHASIGYIYHLLGNLDKAIDHFHKALA--LKPDN  522 (611)
T ss_pred             hhHHHHHHHHHHHhcChHHHHHHHHHHHh--cCCcc
Confidence            88999999999999999999999998653  66665

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

Probab=99.46  E-value=3.3e-10  Score=81.36  Aligned_cols=202  Identities=12%  Similarity=-0.037  Sum_probs=167.4

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ......|.-.|.+.|+...|..-+++..+.+ |-+..+|..+...|-+.|+.+.|.+.|++..+.... +..+.|.....
T Consensus        35 a~arlqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~-~GdVLNNYG~F  112 (250)
T COG3063          35 AKARLQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPN-NGDVLNNYGAF  112 (250)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCC-ccchhhhhhHH
Confidence            3456777888999999999999999998876 455678999999999999999999999999886443 56778888888


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  183 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  183 (275)
                      +|..|++++|...|++......+..-..+|..+.-+..+.|+.+.|.. .+++.....+. ...+.-.+.......|++-
T Consensus       113 LC~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~-~l~raL~~dp~-~~~~~l~~a~~~~~~~~y~  190 (250)
T COG3063         113 LCAQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEE-YLKRALELDPQ-FPPALLELARLHYKAGDYA  190 (250)
T ss_pred             HHhCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHH-HHHHHHHhCcC-CChHHHHHHHHHHhcccch
Confidence            999999999999999988875666666788888888889999999999 88888776665 3455667777888899999


Q ss_pred             HHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          184 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      .|..+++.....+. ++.......|..-.+.|+-+.+.++=..+...
T Consensus       191 ~Ar~~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~  236 (250)
T COG3063         191 PARLYLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL  236 (250)
T ss_pred             HHHHHHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            99999998877764 88888888888888999999888877777664

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.46  E-value=1.4e-10  Score=94.83  Aligned_cols=240  Identities=18%  Similarity=0.183  Sum_probs=176.4

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-----C-CCCCHH-HHHHHHHHhhccCCHHHHHHHHHHHhhC-----CC-
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQS-----N-LSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRK-----NV-   90 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~-~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~-   90 (275)
                      ..+...|...|...|+++.|..+++...+.     | ..|... ..+.+...|...+++++|..+|+++..-     |- 
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            445566899999999999999999987654     2 123333 3345777899999999999999998752     21 


Q ss_pred             CCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc----CC-CCCCHH-HHHHHHHHHHhcCchHHHHHHHHHHHHHcc--
Q 023952           91 VPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCD----SG-GSDDWV-KYVNLVNIYITASHLVNAESSTLVEAEKSI--  161 (275)
Q Consensus        91 ~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~----~~-~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--  161 (275)
                      .|. ..+++.|...|.+.|++++|...++.+.+-    .+ ..|.+. .++.+...++..+++++|.. +++...+..  
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            111 356778888899999999999888875441    11 122322 36677888899999999999 776554421  


Q ss_pred             -CCcc----hhhHHHHHHHHHccCCHHHHHHHHHHHHhcc----CC--C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          162 -TQRQ----WITYDFLIILYAGLGNKDKIDQIWKSLRMTK----QK--M-TSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       162 -~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                       +.++    ..+++.|...|...|++++|.+++++.....    -.  + ....++.+...|.+.+++++|.++|.+...
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             2222    3678899999999999999999999875431    11  1 134577889999999999999999887643


Q ss_pred             ----cCCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          230 ----SATSDFD-ISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       230 ----~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                          -|...|+ ..+|..|..+|...|+++.|.++.+...
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 4679999999999999999999988875

>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=99.45  E-value=5.2e-10  Score=92.54  Aligned_cols=255  Identities=12%  Similarity=0.021  Sum_probs=171.2

Q ss_pred             ccccChhhHHHHhhccccCCCCHhH-HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc-----cCCH
Q 023952            2 TKVFGIHSGERYFEGLPLSAKTSET-YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS-----VGQV   75 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-----~g~~   75 (275)
                      ...|++++|++.++.-...-+|..+ .......+.+.|+.++|..++..+.+++ |.|..-|..+..+..-     ..+.
T Consensus        15 ~e~g~~~~AL~~L~~~~~~I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN-Pdn~~Yy~~L~~~~g~~~~~~~~~~   93 (517)
T PF12569_consen   15 EEAGDYEEALEHLEKNEKQILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN-PDNYDYYRGLEEALGLQLQLSDEDV   93 (517)
T ss_pred             HHCCCHHHHHHHHHhhhhhCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHhhhcccccccH
Confidence            4579999999999886665566554 4555788999999999999999999987 3344444555555421     2245


Q ss_pred             HHHHHHHHHHhh----------------------------------CCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHh
Q 023952           76 EKVALVVEEIKR----------------------------------KNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS  121 (275)
Q Consensus        76 ~~a~~~~~~m~~----------------------------------~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  121 (275)
                      +...++|+++.+                                  +|++   .+|+.+-..|....+.+-..+++....
T Consensus        94 ~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvP---slF~~lk~Ly~d~~K~~~i~~l~~~~~  170 (517)
T PF12569_consen   94 EKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVP---SLFSNLKPLYKDPEKAAIIESLVEEYV  170 (517)
T ss_pred             HHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCc---hHHHHHHHHHcChhHHHHHHHHHHHHH
Confidence            666677776543                                  3322   344444444444444444445555443


Q ss_pred             hc----C---------CCCCCH--HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHH
Q 023952          122 CD----S---------GGSDDW--VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKID  186 (275)
Q Consensus       122 ~~----~---------~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  186 (275)
                      ..    +         .-+|+.  .++.-+...|...|++++|++ .++......|. .+..|..-...+-+.|++.+|.
T Consensus       171 ~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~-~Id~aI~htPt-~~ely~~KarilKh~G~~~~Aa  248 (517)
T PF12569_consen  171 NSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALE-YIDKAIEHTPT-LVELYMTKARILKHAGDLKEAA  248 (517)
T ss_pred             HhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHhcCCC-cHHHHHHHHHHHHHCCCHHHHH
Confidence            21    0         113333  345667778888999999999 88877776644 4667777778888999999999


Q ss_pred             HHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--CHH----HH--HHHHHHHHhcCChHHHHH
Q 023952          187 QIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--DIS----AC--NRLLGAFSDVGLTEKANE  258 (275)
Q Consensus       187 ~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~----~~--~~li~~~~~~g~~~~a~~  258 (275)
                      +.++..+... .-|...-+-.+..+.|.|++++|.+++..+.+.+. .|  |..    .|  .....+|.+.|++..|++
T Consensus       249 ~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~-~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk  326 (517)
T PF12569_consen  249 EAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV-DPLSNLNDMQCMWFETECAEAYLRQGDYGLALK  326 (517)
T ss_pred             HHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC-CcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHH
Confidence            9998887764 23555556677888899999999999988876553 22  221    22  344678888899888887


Q ss_pred             HHHHHH
Q 023952          259 FHMLLL  264 (275)
Q Consensus       259 ~~~~m~  264 (275)
                      -|..+.
T Consensus       327 ~~~~v~  332 (517)
T PF12569_consen  327 RFHAVL  332 (517)
T ss_pred             HHHHHH
Confidence            776654

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 [], [].

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

Probab=99.45  E-value=5.2e-11  Score=93.56  Aligned_cols=206  Identities=11%  Similarity=0.100  Sum_probs=154.2

Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHH
Q 023952           37 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF  116 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  116 (275)
                      +|++++|.+.+.+....+-.-....||+= -.+-..|++++|++.|-.+-.- +.-+..+...+.+.|-...+..+|+++
T Consensus       503 ngd~dka~~~ykeal~ndasc~ealfnig-lt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~  580 (840)
T KOG2003|consen  503 NGDLDKAAEFYKEALNNDASCTEALFNIG-LTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIEL  580 (840)
T ss_pred             cCcHHHHHHHHHHHHcCchHHHHHHHHhc-ccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHH
Confidence            46777777777777665421122223322 2356678888888888666442 223556677778888888899999999


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc
Q 023952          117 LDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  196 (275)
                      +.+...  .+|.|+.+...|...|-+.|+-..|.+ ......+..+. |..+...|...|....-+++++.+|++..-  
T Consensus       581 ~~q~~s--lip~dp~ilskl~dlydqegdksqafq-~~ydsyryfp~-nie~iewl~ayyidtqf~ekai~y~ekaal--  654 (840)
T KOG2003|consen  581 LMQANS--LIPNDPAILSKLADLYDQEGDKSQAFQ-CHYDSYRYFPC-NIETIEWLAAYYIDTQFSEKAINYFEKAAL--  654 (840)
T ss_pred             HHHhcc--cCCCCHHHHHHHHHHhhcccchhhhhh-hhhhcccccCc-chHHHHHHHHHHHhhHHHHHHHHHHHHHHh--
Confidence            888776  678888999999999999999999988 55555554443 777777888888888889999999987654  


Q ss_pred             CCCChhhHHHHHHHH-HhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCC
Q 023952          197 QKMTSRNYICILSSY-LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGL  252 (275)
Q Consensus       197 ~~p~~~~~~~li~~~-~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  252 (275)
                      +.|+..-|..+|..| .+.|++..|.++++....+.  +.|..+...|+..+...|-
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            688998998887766 57899999999999988754  5788888888888887774

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.43  E-value=5.4e-10  Score=87.31  Aligned_cols=223  Identities=11%  Similarity=0.032  Sum_probs=137.9

Q ss_pred             cChhhHHHHhhccccCC---C--CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHH
Q 023952            5 FGIHSGERYFEGLPLSA---K--TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~---~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      +..+.++.-+.++....   |  ....|..+...|...|+.++|...|++..+.. +.++..|+.+...+...|++++|+
T Consensus        40 ~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~A~  118 (296)
T PRK11189         40 LQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDAAY  118 (296)
T ss_pred             hHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHHHH
Confidence            44455666666555432   2  24567777778888888888888888877764 456778888888888888888888


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      +.|++..+.... +..+|..+..++...|++++|.+.|+...+.   .|+..........+...++.++|.. .+.....
T Consensus       119 ~~~~~Al~l~P~-~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~-~l~~~~~  193 (296)
T PRK11189        119 EAFDSVLELDPT-YNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKE-NLKQRYE  193 (296)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHH-HHHHHHh
Confidence            888888874322 3566777777788888888888888887764   2332222222223345667888888 6655443


Q ss_pred             ccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc-----CCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC
Q 023952          160 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK-----QKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS  233 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-----~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~  233 (275)
                      ... ++...+ .+.  ....|+...+ +.+..+.+.-     ..| ....|..+...+...|++++|...|++..+..  
T Consensus       194 ~~~-~~~~~~-~~~--~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~--  266 (296)
T PRK11189        194 KLD-KEQWGW-NIV--EFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN--  266 (296)
T ss_pred             hCC-ccccHH-HHH--HHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC--
Confidence            322 222222 222  2334554443 2444433210     011 23467778888888888888888888887754  


Q ss_pred             CCCHHHH
Q 023952          234 DFDISAC  240 (275)
Q Consensus       234 ~~~~~~~  240 (275)
                      ++|..-+
T Consensus       267 ~~~~~e~  273 (296)
T PRK11189        267 VYNFVEH  273 (296)
T ss_pred             CchHHHH
Confidence            3454433

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

Probab=99.41  E-value=7.7e-10  Score=90.61  Aligned_cols=252  Identities=13%  Similarity=0.073  Sum_probs=186.6

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++..|+.++.+.-+..| +...|-.-+.....+.++++|..+|.+....  .|+...|.--+..---.++.++|++++
T Consensus       597 agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~rll  674 (913)
T KOG0495|consen  597 AGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALRLL  674 (913)
T ss_pred             cCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHHHH
Confidence            4778888888887776655 6777888888888888888888888877664  467777777666666778888888888


Q ss_pred             HHHhhCCCCCch-hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           83 EEIKRKNVVPDI-FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        83 ~~m~~~~~~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      ++..+.  -|+- ..|..+...+-+.++++.|...|..-.+  .+|.....|..|...--+.|.+-.|.. +++......
T Consensus       675 Ee~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k--~cP~~ipLWllLakleEk~~~~~rAR~-ildrarlkN  749 (913)
T KOG0495|consen  675 EEALKS--FPDFHKLWLMLGQIEEQMENIEMAREAYLQGTK--KCPNSIPLWLLLAKLEEKDGQLVRARS-ILDRARLKN  749 (913)
T ss_pred             HHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHHHHHhccc--cCCCCchHHHHHHHHHHHhcchhhHHH-HHHHHHhcC
Confidence            887774  3443 3556666667777888888887777555  456666777777777777888888888 888777777


Q ss_pred             CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc-----------------------------cCCCChhhHHHHHHHHH
Q 023952          162 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT-----------------------------KQKMTSRNYICILSSYL  212 (275)
Q Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----------------------------~~~p~~~~~~~li~~~~  212 (275)
                      +. |...|-..|+.-.+.|+.+.|..+..+..+.                             .+.-|++....+...+.
T Consensus       750 Pk-~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~le~~~~rkTks~DALkkce~dphVllaia~lfw  828 (913)
T KOG0495|consen  750 PK-NALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIWLEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFW  828 (913)
T ss_pred             CC-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHHhccCcccchHHHHHHHhccCCchhHHHHHHHHH
Confidence            65 7788888888888889988888777665432                             12334445556667777


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          213 MLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ...+++.|.+.|.+..+.+  +-+..+|..+...+..+|.-+.-.+++.....
T Consensus       829 ~e~k~~kar~Wf~Ravk~d--~d~GD~wa~fykfel~hG~eed~kev~~~c~~  879 (913)
T KOG0495|consen  829 SEKKIEKAREWFERAVKKD--PDNGDAWAWFYKFELRHGTEEDQKEVLKKCET  879 (913)
T ss_pred             HHHHHHHHHHHHHHHHccC--CccchHHHHHHHHHHHhCCHHHHHHHHHHHhc
Confidence            7788888999998888765  34556677788888888888877888877654

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

Probab=99.40  E-value=1.6e-10  Score=90.85  Aligned_cols=254  Identities=13%  Similarity=0.039  Sum_probs=181.1

Q ss_pred             ccccChhhHHHHhhccccCC-C--CHhHHHHHHHHHHc-CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSA-K--TSETYTALLHLYAG-AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   77 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~-~--~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~   77 (275)
                      -|.|+++.|++++.-+.... +  +...-|.-+--|.+ -.++..|.+.-+.....+ .-++.....--.....+|++++
T Consensus       430 lk~~d~~~aieilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~d-ryn~~a~~nkgn~~f~ngd~dk  508 (840)
T KOG2003|consen  430 LKNGDIEGAIEILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNID-RYNAAALTNKGNIAFANGDLDK  508 (840)
T ss_pred             HhccCHHHHHHHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhccc-ccCHHHhhcCCceeeecCcHHH
Confidence            46788888888887766542 1  22222222222233 345777777666554432 1223332222233456799999


Q ss_pred             HHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952           78 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus        78 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      |.+.|++....+-.-....|+ +.-.+-..|++++|+.+|-++..  ....+..+...+.+.|-...+...|++ ++-+.
T Consensus       509 a~~~ykeal~ndasc~ealfn-iglt~e~~~~ldeald~f~klh~--il~nn~evl~qianiye~led~aqaie-~~~q~  584 (840)
T KOG2003|consen  509 AAEFYKEALNNDASCTEALFN-IGLTAEALGNLDEALDCFLKLHA--ILLNNAEVLVQIANIYELLEDPAQAIE-LLMQA  584 (840)
T ss_pred             HHHHHHHHHcCchHHHHHHHH-hcccHHHhcCHHHHHHHHHHHHH--HHHhhHHHHHHHHHHHHHhhCHHHHHH-HHHHh
Confidence            999999998764322222333 33336778999999999988775  456778888899999999999999999 66555


Q ss_pred             HHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCH
Q 023952          158 EKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDI  237 (275)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  237 (275)
                      ... ++.|+...+.|...|-+.|+...|.+.+-.--+ -++-+..+...|...|....-+++++.+|++..-   .+|+.
T Consensus       585 ~sl-ip~dp~ilskl~dlydqegdksqafq~~ydsyr-yfp~nie~iewl~ayyidtqf~ekai~y~ekaal---iqp~~  659 (840)
T KOG2003|consen  585 NSL-IPNDPAILSKLADLYDQEGDKSQAFQCHYDSYR-YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAAL---IQPNQ  659 (840)
T ss_pred             ccc-CCCCHHHHHHHHHHhhcccchhhhhhhhhhccc-ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHh---cCccH
Confidence            443 344788999999999999999999987654322 2455778888999999999999999999998754   47999


Q ss_pred             HHHHHHHHHHH-hcCChHHHHHHHHHHHh
Q 023952          238 SACNRLLGAFS-DVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       238 ~~~~~li~~~~-~~g~~~~a~~~~~~m~~  265 (275)
                      .-|..++..|. +.|++++|.++++....
T Consensus       660 ~kwqlmiasc~rrsgnyqka~d~yk~~hr  688 (840)
T KOG2003|consen  660 SKWQLMIASCFRRSGNYQKAFDLYKDIHR  688 (840)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            99999987665 68999999999998765

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.35  E-value=4.4e-09  Score=82.20  Aligned_cols=220  Identities=15%  Similarity=0.026  Sum_probs=158.2

Q ss_pred             CCCHHHHHHHHHHHHhCC-CCC--CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHH
Q 023952           37 AKWTEKAEELFERVKQSN-LSF--NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQV  113 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~~~-~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  113 (275)
                      .+..+.++.-+.++.... ..|  ....|..+...+.+.|+.++|...|++..+.... +...|+.+...+...|++++|
T Consensus        39 ~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~-~~~a~~~lg~~~~~~g~~~~A  117 (296)
T PRK11189         39 TLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPD-MADAYNYLGIYLTQAGNFDAA  117 (296)
T ss_pred             chHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHCCCHHHH
Confidence            456677888888887542 222  2456888888899999999999999999996543 578899999999999999999


Q ss_pred             HHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023952          114 KKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLR  193 (275)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  193 (275)
                      ...|++..+.  .+.+..++..+..++...|++++|.+ .++......+. +. ........+...+++++|...|.+..
T Consensus       118 ~~~~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~-~~~~al~~~P~-~~-~~~~~~~l~~~~~~~~~A~~~l~~~~  192 (296)
T PRK11189        118 YEAFDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQD-DLLAFYQDDPN-DP-YRALWLYLAESKLDPKQAKENLKQRY  192 (296)
T ss_pred             HHHHHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHHhCCC-CH-HHHHHHHHHHccCCHHHHHHHHHHHH
Confidence            9999999874  35567788889999999999999999 88888776654 22 11111222345778999999997655


Q ss_pred             hccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-----CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          194 MTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS-----DFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       194 ~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                      .. ..|+... ..  ......|+...+ +.+..+.+....     +.....|..+...+.+.|++++|...|++..+.+
T Consensus       193 ~~-~~~~~~~-~~--~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~  266 (296)
T PRK11189        193 EK-LDKEQWG-WN--IVEFYLGKISEE-TLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANN  266 (296)
T ss_pred             hh-CCccccH-HH--HHHHHccCCCHH-HHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC
Confidence            33 2333322 12  333345666554 355555432111     1234578889999999999999999999998754

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

Probab=99.35  E-value=4.9e-10  Score=95.28  Aligned_cols=256  Identities=13%  Similarity=0.104  Sum_probs=196.3

Q ss_pred             ccChhhHHHHhhccccC-----CCCH------hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhc
Q 023952            4 VFGIHSGERYFEGLPLS-----AKTS------ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-ALMYNEMMTLYMS   71 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~-----~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~   71 (275)
                      .|++.+|...|+.....     .++.      .+-..+..++-..++++.|.+.+..+.+..  |+ +..|--+......
T Consensus       465 ~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilkeh--p~YId~ylRl~~ma~~  542 (1018)
T KOG2002|consen  465 LGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILKEH--PGYIDAYLRLGCMARD  542 (1018)
T ss_pred             hcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHHC--chhHHHHHHhhHHHHh
Confidence            57888899988876554     1222      223345566667789999999999998864  44 3345555544455


Q ss_pred             cCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh---------
Q 023952           72 VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT---------  142 (275)
Q Consensus        72 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---------  142 (275)
                      .+...+|...+++....+ ..++..++.+...+.+..++..|.+-|..+.+.....+|..+.-+|.+.|.+         
T Consensus       543 k~~~~ea~~~lk~~l~~d-~~np~arsl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~  621 (1018)
T KOG2002|consen  543 KNNLYEASLLLKDALNID-SSNPNARSLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNP  621 (1018)
T ss_pred             ccCcHHHHHHHHHHHhcc-cCCcHHHHHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccCh
Confidence            678899999999988763 3356667777778888889999999777766643334666666667665553         


Q ss_pred             ---cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHH
Q 023952          143 ---ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE  219 (275)
Q Consensus       143 ---~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~  219 (275)
                         .+..++|++ +|.++.+..|. |...-|-+.-.++..|++.+|..+|.++.+... -...+|..+.++|...|++-.
T Consensus       622 ek~kk~~~KAlq-~y~kvL~~dpk-N~yAANGIgiVLA~kg~~~~A~dIFsqVrEa~~-~~~dv~lNlah~~~e~~qy~~  698 (1018)
T KOG2002|consen  622 EKEKKHQEKALQ-LYGKVLRNDPK-NMYAANGIGIVLAEKGRFSEARDIFSQVREATS-DFEDVWLNLAHCYVEQGQYRL  698 (1018)
T ss_pred             HHHHHHHHHHHH-HHHHHHhcCcc-hhhhccchhhhhhhccCchHHHHHHHHHHHHHh-hCCceeeeHHHHHHHHHHHHH
Confidence               456788888 88888877765 777778888888999999999999999998753 345578889999999999999


Q ss_pred             HHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          220 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       220 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      |+++|+...+......+......|..++...|.+.+|.+.+.....
T Consensus       699 AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a~~  744 (1018)
T KOG2002|consen  699 AIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKARH  744 (1018)
T ss_pred             HHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            9999999988776666788888899999999999999998877654

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

Probab=99.34  E-value=2.3e-10  Score=90.55  Aligned_cols=219  Identities=12%  Similarity=0.061  Sum_probs=142.9

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      +|+.-.|.+-|+......| +...|..+...|+...+.++.+..|+...+.+ +-|+.+|..-...+.-.+++++|..=|
T Consensus       339 ~g~~~~a~~d~~~~I~l~~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF  417 (606)
T KOG0547|consen  339 KGDSLGAQEDFDAAIKLDPAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADF  417 (606)
T ss_pred             cCCchhhhhhHHHHHhcCcccchHHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHH
Confidence            3566666666766666554 33337777777888888888888887777665 456666766666667777778888878


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                      ++.++.... ++..|.-+.-+..+.++++++...|++.++  .+|..+.+|+.....+...+++++|.+ .++.....-+
T Consensus       418 ~Kai~L~pe-~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k-~YD~ai~LE~  493 (606)
T KOG0547|consen  418 QKAISLDPE-NAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVK-QYDKAIELEP  493 (606)
T ss_pred             HHHhhcChh-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHH-HHHHHHhhcc
Confidence            777774322 445566666666677778888888888777  456777777777777888888888877 6766554333


Q ss_pred             Ccc-----hhhH--HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          163 QRQ-----WITY--DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       163 ~~~-----~~~~--~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      ..+     +.++  -.++ .+.-.+++..|.+++++..+... -....|..|...-.+.|++++|+++|++-..
T Consensus       494 ~~~~~~v~~~plV~Ka~l-~~qwk~d~~~a~~Ll~KA~e~Dp-kce~A~~tlaq~~lQ~~~i~eAielFEksa~  565 (606)
T KOG0547|consen  494 REHLIIVNAAPLVHKALL-VLQWKEDINQAENLLRKAIELDP-KCEQAYETLAQFELQRGKIDEAIELFEKSAQ  565 (606)
T ss_pred             ccccccccchhhhhhhHh-hhchhhhHHHHHHHHHHHHccCc-hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            211     1111  1111 12234777777777777665421 1334577777777788888888888876543

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

Probab=99.33  E-value=5.4e-09  Score=84.25  Aligned_cols=259  Identities=10%  Similarity=-0.040  Sum_probs=147.0

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHH---HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTA---LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~---li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      .|++++|.+++++.....| +...+..   ........+..+.+.+.++. .....+........+...+...|++++|+
T Consensus        56 ~g~~~~A~~~~~~~l~~~P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~~~~~~a~~~~~~G~~~~A~  134 (355)
T cd05804          56 AGDLPKALALLEQLLDDYPRDLLALKLHLGAFGLGDFSGMRDHVARVLPL-WAPENPDYWYLLGMLAFGLEEAGQYDRAE  134 (355)
T ss_pred             cCCHHHHHHHHHHHHHHCCCcHHHHHHhHHHHHhcccccCchhHHHHHhc-cCcCCCCcHHHHHHHHHHHHHcCCHHHHH
Confidence            5778888888887666555 4444442   11122224445555555544 11122223344556666778888888888


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH--HHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW--VKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      +.+++..+.... +...+..+...+...|++++|...+++........++.  ..|..+...+...|++++|.. .++..
T Consensus       135 ~~~~~al~~~p~-~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~-~~~~~  212 (355)
T cd05804         135 EAARRALELNPD-DAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALA-IYDTH  212 (355)
T ss_pred             HHHHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHH-HHHHH
Confidence            888888886432 45667777778888888888888888877631112232  234567778888888888888 77776


Q ss_pred             HHccC-CcchhhH-H--HHHHHHHccCCHHHHHHHHHHHHhcc--CCCC---hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          158 EKSIT-QRQWITY-D--FLIILYAGLGNKDKIDQIWKSLRMTK--QKMT---SRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       158 ~~~~~-~~~~~~~-~--~l~~~~~~~~~~~~a~~~~~~m~~~~--~~p~---~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                      ....+ .+..... +  .++.-+...|....+.+. +.+....  ..|.   .........++...|+.+.|...+..+.
T Consensus       213 ~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w-~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~  291 (355)
T cd05804         213 IAPSAESDPALDLLDAASLLWRLELAGHVDVGDRW-EDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALK  291 (355)
T ss_pred             hccccCCChHHHHhhHHHHHHHHHhcCCCChHHHH-HHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence            43332 1111111 1  222233334433322222 2221110  0011   1112246667778888888988888876


Q ss_pred             hcCCC-------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          229 QSATS-------DFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       229 ~~~~~-------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      .....       ...+........++...|+.++|...+.+....
T Consensus       292 ~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~  336 (355)
T cd05804         292 GRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDD  336 (355)
T ss_pred             HHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            53211       011222223334556788889998888877654

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.

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

Probab=99.31  E-value=1.7e-10  Score=87.02  Aligned_cols=196  Identities=12%  Similarity=-0.010  Sum_probs=167.6

Q ss_pred             HHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 023952           63 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  142 (275)
Q Consensus        63 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  142 (275)
                      +.|.++|.+.|.+.+|.+.|+.-.+.  .|-+.||..|-+.|.+..++..|+.++.+-..  .+|-++....-+.+.+-.
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--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLD--SFPFDVTYLLGQARIHEA  302 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhh--cCCchhhhhhhhHHHHHH
Confidence            67889999999999999999988875  56778999999999999999999999999887  456666666788899999


Q ss_pred             cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHH
Q 023952          143 ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGE  222 (275)
Q Consensus       143 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~  222 (275)
                      .++.++|.+ +++...+..+. ++....++...|.-.++++-|..+++++.+.|+. ++..|+.+.-+|.-.+++|-++-
T Consensus       303 m~~~~~a~~-lYk~vlk~~~~-nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~  379 (478)
T KOG1129|consen  303 MEQQEDALQ-LYKLVLKLHPI-NVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLP  379 (478)
T ss_pred             HHhHHHHHH-HHHHHHhcCCc-cceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHH
Confidence            999999999 88888776654 7777777778888999999999999999999964 78899999999999999999999


Q ss_pred             HHHHHHhcCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          223 IIDQWKQSATSDFD--ISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       223 ~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      .|.+....-. .|+  ...|-.+-......|++..|.+.|+-.+.+
T Consensus       380 sf~RAlstat-~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~  424 (478)
T KOG1129|consen  380 SFQRALSTAT-QPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTS  424 (478)
T ss_pred             HHHHHHhhcc-CcchhhhhhhccceeEEeccchHHHHHHHHHHhcc
Confidence            9999876532 233  456877888888999999999999877654

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.30  E-value=6.8e-10  Score=90.98  Aligned_cols=226  Identities=14%  Similarity=0.151  Sum_probs=163.9

Q ss_pred             ccccChhhHHHHhhccccC--------CCCHhH-HHHHHHHHHcCCCHHHHHHHHHHHHhC-----C--CCCCHHHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLS--------AKTSET-YTALLHLYAGAKWTEKAEELFERVKQS-----N--LSFNALMYNEM   65 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~--------~~~~~~-~~~li~~~~~~g~~~~a~~~~~~m~~~-----~--~~~~~~~~~~l   65 (275)
                      ...|+++.|+.+|++..+.        .|...+ .+.+...|...+++++|..+|+++...     |  .+.-+.+++.|
T Consensus       210 ~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h~~va~~l~nL  289 (508)
T KOG1840|consen  210 AVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDHPAVAATLNNL  289 (508)
T ss_pred             HHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHH
Confidence            3568999999999886554        243333 344777899999999999999987642     2  11224567888


Q ss_pred             HHHhhccCCHHHHHHHHHHHhhC-----CC-CCch-hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCC--CCCC----HHH
Q 023952           66 MTLYMSVGQVEKVALVVEEIKRK-----NV-VPDI-FTYNLWISSCAATLNIDQVKKFLDEMSCDSG--GSDD----WVK  132 (275)
Q Consensus        66 i~~~~~~g~~~~a~~~~~~m~~~-----~~-~p~~-~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~----~~~  132 (275)
                      ...|.+.|++++|...++...+-     |. .|.. .-++.+...++..+++++|..+++...+...  ..++    ..+
T Consensus       290 a~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~  369 (508)
T KOG1840|consen  290 AVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKI  369 (508)
T ss_pred             HHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhhccccchHHHHH
Confidence            88999999999998888876541     21 2222 2456677778999999999999987654211  1222    356


Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHcc----CC--c-chhhHHHHHHHHHccCCHHHHHHHHHHHH----hccCC-CC
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSI----TQ--R-QWITYDFLIILYAGLGNKDKIDQIWKSLR----MTKQK-MT  200 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~----~~~~~-p~  200 (275)
                      ++.|...|...|++++|.+ +++.+....    ..  + ....++.+...|.+.+++++|.++|.+-.    ..|.. |+
T Consensus       370 ~~nl~~l~~~~gk~~ea~~-~~k~ai~~~~~~~~~~~~~~~~~l~~la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~  448 (508)
T KOG1840|consen  370 YANLAELYLKMGKYKEAEE-LYKKAIQILRELLGKKDYGVGKPLNQLAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPD  448 (508)
T ss_pred             HHHHHHHHHHhcchhHHHH-HHHHHHHHHHhcccCcChhhhHHHHHHHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCc
Confidence            8899999999999999999 888776532    11  1 23456778889999999999999998743    32321 22


Q ss_pred             -hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          201 -SRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       201 -~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                       ..+|..|...|.+.|+++.|.++.+.+.
T Consensus       449 ~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  449 VTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             hHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence             2558889999999999999999988876

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

Probab=99.29  E-value=5.3e-09  Score=81.41  Aligned_cols=194  Identities=11%  Similarity=-0.006  Sum_probs=141.1

Q ss_pred             HHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 023952           62 YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  141 (275)
Q Consensus        62 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  141 (275)
                      |-.-.......++++.|+.+-++.++.+.. +...+..-...+...++.++|.-.|+....  --|-+...|..|+.+|.
T Consensus       303 wfV~~~~l~~~K~~~rAL~~~eK~I~~~~r-~~~alilKG~lL~~~~R~~~A~IaFR~Aq~--Lap~rL~~Y~GL~hsYL  379 (564)
T KOG1174|consen  303 WFVHAQLLYDEKKFERALNFVEKCIDSEPR-NHEALILKGRLLIALERHTQAVIAFRTAQM--LAPYRLEIYRGLFHSYL  379 (564)
T ss_pred             hhhhhhhhhhhhhHHHHHHHHHHHhccCcc-cchHHHhccHHHHhccchHHHHHHHHHHHh--cchhhHHHHHHHHHHHH
Confidence            333333444556677777777776664322 344554445567788899999999998886  34677889999999999


Q ss_pred             hcCchHHHHHHHHHHHHHccCCcchhhHHHHH-HHHH-ccCCHHHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHH
Q 023952          142 TASHLVNAESSTLVEAEKSITQRQWITYDFLI-ILYA-GLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLK  218 (275)
Q Consensus       142 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~  218 (275)
                      ..|++.+|.- +-++..+..+. +..+.+.+. ..+. ...--++|..++++-..  +.|+- ...+.+...|...|..+
T Consensus       380 A~~~~kEA~~-~An~~~~~~~~-sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~--~~P~Y~~AV~~~AEL~~~Eg~~~  455 (564)
T KOG1174|consen  380 AQKRFKEANA-LANWTIRLFQN-SARSLTLFGTLVLFPDPRMREKAKKFAEKSLK--INPIYTPAVNLIAELCQVEGPTK  455 (564)
T ss_pred             hhchHHHHHH-HHHHHHHHhhc-chhhhhhhcceeeccCchhHHHHHHHHHhhhc--cCCccHHHHHHHHHHHHhhCccc
Confidence            9999999988 66666665543 556665553 2222 23345788888886554  45553 34667788899999999


Q ss_pred             HHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          219 EVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       219 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +++.+++.....   .||....+.|.+.+...+.+++|.+.|...+.
T Consensus       456 D~i~LLe~~L~~---~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr  499 (564)
T KOG1174|consen  456 DIIKLLEKHLII---FPDVNLHNHLGDIMRAQNEPQKAMEYYYKALR  499 (564)
T ss_pred             hHHHHHHHHHhh---ccccHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            999999999874   48999999999999999999999999987764

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

Probab=99.28  E-value=1.9e-08  Score=82.76  Aligned_cols=254  Identities=12%  Similarity=0.045  Sum_probs=183.6

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      |..++-..+|++.....| ....|-.....+...|++..|..++....+.. +-+...|-+-+..-..+.++++|..+|.
T Consensus       564 gt~Esl~Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~-pnseeiwlaavKle~en~e~eraR~lla  642 (913)
T KOG0495|consen  564 GTRESLEALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEAN-PNSEEIWLAAVKLEFENDELERARDLLA  642 (913)
T ss_pred             CcHHHHHHHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhC-CCcHHHHHHHHHHhhccccHHHHHHHHH
Confidence            556666777777666555 56667777778888888888888888887764 3466788888888888888888888888


Q ss_pred             HHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952           84 EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus        84 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      +...  ..|+...|.--+..---.+..++|.+++++..+.  ++.-.-.|..+-+.+-+.++++.|.+ .|..-.+..+ 
T Consensus       643 kar~--~sgTeRv~mKs~~~er~ld~~eeA~rllEe~lk~--fp~f~Kl~lmlGQi~e~~~~ie~aR~-aY~~G~k~cP-  716 (913)
T KOG0495|consen  643 KARS--ISGTERVWMKSANLERYLDNVEEALRLLEEALKS--FPDFHKLWLMLGQIEEQMENIEMARE-AYLQGTKKCP-  716 (913)
T ss_pred             HHhc--cCCcchhhHHHhHHHHHhhhHHHHHHHHHHHHHh--CCchHHHHHHHhHHHHHHHHHHHHHH-HHHhccccCC-
Confidence            8877  4567777776666666677888888888888873  45556667777788888888888888 5554333332 


Q ss_pred             cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----------
Q 023952          164 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS----------  233 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----------  233 (275)
                      -.+..|-.|...--+.|.+-+|..++++-+-.+ +-+...|...|.+-.+.|+.+.|..++.+..+....          
T Consensus       717 ~~ipLWllLakleEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQecp~sg~LWaEaI~  795 (913)
T KOG0495|consen  717 NSIPLWLLLAKLEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQECPSSGLLWAEAIW  795 (913)
T ss_pred             CCchHHHHHHHHHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccchhHHHHHH
Confidence            256677777777777888889999998876654 336677888899999999999988887776654210          


Q ss_pred             ------------------CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          234 ------------------DFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       234 ------------------~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                                        ..|....-.+...|....++++|++.|.+..+.
T Consensus       796 le~~~~rkTks~DALkkce~dphVllaia~lfw~e~k~~kar~Wf~Ravk~  846 (913)
T KOG0495|consen  796 LEPRPQRKTKSIDALKKCEHDPHVLLAIAKLFWSEKKIEKAREWFERAVKK  846 (913)
T ss_pred             hccCcccchHHHHHHHhccCCchhHHHHHHHHHHHHHHHHHHHHHHHHHcc
Confidence                              223334445555666666777888888776653

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

Probab=99.27  E-value=5.5e-09  Score=82.94  Aligned_cols=224  Identities=11%  Similarity=-0.013  Sum_probs=179.0

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  109 (275)
                      ....+.-.|+.-.|..-|+....... .+...|--+...|....+.++..+.|+...+.+.. |+.+|..-.....-.++
T Consensus       332 ~gtF~fL~g~~~~a~~d~~~~I~l~~-~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~-n~dvYyHRgQm~flL~q  409 (606)
T KOG0547|consen  332 RGTFHFLKGDSLGAQEDFDAAIKLDP-AFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPE-NPDVYYHRGQMRFLLQQ  409 (606)
T ss_pred             hhhhhhhcCCchhhhhhHHHHHhcCc-ccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCC-CCchhHhHHHHHHHHHH
Confidence            33445567889999999999888753 23334778888899999999999999999987654 67788888888888899


Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHH
Q 023952          110 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIW  189 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  189 (275)
                      +++|..=|++.+.-  -|.+...|-.+..+..+.+++++++. .|++..+..|. .+..|+.....+...+++++|.+.|
T Consensus       410 ~e~A~aDF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~-~Fee~kkkFP~-~~Evy~~fAeiLtDqqqFd~A~k~Y  485 (606)
T KOG0547|consen  410 YEEAIADFQKAISL--DPENAYAYIQLCCALYRQHKIAESMK-TFEEAKKKFPN-CPEVYNLFAEILTDQQQFDKAVKQY  485 (606)
T ss_pred             HHHHHHHHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhCCC-CchHHHHHHHHHhhHHhHHHHHHHH
Confidence            99999999999873  45666777777777888999999999 99999988875 6788999999999999999999999


Q ss_pred             HHHHhccCCCC-------hh--hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          190 KSLRMTKQKMT-------SR--NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       190 ~~m~~~~~~p~-------~~--~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                      +...+.  .|+       ..  ..-.++..- -.+++..|.+++++..+..  +.....|..|...-.+.|+.++|.++|
T Consensus       486 D~ai~L--E~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~D--pkce~A~~tlaq~~lQ~~~i~eAielF  560 (606)
T KOG0547|consen  486 DKAIEL--EPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELD--PKCEQAYETLAQFELQRGKIDEAIELF  560 (606)
T ss_pred             HHHHhh--ccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccC--chHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            987664  333       11  112222222 3499999999999998854  446678999999999999999999999


Q ss_pred             HHHH
Q 023952          261 MLLL  264 (275)
Q Consensus       261 ~~m~  264 (275)
                      ++-.
T Consensus       561 Eksa  564 (606)
T KOG0547|consen  561 EKSA  564 (606)
T ss_pred             HHHH
Confidence            8754

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

Probab=99.27  E-value=5.4e-09  Score=75.24  Aligned_cols=197  Identities=13%  Similarity=0.006  Sum_probs=162.6

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|+...|.+-+++..+..| +..+|..+...|.+.|+.+.|.+.|+...... +-+..+.|..-..+|..|++++|.+.
T Consensus        47 ~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC~qg~~~eA~q~  125 (250)
T COG3063          47 QQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLCAQGRPEEAMQQ  125 (250)
T ss_pred             HCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHHhCCChHHHHHH
Confidence            46899999999999998888 68899999999999999999999999988765 45678899999999999999999999


Q ss_pred             HHHHhhCCCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           82 VEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        82 ~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      |++....---| -..||..+.-+..+.|+.+.|...|++..+.  .+....+.-.+.....+.|++-.|.. .++.....
T Consensus       126 F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~--dp~~~~~~l~~a~~~~~~~~y~~Ar~-~~~~~~~~  202 (250)
T COG3063         126 FERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALEL--DPQFPPALLELARLHYKAGDYAPARL-YLERYQQR  202 (250)
T ss_pred             HHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHh--CcCCChHHHHHHHHHHhcccchHHHH-HHHHHHhc
Confidence            99998752222 2467888888889999999999999998874  35556677789999999999999999 77776666


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHH
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYIC  206 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  206 (275)
                      +. ++..+.-..|..-...|+-+.+-++=..+...  -|.+.-|..
T Consensus       203 ~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~--fP~s~e~q~  245 (250)
T COG3063         203 GG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRL--FPYSEEYQT  245 (250)
T ss_pred             cc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCcHHHHh
Confidence            65 77777777788778899999888877776654  455544433

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

Probab=99.24  E-value=5.2e-08  Score=77.40  Aligned_cols=255  Identities=13%  Similarity=0.067  Sum_probs=148.1

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      -|++..|.++|++-.+-.|+...|.+.|..-.+-+.++.|..+++...--  .|++.+|--....=-++|+...|.++|.
T Consensus       154 LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~--HP~v~~wikyarFE~k~g~~~~aR~Vye  231 (677)
T KOG1915|consen  154 LGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLV--HPKVSNWIKYARFEEKHGNVALARSVYE  231 (677)
T ss_pred             hcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhee--cccHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            47889999999887777799999999999999999999999999987654  3777777655555555555555544444


Q ss_pred             HH------------------------------------------------------------------------------
Q 023952           84 EI------------------------------------------------------------------------------   85 (275)
Q Consensus        84 ~m------------------------------------------------------------------------------   85 (275)
                      ..                                                                              
T Consensus       232 rAie~~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qY  311 (677)
T KOG1915|consen  232 RAIEFLGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQY  311 (677)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHH
Confidence            41                                                                              


Q ss_pred             ---hhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHH--HHHH----HH-H---HHhcCchHHHHHH
Q 023952           86 ---KRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK--YVNL----VN-I---YITASHLVNAESS  152 (275)
Q Consensus        86 ---~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~--~~~l----~~-~---~~~~g~~~~a~~~  152 (275)
                         ++.+ +-|-.+|-..++.-...|+.+...++|+.+..  ++||-..-  |.-.    |+ +   -....+.+.+.+ 
T Consensus       312 E~~v~~n-p~nYDsWfdylrL~e~~g~~~~Ire~yErAIa--nvpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~-  387 (677)
T KOG1915|consen  312 EKEVSKN-PYNYDSWFDYLRLEESVGDKDRIRETYERAIA--NVPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQ-  387 (677)
T ss_pred             HHHHHhC-CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHc--cCCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH-
Confidence               1111 11345566666666677888888888888887  45663311  1111    11 0   112445555555 


Q ss_pred             HHHHHHHccC------------------------------------CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc
Q 023952          153 TLVEAEKSIT------------------------------------QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       153 ~~~~~~~~~~------------------------------------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  196 (275)
                      +++...+..|                                    -|-..+|-..|..-.+.++++.+..++++..+.+
T Consensus       388 vyq~~l~lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle~~  467 (677)
T KOG1915|consen  388 VYQACLDLIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLEFS  467 (677)
T ss_pred             HHHHHHhhcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            5544444222                                    1223333344444445555556666665555542


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          197 QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       197 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                       +-+-.+|.-....=...|+.+.|..+|.-.............|.+.|..=...|.++.|+.+++++++
T Consensus       468 -Pe~c~~W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~  535 (677)
T KOG1915|consen  468 -PENCYAWSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLD  535 (677)
T ss_pred             -hHhhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHH
Confidence             11334444444444556666666666665554332222233455555555556666666666666654

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

Probab=99.24  E-value=4.4e-09  Score=84.79  Aligned_cols=219  Identities=13%  Similarity=0.035  Sum_probs=172.7

Q ss_pred             CC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhh-HH
Q 023952           21 AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT-YN   98 (275)
Q Consensus        21 ~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~-~~   98 (275)
                      .| .+.+|-++.--|..-|+.++|.+.|......+ +.=...|-.....|+-.|..|+|+..+...-+.  -|..+. +.
T Consensus       308 yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl--~~G~hlP~L  384 (611)
T KOG1173|consen  308 YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL--MPGCHLPSL  384 (611)
T ss_pred             CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh--ccCCcchHH
Confidence            45 78999999999999999999999999866543 122568999999999999999999999887763  222222 22


Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC------cchhhHHHH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ------RQWITYDFL  172 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~------~~~~~~~~l  172 (275)
                      -+.--|.+.+.++.|.++|.+...  ..|.|+.+.+-+.......+.+.+|.. .|+........      .-..+++.|
T Consensus       385 Ylgmey~~t~n~kLAe~Ff~~A~a--i~P~Dplv~~Elgvvay~~~~y~~A~~-~f~~~l~~ik~~~~e~~~w~p~~~NL  461 (611)
T KOG1173|consen  385 YLGMEYMRTNNLKLAEKFFKQALA--IAPSDPLVLHELGVVAYTYEEYPEALK-YFQKALEVIKSVLNEKIFWEPTLNNL  461 (611)
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHh--cCCCcchhhhhhhheeehHhhhHHHHH-HHHHHHHHhhhccccccchhHHHHhH
Confidence            233448889999999999999987  467888888888888888999999999 77766532111      134568899


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 023952          173 IILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  249 (275)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  249 (275)
                      ..+|.+.+.+++|+..+++..... +-+..++.++.-.|...|+++.|.+.|.+....   .|+-.+...++..+..
T Consensus       462 GH~~Rkl~~~~eAI~~~q~aL~l~-~k~~~~~asig~iy~llgnld~Aid~fhKaL~l---~p~n~~~~~lL~~aie  534 (611)
T KOG1173|consen  462 GHAYRKLNKYEEAIDYYQKALLLS-PKDASTHASIGYIYHLLGNLDKAIDHFHKALAL---KPDNIFISELLKLAIE  534 (611)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHcC-CCchhHHHHHHHHHHHhcChHHHHHHHHHHHhc---CCccHHHHHHHHHHHH
Confidence            999999999999999999987763 557889999999999999999999999998863   5666656666654443

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

Probab=99.18  E-value=1.2e-07  Score=75.48  Aligned_cols=255  Identities=10%  Similarity=0.065  Sum_probs=195.1

Q ss_pred             ccChhhHHHHhhccccCC-CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSA-KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .+++..|..+|++....+ .+...|...+..-.++..+..|..+|++....- |.-...|--.+.+=-..|++..|.++|
T Consensus        86 q~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~l-PRVdqlWyKY~ymEE~LgNi~gaRqif  164 (677)
T KOG1915|consen   86 QKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTIL-PRVDQLWYKYIYMEEMLGNIAGARQIF  164 (677)
T ss_pred             HHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhc-chHHHHHHHHHHHHHHhcccHHHHHHH
Confidence            467888999999988764 688899999999999999999999999988752 223356777777777889999999999


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                      +...+  ..|+...|.+.++.-.+.+.++.|..+|+..+-   +.|++..|--....-.++|....|.. ++........
T Consensus       165 erW~~--w~P~eqaW~sfI~fElRykeieraR~IYerfV~---~HP~v~~wikyarFE~k~g~~~~aR~-VyerAie~~~  238 (677)
T KOG1915|consen  165 ERWME--WEPDEQAWLSFIKFELRYKEIERARSIYERFVL---VHPKVSNWIKYARFEEKHGNVALARS-VYERAIEFLG  238 (677)
T ss_pred             HHHHc--CCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHhe---ecccHHHHHHHHHHHHhcCcHHHHHH-HHHHHHHHhh
Confidence            99988  689999999999999999999999999999985   46999999999999999999999999 8877766443


Q ss_pred             C--cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh---hhHHHHHHHHHhcCCHHHHHHH--------HHHHHh
Q 023952          163 Q--RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS---RNYICILSSYLMLGHLKEVGEI--------IDQWKQ  229 (275)
Q Consensus       163 ~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~--------~~~~~~  229 (275)
                      .  .+...+.++..--.++..++.|.-+|+-..+.  -|..   ..|..+..-=-+.|+.....+.        ++.+..
T Consensus       239 ~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~--~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~  316 (677)
T KOG1915|consen  239 DDEEAEILFVAFAEFEERQKEYERARFIYKYALDH--IPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVS  316 (677)
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHH
Confidence            2  12344455554445677889999999877664  2332   3344444333344554433322        333444


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 023952          230 SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP  270 (275)
Q Consensus       230 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  270 (275)
                      .+  +.|-.+|--.+..--..|+.+...++|++.+. +++|
T Consensus       317 ~n--p~nYDsWfdylrL~e~~g~~~~Ire~yErAIa-nvpp  354 (677)
T KOG1915|consen  317 KN--PYNYDSWFDYLRLEESVGDKDRIRETYERAIA-NVPP  354 (677)
T ss_pred             hC--CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHc-cCCc
Confidence            33  45778888888888889999999999999885 4555

>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=99.18  E-value=7.1e-09  Score=80.17  Aligned_cols=243  Identities=15%  Similarity=0.045  Sum_probs=162.2

Q ss_pred             ccChhhHHHHhhccccCCC--CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK--TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      .|++..++.-.+ .....+  +......+.+++...|+.+.++   .++.... .|.......+...+...++-+.++.-
T Consensus        14 ~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e~~l~~   88 (290)
T PF04733_consen   14 LGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKESALEE   88 (290)
T ss_dssp             TT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHHCHHHH
T ss_pred             hhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchHHHHHH
Confidence            477778876555 222222  4556667788999999877544   4444443 67777777777766655667777777


Q ss_pred             HHHHhhCCCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           82 VEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        82 ~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      +++....+..+ +..........+...|++++|.+++..     +  .+.......+..|.+.++++.|.+ .++.|.+.
T Consensus        89 l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~-----~--~~lE~~al~Vqi~L~~~R~dlA~k-~l~~~~~~  160 (290)
T PF04733_consen   89 LKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHK-----G--GSLELLALAVQILLKMNRPDLAEK-ELKNMQQI  160 (290)
T ss_dssp             HHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTT-----T--TCHHHHHHHHHHHHHTT-HHHHHH-HHHHHHCC
T ss_pred             HHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHc-----c--CcccHHHHHHHHHHHcCCHHHHHH-HHHHHHhc
Confidence            76665544332 333333333456778999999887643     2  456667788899999999999999 89888764


Q ss_pred             cCCcchhhHHHHHHH----HHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC
Q 023952          161 ITQRQWITYDFLIIL----YAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD  236 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~----~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~  236 (275)
                      .  .|. +..-+..+    +...+.+.+|..+|+++.+. ..+++.+.+.+..++...|++++|.+++.+.....  +.+
T Consensus       161 ~--eD~-~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~-~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~--~~~  234 (290)
T PF04733_consen  161 D--EDS-ILTQLAEAWVNLATGGEKYQDAFYIFEELSDK-FGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKD--PND  234 (290)
T ss_dssp             S--CCH-HHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCC-S--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC---CCH
T ss_pred             C--CcH-HHHHHHHHHHHHHhCchhHHHHHHHHHHHHhc-cCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhc--cCC
Confidence            3  232 33333333    33345799999999998765 56788889999999999999999999999987754  346


Q ss_pred             HHHHHHHHHHHHhcCCh-HHHHHHHHHHHh
Q 023952          237 ISACNRLLGAFSDVGLT-EKANEFHMLLLQ  265 (275)
Q Consensus       237 ~~~~~~li~~~~~~g~~-~~a~~~~~~m~~  265 (275)
                      ..+...++-+....|+. +.+.+++.++..
T Consensus       235 ~d~LaNliv~~~~~gk~~~~~~~~l~qL~~  264 (290)
T PF04733_consen  235 PDTLANLIVCSLHLGKPTEAAERYLSQLKQ  264 (290)
T ss_dssp             HHHHHHHHHHHHHTT-TCHHHHHHHHHCHH
T ss_pred             HHHHHHHHHHHHHhCCChhHHHHHHHHHHH
Confidence            66777788888888877 667778887765

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the epsilon subunit of the coatomer complex, which is involved in the regulation of intracellular protein trafficking between the endoplasmic reticulum and the Golgi complex []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006890 retrograde vesicle-mediated transport, Golgi to ER, 0030126 COPI vesicle coat; PDB: 3MV2_B 3MV3_F 3MKR_A.

>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala

Probab=99.18  E-value=1.3e-07  Score=78.62  Aligned_cols=231  Identities=18%  Similarity=0.173  Sum_probs=157.5

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhH-HHHHHHHHhh-
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTY-NLWISSCAAT-  107 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-~~ll~~~~~~-  107 (275)
                      ....+...|++++|++.++.-... +.............+.+.|+.++|..+|..+.+.+  |+...| ..+..+.... 
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rN--Pdn~~Yy~~L~~~~g~~~   86 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRN--PDNYDYYRGLEEALGLQL   86 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCcHHHHHHHHHHHhhhc
Confidence            345678899999999999875443 43445567788889999999999999999999975  455544 4444444221 


Q ss_pred             ----CCHHHHHHHHHHHhhcCC-------CCC---C--------------------HHHHHHHHHHHHhcCchHHHHHHH
Q 023952          108 ----LNIDQVKKFLDEMSCDSG-------GSD---D--------------------WVKYVNLVNIYITASHLVNAESST  153 (275)
Q Consensus       108 ----~~~~~a~~~~~~~~~~~~-------~~~---~--------------------~~~~~~l~~~~~~~g~~~~a~~~~  153 (275)
                          .+.+....+|+++....-       ++.   +                    +.+|..|-..|....+.+-..+ +
T Consensus        87 ~~~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~-l  165 (517)
T PF12569_consen   87 QLSDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIES-L  165 (517)
T ss_pred             ccccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHH-H
Confidence                245666777777654310       000   1                    1233344444443333333333 3


Q ss_pred             HHHHHHcc--------------CCcchh--hHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-hhhHHHHHHHHHhcCC
Q 023952          154 LVEAEKSI--------------TQRQWI--TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGH  216 (275)
Q Consensus       154 ~~~~~~~~--------------~~~~~~--~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~  216 (275)
                      +.......              ..|...  ++..+...|...|++++|++++++..+.  .|+ +..|..-...+-+.|+
T Consensus       166 ~~~~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~  243 (517)
T PF12569_consen  166 VEEYVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGD  243 (517)
T ss_pred             HHHHHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCC
Confidence            33333211              123333  3456677788999999999999988875  555 5678888889999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 023952          217 LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNC  268 (275)
Q Consensus       217 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  268 (275)
                      +++|.+.++......  .-|-..=+..+..+.++|++++|.+++......+.
T Consensus       244 ~~~Aa~~~~~Ar~LD--~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~  293 (517)
T PF12569_consen  244 LKEAAEAMDEARELD--LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDV  293 (517)
T ss_pred             HHHHHHHHHHHHhCC--hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCC
Confidence            999999999988754  35666666678888999999999999988877665

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 [], [].

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

Probab=99.17  E-value=1.5e-08  Score=82.05  Aligned_cols=251  Identities=13%  Similarity=0.025  Sum_probs=190.6

Q ss_pred             ccccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      -+.|++.+|.-.|+......| +...|-.|....+.+++-..|+..+++..+.+ +-|....-+|.-.|...|.-.+|+.
T Consensus       296 m~nG~L~~A~LafEAAVkqdP~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~~Al~  374 (579)
T KOG1125|consen  296 MKNGDLSEAALAFEAAVKQDPQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQNQALK  374 (579)
T ss_pred             HhcCCchHHHHHHHHHHhhChHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHHHHHH
Confidence            367889999999998877777 89999999999999999999999999999876 5577888888889999999999999


Q ss_pred             HHHHHhhCCCC--------CchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHH
Q 023952           81 VVEEIKRKNVV--------PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  152 (275)
Q Consensus        81 ~~~~m~~~~~~--------p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  152 (275)
                      .++..+...++        ++...-..  +.+.....+....++|-++....+..+|..+...|--.|--.|++++|.. 
T Consensus       375 ~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdraiD-  451 (579)
T KOG1125|consen  375 MLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAVD-  451 (579)
T ss_pred             HHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHHH-
Confidence            99998664321        00000000  22333444566677777766654555888888899999999999999999 


Q ss_pred             HHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhc-
Q 023952          153 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQS-  230 (275)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~-  230 (275)
                      .|+.+....|. |..+||.|...++...+.++|+.-|++.++.  .|.- .....|.-+|...|.+++|.+.|-....- 
T Consensus       452 cf~~AL~v~Pn-d~~lWNRLGAtLAN~~~s~EAIsAY~rALqL--qP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq  528 (579)
T KOG1125|consen  452 CFEAALQVKPN-DYLLWNRLGATLANGNRSEEAISAYNRALQL--QPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQ  528 (579)
T ss_pred             HHHHHHhcCCc-hHHHHHHhhHHhcCCcccHHHHHHHHHHHhc--CCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhh
Confidence            89988887665 8899999999999999999999999998885  5543 33445677889999999999988776531 


Q ss_pred             -------CCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 023952          231 -------ATSDFDISACNRLLGAFSDVGLTEKANEF  259 (275)
Q Consensus       231 -------~~~~~~~~~~~~li~~~~~~g~~~~a~~~  259 (275)
                             ..+.++...|..|=.++.-.++.|.+...
T Consensus       529 ~ks~~~~~~~~~se~iw~tLR~als~~~~~D~l~~a  564 (579)
T KOG1125|consen  529 RKSRNHNKAPMASENIWQTLRLALSAMNRSDLLQEA  564 (579)
T ss_pred             hcccccccCCcchHHHHHHHHHHHHHcCCchHHHHh
Confidence                   11122345677776677777777754443

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

Probab=99.17  E-value=9.5e-08  Score=81.85  Aligned_cols=252  Identities=13%  Similarity=0.055  Sum_probs=149.7

Q ss_pred             hhhHHHHhhccccCC-CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            7 IHSGERYFEGLPLSA-KTSETYTALLHLYAGAKWTEKAEELFERVKQSNL--SFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      +..+..++...-... .|++..+.|...|.-.|+++.++.+...+.....  ..-+..|--+.++|-..|++++|..+|.
T Consensus       252 ~~~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~  331 (1018)
T KOG2002|consen  252 YKKGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYM  331 (1018)
T ss_pred             HHHHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHH
Confidence            344555555444333 3777888888888888888888888877765431  1123457778888888888888888887


Q ss_pred             HHhhCCCCCchhh--HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC----chHHHHHHHHHHH
Q 023952           84 EIKRKNVVPDIFT--YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS----HLVNAESSTLVEA  157 (275)
Q Consensus        84 ~m~~~~~~p~~~~--~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g----~~~~a~~~~~~~~  157 (275)
                      +..+.  .||..+  +.-+...+.+.|+++.+...|+.+.+.  .|.+..+...|...|...+    ..+.|.. ++...
T Consensus       332 ~s~k~--~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~--~p~~~etm~iLG~Lya~~~~~~~~~d~a~~-~l~K~  406 (1018)
T KOG2002|consen  332 ESLKA--DNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQ--LPNNYETMKILGCLYAHSAKKQEKRDKASN-VLGKV  406 (1018)
T ss_pred             HHHcc--CCCCccccccchhHHHHHhchHHHHHHHHHHHHHh--CcchHHHHHHHHhHHHhhhhhhHHHHHHHH-HHHHH
Confidence            76664  444433  445667788888888888888888773  4666667777777777664    4455555 44444


Q ss_pred             HHccCCcchhhHHHHHHHHHccCCHHHHHHHHHH----HHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC-
Q 023952          158 EKSITQRQWITYDFLIILYAGLGNKDKIDQIWKS----LRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT-  232 (275)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~----m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~-  232 (275)
                      ....+ .|...|-.+...+-.. ++..++..|..    +...+..+.++..|.+...+...|+++.|...|......-. 
T Consensus       407 ~~~~~-~d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~  484 (1018)
T KOG2002|consen  407 LEQTP-VDSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLE  484 (1018)
T ss_pred             Hhccc-ccHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhh
Confidence            44332 2555555555444333 33333444433    22334445566667777777777777777777766654310 


Q ss_pred             -CCCCH------HHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          233 -SDFDI------SACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       233 -~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                       ..++.      .+--.+...+-..++.+.|.+.|..+.+
T Consensus       485 ~~n~de~~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilk  524 (1018)
T KOG2002|consen  485 VANKDEGKSTNLTLKYNLARLLEELHDTEVAEEMYKSILK  524 (1018)
T ss_pred             hcCccccccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence             11222      1111133344444555666666655543

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

Probab=99.14  E-value=5.4e-07  Score=72.71  Aligned_cols=231  Identities=11%  Similarity=0.004  Sum_probs=147.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH---HHHHhhccCCHHHHHHHHHHHhhCCCCCc-hhhHHHHHHHHH
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE---MMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCA  105 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~---li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~  105 (275)
                      ....+...|++++|.+.+++..+.. |.|...+..   ........+..+.+.+.+...  ....|+ ......+...+.
T Consensus        49 ~a~~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~~~~~~~~~~~a~~~~  125 (355)
T cd05804          49 EALSAWIAGDLPKALALLEQLLDDY-PRDLLALKLHLGAFGLGDFSGMRDHVARVLPLW--APENPDYWYLLGMLAFGLE  125 (355)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHhHHHHHhcccccCchhHHHHHhcc--CcCCCCcHHHHHHHHHHHH
Confidence            3456678899999999999988764 445555552   222223345556666665541  122333 334445666788


Q ss_pred             hhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC-cch--hhHHHHHHHHHccCCH
Q 023952          106 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQW--ITYDFLIILYAGLGNK  182 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~--~~~~~l~~~~~~~~~~  182 (275)
                      ..|++++|...+++..+.  .+.+...+..+...|...|++++|.. .+.......+. ++.  ..|..+...+...|++
T Consensus       126 ~~G~~~~A~~~~~~al~~--~p~~~~~~~~la~i~~~~g~~~eA~~-~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~  202 (355)
T cd05804         126 EAGQYDRAEEAARRALEL--NPDDAWAVHAVAHVLEMQGRFKEGIA-FMESWRDTWDCSSMLRGHNWWHLALFYLERGDY  202 (355)
T ss_pred             HcCCHHHHHHHHHHHHhh--CCCCcHHHHHHHHHHHHcCCHHHHHH-HHHhhhhccCCCcchhHHHHHHHHHHHHHCCCH
Confidence            999999999999999884  46667788899999999999999999 88877665432 222  3455677889999999


Q ss_pred             HHHHHHHHHHHhccCC-CChhhH-H--HHHHHHHhcCCHHHHHHH--HHHHHhcCCC-CCCHHHHHHHHHHHHhcCChHH
Q 023952          183 DKIDQIWKSLRMTKQK-MTSRNY-I--CILSSYLMLGHLKEVGEI--IDQWKQSATS-DFDISACNRLLGAFSDVGLTEK  255 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~-p~~~~~-~--~li~~~~~~g~~~~a~~~--~~~~~~~~~~-~~~~~~~~~li~~~~~~g~~~~  255 (275)
                      ++|..++++....... +..... +  .++.-+...|..+.+.++  +......... ............++...|+.+.
T Consensus       203 ~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  282 (355)
T cd05804         203 EAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDA  282 (355)
T ss_pred             HHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHH
Confidence            9999999998543221 111111 1  333344445544444333  2211111101 1111222356778889999999


Q ss_pred             HHHHHHHHHhc
Q 023952          256 ANEFHMLLLQK  266 (275)
Q Consensus       256 a~~~~~~m~~~  266 (275)
                      |...++.+...
T Consensus       283 a~~~L~~l~~~  293 (355)
T cd05804         283 LDKLLAALKGR  293 (355)
T ss_pred             HHHHHHHHHHH
Confidence            99999988653

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.

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

Probab=99.13  E-value=6e-08  Score=85.92  Aligned_cols=204  Identities=13%  Similarity=0.108  Sum_probs=112.4

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCC---CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQS-NLSF---NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYN   98 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~   98 (275)
                      +...|-..|....+.++.+.|.+++++.... ++.-   -.-.|.++++.-..-|.-+...++|++..+.. . .-..|.
T Consensus      1457 SSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqyc-d-~~~V~~ 1534 (1710)
T KOG1070|consen 1457 SSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYC-D-AYTVHL 1534 (1710)
T ss_pred             cchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhc-c-hHHHHH
Confidence            3555666666666666666666666665432 1111   12245555555455555566666666665531 1 123455


Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc-hhhHHHHHHHHH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ-WITYDFLIILYA  177 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~  177 (275)
                      .|...|.+.+..++|.++++.|.+..+  ....+|...+..+.+.++-+.|.+ ++.++.+..++.. +......+..-.
T Consensus      1535 ~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~-lL~rAL~~lPk~eHv~~IskfAqLEF 1611 (1710)
T KOG1070|consen 1535 KLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARE-LLKRALKSLPKQEHVEFISKFAQLEF 1611 (1710)
T ss_pred             HHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHH-HHHHHHhhcchhhhHHHHHHHHHHHh
Confidence            666666666666666666666666432  445555566666666666666666 5655555554422 223334444445


Q ss_pred             ccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 023952          178 GLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  232 (275)
Q Consensus       178 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  232 (275)
                      +.|+.+++..+|+.+.... +--...|+..|+.=.++|+.+.+..+|++....+.
T Consensus      1612 k~GDaeRGRtlfEgll~ay-PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l 1665 (1710)
T KOG1070|consen 1612 KYGDAERGRTLFEGLLSAY-PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKL 1665 (1710)
T ss_pred             hcCCchhhHHHHHHHHhhC-ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCC
Confidence            5666666666666555442 11234566666666666666666666666665543

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

Probab=99.12  E-value=5.7e-08  Score=82.49  Aligned_cols=256  Identities=13%  Similarity=0.046  Sum_probs=138.6

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHH----HHHHHHhhccCCHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMY----NEMMTLYMSVGQVEK   77 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~----~~li~~~~~~g~~~~   77 (275)
                      +.|+++.|.-.|.+..+..| +...+---+..|-+.|+...|...|.++.....+.|..-.    ..++..+...++.+.
T Consensus       219 ~~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~  298 (895)
T KOG2076|consen  219 QLGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERER  298 (895)
T ss_pred             hcccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHH
Confidence            34677778888877776654 6666666677777888888888888877776422222222    233445556666677


Q ss_pred             HHHHHHHHhhCC-CCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh--------------------------cCCCCCCH
Q 023952           78 VALVVEEIKRKN-VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC--------------------------DSGGSDDW  130 (275)
Q Consensus        78 a~~~~~~m~~~~-~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~--------------------------~~~~~~~~  130 (275)
                      |.+.++.....+ -..+...+++++..+.+...++.+......+..                          ....+++.
T Consensus       299 a~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l  378 (895)
T KOG2076|consen  299 AAKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDL  378 (895)
T ss_pred             HHHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccc
Confidence            777776666521 122444566666666666666666665555544                          01234444


Q ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHHcc--CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHH
Q 023952          131 VKYVNLVNIYITASHLVNAESSTLVEAEKSI--TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICIL  208 (275)
Q Consensus       131 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li  208 (275)
                      .++..++ ++......+.... +........  +.-++..|.-+..+|...|++.+|..+|..+......-+...|--+.
T Consensus       379 ~v~rl~i-cL~~L~~~e~~e~-ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a  456 (895)
T KOG2076|consen  379 RVIRLMI-CLVHLKERELLEA-LLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLA  456 (895)
T ss_pred             hhHhHhh-hhhcccccchHHH-HHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHH
Confidence            4422221 2222222222222 222232322  23344455555566666666666666666655543333444555566


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 023952          209 SSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  262 (275)
                      .+|...|.+++|.+.++.+....  +-+...-..|...+.+.|+.++|.+.+..
T Consensus       457 ~c~~~l~e~e~A~e~y~kvl~~~--p~~~D~Ri~Lasl~~~~g~~EkalEtL~~  508 (895)
T KOG2076|consen  457 RCYMELGEYEEAIEFYEKVLILA--PDNLDARITLASLYQQLGNHEKALETLEQ  508 (895)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhcC--CCchhhhhhHHHHHHhcCCHHHHHHHHhc
Confidence            66666666666666666665533  22333344455555666666666665554

>PF12854 PPR_1: PPR repeat

Probab=99.11  E-value=1.1e-10  Score=58.84  Aligned_cols=32  Identities=19%  Similarity=0.412  Sum_probs=19.6

Q ss_pred             CCCCCHHHHHHHHHHhhccCCHHHHHHHHHHH
Q 023952           54 NLSFNALMYNEMMTLYMSVGQVEKVALVVEEI   85 (275)
Q Consensus        54 ~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m   85 (275)
                      |++||..+||+||.+|++.|++++|.++|++|
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            45566666666666666666666666666655

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

Probab=99.06  E-value=3.4e-07  Score=81.34  Aligned_cols=218  Identities=11%  Similarity=0.102  Sum_probs=175.3

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc-----hhhHHHHHHHHHhhCCHHHHHHH
Q 023952           42 KAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-----IFTYNLWISSCAATLNIDQVKKF  116 (275)
Q Consensus        42 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~  116 (275)
                      .|.+ |+++.... |-+...|-..|..+.+.++.++|.+++++.... +.+.     .-.|.++++.-...|.-+...++
T Consensus      1443 saeD-ferlvrss-PNSSi~WI~YMaf~LelsEiekAR~iaerAL~t-IN~REeeEKLNiWiA~lNlEn~yG~eesl~kV 1519 (1710)
T KOG1070|consen 1443 SAED-FERLVRSS-PNSSILWIRYMAFHLELSEIEKARKIAERALKT-INFREEEEKLNIWIAYLNLENAYGTEESLKKV 1519 (1710)
T ss_pred             CHHH-HHHHHhcC-CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhh-CCcchhHHHHHHHHHHHhHHHhhCcHHHHHHH
Confidence            3444 44444432 456778999999999999999999999998864 3221     24677788877778888899999


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc
Q 023952          117 LDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  196 (275)
                      |+++.+.   -....+|..|...|.+.++.++|.+ +++.|.+... -....|...+..+.+.++-+.|..++.+..+. 
T Consensus      1520 FeRAcqy---cd~~~V~~~L~~iy~k~ek~~~A~e-ll~~m~KKF~-q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~- 1593 (1710)
T KOG1070|consen 1520 FERACQY---CDAYTVHLKLLGIYEKSEKNDEADE-LLRLMLKKFG-QTRKVWIMYADFLLRQNEAEAARELLKRALKS- 1593 (1710)
T ss_pred             HHHHHHh---cchHHHHHHHHHHHHHhhcchhHHH-HHHHHHHHhc-chhhHHHHHHHHHhcccHHHHHHHHHHHHHhh-
Confidence            9999984   3456678899999999999999999 9999998776 36678999999999999999999999987764 


Q ss_pred             CCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 023952          197 QKMTS---RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  271 (275)
Q Consensus       197 ~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  271 (275)
                       -|..   ....-.+..-.+.|+.+.+..+|+......  +.-...|+..|+.=.++|+.+.++.+|++.+..++.|-
T Consensus      1594 -lPk~eHv~~IskfAqLEFk~GDaeRGRtlfEgll~ay--PKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~k 1668 (1710)
T KOG1070|consen 1594 -LPKQEHVEFISKFAQLEFKYGDAERGRTLFEGLLSAY--PKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIK 1668 (1710)
T ss_pred             -cchhhhHHHHHHHHHHHhhcCCchhhHHHHHHHHhhC--ccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChh
Confidence             4542   223345555668999999999999998865  34566799999999999999999999999999988774

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.06  E-value=1.5e-07  Score=71.27  Aligned_cols=188  Identities=11%  Similarity=0.014  Sum_probs=127.1

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCch--hh
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA---LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI--FT   96 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~   96 (275)
                      .....+..+...+.+.|++++|...|+++.... +.+.   ..+..+..++.+.|++++|+..++++.+.......  .+
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            467788888888999999999999999887754 2222   46777888899999999999999999875332111  13


Q ss_pred             HHHHHHHHHhh--------CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhh
Q 023952           97 YNLWISSCAAT--------LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT  168 (275)
Q Consensus        97 ~~~ll~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  168 (275)
                      +..+..++...        |+.++|.+.|+.+...  .+.+...+..+....    .......               ..
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~----~~~~~~~---------------~~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMD----YLRNRLA---------------GK  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHH----HHHHHHH---------------HH
Confidence            44455555543        6788889998888774  233333332222111    0100000               01


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhccC-CC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          169 YDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       169 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      ...+...|...|++++|...++...+... .| ....+..+..++...|++++|..+++.+..+.
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            12455668889999999999998876532 12 24677889999999999999999998887653

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=99.05  E-value=1.2e-08  Score=86.37  Aligned_cols=209  Identities=12%  Similarity=0.112  Sum_probs=138.0

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC
Q 023952           45 ELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDS  124 (275)
Q Consensus        45 ~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  124 (275)
                      .++-.+...|+.|+..||..+|.-|+..|+.+.|- +|.-|.-+....+...|+.++.+....++.+.+.          
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk----------   79 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK----------   79 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC----------
Confidence            45677888999999999999999999999999998 8888887777778888999999988888876554          


Q ss_pred             CCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH-------ccCCcchhhH--------------HHHHHHHHccCCHH
Q 023952          125 GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK-------SITQRQWITY--------------DFLIILYAGLGNKD  183 (275)
Q Consensus       125 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~~~~--------------~~l~~~~~~~~~~~  183 (275)
                        .|...+|+.|..+|.+.|++..-.. +-+.+..       .|......-+              ...+......|-++
T Consensus        80 --ep~aDtyt~Ll~ayr~hGDli~fe~-veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwa  156 (1088)
T KOG4318|consen   80 --EPLADTYTNLLKAYRIHGDLILFEV-VEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWA  156 (1088)
T ss_pred             --CCchhHHHHHHHHHHhccchHHHHH-HHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHH
Confidence              5888999999999999999865333 2221221       1111101111              11222223334444


Q ss_pred             HHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 023952          184 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      .+.+++..+......   .++..+++-+.....  -..++....+.... .|++.+|.+++++-..+|+++.|..++.+|
T Consensus       157 qllkll~~~Pvsa~~---~p~~vfLrqnv~~nt--pvekLl~~cksl~e-~~~s~~l~a~l~~alaag~~d~Ak~ll~em  230 (1088)
T KOG4318|consen  157 QLLKLLAKVPVSAWN---APFQVFLRQNVVDNT--PVEKLLNMCKSLVE-APTSETLHAVLKRALAAGDVDGAKNLLYEM  230 (1088)
T ss_pred             HHHHHHhhCCccccc---chHHHHHHHhccCCc--hHHHHHHHHHHhhc-CCChHHHHHHHHHHHhcCchhhHHHHHHHH
Confidence            444444333211100   111122333332222  23344443333222 589999999999999999999999999999


Q ss_pred             HhcCCCCCCC
Q 023952          264 LQKNCAPTNA  273 (275)
Q Consensus       264 ~~~~~~p~~~  273 (275)
                      +++|+..+..
T Consensus       231 ke~gfpir~H  240 (1088)
T KOG4318|consen  231 KEKGFPIRAH  240 (1088)
T ss_pred             HHcCCCcccc
Confidence            9999987654

>PLN02789 farnesyltranstransferase

Probab=99.02  E-value=2.3e-06  Score=67.23  Aligned_cols=231  Identities=10%  Similarity=0.000  Sum_probs=163.2

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC-CHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      ..++..+-..+...++.++|+.+.+++.+.. +-+..+|+.--..+...| ++++++..++++.+.+.+ +..+|+....
T Consensus        37 ~~a~~~~ra~l~~~e~serAL~lt~~aI~ln-P~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~npk-nyqaW~~R~~  114 (320)
T PLN02789         37 REAMDYFRAVYASDERSPRALDLTADVIRLN-PGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDNPK-NYQIWHHRRW  114 (320)
T ss_pred             HHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHCCc-chHHhHHHHH
Confidence            3456666677778889999999999988865 344556776666666777 679999999999987655 5566776655


Q ss_pred             HHHhhCCH--HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc-
Q 023952          103 SCAATLNI--DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL-  179 (275)
Q Consensus       103 ~~~~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-  179 (275)
                      .+.+.|+.  +++..+++++.+.  -+-+..+|+...-++...|+++++++ .+.++.+..+. |...|+.....+.+. 
T Consensus       115 ~l~~l~~~~~~~el~~~~kal~~--dpkNy~AW~~R~w~l~~l~~~~eeL~-~~~~~I~~d~~-N~sAW~~R~~vl~~~~  190 (320)
T PLN02789        115 LAEKLGPDAANKELEFTRKILSL--DAKNYHAWSHRQWVLRTLGGWEDELE-YCHQLLEEDVR-NNSAWNQRYFVITRSP  190 (320)
T ss_pred             HHHHcCchhhHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHhhhHHHHHH-HHHHHHHHCCC-chhHHHHHHHHHHhcc
Confidence            55566653  6778888888873  46778888888888888999999999 88888887765 566777665554443 


Q ss_pred             --CCH----HHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 023952          180 --GNK----DKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  249 (275)
Q Consensus       180 --~~~----~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  249 (275)
                        |..    ++...+..+..... +-+...|+.+...+..    .++..+|..++.+..+.+  +.+......|++.|+.
T Consensus       191 ~l~~~~~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~--~~s~~al~~l~d~~~~  267 (320)
T PLN02789        191 LLGGLEAMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD--SNHVFALSDLLDLLCE  267 (320)
T ss_pred             ccccccccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc--CCcHHHHHHHHHHHHh
Confidence              222    45666665665542 2345667777776666    245567888888876643  3567778888888886


Q ss_pred             cC------------------ChHHHHHHHHHH
Q 023952          250 VG------------------LTEKANEFHMLL  263 (275)
Q Consensus       250 ~g------------------~~~~a~~~~~~m  263 (275)
                      ..                  ..++|.++++.+
T Consensus       268 ~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l  299 (320)
T PLN02789        268 GLQPTAEFRDTVDTLAEELSDSTLAQAVCSEL  299 (320)
T ss_pred             hhccchhhhhhhhccccccccHHHHHHHHHHH
Confidence            32                  236788888777

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=99.02  E-value=2.3e-07  Score=70.24  Aligned_cols=188  Identities=12%  Similarity=-0.012  Sum_probs=127.8

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC-Cc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH---
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV---  131 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---  131 (275)
                      ..+..+..+...+.+.|++++|...|+++.+.... |. ..++..+..++...|++++|...++++.+..  +.+..   
T Consensus        31 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~~--p~~~~~~~  108 (235)
T TIGR03302        31 WPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRLH--PNHPDADY  108 (235)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCchHH
Confidence            45677888888888999999999999998875321 11 1456777888889999999999999988742  22222   


Q ss_pred             HHHHHHHHHHhc--------CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhh
Q 023952          132 KYVNLVNIYITA--------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN  203 (275)
Q Consensus       132 ~~~~l~~~~~~~--------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~  203 (275)
                      ++..+..++.+.        |+.++|.+ .++.+....+. +...+..+.....    .      .....        ..
T Consensus       109 a~~~~g~~~~~~~~~~~~~~~~~~~A~~-~~~~~~~~~p~-~~~~~~a~~~~~~----~------~~~~~--------~~  168 (235)
T TIGR03302       109 AYYLRGLSNYNQIDRVDRDQTAAREAFE-AFQELIRRYPN-SEYAPDAKKRMDY----L------RNRLA--------GK  168 (235)
T ss_pred             HHHHHHHHHHHhcccccCCHHHHHHHHH-HHHHHHHHCCC-ChhHHHHHHHHHH----H------HHHHH--------HH
Confidence            455555566554        67788888 77777665544 2222222211100    0      00000        01


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          204 YICILSSYLMLGHLKEVGEIIDQWKQSATSDF-DISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ...+...|.+.|++++|...++...+.....| ....+..+..++.+.|++++|..+++.+..+
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~  232 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGAN  232 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            12456678999999999999999988642222 3567889999999999999999999888654

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).

>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=99.01  E-value=4.2e-08  Score=75.93  Aligned_cols=198  Identities=14%  Similarity=0.079  Sum_probs=134.9

Q ss_pred             CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHH
Q 023952           21 AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF-NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL   99 (275)
Q Consensus        21 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~   99 (275)
                      .|.......+...+...++-+.+..-+++.......+ +..........+...|++++|++++..-      .+......
T Consensus        63 ~~~l~av~~la~y~~~~~~~e~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al  136 (290)
T PF04733_consen   63 SPELQAVRLLAEYLSSPSDKESALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLAL  136 (290)
T ss_dssp             SCCCHHHHHHHHHHCTSTTHHCHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHH
T ss_pred             ChhHHHHHHHHHHHhCccchHHHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHH
Confidence            3566565555555544455666666666554444332 3333334446678889999999988643      35667778


Q ss_pred             HHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH----HHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHH
Q 023952          100 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI----YITASHLVNAESSTLVEAEKSITQRQWITYDFLIIL  175 (275)
Q Consensus       100 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~----~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  175 (275)
                      .+..+.+.++++.|.+.++.|.+.   ..| .+...++.+    +.....+.+|.. +|+++.... .+++.+.+.+..+
T Consensus       137 ~Vqi~L~~~R~dlA~k~l~~~~~~---~eD-~~l~qLa~awv~l~~g~e~~~~A~y-~f~El~~~~-~~t~~~lng~A~~  210 (290)
T PF04733_consen  137 AVQILLKMNRPDLAEKELKNMQQI---DED-SILTQLAEAWVNLATGGEKYQDAFY-IFEELSDKF-GSTPKLLNGLAVC  210 (290)
T ss_dssp             HHHHHHHTT-HHHHHHHHHHHHCC---SCC-HHHHHHHHHHHHHHHTTTCCCHHHH-HHHHHHCCS---SHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhc---CCc-HHHHHHHHHHHHHHhCchhHHHHHH-HHHHHHhcc-CCCHHHHHHHHHH
Confidence            889999999999999999999874   233 333334443    333457999999 999986653 4578888889999


Q ss_pred             HHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH-HHHHHHHHHHHhcC
Q 023952          176 YAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL-KEVGEIIDQWKQSA  231 (275)
Q Consensus       176 ~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~~~  231 (275)
                      +...|++++|.+++.+..+.+ .-++.+...++.+....|+. +.+.+++.+++...
T Consensus       211 ~l~~~~~~eAe~~L~~al~~~-~~~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~  266 (290)
T PF04733_consen  211 HLQLGHYEEAEELLEEALEKD-PNDPDTLANLIVCSLHLGKPTEAAERYLSQLKQSN  266 (290)
T ss_dssp             HHHCT-HHHHHHHHHHHCCC--CCHHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHT
T ss_pred             HHHhCCHHHHHHHHHHHHHhc-cCCHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhC
Confidence            999999999999999876654 33556777788888888887 67888898888753

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.

>PF12854 PPR_1: PPR repeat

Probab=99.01  E-value=5.8e-10  Score=56.18  Aligned_cols=32  Identities=31%  Similarity=0.534  Sum_probs=23.2

Q ss_pred             CCCCchhhHHHHHHHHHhhCCHHHHHHHHHHH
Q 023952           89 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEM  120 (275)
Q Consensus        89 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~  120 (275)
                      |+.||..||++||++|++.|++++|.++|++|
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            56777777777777777777777777777766

>PLN02789 farnesyltranstransferase

Probab=99.00  E-value=9.6e-07  Score=69.35  Aligned_cols=205  Identities=7%  Similarity=-0.048  Sum_probs=150.9

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCC--HHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ--VEKV   78 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~--~~~a   78 (275)
                      ..++.++|+.+.+++....| +..+|+..-..+...| ++++++..++.+.+.+ +.+..+|+..-..+.+.|+  .+++
T Consensus        49 ~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~~l~~~~~~~e  127 (320)
T PLN02789         49 SDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAEKLGPDAANKE  127 (320)
T ss_pred             cCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHHHcCchhhHHH
Confidence            34677889999988887777 6677887777777777 6899999999998875 4566778766655666665  3788


Q ss_pred             HHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc---Cch----HHHHH
Q 023952           79 ALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA---SHL----VNAES  151 (275)
Q Consensus        79 ~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~a~~  151 (275)
                      +.+++.+.+.+.+ |..+|+...-++...|+++++++.++++.+.  -+.+...|+.....+.+.   |..    +.+.+
T Consensus       128 l~~~~kal~~dpk-Ny~AW~~R~w~l~~l~~~~eeL~~~~~~I~~--d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~  204 (320)
T PLN02789        128 LEFTRKILSLDAK-NYHAWSHRQWVLRTLGGWEDELEYCHQLLEE--DVRNNSAWNQRYFVITRSPLLGGLEAMRDSELK  204 (320)
T ss_pred             HHHHHHHHHhCcc-cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHH--CCCchhHHHHHHHHHHhccccccccccHHHHHH
Confidence            9999999987655 7889999999999999999999999999985  356667777666555544   222    34555


Q ss_pred             HHHHHHHHccCCcchhhHHHHHHHHHcc----CCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc
Q 023952          152 STLVEAEKSITQRQWITYDFLIILYAGL----GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML  214 (275)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  214 (275)
                       ....+....+. |...|+-+...+...    +...+|.+.+.+..+.+ ..+......|+..|+..
T Consensus       205 -y~~~aI~~~P~-N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~~~-~~s~~al~~l~d~~~~~  268 (320)
T PLN02789        205 -YTIDAILANPR-NESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLSKD-SNHVFALSDLLDLLCEG  268 (320)
T ss_pred             -HHHHHHHhCCC-CcCHHHHHHHHHhcCCcccccchhHHHHHHHhhccc-CCcHHHHHHHHHHHHhh
Confidence             55555555544 778888888777763    44567888888876643 33566777888888863

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

Probab=98.99  E-value=6.4e-08  Score=80.52  Aligned_cols=223  Identities=11%  Similarity=-0.002  Sum_probs=146.7

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      .|-...|+.+|+++.       .|..+|.+|...|+..+|..+..+..++  +||+..|..+.+......-+++|.++.+
T Consensus       411 lGitksAl~I~Erle-------mw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~yEkawElsn  481 (777)
T KOG1128|consen  411 LGITKSALVIFERLE-------MWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSLYEKAWELSN  481 (777)
T ss_pred             cchHHHHHHHHHhHH-------HHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHHHHHHHHHhh
Confidence            455666777777653       6777777888888777777777776663  4777777777777777667777777776


Q ss_pred             HHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952           84 EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus        84 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      ....+       .-..+.....+.++++++.+.|+.-.+.  .+.-..+|..+-.++.+.++++.|.+ .|..-...-+ 
T Consensus       482 ~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~~--nplq~~~wf~~G~~ALqlek~q~av~-aF~rcvtL~P-  550 (777)
T KOG1128|consen  482 YISAR-------AQRSLALLILSNKDFSEADKHLERSLEI--NPLQLGTWFGLGCAALQLEKEQAAVK-AFHRCVTLEP-  550 (777)
T ss_pred             hhhHH-------HHHhhccccccchhHHHHHHHHHHHhhc--CccchhHHHhccHHHHHHhhhHHHHH-HHHHHhhcCC-
Confidence            54432       1111222223367777887777775552  35556677777777778888888877 6665544333 


Q ss_pred             cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 023952          164 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRL  243 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  243 (275)
                      .+...||.+-.+|.+.++..+|...+.+..+.+ .-+...|...+....+.|.+++|.+.+.++.+......|......+
T Consensus       551 d~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn-~~~w~iWENymlvsvdvge~eda~~A~~rll~~~~~~~d~~vl~~i  629 (777)
T KOG1128|consen  551 DNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKKYKDDEVLLII  629 (777)
T ss_pred             CchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC-CCCCeeeechhhhhhhcccHHHHHHHHHHHHHhhhhcccchhhHHH
Confidence            366788888888888888888888888877765 3334456666667778888888888888776533222233333334


Q ss_pred             HHHH
Q 023952          244 LGAF  247 (275)
Q Consensus       244 i~~~  247 (275)
                      +...
T Consensus       630 v~~~  633 (777)
T KOG1128|consen  630 VRTV  633 (777)
T ss_pred             HHHH
Confidence            4333

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

Probab=98.96  E-value=8.3e-08  Score=70.54  Aligned_cols=164  Identities=12%  Similarity=0.007  Sum_probs=128.3

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      |... ..+-..+...|+-+....+....... -+-|....+..+...++.|++.+|+..|++..... ++|..+|+.+.-
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-AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAARLA-PTDWEAWNLLGA  142 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhccC-CCChhhhhHHHH
Confidence            5555 66777788888888888877775443 24566677778888999999999999999888764 458888999999


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  182 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  182 (275)
                      +|-+.|+.++|..-|.+..+-  .+.+....+.+.-.|.-.|+.+.|.. ++......... |...-..+.......|++
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            999999999999999988873  45666778888888888999999999 77777665544 666677777788889999


Q ss_pred             HHHHHHHHHHH
Q 023952          183 DKIDQIWKSLR  193 (275)
Q Consensus       183 ~~a~~~~~~m~  193 (275)
                      ++|.++-..-.
T Consensus       219 ~~A~~i~~~e~  229 (257)
T COG5010         219 REAEDIAVQEL  229 (257)
T ss_pred             HHHHhhccccc
Confidence            99988876543

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

Probab=98.96  E-value=6.1e-07  Score=65.71  Aligned_cols=153  Identities=10%  Similarity=0.013  Sum_probs=98.0

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCH
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  110 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  110 (275)
                      +..|...|+++.+....+.+....            ..+...++.++++..+++..+.+.. |...|..+...|...|++
T Consensus        23 ~~~Y~~~g~~~~v~~~~~~~~~~~------------~~~~~~~~~~~~i~~l~~~L~~~P~-~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         23 VGSYLLSPKWQAVRAEYQRLADPL------------HQFASQQTPEAQLQALQDKIRANPQ-NSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHHcchHHHHHHHHHHHhCcc------------ccccCchhHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCH
Confidence            345677777777644443222110            0122355667777777776665433 666777777777778888


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHH-HHhcCc--hHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHH
Q 023952          111 DQVKKFLDEMSCDSGGSDDWVKYVNLVNI-YITASH--LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQ  187 (275)
Q Consensus       111 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  187 (275)
                      ++|...|++..+.  .+.+...+..+..+ +.+.|+  .++|.+ ++++..+..+. +...+..+...+...|++++|..
T Consensus        90 ~~A~~a~~~Al~l--~P~~~~~~~~lA~aL~~~~g~~~~~~A~~-~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~  165 (198)
T PRK10370         90 DNALLAYRQALQL--RGENAELYAALATVLYYQAGQHMTPQTRE-MIDKALALDAN-EVTALMLLASDAFMQADYAQAIE  165 (198)
T ss_pred             HHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCCCCcHHHHH-HHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHH
Confidence            8888888777763  35566667677665 356666  477777 77777766654 56667777777777777777777


Q ss_pred             HHHHHHhccCCCCh
Q 023952          188 IWKSLRMTKQKMTS  201 (275)
Q Consensus       188 ~~~~m~~~~~~p~~  201 (275)
                      .|+++.+.. .|+.
T Consensus       166 ~~~~aL~l~-~~~~  178 (198)
T PRK10370        166 LWQKVLDLN-SPRV  178 (198)
T ss_pred             HHHHHHhhC-CCCc
Confidence            777776653 4444

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

Probab=98.93  E-value=7.5e-08  Score=70.48  Aligned_cols=122  Identities=8%  Similarity=0.022  Sum_probs=75.8

Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHH-HhhCC--HHHH
Q 023952           37 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC-AATLN--IDQV  113 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-~~~~~--~~~a  113 (275)
                      .++.+++...++...+.+ +.|...|..+...|...|++++|+..|++..+.... +...+..+..++ ...|+  .++|
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~l~P~-~~~~~~~lA~aL~~~~g~~~~~~A  129 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQLRGE-NAELYAALATVLYYQAGQHMTPQT  129 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCCCCcHHH
Confidence            555666666666655554 456666777777777777777777777776664332 455555555543 45555  3677


Q ss_pred             HHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952          114 KKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      .+++++..+.  .+.+..++..+...+.+.|++++|.. .++.+.+..+.
T Consensus       130 ~~~l~~al~~--dP~~~~al~~LA~~~~~~g~~~~Ai~-~~~~aL~l~~~  176 (198)
T PRK10370        130 REMIDKALAL--DANEVTALMLLASDAFMQADYAQAIE-LWQKVLDLNSP  176 (198)
T ss_pred             HHHHHHHHHh--CCCChhHHHHHHHHHHHcCCHHHHHH-HHHHHHhhCCC
Confidence            7777776663  34555666666667777777777777 66666555443

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.92  E-value=3.3e-06  Score=72.96  Aligned_cols=190  Identities=11%  Similarity=0.035  Sum_probs=101.2

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAE-ELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      ++...+.+=.+.+.-|..++|- +++.+..+            ++....+-....+++.-....... ...+...+..|.
T Consensus        27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~La   93 (694)
T PRK15179         27 GPTILDLLEAALAEPGESEEAGRELLQQARQ------------VLERHAAVHKPAAALPELLDYVRR-YPHTELFQVLVA   93 (694)
T ss_pred             CcHHHhHHHHHhcCcccchhHHHHHHHHHHH------------HHHHhhhhcchHhhHHHHHHHHHh-ccccHHHHHHHH
Confidence            4444555556667777766653 33333322            111222222222222222222222 333455666666


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  181 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  181 (275)
                      ......|.+++|+.+++...+.  .|.+......++..+.+.+++++|+. ..++.....+. +......+..++.+.|+
T Consensus        94 ~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~-~~~~~l~~~p~-~~~~~~~~a~~l~~~g~  169 (694)
T PRK15179         94 RALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRA-EIELYFSGGSS-SAREILLEAKSWDEIGQ  169 (694)
T ss_pred             HHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHH-HHHHHhhcCCC-CHHHHHHHHHHHHHhcc
Confidence            6666666666666666666652  34445555566666666666666666 55555554443 44455555556666666


Q ss_pred             HHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       182 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +++|..+|+++...+ .-+..++..+...+-..|+.++|...|+...+.
T Consensus       170 ~~~A~~~y~~~~~~~-p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~  217 (694)
T PRK15179        170 SEQADACFERLSRQH-PEFENGYVGWAQSLTRRGALWRARDVLQAGLDA  217 (694)
T ss_pred             hHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            666666666665521 112455556666666666666666666666554

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

Probab=98.87  E-value=4.2e-07  Score=73.86  Aligned_cols=227  Identities=12%  Similarity=-0.029  Sum_probs=167.1

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCH
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  110 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  110 (275)
                      ..-+.+.|++.+|.-.|+.....+ |-+...|.-|......+++-..|+..+++..+.... +....-.|.-.|...|.-
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            445678899999999999988876 557889999999999999999999999999985433 456677788889999988


Q ss_pred             HHHHHHHHHHhhcC-----CCC--CCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHH
Q 023952          111 DQVKKFLDEMSCDS-----GGS--DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  183 (275)
Q Consensus       111 ~~a~~~~~~~~~~~-----~~~--~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  183 (275)
                      .+|...++.-....     ...  ++...-..  ..+.....+....+++++.....+..+|..+...|.-.|--.|+++
T Consensus       370 ~~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~--~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  370 NQALKMLDKWIRNKPKYVHLVSAGENEDFENT--KSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHHHHhCccchhccccCccccccCC--cCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            89998888754421     000  00000000  1112222333444423333444454467788888888899999999


Q ss_pred             HHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 023952          184 KIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  262 (275)
                      +|.+.|+.....  +| |..+||-|.-.++...+.++|+..+++.++..  +--+++...|.-+|...|.+++|.+.|-+
T Consensus       448 raiDcf~~AL~v--~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLq--P~yVR~RyNlgIS~mNlG~ykEA~~hlL~  523 (579)
T KOG1125|consen  448 RAVDCFEAALQV--KPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQ--PGYVRVRYNLGISCMNLGAYKEAVKHLLE  523 (579)
T ss_pred             HHHHHHHHHHhc--CCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcC--CCeeeeehhhhhhhhhhhhHHHHHHHHHH
Confidence            999999998875  55 55779999999999999999999999999843  23356666678899999999999988866


Q ss_pred             HHh
Q 023952          263 LLQ  265 (275)
Q Consensus       263 m~~  265 (275)
                      .+.
T Consensus       524 AL~  526 (579)
T KOG1125|consen  524 ALS  526 (579)
T ss_pred             HHH
Confidence            543

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

Probab=98.87  E-value=9.5e-07  Score=65.10  Aligned_cols=164  Identities=12%  Similarity=0.021  Sum_probs=134.7

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      |... ..+-..+...|+-+....+......... -|......++....+.|++.+|...+.+...  .-++|+.+|+.+.
T Consensus        66 d~~i-~~~a~a~~~~G~a~~~l~~~~~~~~~~~-~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lg  141 (257)
T COG5010          66 DLSI-AKLATALYLRGDADSSLAVLQKSAIAYP-KDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLG  141 (257)
T ss_pred             hHHH-HHHHHHHHhcccccchHHHHhhhhccCc-ccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHH
Confidence            4444 6667778888988888888877665432 2566677789999999999999999999988  5699999999999


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  217 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  217 (275)
                      -+|.+.|+.+.|.. -+.+..+..+. +....+.+.-.|.-.|+++.|..++......+ .-+...-..+...-...|++
T Consensus       142 aaldq~Gr~~~Ar~-ay~qAl~L~~~-~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~-~ad~~v~~NLAl~~~~~g~~  218 (257)
T COG5010         142 AALDQLGRFDEARR-AYRQALELAPN-EPSIANNLGMSLLLRGDLEDAETLLLPAYLSP-AADSRVRQNLALVVGLQGDF  218 (257)
T ss_pred             HHHHHccChhHHHH-HHHHHHHhccC-CchhhhhHHHHHHHcCCHHHHHHHHHHHHhCC-CCchHHHHHHHHHHhhcCCh
Confidence            99999999999999 88888776654 55677888888999999999999999887764 33566667788888999999


Q ss_pred             HHHHHHHHHHH
Q 023952          218 KEVGEIIDQWK  228 (275)
Q Consensus       218 ~~a~~~~~~~~  228 (275)
                      +.|.++...-.
T Consensus       219 ~~A~~i~~~e~  229 (257)
T COG5010         219 REAEDIAVQEL  229 (257)
T ss_pred             HHHHhhccccc
Confidence            99999887643

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.87  E-value=1.5e-07  Score=65.32  Aligned_cols=107  Identities=6%  Similarity=-0.181  Sum_probs=66.0

Q ss_pred             HHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC
Q 023952           12 RYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV   91 (275)
Q Consensus        12 ~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~   91 (275)
                      .+|++..+..|+  .+..+...+.+.|++++|...|+...... +.+...|..+..++.+.|++++|+..|+...+.+. 
T Consensus        14 ~~~~~al~~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p-   89 (144)
T PRK15359         14 DILKQLLSVDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQ-PWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDA-   89 (144)
T ss_pred             HHHHHHHHcCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-
Confidence            344444443333  24445666666677777777777666554 44566666666667777777777777777666432 


Q ss_pred             CchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           92 PDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        92 p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      .+..++..+..++...|++++|...|+...+
T Consensus        90 ~~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~  120 (144)
T PRK15359         90 SHPEPVYQTGVCLKMMGEPGLAREAFQTAIK  120 (144)
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2555666666666667777777777776665

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

Probab=98.84  E-value=1.4e-05  Score=66.29  Aligned_cols=193  Identities=11%  Similarity=0.065  Sum_probs=116.4

Q ss_pred             CCHHHHHHHHHHHhhCCCCCc------hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhc
Q 023952           73 GQVEKVALVVEEIKRKNVVPD------IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITA  143 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~~~~p~------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~  143 (275)
                      |+..+....|.+..+. +.|-      ...|..+.+.|-..|+++.|..+|++..+. .++--   ..+|.....+-.+.
T Consensus       361 ~~~~~~i~tyteAv~~-vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V-~y~~v~dLa~vw~~waemElrh  438 (835)
T KOG2047|consen  361 GNAAEQINTYTEAVKT-VDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKV-PYKTVEDLAEVWCAWAEMELRH  438 (835)
T ss_pred             CChHHHHHHHHHHHHc-cCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcC-CccchHHHHHHHHHHHHHHHhh
Confidence            4445555555555543 3332      245777788888899999999999988874 22222   34566666666677


Q ss_pred             CchHHHHHHHHHHHHHccCCc-----------------chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHH
Q 023952          144 SHLVNAESSTLVEAEKSITQR-----------------QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYIC  206 (275)
Q Consensus       144 g~~~~a~~~~~~~~~~~~~~~-----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  206 (275)
                      .+++.|.+ +++....-...|                 +...|+..++.--..|-++....+++++.+..+. ++.....
T Consensus       439 ~~~~~Al~-lm~~A~~vP~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLria-TPqii~N  516 (835)
T KOG2047|consen  439 ENFEAALK-LMRRATHVPTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIA-TPQIIIN  516 (835)
T ss_pred             hhHHHHHH-HHHhhhcCCCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcC-CHHHHHH
Confidence            78888888 665543211111                 2345666666666677888888888888776543 2222222


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCCH-HHHHHHHHHHHh---cCChHHHHHHHHHHHhcCCCCC
Q 023952          207 ILSSYLMLGHLKEVGEIIDQWKQSATSDFDI-SACNRLLGAFSD---VGLTEKANEFHMLLLQKNCAPT  271 (275)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~---~g~~~~a~~~~~~m~~~~~~p~  271 (275)
                      ....+-.+.-++++.+++++-..... .|++ ..|+..+.-+.+   .-..+.|+.+|++.++ |+.|.
T Consensus       517 yAmfLEeh~yfeesFk~YErgI~LFk-~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~  583 (835)
T KOG2047|consen  517 YAMFLEEHKYFEESFKAYERGISLFK-WPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPE  583 (835)
T ss_pred             HHHHHHhhHHHHHHHHHHHcCCccCC-CccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHH
Confidence            22233455566777777776555432 2443 356665555543   2357778888888777 66664

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.82  E-value=4.2e-06  Score=64.56  Aligned_cols=156  Identities=10%  Similarity=0.031  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHH
Q 023952          110 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIW  189 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  189 (275)
                      ..-|.+.|+-.-.++....+..--.++.+.+.-.-++++.+. .++.+.......|..-+ .+.++++..|++.+|+++|
T Consensus       339 lKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~-YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf  416 (557)
T KOG3785|consen  339 LKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLT-YLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELF  416 (557)
T ss_pred             HHHHHHHHHHhcccccccccccchHHHHHHHHHHHHHHHHHH-HHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHH
Confidence            344555554444432222223334466666666777788777 77777776666665555 4678889999999999999


Q ss_pred             HHHHhccCCCChhhHH-HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          190 KSLRMTKQKMTSRNYI-CILSSYLMLGHLKEVGEIIDQWKQSATSDFDI-SACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       190 ~~m~~~~~~p~~~~~~-~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                      -.+....++ +..+|. .|.++|.+.+..+.|++++-.+..    +.+. .....+..-|-+++++--|-+.|+++...+
T Consensus       417 ~~is~~~ik-n~~~Y~s~LArCyi~nkkP~lAW~~~lk~~t----~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lD  491 (557)
T KOG3785|consen  417 IRISGPEIK-NKILYKSMLARCYIRNKKPQLAWDMMLKTNT----PSERFSLLQLIANDCYKANEFYYAAKAFDELEILD  491 (557)
T ss_pred             hhhcChhhh-hhHHHHHHHHHHHHhcCCchHHHHHHHhcCC----chhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccC
Confidence            877654443 445665 466788999999999888776532    2233 334455678889999999999999887755


Q ss_pred             CCCCC
Q 023952          268 CAPTN  272 (275)
Q Consensus       268 ~~p~~  272 (275)
                      -.|..
T Consensus       492 P~pEn  496 (557)
T KOG3785|consen  492 PTPEN  496 (557)
T ss_pred             CCccc
Confidence            55543

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

Probab=98.82  E-value=7e-06  Score=67.90  Aligned_cols=222  Identities=13%  Similarity=0.056  Sum_probs=130.7

Q ss_pred             ccccChhhHHHHhhccccCC-CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSA-KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      +.-|+-++|......-...+ .+.+-|..+.-.+-...++++|+..|......+ +-|...|..+...-++.|+++....
T Consensus        52 ~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~-~dN~qilrDlslLQ~QmRd~~~~~~  130 (700)
T KOG1156|consen   52 NCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIE-KDNLQILRDLSLLQIQMRDYEGYLE  130 (700)
T ss_pred             hcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHHHhhhhHHH
Confidence            44566666666666554443 366677777766666777777777777766654 4566777777766677777777777


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH------HHHhcCchHHHHHHHH
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN------IYITASHLVNAESSTL  154 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~------~~~~~g~~~~a~~~~~  154 (275)
                      .-.++.+.... ....|..+..++.-.|+...|..+.++..+.....|+...+.-...      ...+.|..++|.+ .+
T Consensus       131 tr~~LLql~~~-~ra~w~~~Avs~~L~g~y~~A~~il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale-~L  208 (700)
T KOG1156|consen  131 TRNQLLQLRPS-QRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALE-HL  208 (700)
T ss_pred             HHHHHHHhhhh-hHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHH-HH
Confidence            77666664221 3345667777777778888888888777765323455555543322      2334566666666 44


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHH-HHH-hcCCHHHHHHHHHHHHh
Q 023952          155 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILS-SYL-MLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~-~~~-~~g~~~~a~~~~~~~~~  229 (275)
                      ......... ....-..-...+.+.+++++|..++..+...  .||..-|.-.+. ++. -.+..+....+|....+
T Consensus       209 ~~~e~~i~D-kla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~  282 (700)
T KOG1156|consen  209 LDNEKQIVD-KLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSE  282 (700)
T ss_pred             HhhhhHHHH-HHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhh
Confidence            333222211 1112223345567788888888888877764  566655554433 333 23333333355555444

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

Probab=98.81  E-value=1.3e-05  Score=64.32  Aligned_cols=207  Identities=13%  Similarity=0.053  Sum_probs=139.3

Q ss_pred             ChhhHHHHhhccccC----CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            6 GIHSGERYFEGLPLS----AKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         6 ~~~~A~~~~~~~~~~----~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      ++.++...-+.++..    +|+...+...+.+......-..+..++..-.+.+   ....+-...-.+...|++++|+..
T Consensus       252 RIa~lr~ra~q~p~~~~~d~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~---~~aa~YG~A~~~~~~~~~d~A~~~  328 (484)
T COG4783         252 RIADLRNRAEQSPPYNKLDSPDFQLARARIRAKYEALPNQQAADLLAKRSKRG---GLAAQYGRALQTYLAGQYDEALKL  328 (484)
T ss_pred             HHHHHHHHHHhCCCCCCCCCccHHHHHHHHHHHhccccccchHHHHHHHhCcc---chHHHHHHHHHHHHhcccchHHHH
Confidence            344455555555543    2456666666665554443333333333322211   223333333445677889999999


Q ss_pred             HHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           82 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      ++.+..... -|+..+......+.+.++.++|.+.++++...  .|........+..+|.+.|++.+|+. .++......
T Consensus       329 l~~L~~~~P-~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~eai~-~L~~~~~~~  404 (484)
T COG4783         329 LQPLIAAQP-DNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQEAIR-ILNRYLFND  404 (484)
T ss_pred             HHHHHHhCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHHHHH-HHHHHhhcC
Confidence            999887632 24555556667788999999999999998874  33446667788889999999999999 777776666


Q ss_pred             CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHH
Q 023952          162 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISAC  240 (275)
Q Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  240 (275)
                      +. |...|..|.++|...|+..++..-..                  ..|...|+++.|...+....+..  +++..+|
T Consensus       405 p~-dp~~w~~LAqay~~~g~~~~a~~A~A------------------E~~~~~G~~~~A~~~l~~A~~~~--~~~~~~~  462 (484)
T COG4783         405 PE-DPNGWDLLAQAYAELGNRAEALLARA------------------EGYALAGRLEQAIIFLMRASQQV--KLGFPDW  462 (484)
T ss_pred             CC-CchHHHHHHHHHHHhCchHHHHHHHH------------------HHHHhCCCHHHHHHHHHHHHHhc--cCCcHHH
Confidence            54 78899999999999998887765544                  34567789999999888887754  3555555

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.76  E-value=1e-05  Score=70.00  Aligned_cols=187  Identities=7%  Similarity=-0.031  Sum_probs=139.0

Q ss_pred             HHHHHHHHHHhhccCCHHHH-HHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKV-ALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a-~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      +.....+=.+.+..|..++| .+++.++.+            ++....+.....++..-......  .++.+...+..|.
T Consensus        28 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~La   93 (694)
T PRK15179         28 PTILDLLEAALAEPGESEEAGRELLQQARQ------------VLERHAAVHKPAAALPELLDYVR--RYPHTELFQVLVA   93 (694)
T ss_pred             cHHHhHHHHHhcCcccchhHHHHHHHHHHH------------HHHHhhhhcchHhhHHHHHHHHH--hccccHHHHHHHH
Confidence            44444455566777777766 445555544            11222222223333333333333  3567788999999


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCC
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGH  216 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~  216 (275)
                      ....+.|.+++|+. +++......+. +......+...+.+.+++++|...+++....  .|+. .....+..++.+.|+
T Consensus        94 ~i~~~~g~~~ea~~-~l~~~~~~~Pd-~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~--~p~~~~~~~~~a~~l~~~g~  169 (694)
T PRK15179         94 RALEAAHRSDEGLA-VWRGIHQRFPD-SSEAFILMLRGVKRQQGIEAGRAEIELYFSG--GSSSAREILLEAKSWDEIGQ  169 (694)
T ss_pred             HHHHHcCCcHHHHH-HHHHHHhhCCC-cHHHHHHHHHHHHHhccHHHHHHHHHHHhhc--CCCCHHHHHHHHHHHHHhcc
Confidence            99999999999999 89888887755 6677788889999999999999999998875  5554 456677788889999


Q ss_pred             HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          217 LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       217 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +++|..+|+++...+  +-+..++..+..++...|+.++|...|++..+
T Consensus       170 ~~~A~~~y~~~~~~~--p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~  216 (694)
T PRK15179        170 SEQADACFERLSRQH--PEFENGYVGWAQSLTRRGALWRARDVLQAGLD  216 (694)
T ss_pred             hHHHHHHHHHHHhcC--CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            999999999999843  24577888899999999999999999998865

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

Probab=98.76  E-value=1.1e-05  Score=63.54  Aligned_cols=232  Identities=10%  Similarity=-0.030  Sum_probs=139.4

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      |......+..++...|+.++|+..|+.....+  |+ +.......-.+.+.|+++....+...+.... +-+...|..-+
T Consensus       231 NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~d--py~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~~  307 (564)
T KOG1174|consen  231 NEHLMMALGKCLYYNGDYFQAEDIFSSTLCAN--PDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVHA  307 (564)
T ss_pred             cHHHHHHHhhhhhhhcCchHHHHHHHHHhhCC--hhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhhh
Confidence            56666666677777777777777776655443  22 2222222333455666666666666655431 12333344344


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  181 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  181 (275)
                      ......++++.|..+-++.++.  -+.+...+-.-...+.+.|+.++|.- .|+......| -+...|.-|+.+|...|.
T Consensus       308 ~~l~~~K~~~rAL~~~eK~I~~--~~r~~~alilKG~lL~~~~R~~~A~I-aFR~Aq~Lap-~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  308 QLLYDEKKFERALNFVEKCIDS--EPRNHEALILKGRLLIALERHTQAVI-AFRTAQMLAP-YRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhHHHHHHHHHHHhcc--CcccchHHHhccHHHHhccchHHHHH-HHHHHHhcch-hhHHHHHHHHHHHHhhch
Confidence            4445566777777777766653  24445555444556667788887776 6776655443 267788888888888888


Q ss_pred             HHHHHHHHHHHHhccCCCChhhHHHHH-HHHH-hcCCHHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhcCChHHHHH
Q 023952          182 KDKIDQIWKSLRMTKQKMTSRNYICIL-SSYL-MLGHLKEVGEIIDQWKQSATSDFD-ISACNRLLGAFSDVGLTEKANE  258 (275)
Q Consensus       182 ~~~a~~~~~~m~~~~~~p~~~~~~~li-~~~~-~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~  258 (275)
                      +.+|..+-+...+. +..+..+...+. ..|. ...--++|..+++.-.+.   .|+ ...-+.+.+.+..-|+.+.+..
T Consensus       384 ~kEA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~---~P~Y~~AV~~~AEL~~~Eg~~~D~i~  459 (564)
T KOG1174|consen  384 FKEANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKI---NPIYTPAVNLIAELCQVEGPTKDIIK  459 (564)
T ss_pred             HHHHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhcc---CCccHHHHHHHHHHHHhhCccchHHH
Confidence            88887766654332 233444544442 2332 223346677777776553   233 4456777888889999999999


Q ss_pred             HHHHHHh
Q 023952          259 FHMLLLQ  265 (275)
Q Consensus       259 ~~~~m~~  265 (275)
                      ++++.+.
T Consensus       460 LLe~~L~  466 (564)
T KOG1174|consen  460 LLEKHLI  466 (564)
T ss_pred             HHHHHHh
Confidence            9987654

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.75  E-value=1.1e-05  Score=73.24  Aligned_cols=262  Identities=12%  Similarity=0.056  Sum_probs=168.3

Q ss_pred             cccChhhHHHHhhccccCCC--C----HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHhhc
Q 023952            3 KVFGIHSGERYFEGLPLSAK--T----SETYTALLHLYAGAKWTEKAEELFERVKQS----NL-SFNALMYNEMMTLYMS   71 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~--~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~~~~~~~~~li~~~~~   71 (275)
                      ..|+++.|...+++.....+  +    ....+.+...+...|++++|...+++....    |- .+...++..+...+..
T Consensus       464 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~  543 (903)
T PRK04841        464 NDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARALAMMQQTEQMARQHDVYHYALWSLLQQSEILFA  543 (903)
T ss_pred             hCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHH
Confidence            35788899888887544211  2    234566677788899999999999887642    21 1112345566677888


Q ss_pred             cCCHHHHHHHHHHHhhC----CCC--C-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC-CCCC--CHHHHHHHHHHHH
Q 023952           72 VGQVEKVALVVEEIKRK----NVV--P-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDS-GGSD--DWVKYVNLVNIYI  141 (275)
Q Consensus        72 ~g~~~~a~~~~~~m~~~----~~~--p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~--~~~~~~~l~~~~~  141 (275)
                      .|++++|...+++....    +..  | ....+..+...+...|++++|...+.+..... ...+  ....+..+...+.
T Consensus       544 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  623 (903)
T PRK04841        544 QGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISL  623 (903)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHH
Confidence            99999999998886652    221  1 12334455566777899999999988865421 1112  2334455667788


Q ss_pred             hcCchHHHHHHHHHHHHHccCCcc-hhhH-----HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhh----HHHHHHHH
Q 023952          142 TASHLVNAESSTLVEAEKSITQRQ-WITY-----DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN----YICILSSY  211 (275)
Q Consensus       142 ~~g~~~~a~~~~~~~~~~~~~~~~-~~~~-----~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~----~~~li~~~  211 (275)
                      ..|+.+.|.+ .+........... ...+     ...+..+...|+.+.|...+........ .....    +..+..++
T Consensus       624 ~~G~~~~A~~-~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~l~~~~~~~~-~~~~~~~~~~~~~a~~~  701 (903)
T PRK04841        624 ARGDLDNARR-YLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKEAAANWLRQAPKPEF-ANNHFLQGQWRNIARAQ  701 (903)
T ss_pred             HcCCHHHHHH-HHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHHHHHHHHHhcCCCCC-ccchhHHHHHHHHHHHH
Confidence            8999999998 7777654321111 1111     1122344568899999988776543211 11111    34566778


Q ss_pred             HhcCCHHHHHHHHHHHHhcC---CCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          212 LMLGHLKEVGEIIDQWKQSA---TSDF-DISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       212 ~~~g~~~~a~~~~~~~~~~~---~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ...|+.++|...+++.....   .... ...+...+..++...|+.++|...+.+..+.
T Consensus       702 ~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A~~~L~~Al~l  760 (903)
T PRK04841        702 ILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEAQRVLLEALKL  760 (903)
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            89999999999999886531   1111 2345666778889999999999999988764

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.75  E-value=7.5e-07  Score=61.80  Aligned_cols=96  Identities=5%  Similarity=-0.182  Sum_probs=59.0

Q ss_pred             HHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 023952           62 YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  141 (275)
Q Consensus        62 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  141 (275)
                      +..+...+...|++++|...|+........ +...|..+..++...|++++|...|++....  .+.+...+..+..++.
T Consensus        27 ~~~~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l--~p~~~~a~~~lg~~l~  103 (144)
T PRK15359         27 VYASGYASWQEGDYSRAVIDFSWLVMAQPW-SWRAHIALAGTWMMLKEYTTAINFYGHALML--DASHPEPVYQTGVCLK  103 (144)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc--CCCCcHHHHHHHHHHH
Confidence            444555566666666666666666664322 4556666666666666666666666666652  3455566666666666


Q ss_pred             hcCchHHHHHHHHHHHHHcc
Q 023952          142 TASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus       142 ~~g~~~~a~~~~~~~~~~~~  161 (275)
                      +.|+.++|.. .+.......
T Consensus       104 ~~g~~~eAi~-~~~~Al~~~  122 (144)
T PRK15359        104 MMGEPGLARE-AFQTAIKMS  122 (144)
T ss_pred             HcCCHHHHHH-HHHHHHHhC
Confidence            6666666666 666555544

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

Probab=98.74  E-value=7.3e-06  Score=71.93  Aligned_cols=200  Identities=14%  Similarity=0.105  Sum_probs=140.2

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCC---------
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP---------   92 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p---------   92 (275)
                      +...|..|+..+...+++++|.++.+...+..  |+ ...|-.+...+.+.++.+++..+  .+... +..         
T Consensus        30 n~~a~~~Li~~~~~~~~~deai~i~~~~l~~~--P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~-~~~~~~~~~ve~  104 (906)
T PRK14720         30 KFKELDDLIDAYKSENLTDEAKDICEEHLKEH--KKSISALYISGILSLSRRPLNDSNLL--NLIDS-FSQNLKWAIVEH  104 (906)
T ss_pred             hHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC--CcceehHHHHHHHHHhhcchhhhhhh--hhhhh-cccccchhHHHH
Confidence            78899999999999999999999999766653  43 33333333356666666555554  22221 111         


Q ss_pred             ----------chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           93 ----------DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        93 ----------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                                +...+..+..+|-+.|+.+++..+|+++.+.  -+.+..+.|.+.-.|... ++++|++ ++.+....  
T Consensus       105 ~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~~yer~L~~--D~~n~~aLNn~AY~~ae~-dL~KA~~-m~~KAV~~--  178 (906)
T PRK14720        105 ICDKILLYGENKLALRTLAEAYAKLNENKKLKGVWERLVKA--DRDNPEIVKKLATSYEEE-DKEKAIT-YLKKAIYR--  178 (906)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHh-hHHHHHH-HHHHHHHH--
Confidence                      2256777888888899999999999999985  377888999999999999 9999999 66665543  


Q ss_pred             CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc-------------------cCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 023952          163 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT-------------------KQKMTSRNYICILSSYLMLGHLKEVGEI  223 (275)
Q Consensus       163 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-------------------~~~p~~~~~~~li~~~~~~g~~~~a~~~  223 (275)
                                   |...+++..+.++|.++...                   |..--..++..+-..|-...+++++..+
T Consensus       179 -------------~i~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~i  245 (906)
T PRK14720        179 -------------FIKKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYI  245 (906)
T ss_pred             -------------HHhhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHH
Confidence                         23333444444444444332                   2222233445556778888999999999


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHH
Q 023952          224 IDQWKQSATSDFDISACNRLLGAFS  248 (275)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~li~~~~  248 (275)
                      ++.+.+..  +.|.....-++.+|.
T Consensus       246 LK~iL~~~--~~n~~a~~~l~~~y~  268 (906)
T PRK14720        246 LKKILEHD--NKNNKAREELIRFYK  268 (906)
T ss_pred             HHHHHhcC--CcchhhHHHHHHHHH
Confidence            99999865  457777788888877

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.73  E-value=2.6e-05  Score=60.07  Aligned_cols=190  Identities=10%  Similarity=-0.054  Sum_probs=97.2

Q ss_pred             hhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHH
Q 023952           69 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  148 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  148 (275)
                      +.-.|+...|+.....+.+-.+ -|...+..-..+|...|++..|+.=++...+.  ...+...+.-+-..+...|+.+.
T Consensus       165 ~~~~GD~~~ai~~i~~llEi~~-Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askL--s~DnTe~~ykis~L~Y~vgd~~~  241 (504)
T KOG0624|consen  165 ASGSGDCQNAIEMITHLLEIQP-WDASLRQARAKCYIAEGEPKKAIHDLKQASKL--SQDNTEGHYKISQLLYTVGDAEN  241 (504)
T ss_pred             HhcCCchhhHHHHHHHHHhcCc-chhHHHHHHHHHHHhcCcHHHHHHHHHHHHhc--cccchHHHHHHHHHHHhhhhHHH
Confidence            3344455555555555444321 24444444444455555555554444444331  23344444444444555555555


Q ss_pred             HHHHHHHHHHHccCCcchhh----HHH-------H--HHHHHccCCHHHHHHHHHHHHhccCCCChhh---HHHHHHHHH
Q 023952          149 AESSTLVEAEKSITQRQWIT----YDF-------L--IILYAGLGNKDKIDQIWKSLRMTKQKMTSRN---YICILSSYL  212 (275)
Q Consensus       149 a~~~~~~~~~~~~~~~~~~~----~~~-------l--~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~---~~~li~~~~  212 (275)
                      ++. .+++-.+..  ||...    |-.       |  +......++|-++.+-.+...+.........   +..+-.++.
T Consensus       242 sL~-~iRECLKld--pdHK~Cf~~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~  318 (504)
T KOG0624|consen  242 SLK-EIRECLKLD--PDHKLCFPFYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYR  318 (504)
T ss_pred             HHH-HHHHHHccC--cchhhHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeeccc
Confidence            544 444333322  22111    100       0  0112334455555555554444322211222   233455666


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          213 MLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ..|++.+|++...++.+-.  +.|+.++.--..+|.-...++.|..-|+...+.
T Consensus       319 ~d~~~~eAiqqC~evL~~d--~~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~  370 (504)
T KOG0624|consen  319 EDEQFGEAIQQCKEVLDID--PDDVQVLCDRAEAYLGDEMYDDAIHDYEKALEL  370 (504)
T ss_pred             ccCCHHHHHHHHHHHHhcC--chHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc
Confidence            7888888888888887732  345777777788888888888888888877653

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

Probab=98.72  E-value=2.8e-05  Score=65.73  Aligned_cols=253  Identities=13%  Similarity=0.034  Sum_probs=170.1

Q ss_pred             hhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHH
Q 023952            7 IHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEI   85 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m   85 (275)
                      ..++++.+++..+.+| |+.+--.+.--|+..++++.|.+...+..+.+-.-++..|..|.-.+...+++.+|+.+.+..
T Consensus       460 h~kslqale~av~~d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~a  539 (799)
T KOG4162|consen  460 HKKSLQALEEAVQFDPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAA  539 (799)
T ss_pred             HHHHHHHHHHHHhcCCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHH
Confidence            4567788888766544 444444455567777899999999999888765678999999999999999999999998876


Q ss_pred             hhC-CCC------------------CchhhHHHHHHHHHh---------h--------------CCHHHHHHHHHHHh--
Q 023952           86 KRK-NVV------------------PDIFTYNLWISSCAA---------T--------------LNIDQVKKFLDEMS--  121 (275)
Q Consensus        86 ~~~-~~~------------------p~~~~~~~ll~~~~~---------~--------------~~~~~a~~~~~~~~--  121 (275)
                      ... |..                  --..|+..++..+-.         .              ++..++.+....+.  
T Consensus       540 l~E~~~N~~l~~~~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l  619 (799)
T KOG4162|consen  540 LEEFGDNHVLMDGKIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSL  619 (799)
T ss_pred             HHHhhhhhhhchhhhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHH
Confidence            653 210                  001222223222220         0              01111111111100  


Q ss_pred             -----hcCC---------CCCCH--------HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc
Q 023952          122 -----CDSG---------GSDDW--------VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL  179 (275)
Q Consensus       122 -----~~~~---------~~~~~--------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  179 (275)
                           +..+         ..|+.        ..|......+.+.+..++|.. .+.+..+.. ......|......+...
T Consensus       620 ~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~-CL~Ea~~~~-~l~~~~~~~~G~~~~~~  697 (799)
T KOG4162|consen  620 VASQLKSAGSELKLPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARS-CLLEASKID-PLSASVYYLRGLLLEVK  697 (799)
T ss_pred             HHhhhhhcccccccCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHH-HHHHHHhcc-hhhHHHHHHhhHHHHHH
Confidence                 0000         01111        123445556667777777776 555554433 23566777777778889


Q ss_pred             CCHHHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHH--HHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHH
Q 023952          180 GNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGE--IIDQWKQSATSDFDISACNRLLGAFSDVGLTEKA  256 (275)
Q Consensus       180 ~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  256 (275)
                      |..++|.+.|.....  +.|+. ....++...+.+.|+...|..  ++.++.+.+  +.+...|..+...+.+.|+.+.|
T Consensus       698 ~~~~EA~~af~~Al~--ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~d--p~n~eaW~~LG~v~k~~Gd~~~A  773 (799)
T KOG4162|consen  698 GQLEEAKEAFLVALA--LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLD--PLNHEAWYYLGEVFKKLGDSKQA  773 (799)
T ss_pred             HhhHHHHHHHHHHHh--cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhC--CCCHHHHHHHHHHHHHccchHHH
Confidence            999999999987766  45654 567789999999999888888  999999865  56888999999999999999999


Q ss_pred             HHHHHHHHh
Q 023952          257 NEFHMLLLQ  265 (275)
Q Consensus       257 ~~~~~~m~~  265 (275)
                      -+.|+...+
T Consensus       774 aecf~aa~q  782 (799)
T KOG4162|consen  774 AECFQAALQ  782 (799)
T ss_pred             HHHHHHHHh
Confidence            999998765

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

Probab=98.71  E-value=2.4e-06  Score=71.48  Aligned_cols=215  Identities=16%  Similarity=0.088  Sum_probs=170.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      .-..+...+...|-...|..+|+++         ..|.-.|.+|...|+..+|..+..+..+  -+||+..|..+.+...
T Consensus       400 ~q~~laell~slGitksAl~I~Erl---------emw~~vi~CY~~lg~~~kaeei~~q~le--k~~d~~lyc~LGDv~~  468 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFERL---------EMWDPVILCYLLLGQHGKAEEINRQELE--KDPDPRLYCLLGDVLH  468 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHhH---------HHHHHHHHHHHHhcccchHHHHHHHHhc--CCCcchhHHHhhhhcc
Confidence            3445667788889999999999864         5677789999999999999999988888  3689999999999888


Q ss_pred             hhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHH
Q 023952          106 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKI  185 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  185 (275)
                      ...-+++|.++.+....+        .-..+.....+.++++++.+ .++......+ .-..+|-.+..+..+.++++.|
T Consensus       469 d~s~yEkawElsn~~sar--------A~r~~~~~~~~~~~fs~~~~-hle~sl~~np-lq~~~wf~~G~~ALqlek~q~a  538 (777)
T KOG1128|consen  469 DPSLYEKAWELSNYISAR--------AQRSLALLILSNKDFSEADK-HLERSLEINP-LQLGTWFGLGCAALQLEKEQAA  538 (777)
T ss_pred             ChHHHHHHHHHhhhhhHH--------HHHhhccccccchhHHHHHH-HHHHHhhcCc-cchhHHHhccHHHHHHhhhHHH
Confidence            887889999988775442        11122222334788999888 7766555433 3567888888888899999999


Q ss_pred             HHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          186 DQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       186 ~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      .+.|..-...  .|+. ..||.+-.+|.+.++-.+|...+.+..+-.  ..+...|...+....+.|.+++|.+.+.++.
T Consensus       539 v~aF~rcvtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn--~~~w~iWENymlvsvdvge~eda~~A~~rll  614 (777)
T KOG1128|consen  539 VKAFHRCVTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCN--YQHWQIWENYMLVSVDVGEFEDAIKAYHRLL  614 (777)
T ss_pred             HHHHHHHhhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcC--CCCCeeeechhhhhhhcccHHHHHHHHHHHH
Confidence            9999877663  5654 679999999999999999999999998865  3455568778888999999999999999886


Q ss_pred             h
Q 023952          265 Q  265 (275)
Q Consensus       265 ~  265 (275)
                      .
T Consensus       615 ~  615 (777)
T KOG1128|consen  615 D  615 (777)
T ss_pred             H
Confidence            4

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.70  E-value=1.1e-06  Score=60.36  Aligned_cols=108  Identities=14%  Similarity=-0.015  Sum_probs=68.8

Q ss_pred             hhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCC
Q 023952           14 FEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP   92 (275)
Q Consensus        14 ~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p   92 (275)
                      |++.....| +......+...+.+.|++++|.+.|+.+...+ +.+...|..+...+...|++++|...+++..+.+. .
T Consensus         6 ~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p-~   83 (135)
T TIGR02552         6 LKDLLGLDSEQLEQIYALAYNLYQQGRYDEALKLFQLLAAYD-PYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDP-D   83 (135)
T ss_pred             HHHHHcCChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-C
Confidence            333333334 44555666666777777777777777766654 34566666777777777777777777777666532 2


Q ss_pred             chhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           93 DIFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        93 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      +..++..+...+...|++++|...|+...+.
T Consensus        84 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  114 (135)
T TIGR02552        84 DPRPYFHAAECLLALGEPESALKALDLAIEI  114 (135)
T ss_pred             ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4555666666677777777777777766653

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=98.69  E-value=6.6e-06  Score=65.95  Aligned_cols=154  Identities=9%  Similarity=-0.036  Sum_probs=124.5

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc-hhhHHHHHHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISS  103 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~  103 (275)
                      ..+......+...|++++|+..++.+... .|-|+..+......+.+.++.++|.+.++.+...  .|+ ....-.+..+
T Consensus       307 aa~YG~A~~~~~~~~~d~A~~~l~~L~~~-~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~a  383 (484)
T COG4783         307 AAQYGRALQTYLAGQYDEALKLLQPLIAA-QPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQA  383 (484)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHH
Confidence            33444445566789999999999998876 4567788888889999999999999999999985  566 5566778889


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  183 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  183 (275)
                      +.+.|++.+|+.+++....  ..+.+...|..|..+|...|+..++.. .                  ....|...|+++
T Consensus       384 ll~~g~~~eai~~L~~~~~--~~p~dp~~w~~LAqay~~~g~~~~a~~-A------------------~AE~~~~~G~~~  442 (484)
T COG4783         384 LLKGGKPQEAIRILNRYLF--NDPEDPNGWDLLAQAYAELGNRAEALL-A------------------RAEGYALAGRLE  442 (484)
T ss_pred             HHhcCChHHHHHHHHHHhh--cCCCCchHHHHHHHHHHHhCchHHHHH-H------------------HHHHHHhCCCHH
Confidence            9999999999999999887  468899999999999999999998887 2                  234567789999


Q ss_pred             HHHHHHHHHHhccCCCChhh
Q 023952          184 KIDQIWKSLRMTKQKMTSRN  203 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~  203 (275)
                      .|...+....+.. +++..+
T Consensus       443 ~A~~~l~~A~~~~-~~~~~~  461 (484)
T COG4783         443 QAIIFLMRASQQV-KLGFPD  461 (484)
T ss_pred             HHHHHHHHHHHhc-cCCcHH
Confidence            9999888876653 444433

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.69  E-value=1.5e-06  Score=65.37  Aligned_cols=199  Identities=7%  Similarity=-0.037  Sum_probs=134.6

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHH-HHHH
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN-LVNI  139 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~-l~~~  139 (275)
                      -+.+.+..+++..+++.|++++..-.++..+ +....+.|..+|....++..|-..++++...   .|...-|.. -...
T Consensus        12 eftaviy~lI~d~ry~DaI~~l~s~~Er~p~-~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql---~P~~~qYrlY~AQS   87 (459)
T KOG4340|consen   12 EFTAVVYRLIRDARYADAIQLLGSELERSPR-SRAGLSLLGYCYYRLQEFALAAECYEQLGQL---HPELEQYRLYQAQS   87 (459)
T ss_pred             chHHHHHHHHHHhhHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHHHHHHHHHHHHHhh---ChHHHHHHHHHHHH
Confidence            3556666667778888888888877776432 6667777888888888999999999888763   455554432 3455


Q ss_pred             HHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHH--HHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH
Q 023952          140 YITASHLVNAESSTLVEAEKSITQRQWITYDFLII--LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  217 (275)
Q Consensus       140 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  217 (275)
                      +.+.+.+.+|++ +...|...   ++...-..-+.  ..-..+++..+..+.++....|   +..+.+.......+.|++
T Consensus        88 LY~A~i~ADALr-V~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en---~Ad~~in~gCllykegqy  160 (459)
T KOG4340|consen   88 LYKACIYADALR-VAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSEN---EADGQINLGCLLYKEGQY  160 (459)
T ss_pred             HHHhcccHHHHH-HHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCC---ccchhccchheeeccccH
Confidence            667888888888 66665442   22211111111  1235677888888877654322   334444444455688999


Q ss_pred             HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 023952          218 KEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  272 (275)
Q Consensus       218 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  272 (275)
                      +.|.+-|+...+-++..| ...|+.-+ +..+.|++..|++...+++++|++-.+
T Consensus       161 EaAvqkFqaAlqvsGyqp-llAYniAL-aHy~~~qyasALk~iSEIieRG~r~HP  213 (459)
T KOG4340|consen  161 EAAVQKFQAALQVSGYQP-LLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHP  213 (459)
T ss_pred             HHHHHHHHHHHhhcCCCc-hhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCC
Confidence            999999999988777654 44577544 455668899999999999999887543

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.68  E-value=3.4e-08  Score=50.42  Aligned_cols=33  Identities=24%  Similarity=0.482  Sum_probs=15.5

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD   93 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~   93 (275)
                      +||++|.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            344444444444444444444444444444443

This family has a similar consensus to the TPR domain (tetratricopeptide), pfam pfam00515, a 33-residue repeat. It is predicted to form a pair of antiparallel helices similar to that of TPR.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.67  E-value=5.1e-08  Score=49.73  Aligned_cols=34  Identities=24%  Similarity=0.389  Sum_probs=28.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCC
Q 023952          239 ACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTN  272 (275)
Q Consensus       239 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~  272 (275)
                      +|+.++.+|++.|++++|.++|++|.+.|+.||.
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~~   35 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPDV   35 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCC
Confidence            6888888888888888888888888888888874

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.

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.65  E-value=5.9e-05  Score=56.06  Aligned_cols=182  Identities=13%  Similarity=0.019  Sum_probs=107.3

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHH-HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVAL-VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~-~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      .......+.......++.+..+. +.+.+.......+......-...|++.+++++|.+.....       .+......=
T Consensus        71 ~lqAvr~~a~~~~~e~~~~~~~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~-------~~lE~~Al~  143 (299)
T KOG3081|consen   71 PLQAVRLLAEYLELESNKKSILASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLG-------ENLEAAALN  143 (299)
T ss_pred             hHHHHHHHHHHhhCcchhHHHHHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhcc-------chHHHHHHH
Confidence            34444444444444444444333 3334444333333333333344577888888888776541       222333333


Q ss_pred             HHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHH----ccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHH
Q 023952          137 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYA----GLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL  212 (275)
Q Consensus       137 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  212 (275)
                      +..+.+..+++.|.+ .++.|.+..   +..|.+-|..++.    ..+.+..|.-+|++|-+. ..|+..+.+....++.
T Consensus       144 VqI~lk~~r~d~A~~-~lk~mq~id---ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~k-~~~T~~llnG~Av~~l  218 (299)
T KOG3081|consen  144 VQILLKMHRFDLAEK-ELKKMQQID---EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEK-TPPTPLLLNGQAVCHL  218 (299)
T ss_pred             HHHHHHHHHHHHHHH-HHHHHHccc---hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcc-cCCChHHHccHHHHHH
Confidence            445567777888887 777765533   3345554544443    345677888888888664 5778888888888888


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCCh
Q 023952          213 MLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLT  253 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  253 (275)
                      ..|++++|..++++...+.  ..+..+...++-+-...|..
T Consensus       219 ~~~~~eeAe~lL~eaL~kd--~~dpetL~Nliv~a~~~Gkd  257 (299)
T KOG3081|consen  219 QLGRYEEAESLLEEALDKD--AKDPETLANLIVLALHLGKD  257 (299)
T ss_pred             HhcCHHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCCC
Confidence            8888888888888887765  34555555555555555554

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.64  E-value=5.6e-06  Score=62.44  Aligned_cols=252  Identities=9%  Similarity=-0.067  Sum_probs=143.4

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHH-HHHhhccCCHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEM-MTLYMSVGQVEKVAL   80 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~l-i~~~~~~g~~~~a~~   80 (275)
                      +-.++.+|++++..-.+..| +....+.|..+|....++..|-..++++...-  |...-|... ...+-+.+.+..|+.
T Consensus        22 ~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~--P~~~qYrlY~AQSLY~A~i~ADALr   99 (459)
T KOG4340|consen   22 RDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLH--PELEQYRLYQAQSLYKACIYADALR   99 (459)
T ss_pred             HHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhC--hHHHHHHHHHHHHHHHhcccHHHHH
Confidence            34567788888877666655 78888888999999999999999999886643  444333221 123344455555655


Q ss_pred             HHHHHhhCC-------------------C------------CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC
Q 023952           81 VVEEIKRKN-------------------V------------VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD  129 (275)
Q Consensus        81 ~~~~m~~~~-------------------~------------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  129 (275)
                      +...|....                   +            .-+..+.+...-...+.|+++.|.+-|+...+-+|+.|-
T Consensus       100 V~~~~~D~~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykegqyEaAvqkFqaAlqvsGyqpl  179 (459)
T KOG4340|consen  100 VAFLLLDNPALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEGQYEAAVQKFQAALQVSGYQPL  179 (459)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccccHHHHHHHHHHHHhhcCCCch
Confidence            555543310                   0            012222222333344667777787777777776566554


Q ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC-------------cch--------hhHHHHHH-------HHHccCC
Q 023952          130 WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-------------RQW--------ITYDFLII-------LYAGLGN  181 (275)
Q Consensus       130 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-------------~~~--------~~~~~l~~-------~~~~~~~  181 (275)
                      . .|+. .-+..+.|+++.|++ ...++...|.+             ||+        ..-+.++.       .+.+.++
T Consensus       180 l-AYni-ALaHy~~~qyasALk-~iSEIieRG~r~HPElgIGm~tegiDvrsvgNt~~lh~Sal~eAfNLKaAIeyq~~n  256 (459)
T KOG4340|consen  180 L-AYNL-ALAHYSSRQYASALK-HISEIIERGIRQHPELGIGMTTEGIDVRSVGNTLVLHQSALVEAFNLKAAIEYQLRN  256 (459)
T ss_pred             h-HHHH-HHHHHhhhhHHHHHH-HHHHHHHhhhhcCCccCccceeccCchhcccchHHHHHHHHHHHhhhhhhhhhhccc
Confidence            3 3443 334446677777777 77777666643             111        01122222       2456677


Q ss_pred             HHHHHHHHHHHHh-ccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          182 KDKIDQIWKSLRM-TKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       182 ~~~a~~~~~~m~~-~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                      ++.|.+.+..|.- ..-..|+.|...+.-.-.. +++.+..+-+.-+....  +-...||..++-.||+..-++.|-+++
T Consensus       257 ~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n~~-~~p~~g~~KLqFLL~~n--PfP~ETFANlLllyCKNeyf~lAADvL  333 (459)
T KOG4340|consen  257 YEAAQEALTDMPPRAEEELDPVTLHNQALMNMD-ARPTEGFEKLQFLLQQN--PFPPETFANLLLLYCKNEYFDLAADVL  333 (459)
T ss_pred             HHHHHHHhhcCCCcccccCCchhhhHHHHhccc-CCccccHHHHHHHHhcC--CCChHHHHHHHHHHhhhHHHhHHHHHH
Confidence            7777777766631 1224455555443322222 22222222233333322  234567888888999999888888877


Q ss_pred             HH
Q 023952          261 ML  262 (275)
Q Consensus       261 ~~  262 (275)
                      .+
T Consensus       334 AE  335 (459)
T KOG4340|consen  334 AE  335 (459)
T ss_pred             hh
Confidence            55

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.63  E-value=7e-08  Score=48.85  Aligned_cols=33  Identities=21%  Similarity=0.275  Sum_probs=27.9

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 023952          238 SACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP  270 (275)
Q Consensus       238 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  270 (275)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            478888888888888888888888888888887

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.62  E-value=7.5e-05  Score=55.14  Aligned_cols=187  Identities=13%  Similarity=0.111  Sum_probs=136.0

Q ss_pred             CCCHHHHHHHHHHHHh---CC-CCCCHH-HHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCch-hhHHHHHHHHHhhCCH
Q 023952           37 AKWTEKAEELFERVKQ---SN-LSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI-FTYNLWISSCAATLNI  110 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~---~~-~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~~~~~~~~  110 (275)
                      ..+.++..+++.++..   .| ..++.. .|..++-+....|+.+-|...++++... + |.. ..-..-.-.+-..|.+
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-f-p~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-F-PGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-C-CCChhHHHHHHHHHHHhhch
Confidence            4568889999888764   23 556665 4566777778889999999999998886 3 443 2222222235567899


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH
Q 023952          111 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  190 (275)
Q Consensus       111 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  190 (275)
                      ++|+++++.+.+.  -|.|..++---+...-..|+.-+|++ -+....+..+. |...|.-+...|...|++++|.-.++
T Consensus       103 ~~A~e~y~~lL~d--dpt~~v~~KRKlAilka~GK~l~aIk-~ln~YL~~F~~-D~EAW~eLaeiY~~~~~f~kA~fClE  178 (289)
T KOG3060|consen  103 KEAIEYYESLLED--DPTDTVIRKRKLAILKAQGKNLEAIK-ELNEYLDKFMN-DQEAWHELAEIYLSEGDFEKAAFCLE  178 (289)
T ss_pred             hhHHHHHHHHhcc--CcchhHHHHHHHHHHHHcCCcHHHHH-HHHHHHHHhcC-cHHHHHHHHHHHHhHhHHHHHHHHHH
Confidence            9999999999885  36677777766666667788888888 67776666654 88999999999999999999999999


Q ss_pred             HHHhccCCCC-hhhHHHHHHHHH---hcCCHHHHHHHHHHHHhcC
Q 023952          191 SLRMTKQKMT-SRNYICILSSYL---MLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       191 ~m~~~~~~p~-~~~~~~li~~~~---~~g~~~~a~~~~~~~~~~~  231 (275)
                      ++.-.  .|. +..+..+...+.   ...+++.|.+++.+..+..
T Consensus       179 E~ll~--~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~  221 (289)
T KOG3060|consen  179 ELLLI--QPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLN  221 (289)
T ss_pred             HHHHc--CCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhC
Confidence            98764  444 444455555443   3446777888898888743

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

Probab=98.62  E-value=1.1e-05  Score=70.79  Aligned_cols=201  Identities=8%  Similarity=-0.008  Sum_probs=136.2

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchh-hHHHHHHHHHhhCCHHHHHHHHHHHhhcCC----------
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF-TYNLWISSCAATLNIDQVKKFLDEMSCDSG----------  125 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----------  125 (275)
                      .+...+..|+..+...+++++|.++.+...+.  .|+.. .|-.+...+...++...+..+  .+.....          
T Consensus        29 ~n~~a~~~Li~~~~~~~~~deai~i~~~~l~~--~P~~i~~yy~~G~l~~q~~~~~~~~lv--~~l~~~~~~~~~~~ve~  104 (906)
T PRK14720         29 SKFKELDDLIDAYKSENLTDEAKDICEEHLKE--HKKSISALYISGILSLSRRPLNDSNLL--NLIDSFSQNLKWAIVEH  104 (906)
T ss_pred             chHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCcceehHHHHHHHHHhhcchhhhhhh--hhhhhcccccchhHHHH
Confidence            35678999999999999999999999977774  44443 333333345566666555554  3332100          


Q ss_pred             -------CCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC
Q 023952          126 -------GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK  198 (275)
Q Consensus       126 -------~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  198 (275)
                             ...+...+..+..+|-+.|+.++|.. +++++.+..+. |+.+.|.+...|+.. ++++|.+++.+....-+ 
T Consensus       105 ~~~~i~~~~~~k~Al~~LA~~Ydk~g~~~ka~~-~yer~L~~D~~-n~~aLNn~AY~~ae~-dL~KA~~m~~KAV~~~i-  180 (906)
T PRK14720        105 ICDKILLYGENKLALRTLAEAYAKLNENKKLKG-VWERLVKADRD-NPEIVKKLATSYEEE-DKEKAITYLKKAIYRFI-  180 (906)
T ss_pred             HHHHHHhhhhhhHHHHHHHHHHHHcCChHHHHH-HHHHHHhcCcc-cHHHHHHHHHHHHHh-hHHHHHHHHHHHHHHHH-
Confidence                   11223567788889999999999999 99999887754 889999999999999 99999999988766422 


Q ss_pred             CChhhHHHHHH---HH--HhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          199 MTSRNYICILS---SY--LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       199 p~~~~~~~li~---~~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                       +..-|+.+..   -+  ....+++.-.++.+.+...-....-+.++-.+...|-..++++++..+++.+++.
T Consensus       181 -~~kq~~~~~e~W~k~~~~~~~d~d~f~~i~~ki~~~~~~~~~~~~~~~l~~~y~~~~~~~~~i~iLK~iL~~  252 (906)
T PRK14720        181 -KKKQYVGIEEIWSKLVHYNSDDFDFFLRIERKVLGHREFTRLVGLLEDLYEPYKALEDWDEVIYILKKILEH  252 (906)
T ss_pred             -hhhcchHHHHHHHHHHhcCcccchHHHHHHHHHHhhhccchhHHHHHHHHHHHhhhhhhhHHHHHHHHHHhc
Confidence             1112222211   11  1233444444555555444223344556677778888899999999999998864

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.61  E-value=8.2e-08  Score=48.60  Aligned_cols=32  Identities=34%  Similarity=0.423  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSF   57 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~   57 (275)
                      +|+.+|.+|++.|+++.|.++|++|.+.|++|
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            45555555555555555555555555544443

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.59  E-value=4.5e-05  Score=56.27  Aligned_cols=187  Identities=11%  Similarity=-0.004  Sum_probs=138.0

Q ss_pred             cccChhhHHHHhhccccC------CCCHh-HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCH
Q 023952            3 KVFGIHSGERYFEGLPLS------AKTSE-TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV   75 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~------~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~   75 (275)
                      ...+.++.++++.++...      +++.+ .|..+.-+....|+.+.|...++++..+ +|-+..+-..-...+-..|++
T Consensus        24 ~~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~-fp~S~RV~~lkam~lEa~~~~  102 (289)
T KOG3060|consen   24 TVRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDR-FPGSKRVGKLKAMLLEATGNY  102 (289)
T ss_pred             cccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh-CCCChhHHHHHHHHHHHhhch
Confidence            346678888888877543      34433 4666777788899999999999998876 333444333333344567999


Q ss_pred             HHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHH
Q 023952           76 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  155 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  155 (275)
                      ++|+++|+.+.+.+. .|..++.--+...-..|+--+|++-+....+  .+..|...|.-+...|...|++++|.- .++
T Consensus       103 ~~A~e~y~~lL~ddp-t~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~f-ClE  178 (289)
T KOG3060|consen  103 KEAIEYYESLLEDDP-TDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAF-CLE  178 (289)
T ss_pred             hhHHHHHHHHhccCc-chhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHH-HHH
Confidence            999999999999873 3667777666666677777788888888877  578999999999999999999999998 888


Q ss_pred             HHHHccCCcchhhHHHHHHHHHc---cCCHHHHHHHHHHHHhc
Q 023952          156 EAEKSITQRQWITYDFLIILYAG---LGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~  195 (275)
                      ++.-..|. +...+..+...+.-   ..+.+-+.++|.+..+.
T Consensus       179 E~ll~~P~-n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl  220 (289)
T KOG3060|consen  179 ELLLIQPF-NPLYFQRLAEVLYTQGGAENLELARKYYERALKL  220 (289)
T ss_pred             HHHHcCCC-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHh
Confidence            88776543 44455555554333   44677888888887764

>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=98.58  E-value=1.1e-05  Score=64.85  Aligned_cols=123  Identities=11%  Similarity=0.096  Sum_probs=87.1

Q ss_pred             HHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 023952           63 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  142 (275)
Q Consensus        63 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  142 (275)
                      .+|+..+...++++.|+++|+++.+..  |+  ....++..+...++-.+|.+++.+..+.  .+.+......-...+.+
T Consensus       173 ~~Ll~~l~~t~~~~~ai~lle~L~~~~--pe--v~~~LA~v~l~~~~E~~AI~ll~~aL~~--~p~d~~LL~~Qa~fLl~  246 (395)
T PF09295_consen  173 DTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKE--NPQDSELLNLQAEFLLS  246 (395)
T ss_pred             HHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHh
Confidence            455566666778888888888887764  44  3345667777777777788887777763  35566666666777778


Q ss_pred             cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023952          143 ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLR  193 (275)
Q Consensus       143 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  193 (275)
                      .++++.|+. +.+++....|. +-.+|..|..+|...|+++.|+..++.+.
T Consensus       247 k~~~~lAL~-iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  247 KKKYELALE-IAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             cCCHHHHHH-HHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            888888888 77776665543 55678888888888888888887777654

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG3081 consensus Vesicle coat complex COPI, epsilon subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.58  E-value=8.1e-06  Score=60.48  Aligned_cols=170  Identities=13%  Similarity=0.048  Sum_probs=119.7

Q ss_pred             HhhccccCC-C-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC
Q 023952           13 YFEGLPLSA-K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV   90 (275)
Q Consensus        13 ~~~~~~~~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   90 (275)
                      +.+++.... . +......-...|...|++++|.+....    +.  +....-.=...+.+..+++-|.+.+++|.+-  
T Consensus        95 l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~----~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i--  166 (299)
T KOG3081|consen   95 LYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHL----GE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI--  166 (299)
T ss_pred             HHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhc----cc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc--
Confidence            344444432 2 333444445678899999999998876    21  2333333334456778899999999999984  


Q ss_pred             CCchhhHHHHHHHHHh----hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcch
Q 023952           91 VPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQW  166 (275)
Q Consensus        91 ~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  166 (275)
                      . +..|.+-|..++.+    .+.+..|.-+|++|.+  ..+|++.+.+-.+.++...|++++|.. +++.......+ +.
T Consensus       167 d-ed~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~-lL~eaL~kd~~-dp  241 (299)
T KOG3081|consen  167 D-EDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAES-LLEEALDKDAK-DP  241 (299)
T ss_pred             c-hHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHH-HHHHHHhccCC-CH
Confidence            3 55666766666543    5578999999999987  468999999999999999999999999 88888776655 55


Q ss_pred             hhHHHHHHHHHccCC-HHHHHHHHHHHHhc
Q 023952          167 ITYDFLIILYAGLGN-KDKIDQIWKSLRMT  195 (275)
Q Consensus       167 ~~~~~l~~~~~~~~~-~~~a~~~~~~m~~~  195 (275)
                      .+...++-.-...|. .+-..+.+.+++..
T Consensus       242 etL~Nliv~a~~~Gkd~~~~~r~l~QLk~~  271 (299)
T KOG3081|consen  242 ETLANLIVLALHLGKDAEVTERNLSQLKLS  271 (299)
T ss_pred             HHHHHHHHHHHHhCCChHHHHHHHHHHHhc
Confidence            565555544444554 45556677777664

>TIGR02552 LcrH_SycD type III secretion low calcium response chaperone LcrH/SycD

Probab=98.57  E-value=4.2e-06  Score=57.47  Aligned_cols=97  Identities=8%  Similarity=-0.010  Sum_probs=51.0

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  139 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  139 (275)
                      .....+...+...|++++|.+.|+...+.+. .+...+..+...+.+.|++++|..++++..+.  .+.+...+..+...
T Consensus        18 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~p-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~la~~   94 (135)
T TIGR02552        18 EQIYALAYNLYQQGRYDEALKLFQLLAAYDP-YNSRYWLGLAACCQMLKEYEEAIDAYALAAAL--DPDDPRPYFHAAEC   94 (135)
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc--CCCChHHHHHHHHH
Confidence            3344445555555666666666655555432 14445555555555555666666555555442  24444555555555


Q ss_pred             HHhcCchHHHHHHHHHHHHHc
Q 023952          140 YITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus       140 ~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      |...|++++|.. .++...+.
T Consensus        95 ~~~~g~~~~A~~-~~~~al~~  114 (135)
T TIGR02552        95 LLALGEPESALK-ALDLAIEI  114 (135)
T ss_pred             HHHcCCHHHHHH-HHHHHHHh
Confidence            555555555555 55544443

ScyD/LcrH contains three central tetratricopeptide-like repeats that are predicted to fold into an all-alpha-helical array.

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

Probab=98.57  E-value=0.00017  Score=60.23  Aligned_cols=237  Identities=7%  Similarity=0.044  Sum_probs=129.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC--------
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--------   91 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--------   91 (275)
                      -...|..+...|-.+|+++.|..+|++..+-..+--   ..+|......=.+..+++.|+++++......-.        
T Consensus       386 ~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~vP~~~~~~~yd~  465 (835)
T KOG2047|consen  386 PGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHVPTNPELEYYDN  465 (835)
T ss_pred             hhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcCCCchhhhhhcC
Confidence            355688888888888888888888888776543221   345666666666777788888877765432111        


Q ss_pred             --C-------chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           92 --P-------DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        92 --p-------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                        |       +...|.-.++.--..|-++....+|+.+.......|-  ........+-...-++++.+ ++++-.....
T Consensus       466 ~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLriaTPq--ii~NyAmfLEeh~yfeesFk-~YErgI~LFk  542 (835)
T KOG2047|consen  466 SEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRIATPQ--IIINYAMFLEEHKYFEESFK-AYERGISLFK  542 (835)
T ss_pred             CCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhcCCHH--HHHHHHHHHHhhHHHHHHHH-HHHcCCccCC
Confidence              1       1234444455445556677777777777764333332  22233333445556677777 6655444444


Q ss_pred             Ccch-hhHHHHHHHHHc---cCCHHHHHHHHHHHHhccCCCChhhHHHHHHH--HHhcCCHHHHHHHHHHHHhcCCCCCC
Q 023952          163 QRQW-ITYDFLIILYAG---LGNKDKIDQIWKSLRMTKQKMTSRNYICILSS--YLMLGHLKEVGEIIDQWKQSATSDFD  236 (275)
Q Consensus       163 ~~~~-~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~--~~~~g~~~~a~~~~~~~~~~~~~~~~  236 (275)
                      .|++ ..|+..+.-+.+   ...++.|..+|++..+ |++|...-+.-|+.+  =-+.|-...|+.++++....-  ++.
T Consensus       543 ~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyerat~~v--~~a  619 (835)
T KOG2047|consen  543 WPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERATSAV--KEA  619 (835)
T ss_pred             CccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhcC--CHH
Confidence            5554 344444333222   3367888888888777 565543222222211  124566677777777754421  121


Q ss_pred             --HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          237 --ISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       237 --~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                        ...||..|.--...=-+...+.+|++.++
T Consensus       620 ~~l~myni~I~kaae~yGv~~TR~iYekaIe  650 (835)
T KOG2047|consen  620 QRLDMYNIYIKKAAEIYGVPRTREIYEKAIE  650 (835)
T ss_pred             HHHHHHHHHHHHHHHHhCCcccHHHHHHHHH
Confidence              23455555433332223333444444443

>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=98.56  E-value=3.8e-06  Score=67.48  Aligned_cols=125  Identities=14%  Similarity=0.157  Sum_probs=102.9

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  104 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  104 (275)
                      ..-..|+..+...++++.|..+|+++.+..  |+  ....+++.+...++-.+|++++++..+... -|...+......+
T Consensus       170 yLv~~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  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERD--PE--VAVLLARVYLLMNEEVEAIRLLNEALKENP-QDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcC--Cc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCC-CCHHHHHHHHHHH
Confidence            344566777788899999999999999886  55  444578888888999999999999997633 3666777777789


Q ss_pred             HhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952          105 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus       105 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      .+.++++.|.++.+++.+.  .|.+..+|..|..+|.+.|+++.|+. .++.+
T Consensus       245 l~k~~~~lAL~iAk~av~l--sP~~f~~W~~La~~Yi~~~d~e~ALl-aLNs~  294 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVEL--SPSEFETWYQLAECYIQLGDFENALL-ALNSC  294 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHh--CchhHHHHHHHHHHHHhcCCHHHHHH-HHhcC
Confidence            9999999999999999984  46667799999999999999999998 66544

They physically interact with Chs3, Chs5 and the small GTPase Arf1, and they also form interactions with each other [].

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.55  E-value=0.00014  Score=62.76  Aligned_cols=222  Identities=9%  Similarity=0.025  Sum_probs=143.0

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHH--HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLH--LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      .++++.+|++..+.+....||... ...+.  .+.+.|+.++|..+++.....+. .|..|...+-.+|...++.++|..
T Consensus        21 d~~qfkkal~~~~kllkk~Pn~~~-a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~-~D~~tLq~l~~~y~d~~~~d~~~~   98 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKHPNALY-AKVLKALSLFRLGKGDEALKLLEALYGLKG-TDDLTLQFLQNVYRDLGKLDEAVH   98 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHCCCcHH-HHHHHHHHHHHhcCchhHHHHHhhhccCCC-CchHHHHHHHHHHHHHhhhhHHHH
Confidence            356788888888888777777543 33333  35678889999988888776653 378888888889999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc----------hHHHH
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH----------LVNAE  150 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~a~  150 (275)
                      +|+...+.  .|+......+..+|.+-+.+.+-.++--++.+  .++-+...+-++++.+.+.-.          .--|.
T Consensus        99 ~Ye~~~~~--~P~eell~~lFmayvR~~~yk~qQkaa~~LyK--~~pk~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~  174 (932)
T KOG2053|consen   99 LYERANQK--YPSEELLYHLFMAYVREKSYKKQQKAALQLYK--NFPKRAYYFWSVISLILQSIFSENELLDPILLALAE  174 (932)
T ss_pred             HHHHHHhh--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCcccchHHHHHHHHHHhccCCcccccchhHHHHH
Confidence            99988875  46677777788888888887776666666655  344455555555555554211          11233


Q ss_pred             HHHHHHHHHcc-CCcchhhHHHHHHHHHccCCHHHHHHHHH-HHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          151 SSTLVEAEKSI-TQRQWITYDFLIILYAGLGNKDKIDQIWK-SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       151 ~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                      + .++.+.... ..-+..-...-.......|++++|.+++. ...+.-..-+...-+.-+..+...+++.+..++-.++.
T Consensus       175 ~-m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll  253 (932)
T KOG2053|consen  175 K-MVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLL  253 (932)
T ss_pred             H-HHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHH
Confidence            3 333333332 11111111122223456788889988883 44443223333444556677778888888888888887


Q ss_pred             hcC
Q 023952          229 QSA  231 (275)
Q Consensus       229 ~~~  231 (275)
                      ..+
T Consensus       254 ~k~  256 (932)
T KOG2053|consen  254 EKG  256 (932)
T ss_pred             HhC
Confidence            765

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.55  E-value=1.6e-06  Score=55.48  Aligned_cols=81  Identities=15%  Similarity=0.195  Sum_probs=64.9

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHhhccC--------CHHHHHHHHHHHhhCCCCCchhh
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNL-SFNALMYNEMMTLYMSVG--------QVEKVALVVEEIKRKNVVPDIFT   96 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g--------~~~~a~~~~~~m~~~~~~p~~~~   96 (275)
                      +-...|..+...+++...-.+|+.+++.|+ .|++.+|+.++.+.++..        ++-+.+.+|+.|...+++|+..|
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            344566777777999999999999999998 889999999988876653        35567888888888888888888


Q ss_pred             HHHHHHHHHh
Q 023952           97 YNLWISSCAA  106 (275)
Q Consensus        97 ~~~ll~~~~~  106 (275)
                      |+.++..+.+
T Consensus       107 Ynivl~~Llk  116 (120)
T PF08579_consen  107 YNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHH
Confidence            8888887664

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 [, , ].

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.54  E-value=0.00019  Score=59.22  Aligned_cols=113  Identities=6%  Similarity=-0.073  Sum_probs=63.7

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|.+...++....| +...+..=+-+..+.+++++|+.+.+.-...  ..+..-+--=..++.+.+..++|+..
T Consensus        24 ~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~--~~~~~~~fEKAYc~Yrlnk~Dealk~  101 (652)
T KOG2376|consen   24 KNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGAL--LVINSFFFEKAYCEYRLNKLDEALKT  101 (652)
T ss_pred             cchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchh--hhcchhhHHHHHHHHHcccHHHHHHH
Confidence            45788888888888887766 5666777777888888888888655432110  00111101112223355666666665


Q ss_pred             HHHHhhCCCCCchh-hHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           82 VEEIKRKNVVPDIF-TYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        82 ~~~m~~~~~~p~~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      ++     |..++.. +...-...+.+.|++++|..+|+.+.+
T Consensus       102 ~~-----~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~k  138 (652)
T KOG2376|consen  102 LK-----GLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAK  138 (652)
T ss_pred             Hh-----cccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            55     2222222 333444445666666666666666543

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

Probab=98.53  E-value=4.8e-05  Score=64.39  Aligned_cols=223  Identities=13%  Similarity=0.059  Sum_probs=158.5

Q ss_pred             cccChhhHHHHhhccccCC--CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CC------------------CCCHHH
Q 023952            3 KVFGIHSGERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQS-NL------------------SFNALM   61 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~------------------~~~~~~   61 (275)
                      -.++++.|.+...+....+  -+...|..|.-.+...+++.+|+.+.+..... |.                  .-...|
T Consensus       490 ~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~~~N~~l~~~~~~i~~~~~~~e~~l~t  569 (799)
T KOG4162|consen  490 EQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEFGDNHVLMDGKIHIELTFNDREEALDT  569 (799)
T ss_pred             HHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHhhhhhhhchhhhhhhhhcccHHHHHHH
Confidence            4578889999888877663  38999999999999999999999998875543 21                  001122


Q ss_pred             HHHHHHHhh-----------------------ccCCHHHHHHHHHHH--------hhCC---------CC--Cc------
Q 023952           62 YNEMMTLYM-----------------------SVGQVEKVALVVEEI--------KRKN---------VV--PD------   93 (275)
Q Consensus        62 ~~~li~~~~-----------------------~~g~~~~a~~~~~~m--------~~~~---------~~--p~------   93 (275)
                      ...++..+-                       -.++..++.+....+        ...|         +.  |+      
T Consensus       570 ~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp~s~~~~~~~~~~~~~  649 (799)
T KOG4162|consen  570 CIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLPSSTVLPGPDSLWYLL  649 (799)
T ss_pred             HHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccCcccccCCCCchHHHH
Confidence            222222221                       001111121111111        1111         11  12      


Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                      ...|......+.+.+..++|...+.+..+  ..+.....|......+...|+.++|.+ .|.......|. ++...+++.
T Consensus       650 ~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~-af~~Al~ldP~-hv~s~~Ala  725 (799)
T KOG4162|consen  650 QKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKE-AFLVALALDPD-HVPSMTALA  725 (799)
T ss_pred             HHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHH-HHHHHHhcCCC-CcHHHHHHH
Confidence            12455566677888899999999888887  467788888888889999999999999 78777665543 677889999


Q ss_pred             HHHHccCCHHHHHH--HHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          174 ILYAGLGNKDKIDQ--IWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       174 ~~~~~~~~~~~a~~--~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      ..+...|+..-+..  ++..+.+.+ ..+...|-.+...+-..|+.+.|.+.|....+-
T Consensus       726 ~~lle~G~~~la~~~~~L~dalr~d-p~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qL  783 (799)
T KOG4162|consen  726 ELLLELGSPRLAEKRSLLSDALRLD-PLNHEAWYYLGEVFKKLGDSKQAAECFQAALQL  783 (799)
T ss_pred             HHHHHhCCcchHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHccchHHHHHHHHHHHhh
Confidence            99999999888888  999998865 446788999999999999999999999988764

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.49  E-value=8.9e-05  Score=57.50  Aligned_cols=85  Identities=16%  Similarity=0.061  Sum_probs=36.5

Q ss_pred             HHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 023952           65 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  144 (275)
Q Consensus        65 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  144 (275)
                      +.+.+.-..++++++-+++.+..-=..-|...+ .+..+.+..|.+.+|+++|-.+... .++.+..-...|.++|.+++
T Consensus       365 mAs~fFL~~qFddVl~YlnSi~sYF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~-~ikn~~~Y~s~LArCyi~nk  442 (557)
T KOG3785|consen  365 MASYFFLSFQFDDVLTYLNSIESYFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGP-EIKNKILYKSMLARCYIRNK  442 (557)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcCh-hhhhhHHHHHHHHHHHHhcC
Confidence            333334444455555555544443222122222 2445555555555555555444332 12222222234445555555


Q ss_pred             chHHHHH
Q 023952          145 HLVNAES  151 (275)
Q Consensus       145 ~~~~a~~  151 (275)
                      +++.|+.
T Consensus       443 kP~lAW~  449 (557)
T KOG3785|consen  443 KPQLAWD  449 (557)
T ss_pred             CchHHHH
Confidence            5555554

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.49  E-value=0.00018  Score=65.66  Aligned_cols=232  Identities=9%  Similarity=-0.070  Sum_probs=141.0

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC--CC----CCch--hhHHHHHHH
Q 023952           32 HLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK--NV----VPDI--FTYNLWISS  103 (275)
Q Consensus        32 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~----~p~~--~~~~~ll~~  103 (275)
                      ......|+++.+..+++.+.......++.........+...|+++++..++.+....  ..    .|..  .....+...
T Consensus       382 ~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~  461 (903)
T PRK04841        382 WSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNTLLARAEQELKDRNIELDGTLQAEFNALRAQV  461 (903)
T ss_pred             HHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHHHHHHHHHhccccCcccchhHHHHHHHHHHHH
Confidence            344556777777777766532111112223334455556778999999988877543  11    1111  122223344


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCH----HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC---cc--hhhHHHHHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDW----VKYVNLVNIYITASHLVNAESSTLVEAEKSITQ---RQ--WITYDFLII  174 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~--~~~~~~l~~  174 (275)
                      +...|++++|...+++.... ....+.    ...+.+...+...|+++.|.. .+.+.......   +.  ..++..+..
T Consensus       462 ~~~~g~~~~A~~~~~~al~~-~~~~~~~~~~~a~~~lg~~~~~~G~~~~A~~-~~~~al~~~~~~g~~~~~~~~~~~la~  539 (903)
T PRK04841        462 AINDGDPEEAERLAELALAE-LPLTWYYSRIVATSVLGEVHHCKGELARALA-MMQQTEQMARQHDVYHYALWSLLQQSE  539 (903)
T ss_pred             HHhCCCHHHHHHHHHHHHhc-CCCccHHHHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHhhhcchHHHHHHHHHHHH
Confidence            56789999999999887652 111121    234556666778999999988 77766542211   11  234455666


Q ss_pred             HHHccCCHHHHHHHHHHHHhc----cCC--C-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC---CCCCCHHHHHHHH
Q 023952          175 LYAGLGNKDKIDQIWKSLRMT----KQK--M-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSA---TSDFDISACNRLL  244 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m~~~----~~~--p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~li  244 (275)
                      .+...|++++|...+++....    +..  + ....+..+...+...|++++|...+.+.....   ........+..+.
T Consensus       540 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la  619 (903)
T PRK04841        540 ILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLDEAEQCARKGLEVLSNYQPQQQLQCLAMLA  619 (903)
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhhhccCchHHHHHHHHHH
Confidence            788899999999988875442    211  1 12234455566778899999999988875521   1111234455566


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 023952          245 GAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       245 ~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..+...|+.+.|...+++...
T Consensus       620 ~~~~~~G~~~~A~~~l~~a~~  640 (903)
T PRK04841        620 KISLARGDLDNARRYLNRLEN  640 (903)
T ss_pred             HHHHHcCCHHHHHHHHHHHHH
Confidence            778889999999988887743

>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=98.48  E-value=2.8e-06  Score=61.21  Aligned_cols=63  Identities=14%  Similarity=0.277  Sum_probs=48.3

Q ss_pred             hHHHHhhccccCCCCHhHHHHHHHHHHcC-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc
Q 023952            9 SGERYFEGLPLSAKTSETYTALLHLYAGA-----KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   71 (275)
Q Consensus         9 ~A~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   71 (275)
                      .-...|+......+|..+|..++..|.+.     |.++=....+..|.+.|+.-|..+|+.|++.+=+
T Consensus        32 ~~~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPK   99 (228)
T PF06239_consen   32 PHEELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPK   99 (228)
T ss_pred             chHHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCC
Confidence            34556666655557888888888888654     6677777888888888888888899888887754

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

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

Probab=98.47  E-value=0.00019  Score=59.78  Aligned_cols=215  Identities=11%  Similarity=-0.017  Sum_probs=146.3

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ..+.....-.+...|+.++|......-.+.+ ..+.+.|+.+.-.+....++++|++.|......+.. |...|.-+.-.
T Consensus        41 geslAmkGL~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~d-N~qilrDlslL  118 (700)
T KOG1156|consen   41 GESLAMKGLTLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKD-NLQILRDLSLL  118 (700)
T ss_pred             chhHHhccchhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCC-cHHHHHHHHHH
Confidence            3444444445556788899998888776654 456788999988888889999999999998885432 55667666666


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc-CCcchhhHHHHH------HHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI-TQRQWITYDFLI------ILY  176 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~------~~~  176 (275)
                      -+..++++.......+..+.  .+.....|..++.++.-.|+...|.. ++++..+.. ..|+...+....      ...
T Consensus       119 Q~QmRd~~~~~~tr~~LLql--~~~~ra~w~~~Avs~~L~g~y~~A~~-il~ef~~t~~~~~s~~~~e~se~~Ly~n~i~  195 (700)
T KOG1156|consen  119 QIQMRDYEGYLETRNQLLQL--RPSQRASWIGFAVAQHLLGEYKMALE-ILEEFEKTQNTSPSKEDYEHSELLLYQNQIL  195 (700)
T ss_pred             HHHHHhhhhHHHHHHHHHHh--hhhhHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhhccCCCHHHHHHHHHHHHHHHHH
Confidence            67788888888777777763  34455667888888888999999999 777776655 245554443222      224


Q ss_pred             HccCCHHHHHHHHHHHHhccCCCChhhH-HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHH-HHHHHH
Q 023952          177 AGLGNKDKIDQIWKSLRMTKQKMTSRNY-ICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR-LLGAFS  248 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~-~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~-li~~~~  248 (275)
                      ...|..++|.+-+..-...  ..|...+ ..-...+.+.+++++|..++..+....   ||..-|.. +..++.
T Consensus       196 ~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~rn---Pdn~~Yy~~l~~~lg  264 (700)
T KOG1156|consen  196 IEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLERN---PDNLDYYEGLEKALG  264 (700)
T ss_pred             HHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhhC---chhHHHHHHHHHHHH
Confidence            5567777777766543322  2222222 234566789999999999999998853   55544444 444443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.45  E-value=3.7e-05  Score=53.49  Aligned_cols=120  Identities=15%  Similarity=0.119  Sum_probs=50.5

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCch--hhHHHHH
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI--FTYNLWI  101 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~~ll  101 (275)
                      |..++..+. .++...+...++.+.... +.+   ....-.+...+...|++++|...|+........|+.  .....+.
T Consensus        15 y~~~~~~~~-~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA   92 (145)
T PF09976_consen   15 YEQALQALQ-AGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLA   92 (145)
T ss_pred             HHHHHHHHH-CCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHH
Confidence            344444442 444555555555554432 111   112222334444555555555555555554322211  1222234


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHH
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAES  151 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  151 (275)
                      ..+...|++++|...++.....   ......+......|.+.|+.++|..
T Consensus        93 ~~~~~~~~~d~Al~~L~~~~~~---~~~~~~~~~~Gdi~~~~g~~~~A~~  139 (145)
T PF09976_consen   93 RILLQQGQYDEALATLQQIPDE---AFKALAAELLGDIYLAQGDYDEARA  139 (145)
T ss_pred             HHHHHcCCHHHHHHHHHhccCc---chHHHHHHHHHHHHHHCCCHHHHHH
Confidence            4444555555555555442221   1222333344444555555555554

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.43  E-value=0.00046  Score=59.68  Aligned_cols=225  Identities=13%  Similarity=0.096  Sum_probs=151.7

Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--hhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHH
Q 023952           35 AGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL--YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        35 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  112 (275)
                      ...+++..|.+-...+.++-  |+.. |...+.+  +.+.|+.++|..+++.....+.. |..|...+-..|-+.++.++
T Consensus        20 ld~~qfkkal~~~~kllkk~--Pn~~-~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~-D~~tLq~l~~~y~d~~~~d~   95 (932)
T KOG2053|consen   20 LDSSQFKKALAKLGKLLKKH--PNAL-YAKVLKALSLFRLGKGDEALKLLEALYGLKGT-DDLTLQFLQNVYRDLGKLDE   95 (932)
T ss_pred             hhhHHHHHHHHHHHHHHHHC--CCcH-HHHHHHHHHHHHhcCchhHHHHHhhhccCCCC-chHHHHHHHHHHHHHhhhhH
Confidence            46688999999998877663  4533 2233333  47889999999999888877655 88899999999999999999


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc-CC---------H
Q 023952          113 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL-GN---------K  182 (275)
Q Consensus       113 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~~---------~  182 (275)
                      |..+|++..+.   -|+......+..+|.+.+.+.+-.+ +--++.+..++ +...+-++++.+.+. ..         .
T Consensus        96 ~~~~Ye~~~~~---~P~eell~~lFmayvR~~~yk~qQk-aa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l  170 (932)
T KOG2053|consen   96 AVHLYERANQK---YPSEELLYHLFMAYVREKSYKKQQK-AALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILL  170 (932)
T ss_pred             HHHHHHHHHhh---CCcHHHHHHHHHHHHHHHHHHHHHH-HHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhH
Confidence            99999999874   4778888889999999998887777 54455555544 444444444433321 11         1


Q ss_pred             HHHHHHHHHHHhcc-CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 023952          183 DKIDQIWKSLRMTK-QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHM  261 (275)
Q Consensus       183 ~~a~~~~~~m~~~~-~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  261 (275)
                      .-|.+.++.+.+.+ .--+..-...-.......|.+++|.+++..=.....++-+...-+.-++.+...+++++..++-.
T Consensus       171 ~LA~~m~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~  250 (932)
T KOG2053|consen  171 ALAEKMVQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSS  250 (932)
T ss_pred             HHHHHHHHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHH
Confidence            23455666665544 11122223334455668899999999994333322233444444566777778888888777777


Q ss_pred             HHHhcCC
Q 023952          262 LLLQKNC  268 (275)
Q Consensus       262 ~m~~~~~  268 (275)
                      ++..+|-
T Consensus       251 ~Ll~k~~  257 (932)
T KOG2053|consen  251 RLLEKGN  257 (932)
T ss_pred             HHHHhCC
Confidence            7776553

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.42  E-value=0.00061  Score=55.66  Aligned_cols=85  Identities=18%  Similarity=0.110  Sum_probs=69.3

Q ss_pred             ccccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHhhccCCHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-ALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-~~~~~~li~~~~~~g~~~~a~   79 (275)
                      +.+|+++.|+.+|.+.....| |.+.|+.-..+|+..|++++|++=-.+-.+.  .|+ +-.|+-...++.-.|++++|+
T Consensus        13 ~s~~d~~~ai~~~t~ai~l~p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l--~p~w~kgy~r~Gaa~~~lg~~~eA~   90 (539)
T KOG0548|consen   13 FSSGDFETAIRLFTEAIMLSPTNHVLYSNRSAAYASLGSYEKALKDATKTRRL--NPDWAKGYSRKGAALFGLGDYEEAI   90 (539)
T ss_pred             cccccHHHHHHHHHHHHccCCCccchhcchHHHHHHHhhHHHHHHHHHHHHhc--CCchhhHHHHhHHHHHhcccHHHHH
Confidence            568999999999998777654 8999999999999999999998766665554  355 347888888888889999999


Q ss_pred             HHHHHHhhC
Q 023952           80 LVVEEIKRK   88 (275)
Q Consensus        80 ~~~~~m~~~   88 (275)
                      ..|.+-++.
T Consensus        91 ~ay~~GL~~   99 (539)
T KOG0548|consen   91 LAYSEGLEK   99 (539)
T ss_pred             HHHHHHhhc
Confidence            888885553

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.41  E-value=4.5e-06  Score=67.44  Aligned_cols=120  Identities=12%  Similarity=0.131  Sum_probs=95.2

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC--CCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQS--NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  100 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  100 (275)
                      +......++..+....+++.+..++......  ....-..|.+++++.|.+.|..+.++.+++.=...|+-||..+++.|
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            6777888888888888889999988887765  22233456679999999999999999999999999999999999999


Q ss_pred             HHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 023952          101 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  143 (275)
Q Consensus       101 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  143 (275)
                      |+.+.+.|++..|.++...|... ....+..|+..-+.++.+.
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            99999999999999999988776 4455556655444444443

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 [].

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.40  E-value=0.00014  Score=63.80  Aligned_cols=115  Identities=10%  Similarity=0.022  Sum_probs=62.3

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      +..|..+..+-.+.|.+.+|++-|-+.      -|+..|..++....+.|.+++-.+++...++. .-.|...+  .|+-
T Consensus      1104 p~vWsqlakAQL~~~~v~dAieSyika------dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk-~~E~~id~--eLi~ 1174 (1666)
T KOG0985|consen 1104 PAVWSQLAKAQLQGGLVKDAIESYIKA------DDPSNYLEVIDVASRTGKYEDLVKYLLMARKK-VREPYIDS--ELIF 1174 (1666)
T ss_pred             hHHHHHHHHHHHhcCchHHHHHHHHhc------CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHh-hcCccchH--HHHH
Confidence            455666666666666666666555211      14455666666666666666666666555554 33444433  5666


Q ss_pred             HHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH
Q 023952          139 IYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  190 (275)
Q Consensus       139 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  190 (275)
                      +|++.+++.+.++ ++       ..||..-...+..-|...+.++.|.-+|.
T Consensus      1175 AyAkt~rl~elE~-fi-------~gpN~A~i~~vGdrcf~~~~y~aAkl~y~ 1218 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEE-FI-------AGPNVANIQQVGDRCFEEKMYEAAKLLYS 1218 (1666)
T ss_pred             HHHHhchHHHHHH-Hh-------cCCCchhHHHHhHHHhhhhhhHHHHHHHH
Confidence            6666666655555 21       12344444444444445555554444443

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.40  E-value=4.7e-07  Score=44.63  Aligned_cols=29  Identities=28%  Similarity=0.469  Sum_probs=16.2

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCC
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSN   54 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~   54 (275)
                      +|+.+|++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            45555555555555555555555555544

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.

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.40  E-value=4.8e-05  Score=65.11  Aligned_cols=226  Identities=13%  Similarity=0.147  Sum_probs=138.9

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CC--------CCCHHHHHHHHHHhhccCC
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQS-NL--------SFNALMYNEMMTLYMSVGQ   74 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~--------~~~~~~~~~li~~~~~~g~   74 (275)
                      .|+.|.|.+-.+-++    +...|..|.+.|.+..+++-|.-.+-.|... |.        .|+ .+--...-.....|.
T Consensus       741 iG~MD~AfksI~~Ik----S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~-e~eakvAvLAieLgM  815 (1416)
T KOG3617|consen  741 IGSMDAAFKSIQFIK----SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE-EDEAKVAVLAIELGM  815 (1416)
T ss_pred             eccHHHHHHHHHHHh----hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc-chhhHHHHHHHHHhh
Confidence            467777776666554    4678888888888888888877776666431 10        111 111122223356778


Q ss_pred             HHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHH
Q 023952           75 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      +++|+.+|++-++.         ..|=+.|...|.+++|.++-+.-.+   + --..||......+-..++.+.|++ .|
T Consensus       816 lEeA~~lYr~ckR~---------DLlNKlyQs~g~w~eA~eiAE~~DR---i-HLr~Tyy~yA~~Lear~Di~~Ale-yy  881 (1416)
T KOG3617|consen  816 LEEALILYRQCKRY---------DLLNKLYQSQGMWSEAFEIAETKDR---I-HLRNTYYNYAKYLEARRDIEAALE-YY  881 (1416)
T ss_pred             HHHHHHHHHHHHHH---------HHHHHHHHhcccHHHHHHHHhhccc---e-ehhhhHHHHHHHHHhhccHHHHHH-HH
Confidence            88888888777653         3344456677888888877554222   1 123456666666677777877777 44


Q ss_pred             HHHH----------HccC---------CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcC
Q 023952          155 VEAE----------KSIT---------QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLG  215 (275)
Q Consensus       155 ~~~~----------~~~~---------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g  215 (275)
                      ++..          ...+         ..|...|.--....-..|+.+.|+.+|...+         -|-++++..|-.|
T Consensus       882 EK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~---------D~fs~VrI~C~qG  952 (1416)
T KOG3617|consen  882 EKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAK---------DYFSMVRIKCIQG  952 (1416)
T ss_pred             HhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhh---------hhhhheeeEeecc
Confidence            4221          1111         1122333333333445677777777766543         2445667777788


Q ss_pred             CHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          216 HLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       216 ~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      +.++|-++-++       ..|....-.|...|-..|++.+|..+|.+..
T Consensus       953 k~~kAa~iA~e-------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAq  994 (1416)
T KOG3617|consen  953 KTDKAARIAEE-------SGDKAACYHLARMYENDGDVVKAVKFFTRAQ  994 (1416)
T ss_pred             CchHHHHHHHh-------cccHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            88888776664       2456666678888999999999998887653

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.39  E-value=4.7e-05  Score=52.96  Aligned_cols=16  Identities=13%  Similarity=0.071  Sum_probs=6.1

Q ss_pred             HHHHhcCChHHHHHHH
Q 023952          245 GAFSDVGLTEKANEFH  260 (275)
Q Consensus       245 ~~~~~~g~~~~a~~~~  260 (275)
                      ..|.+.|+.++|...|
T Consensus       126 di~~~~g~~~~A~~~y  141 (145)
T PF09976_consen  126 DIYLAQGDYDEARAAY  141 (145)
T ss_pred             HHHHHCCCHHHHHHHH
Confidence            3333333333333333

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=98.37  E-value=4.4e-07  Score=44.73  Aligned_cols=30  Identities=27%  Similarity=0.602  Sum_probs=22.7

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCC
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNV   90 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   90 (275)
                      +|+++|++|++.|++++|.++|++|.+.|+
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            677777777777777777777777777653

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.

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.36  E-value=0.00099  Score=55.16  Aligned_cols=256  Identities=11%  Similarity=0.072  Sum_probs=139.7

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC-------------------------
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF-------------------------   57 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~-------------------------   57 (275)
                      |.+..|+|+..++....  -+..+...-.+.+.+.|++++|.++|+.+.+.+..-                         
T Consensus        91 rlnk~Dealk~~~~~~~--~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~~~q~v~  168 (652)
T KOG2376|consen   91 RLNKLDEALKTLKGLDR--LDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQLLQSVP  168 (652)
T ss_pred             HcccHHHHHHHHhcccc--cchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHHHHHhcc
Confidence            34667777777774332  233355555677888999999999999886554211                         


Q ss_pred             --CHHHH---HHHHHHhhccCCHHHHHHHHHHHhhC-------------CCCCchhh-HHHHHHHHHhhCCHHHHHHHHH
Q 023952           58 --NALMY---NEMMTLYMSVGQVEKVALVVEEIKRK-------------NVVPDIFT-YNLWISSCAATLNIDQVKKFLD  118 (275)
Q Consensus        58 --~~~~~---~~li~~~~~~g~~~~a~~~~~~m~~~-------------~~~p~~~~-~~~ll~~~~~~~~~~~a~~~~~  118 (275)
                        ...+|   ......++..|++.+|+++++...+-             ++.-...+ -.-+.-.+...|+-.+|.+++.
T Consensus       169 ~v~e~syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~  248 (652)
T KOG2376|consen  169 EVPEDSYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYV  248 (652)
T ss_pred             CCCcchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHH
Confidence              01122   22334567789999999999887221             11111111 1224445677899999999888


Q ss_pred             HHhhcCCCCCCHHH----HHHHHHH-----------------------------------------------HH------
Q 023952          119 EMSCDSGGSDDWVK----YVNLVNI-----------------------------------------------YI------  141 (275)
Q Consensus       119 ~~~~~~~~~~~~~~----~~~l~~~-----------------------------------------------~~------  141 (275)
                      ...+. . ++|...    -|.|+..                                               |.      
T Consensus       249 ~~i~~-~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~  326 (652)
T KOG2376|consen  249 DIIKR-N-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQV  326 (652)
T ss_pred             HHHHh-c-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHH
Confidence            87774 2 333311    1111110                                               00      


Q ss_pred             --------------------------hcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH-----
Q 023952          142 --------------------------TASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK-----  190 (275)
Q Consensus       142 --------------------------~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-----  190 (275)
                                                +......+.+ ++.......+.....+.-..+......|+++.|.+++.     
T Consensus       327 r~~~a~lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e-~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~  405 (652)
T KOG2376|consen  327 RELSASLPGMSPESLFPILLQEATKVREKKHKKAIE-LLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLES  405 (652)
T ss_pred             HHHHHhCCccCchHHHHHHHHHHHHHHHHHHhhhHH-HHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhh
Confidence                                      0001111111 11111112222122333455566677899999999888     


Q ss_pred             ---HHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-CC----CHHHHHHHHHHHHhcCChHHHHHHHHH
Q 023952          191 ---SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS-DF----DISACNRLLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       191 ---~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~~----~~~~~~~li~~~~~~g~~~~a~~~~~~  262 (275)
                         .+.+.+..|  .+...++..+.+.++.+.|..++.+....... .+    -..++.-++..-.+.|+.++|..++++
T Consensus       406 ~~ss~~~~~~~P--~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~lee  483 (652)
T KOG2376|consen  406 WKSSILEAKHLP--GTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEE  483 (652)
T ss_pred             hhhhhhhhccCh--hHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHH
Confidence               555544433  45556777777777766666666665432100 01    112333344444566888888888888


Q ss_pred             HHh
Q 023952          263 LLQ  265 (275)
Q Consensus       263 m~~  265 (275)
                      +.+
T Consensus       484 l~k  486 (652)
T KOG2376|consen  484 LVK  486 (652)
T ss_pred             HHH
Confidence            776

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.35  E-value=3.8e-05  Score=51.24  Aligned_cols=98  Identities=12%  Similarity=-0.020  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC--CchhhHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNL--SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--PDIFTYNLWI  101 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~ll  101 (275)
                      ++..++..+.+.|++++|...|+.+....-  +.....+..+...+.+.|++++|.+.|+.+......  .....+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            455666677777777777777777765431  111345566777777777777777777777664221  1134455666


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhc
Q 023952          102 SSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      .++.+.|+.++|...++++.+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~  105 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKR  105 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHH
Confidence            6677777777777777777764

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.

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.33  E-value=0.00026  Score=62.15  Aligned_cols=207  Identities=13%  Similarity=0.091  Sum_probs=135.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      .+..|+.+..+-.+.|.+.+|.+-|-.   .   -|+..|..++....+.|.+++-.+++...++..-.|.+.  +.|+-
T Consensus      1103 ~p~vWsqlakAQL~~~~v~dAieSyik---a---dDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~id--~eLi~ 1174 (1666)
T KOG0985|consen 1103 EPAVWSQLAKAQLQGGLVKDAIESYIK---A---DDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPYID--SELIF 1174 (1666)
T ss_pred             ChHHHHHHHHHHHhcCchHHHHHHHHh---c---CCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCccch--HHHHH
Confidence            467899999999999999999887743   2   268899999999999999999999998877776666655  47899


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  182 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  182 (275)
                      +|++.++..+.+.++    .    -|+......+.+-+...|.++.|.- ++.         ++.-|..|...+...|++
T Consensus      1175 AyAkt~rl~elE~fi----~----gpN~A~i~~vGdrcf~~~~y~aAkl-~y~---------~vSN~a~La~TLV~Lgey 1236 (1666)
T KOG0985|consen 1175 AYAKTNRLTELEEFI----A----GPNVANIQQVGDRCFEEKMYEAAKL-LYS---------NVSNFAKLASTLVYLGEY 1236 (1666)
T ss_pred             HHHHhchHHHHHHHh----c----CCCchhHHHHhHHHhhhhhhHHHHH-HHH---------HhhhHHHHHHHHHHHHHH
Confidence            999999988776653    1    2666655666666666666666655 432         223334444444444444


Q ss_pred             HHHHHHHHH------------------------HHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHH
Q 023952          183 DKIDQIWKS------------------------LRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDIS  238 (275)
Q Consensus       183 ~~a~~~~~~------------------------m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  238 (275)
                      ..|.+.-++                        |-..++-....-..-++.-|-..|-+++.+.+++.-..  ..+....
T Consensus      1237 Q~AVD~aRKAns~ktWK~VcfaCvd~~EFrlAQiCGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LG--LERAHMg 1314 (1666)
T KOG0985|consen 1237 QGAVDAARKANSTKTWKEVCFACVDKEEFRLAQICGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLG--LERAHMG 1314 (1666)
T ss_pred             HHHHHHhhhccchhHHHHHHHHHhchhhhhHHHhcCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhc--hhHHHHH
Confidence            444332222                        21122222333455677888888888888777776543  2244566


Q ss_pred             HHHHHHHHHHhcCChHHHHH
Q 023952          239 ACNRLLGAFSDVGLTEKANE  258 (275)
Q Consensus       239 ~~~~li~~~~~~g~~~~a~~  258 (275)
                      .|+-|.-.|.+-. .++..+
T Consensus      1315 mfTELaiLYskyk-p~km~E 1333 (1666)
T KOG0985|consen 1315 MFTELAILYSKYK-PEKMME 1333 (1666)
T ss_pred             HHHHHHHHHHhcC-HHHHHH
Confidence            6777777777653 333333

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=98.33  E-value=2e-05  Score=63.75  Aligned_cols=125  Identities=11%  Similarity=0.024  Sum_probs=85.3

Q ss_pred             CCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC--CCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH
Q 023952           53 SNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK--NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW  130 (275)
Q Consensus        53 ~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  130 (275)
                      ++.+.+......++..+....+++++..++-..+..  ....-..|..++++.|.+.|..+.+..++..=... |+-||.
T Consensus        60 ~~~~vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~y-GiF~D~  138 (429)
T PF10037_consen   60 RKKPVSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQY-GIFPDN  138 (429)
T ss_pred             cCCCCcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhc-ccCCCh
Confidence            344566777777777777777788888877777764  22223445567888888888888888887776665 778888


Q ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc
Q 023952          131 VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL  179 (275)
Q Consensus       131 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  179 (275)
                      .+++.|++.+.+.|++..|.+ +...|.......+..|+...+.+|.+.
T Consensus       139 ~s~n~Lmd~fl~~~~~~~A~~-V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  139 FSFNLLMDHFLKKGNYKSAAK-VATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             hhHHHHHHHHhhcccHHHHHH-HHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            888888888888888888888 555555444444555555545444443

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 [].

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.31  E-value=2.9e-05  Score=60.24  Aligned_cols=134  Identities=10%  Similarity=0.156  Sum_probs=98.3

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      .+|..+|...-+.+..+.|..+|.+..+.+ ...++....++|. |...++.+.|.++|+...+. +..+...|...++.
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 LVWIQYMRFMRRTEGIEAARKVFKRARKDKRCTYHVYVAYALME-YYCNKDPKRARKIFERGLKK-FPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCS-THHHHHHHHHH-HHTCS-HHHHHHHHHHHHHH-HTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCCCCCHHHHHHHHHHH-HHhCCCHHHHHHHHHHHHHH-CCCCHHHHHHHHHH
Confidence            578889999989888999999999988653 2233334444443 33356677799999998876 55577888888999


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      +.+.++.+.|..+|++....  ++++   ...|...+..-.+.|+++.+.. +...+....+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~--l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~-v~~R~~~~~~~  139 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISS--LPKEKQSKKIWKKFIEFESKYGDLESVRK-VEKRAEELFPE  139 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCT--SSCHHHCHHHHHHHHHHHHHHS-HHHHHH-HHHHHHHHTTT
T ss_pred             HHHhCcHHHHHHHHHHHHHh--cCchhHHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHhhh
Confidence            99999999999999998874  2332   3588889998889999999888 77777765543

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.

>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=98.28  E-value=2.4e-05  Score=49.49  Aligned_cols=94  Identities=15%  Similarity=0.075  Sum_probs=54.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHh
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  106 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  106 (275)
                      |..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|.+.|+...+.... +..++..+...+..
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~   80 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELD-PDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHH
Confidence            4445555666666666666666665543 233355555666666666666666666666554322 33455555566666


Q ss_pred             hCCHHHHHHHHHHHhh
Q 023952          107 TLNIDQVKKFLDEMSC  122 (275)
Q Consensus       107 ~~~~~~a~~~~~~~~~  122 (275)
                      .|+++.|...+....+
T Consensus        81 ~~~~~~a~~~~~~~~~   96 (100)
T cd00189          81 LGKYEEALEAYEKALE   96 (100)
T ss_pred             HHhHHHHHHHHHHHHc
Confidence            6666666666665543

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.25  E-value=1.3e-05  Score=64.38  Aligned_cols=98  Identities=10%  Similarity=-0.046  Sum_probs=74.8

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|++.|++.....| +...|..+..+|.+.|++++|+..++...+.. +.+...|..+..+|...|++++|+..
T Consensus        14 ~~~~~~~Ai~~~~~Al~~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~-P~~~~a~~~lg~~~~~lg~~~eA~~~   92 (356)
T PLN03088         14 VDDDFALAVDLYTQAIDLDPNNAELYADRAQANIKLGNFTEAVADANKAIELD-PSLAKAYLRKGTACMKLEEYQTAKAA   92 (356)
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhCCHHHHHHH
Confidence            45788888888888877766 67788888888888888888888888887765 44677788888888888888888888


Q ss_pred             HHHHhhCCCCCchhhHHHHHHH
Q 023952           82 VEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      |++..+.  .|+......++..
T Consensus        93 ~~~al~l--~P~~~~~~~~l~~  112 (356)
T PLN03088         93 LEKGASL--APGDSRFTKLIKE  112 (356)
T ss_pred             HHHHHHh--CCCCHHHHHHHHH
Confidence            8888874  4554444444433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.24  E-value=0.00015  Score=61.63  Aligned_cols=185  Identities=12%  Similarity=0.111  Sum_probs=81.4

Q ss_pred             ChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHH
Q 023952            6 GIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEI   85 (275)
Q Consensus         6 ~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m   85 (275)
                      .+.+|+.+++.+.....-..-|..+.+.|+..|+++.|.++|-+.         ..++..|.+|.+.|+|+.|.++-.+.
T Consensus       747 ew~kai~ildniqdqk~~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~kw~da~kla~e~  817 (1636)
T KOG3616|consen  747 EWKKAISILDNIQDQKTASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGKWEDAFKLAEEC  817 (1636)
T ss_pred             hhhhhHhHHHHhhhhccccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhccccHHHHHHHHHHh
Confidence            344444444444432222233444445555555555555555321         22334445555555555555544332


Q ss_pred             hhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc
Q 023952           86 KRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ  165 (275)
Q Consensus        86 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  165 (275)
                        .|....+..|..-..-+-+.|++.+|+++|-.+.     .|+.     -|.+|-+.|..++.++ +..+   ..+..-
T Consensus       818 --~~~e~t~~~yiakaedldehgkf~eaeqlyiti~-----~p~~-----aiqmydk~~~~ddmir-lv~k---~h~d~l  881 (1636)
T KOG3616|consen  818 --HGPEATISLYIAKAEDLDEHGKFAEAEQLYITIG-----EPDK-----AIQMYDKHGLDDDMIR-LVEK---HHGDHL  881 (1636)
T ss_pred             --cCchhHHHHHHHhHHhHHhhcchhhhhheeEEcc-----CchH-----HHHHHHhhCcchHHHH-HHHH---hChhhh
Confidence              2233333334333333444555555554442221     1322     2344555555555544 2221   111111


Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 023952          166 WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII  224 (275)
Q Consensus       166 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  224 (275)
                      ..|-..+..-|-..|++..|++-|-+..         -|.+-+++|-..+.+++|.++-
T Consensus       882 ~dt~~~f~~e~e~~g~lkaae~~flea~---------d~kaavnmyk~s~lw~dayria  931 (1636)
T KOG3616|consen  882 HDTHKHFAKELEAEGDLKAAEEHFLEAG---------DFKAAVNMYKASELWEDAYRIA  931 (1636)
T ss_pred             hHHHHHHHHHHHhccChhHHHHHHHhhh---------hHHHHHHHhhhhhhHHHHHHHH
Confidence            2233344445555666666655553322         2444555666666666665543

>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=98.24  E-value=4.2e-05  Score=48.29  Aligned_cols=91  Identities=13%  Similarity=0.070  Sum_probs=45.1

Q ss_pred             HHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 023952           63 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  142 (275)
Q Consensus        63 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  142 (275)
                      ..+...+...|++++|+..+++..+... .+...+..+...+...+++++|.+.++.....  .+.+..++..+...+..
T Consensus         4 ~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~   80 (100)
T cd00189           4 LNLGNLYYKLGDYDEALEYYEKALELDP-DNADAYYNLAAAYYKLGKYEEALEDYEKALEL--DPDNAKAYYNLGLAYYK   80 (100)
T ss_pred             HHHHHHHHHHhcHHHHHHHHHHHHhcCC-ccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhC--CCcchhHHHHHHHHHHH
Confidence            3344445555556666665555554321 12244444555555555555555555555442  22333444555555555


Q ss_pred             cCchHHHHHHHHHHH
Q 023952          143 ASHLVNAESSTLVEA  157 (275)
Q Consensus       143 ~g~~~~a~~~~~~~~  157 (275)
                      .|+.+.|.. .+...
T Consensus        81 ~~~~~~a~~-~~~~~   94 (100)
T cd00189          81 LGKYEEALE-AYEKA   94 (100)
T ss_pred             HHhHHHHHH-HHHHH
Confidence            555555555 44433

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=98.22  E-value=0.0002  Score=60.94  Aligned_cols=171  Identities=16%  Similarity=0.141  Sum_probs=118.2

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  109 (275)
                      -+.+....+.+.+|+.+++.+..+..  -..-|..+...|+..|+++.|.++|-+.         ..++-.|.+|.+.|+
T Consensus       738 aieaai~akew~kai~ildniqdqk~--~s~yy~~iadhyan~~dfe~ae~lf~e~---------~~~~dai~my~k~~k  806 (1636)
T KOG3616|consen  738 AIEAAIGAKEWKKAISILDNIQDQKT--ASGYYGEIADHYANKGDFEIAEELFTEA---------DLFKDAIDMYGKAGK  806 (1636)
T ss_pred             HHHHHhhhhhhhhhHhHHHHhhhhcc--ccccchHHHHHhccchhHHHHHHHHHhc---------chhHHHHHHHhcccc
Confidence            34555667788888888888877652  2344667778889999999999988542         235667888999999


Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHH
Q 023952          110 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIW  189 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  189 (275)
                      |+.|.++-++..   |.......|.+-..-+-+.|++.+|++ ++-    ....|+     .-|..|-+.|..+..+++.
T Consensus       807 w~da~kla~e~~---~~e~t~~~yiakaedldehgkf~eaeq-lyi----ti~~p~-----~aiqmydk~~~~ddmirlv  873 (1636)
T KOG3616|consen  807 WEDAFKLAEECH---GPEATISLYIAKAEDLDEHGKFAEAEQ-LYI----TIGEPD-----KAIQMYDKHGLDDDMIRLV  873 (1636)
T ss_pred             HHHHHHHHHHhc---CchhHHHHHHHhHHhHHhhcchhhhhh-eeE----EccCch-----HHHHHHHhhCcchHHHHHH
Confidence            999888866654   334556667777777778888888888 432    222344     3567888888888888877


Q ss_pred             HHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023952          190 KSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQW  227 (275)
Q Consensus       190 ~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  227 (275)
                      ++-.-   ..-..|...+..-|-..|++..|..-|-+.
T Consensus       874 ~k~h~---d~l~dt~~~f~~e~e~~g~lkaae~~flea  908 (1636)
T KOG3616|consen  874 EKHHG---DHLHDTHKHFAKELEAEGDLKAAEEHFLEA  908 (1636)
T ss_pred             HHhCh---hhhhHHHHHHHHHHHhccChhHHHHHHHhh
Confidence            65321   122345666777777788887777666543

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.22  E-value=0.00014  Score=50.22  Aligned_cols=96  Identities=9%  Similarity=-0.086  Sum_probs=59.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      ..-.+...+...|++++|..+|+.+...+ +-+..-|-.|..++-..|++++|+..|......++. |+..+-.+..++.
T Consensus        37 ~lY~~A~~ly~~G~l~~A~~~f~~L~~~D-p~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L  114 (157)
T PRK15363         37 TLYRYAMQLMEVKEFAGAARLFQLLTIYD-AWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYL  114 (157)
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHH
Confidence            34444555556666777777666665554 234555666666666666667777666666665432 5556666666666


Q ss_pred             hhCCHHHHHHHHHHHhhc
Q 023952          106 ATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~  123 (275)
                      ..|+.+.|.+.|+.....
T Consensus       115 ~lG~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        115 ACDNVCYAIKALKAVVRI  132 (157)
T ss_pred             HcCCHHHHHHHHHHHHHH
Confidence            666666666666665554

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=98.21  E-value=4.7e-05  Score=48.93  Aligned_cols=81  Identities=10%  Similarity=0.152  Sum_probs=62.1

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCC-CCchhhHHHHHHHHHhhC--------CHHHHHHHHHHHhhcCCCCCCHH
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPDIFTYNLWISSCAATL--------NIDQVKKFLDEMSCDSGGSDDWV  131 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~~~~~ll~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~  131 (275)
                      +-...|..+...+++...-.+|+.+++.|+ .|+..+|+.++.+.++..        +.-+.+.+|+.|... +++|+..
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            334556666777999999999999999999 889999999998877643        234566778888776 7888888


Q ss_pred             HHHHHHHHHHh
Q 023952          132 KYVNLVNIYIT  142 (275)
Q Consensus       132 ~~~~l~~~~~~  142 (275)
                      +|+.++..+.+
T Consensus       106 tYnivl~~Llk  116 (120)
T PF08579_consen  106 TYNIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHHHH
Confidence            88888777654

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 [, , ].

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.20  E-value=0.00017  Score=48.02  Aligned_cols=58  Identities=14%  Similarity=0.087  Sum_probs=23.4

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhccCCC--ChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          172 LIILYAGLGNKDKIDQIWKSLRMTKQKM--TSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      +...+...|+++.|...|+.+.......  ....+..+..++...|+.++|...++++.+
T Consensus        45 l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  104 (119)
T TIGR02795        45 LGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQELGDKEKAKATLQQVIK  104 (119)
T ss_pred             HHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHHHhCChHHHHHHHHHHHH
Confidence            3444444444444444444443321110  122233334444444444444444444444

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.

>KOG0624 consensus dsRNA-activated protein kinase inhibitor P58, contains TPR and DnaJ domains [Defense mechanisms]

Probab=98.19  E-value=0.0016  Score=50.65  Aligned_cols=223  Identities=12%  Similarity=0.014  Sum_probs=158.5

Q ss_pred             CccccChhhHHHHhhccccCCCC----HhHH------------HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 023952            1 MTKVFGIHSGERYFEGLPLSAKT----SETY------------TALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   64 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~~~~----~~~~------------~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~   64 (275)
                      |-+.|.++.|..-|+.+.+..|+    ...+            ...+..+...|+...|+.....+.+.. +-|+..|..
T Consensus       116 llK~Gele~A~~DF~~vl~~~~s~~~~~eaqskl~~~~e~~~l~~ql~s~~~~GD~~~ai~~i~~llEi~-~Wda~l~~~  194 (504)
T KOG0624|consen  116 LLKQGELEQAEADFDQVLQHEPSNGLVLEAQSKLALIQEHWVLVQQLKSASGSGDCQNAIEMITHLLEIQ-PWDASLRQA  194 (504)
T ss_pred             hhhcccHHHHHHHHHHHHhcCCCcchhHHHHHHHHhHHHHHHHHHHHHHHhcCCchhhHHHHHHHHHhcC-cchhHHHHH
Confidence            35789999999999998877552    1222            223455677899999999999998874 568889999


Q ss_pred             HHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHH----H----
Q 023952           65 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN----L----  136 (275)
Q Consensus        65 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~----l----  136 (275)
                      -..+|...|++..|+.=++...+..-. +..++--+-..+...|+.+.++...++-.+-   .|+.-.+..    +    
T Consensus       195 Rakc~i~~~e~k~AI~Dlk~askLs~D-nTe~~ykis~L~Y~vgd~~~sL~~iRECLKl---dpdHK~Cf~~YKklkKv~  270 (504)
T KOG0624|consen  195 RAKCYIAEGEPKKAIHDLKQASKLSQD-NTEGHYKISQLLYTVGDAENSLKEIRECLKL---DPDHKLCFPFYKKLKKVV  270 (504)
T ss_pred             HHHHHHhcCcHHHHHHHHHHHHhcccc-chHHHHHHHHHHHhhhhHHHHHHHHHHHHcc---CcchhhHHHHHHHHHHHH
Confidence            999999999999999887777664322 4556666777788899998888888777653   355432211    1    


Q ss_pred             -----HHHHHhcCchHHHHHHHHHHHHHccCCcchhh---HHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-hhhHHHH
Q 023952          137 -----VNIYITASHLVNAESSTLVEAEKSITQRQWIT---YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICI  207 (275)
Q Consensus       137 -----~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~l  207 (275)
                           +......+++.++++ ..+...+..+......   +..+..++...+++.+|++...+..+.  .|+ ..++.--
T Consensus       271 K~les~e~~ie~~~~t~cle-~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~--d~~dv~~l~dR  347 (504)
T KOG0624|consen  271 KSLESAEQAIEEKHWTECLE-AGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDI--DPDDVQVLCDR  347 (504)
T ss_pred             HHHHHHHHHHhhhhHHHHHH-HHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhc--CchHHHHHHHH
Confidence                 112234556666666 5555555444422233   334556777889999999999988874  565 6777778


Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          208 LSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      ..+|.-...++.|+.-|+...+..
T Consensus       348 AeA~l~dE~YD~AI~dye~A~e~n  371 (504)
T KOG0624|consen  348 AEAYLGDEMYDDAIHDYEKALELN  371 (504)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHhcC
Confidence            888888889999999998887643

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.19  E-value=1.5e-06  Score=54.33  Aligned_cols=81  Identities=12%  Similarity=0.113  Sum_probs=40.7

Q ss_pred             CCCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHH
Q 023952           37 AKWTEKAEELFERVKQSNLS-FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKK  115 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~  115 (275)
                      .|+++.|+.+|+.+.+.... ++...+..+..+|.+.|++++|+.+++. .+.+.. +....-.+..++.+.|++++|++
T Consensus         2 ~~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~   79 (84)
T PF12895_consen    2 QGNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIK   79 (84)
T ss_dssp             TT-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHH
Confidence            35566666666666554311 1333444456666666666666666655 222111 22233334555666666666666


Q ss_pred             HHHH
Q 023952          116 FLDE  119 (275)
Q Consensus       116 ~~~~  119 (275)
                      +|++
T Consensus        80 ~l~~   83 (84)
T PF12895_consen   80 ALEK   83 (84)
T ss_dssp             HHHH
T ss_pred             HHhc
Confidence            6554

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.17  E-value=7.7e-06  Score=51.02  Aligned_cols=81  Identities=15%  Similarity=0.114  Sum_probs=45.9

Q ss_pred             cCCHHHHHHHHHHHHhccCC-CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 023952          179 LGNKDKIDQIWKSLRMTKQK-MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKAN  257 (275)
Q Consensus       179 ~~~~~~a~~~~~~m~~~~~~-p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  257 (275)
                      .|+++.|+.+++++.+.... |+...+..+..+|.+.|++++|..+++. .+.+  +.+....-.+..+|.+.|++++|.
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            35667777777776665331 2333344466777777777777777766 2221  122333334466677777777777


Q ss_pred             HHHHH
Q 023952          258 EFHML  262 (275)
Q Consensus       258 ~~~~~  262 (275)
                      +++++
T Consensus        79 ~~l~~   83 (84)
T PF12895_consen   79 KALEK   83 (84)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            77654

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=98.16  E-value=0.00048  Score=59.32  Aligned_cols=108  Identities=15%  Similarity=0.118  Sum_probs=57.5

Q ss_pred             cChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEE   84 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~   84 (275)
                      |-+++|+.++.+-+.       |..|=..|-..|.+++|.++-+.=.+..+   ..||..-...+-..++.+.|+++|++
T Consensus       814 gMlEeA~~lYr~ckR-------~DLlNKlyQs~g~w~eA~eiAE~~DRiHL---r~Tyy~yA~~Lear~Di~~AleyyEK  883 (1416)
T KOG3617|consen  814 GMLEEALILYRQCKR-------YDLLNKLYQSQGMWSEAFEIAETKDRIHL---RNTYYNYAKYLEARRDIEAALEYYEK  883 (1416)
T ss_pred             hhHHHHHHHHHHHHH-------HHHHHHHHHhcccHHHHHHHHhhccceeh---hhhHHHHHHHHHhhccHHHHHHHHHh
Confidence            344555555554432       34444455556667777666554222221   34555555555666777777777765


Q ss_pred             ----------HhhCCC---------CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           85 ----------IKRKNV---------VPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        85 ----------m~~~~~---------~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                                |....+         ..|...|.-...-+-..|+.+.|+.+|...+.
T Consensus       884 ~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D  940 (1416)
T KOG3617|consen  884 AGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD  940 (1416)
T ss_pred             cCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh
Confidence                      222111         12344444444445566777777777766554

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.13  E-value=0.0032  Score=51.87  Aligned_cols=210  Identities=11%  Similarity=0.127  Sum_probs=136.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcc---CCHHHHHHHHHHHhhC-CCCCchhhHHHHHHHHHhhCCHHHHHH
Q 023952           40 TEKAEELFERVKQSNLSFNALMYNEMMTLYMSV---GQVEKVALVVEEIKRK-NVVPDIFTYNLWISSCAATLNIDQVKK  115 (275)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~  115 (275)
                      .+++..+++.....-...+..+|..+...--..   ...+.....++++... ..+|+ .+|..+++.--+..-++.|..
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            344555555544322222444444444321111   1356667777777664 34444 467788888888888999999


Q ss_pred             HHHHHhhcCCCCC-CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          116 FLDEMSCDSGGSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       116 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      +|.++.+. +..+ ++.++++++..||. ++.+.|.+ +|+.-.+.... +..--...+.-+...++-..+..+|++...
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            99999987 4444 77888888887765 67778888 77655444432 223335667777888999999999999988


Q ss_pred             ccCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHHHhcCChH
Q 023952          195 TKQKMTS--RNYICILSSYLMLGHLKEVGEIIDQWKQSAT--SDFDISACNRLLGAFSDVGLTE  254 (275)
Q Consensus       195 ~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~~  254 (275)
                      .++.|+.  ..|..+|.-=+.-|++..+.++-+++.....  ..+....-..+++-|.-.+...
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            8666554  6799999999999999999988887765431  1122222334555555555443

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.13  E-value=0.00032  Score=50.32  Aligned_cols=88  Identities=13%  Similarity=-0.054  Sum_probs=62.7

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF--NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  100 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  100 (275)
                      ....+..+...+...|++++|...|++..+....+  ....+..+...+.+.|++++|+..+++..+.... +...+..+
T Consensus        34 ~a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l  112 (172)
T PRK02603         34 EAFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNI  112 (172)
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHH
Confidence            56677888888888888888888888877643222  1457788888888888888888888888875322 34556666


Q ss_pred             HHHHHhhCCHH
Q 023952          101 ISSCAATLNID  111 (275)
Q Consensus       101 l~~~~~~~~~~  111 (275)
                      ...+...|+..
T Consensus       113 g~~~~~~g~~~  123 (172)
T PRK02603        113 AVIYHKRGEKA  123 (172)
T ss_pred             HHHHHHcCChH
Confidence            66666666643

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=98.12  E-value=0.00021  Score=55.46  Aligned_cols=131  Identities=9%  Similarity=0.063  Sum_probs=98.5

Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh-cCchHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT-ASHLVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                      .+|..+++..-+.+..+.|.++|.++.+.  ...+..+|...+..-.+ .++.+.|.. +|+...+..+. +...|...+
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~--~~~~~~vy~~~A~~E~~~~~d~~~A~~-Ife~glk~f~~-~~~~~~~Y~   77 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARK-IFERGLKKFPS-DPDFWLEYL   77 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHH-HHHHHHHHHTT--HHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHH-HHHHHHHHCCC-CHHHHHHHH
Confidence            46888888888888999999999999864  24456666666666344 567777999 88888877654 777888888


Q ss_pred             HHHHccCCHHHHHHHHHHHHhccCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          174 ILYAGLGNKDKIDQIWKSLRMTKQKMTS---RNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      ..+...++.+.|..+|++.... +.++.   ..|...+..=.+.|+++.+.++.+++.+.
T Consensus        78 ~~l~~~~d~~~aR~lfer~i~~-l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   78 DFLIKLNDINNARALFERAISS-LPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHHHTT-HHHHHHHHHHHCCT-SSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHHHhCcHHHHHHHHHHHHHh-cCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            8888999999999999987654 33222   36888888888999999999999988875

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.

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.09  E-value=0.00024  Score=57.18  Aligned_cols=92  Identities=11%  Similarity=0.017  Sum_probs=79.8

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  109 (275)
                      -...+...|++++|+..|++..+.+ +-+...|..+..+|.+.|++++|+..+++..+.... +...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~-~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIELDPS-LAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCC
Confidence            3456678899999999999999875 457888999999999999999999999999986432 56778888899999999


Q ss_pred             HHHHHHHHHHHhhc
Q 023952          110 IDQVKKFLDEMSCD  123 (275)
Q Consensus       110 ~~~a~~~~~~~~~~  123 (275)
                      +++|...|++..+.
T Consensus        86 ~~eA~~~~~~al~l   99 (356)
T PLN03088         86 YQTAKAALEKGASL   99 (356)
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999999874

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=98.09  E-value=0.00018  Score=51.46  Aligned_cols=64  Identities=11%  Similarity=-0.044  Sum_probs=34.5

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCC--chhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP--DIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      ...|..+...+...|++++|+..|++.......|  ...++..+...+...|++++|...+++...
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~  100 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALE  100 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            3444555555555566666666666655432221  123455555556666666666666666554

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.07  E-value=0.0013  Score=45.58  Aligned_cols=99  Identities=5%  Similarity=-0.131  Sum_probs=61.6

Q ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHH
Q 023952          130 WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILS  209 (275)
Q Consensus       130 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  209 (275)
                      ......+...+...|++++|.+ +|+.+....+. +..-|-.|...+...|++++|+..|.......+ -++..+-.+..
T Consensus        35 l~~lY~~A~~ly~~G~l~~A~~-~f~~L~~~Dp~-~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~-ddp~~~~~ag~  111 (157)
T PRK15363         35 LNTLYRYAMQLMEVKEFAGAAR-LFQLLTIYDAW-SFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKI-DAPQAPWAAAE  111 (157)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHH-HHHHHHHhCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC-CCchHHHHHHH
Confidence            3344455555666777777777 66655544433 555566666666667777777777776655442 34556666667


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcC
Q 023952          210 SYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       210 ~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      ++...|+.+.|.+.|+......
T Consensus       112 c~L~lG~~~~A~~aF~~Ai~~~  133 (157)
T PRK15363        112 CYLACDNVCYAIKALKAVVRIC  133 (157)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHh
Confidence            7777777777777777666543

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.06  E-value=0.00061  Score=48.88  Aligned_cols=91  Identities=12%  Similarity=0.031  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc--hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD--IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      ...+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+++..+.  .+.+...+..+
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l  112 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALEL--NPKQPSALNNI  112 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcccHHHHHHH
Confidence            44566666777777788888887777776433222  345666677777777777777777776663  23345555556


Q ss_pred             HHHHHhcCchHHHHH
Q 023952          137 VNIYITASHLVNAES  151 (275)
Q Consensus       137 ~~~~~~~g~~~~a~~  151 (275)
                      ..+|...|+...+..
T Consensus       113 g~~~~~~g~~~~a~~  127 (172)
T PRK02603        113 AVIYHKRGEKAEEAG  127 (172)
T ss_pred             HHHHHHcCChHhHhh
Confidence            666666665544443

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.06  E-value=0.0025  Score=52.27  Aligned_cols=222  Identities=13%  Similarity=-0.003  Sum_probs=139.2

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHH-------
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYN-------   98 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~-------   98 (275)
                      -...+.....+..+++.|.+-+....+..  -++.-++....+|...|.+.+....-....+.|.. ...-|+       
T Consensus       226 ~ek~lgnaaykkk~f~~a~q~y~~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~  302 (539)
T KOG0548|consen  226 KEKELGNAAYKKKDFETAIQHYAKALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGRE-LRADYKLIAKALA  302 (539)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHH
Confidence            35667777778888888888888877764  45555666777888888887777776666665532 122222       


Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchh-hHHHHHHHHH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI-TYDFLIILYA  177 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~  177 (275)
                      .+..++.+.++++.++..|.+.... .-.|+.         ..+....+++.. .....  ....|... -.-.-...+.
T Consensus       303 r~g~a~~k~~~~~~ai~~~~kaLte-~Rt~~~---------ls~lk~~Ek~~k-~~e~~--a~~~pe~A~e~r~kGne~F  369 (539)
T KOG0548|consen  303 RLGNAYTKREDYEGAIKYYQKALTE-HRTPDL---------LSKLKEAEKALK-EAERK--AYINPEKAEEEREKGNEAF  369 (539)
T ss_pred             HhhhhhhhHHhHHHHHHHHHHHhhh-hcCHHH---------HHHHHHHHHHHH-HHHHH--HhhChhHHHHHHHHHHHHH
Confidence            2334566667788888888886553 112221         223334444443 22221  12222221 1111244567


Q ss_pred             ccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 023952          178 GLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKAN  257 (275)
Q Consensus       178 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  257 (275)
                      +.|++..|...|.++.... +-|...|..-.-+|.+.|.+..|+.-.+...+..  ++.+..|..=..++....++++|.
T Consensus       370 k~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~~~ieL~--p~~~kgy~RKg~al~~mk~ydkAl  446 (539)
T KOG0548|consen  370 KKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAKKCIELD--PNFIKAYLRKGAALRAMKEYDKAL  446 (539)
T ss_pred             hccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC--chHHHHHHHHHHHHHHHHHHHHHH
Confidence            7888888888888877764 3356678888888888888888888777776643  345556665566666677788888


Q ss_pred             HHHHHHHhc
Q 023952          258 EFHMLLLQK  266 (275)
Q Consensus       258 ~~~~~m~~~  266 (275)
                      +.|++.++.
T Consensus       447 eay~eale~  455 (539)
T KOG0548|consen  447 EAYQEALEL  455 (539)
T ss_pred             HHHHHHHhc
Confidence            888776654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.03  E-value=0.00049  Score=60.33  Aligned_cols=182  Identities=8%  Similarity=-0.025  Sum_probs=120.8

Q ss_pred             hhhHHHHhhccccCCCC-HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHH
Q 023952            7 IHSGERYFEGLPLSAKT-SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEI   85 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m   85 (275)
                      ...|...|-+.....++ ...|..|.+.|....+..+|.+.|+...+.+ ..+...+-.....|++..+++.|..+.-.-
T Consensus       474 ~~~al~ali~alrld~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~  552 (1238)
T KOG1127|consen  474 SALALHALIRALRLDVSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRA  552 (1238)
T ss_pred             HHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHH
Confidence            44555555554444443 5678888888888778888888888887765 456777888888888888888888873332


Q ss_pred             hhCCCC-CchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc
Q 023952           86 KRKNVV-PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR  164 (275)
Q Consensus        86 ~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  164 (275)
                      -+.... .-...|.-..-.|.+.++...+..-|+...+  .-|.|...|..+..+|..+|++..|.+ +|.++....|. 
T Consensus       553 ~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR--~dPkD~n~W~gLGeAY~~sGry~~AlK-vF~kAs~LrP~-  628 (1238)
T KOG1127|consen  553 AQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALR--TDPKDYNLWLGLGEAYPESGRYSHALK-VFTKASLLRPL-  628 (1238)
T ss_pred             hhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhc--CCchhHHHHHHHHHHHHhcCceehHHH-hhhhhHhcCcH-
Confidence            222110 0112233333446677888888888888776  346778888888889999999988888 78766554432 


Q ss_pred             chhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023952          165 QWITYDFLIILYAGLGNKDKIDQIWKSLR  193 (275)
Q Consensus       165 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~  193 (275)
                      +...--.....-+..|.+.++...+..+.
T Consensus       629 s~y~~fk~A~~ecd~GkYkeald~l~~ii  657 (1238)
T KOG1127|consen  629 SKYGRFKEAVMECDNGKYKEALDALGLII  657 (1238)
T ss_pred             hHHHHHHHHHHHHHhhhHHHHHHHHHHHH
Confidence            21111122223466788888888777654

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.03  E-value=0.00077  Score=59.17  Aligned_cols=183  Identities=12%  Similarity=-0.044  Sum_probs=119.2

Q ss_pred             CHHHHHHHHHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHH
Q 023952           74 QVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  152 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  152 (275)
                      +...|+..|-+..+.  .|+ ...|..|...|...-+...|.+.|+++.+-  -.-+......+...|++..+++.|..+
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  223 357888888888888888888888888763  345566677888889999999988883


Q ss_pred             HHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 023952          153 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  232 (275)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  232 (275)
                      .+....+.....-..-|-...-.|...++...+..-|+...+.. +-|...|..+..+|.+.|++..|.++|.+...-  
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            22222211111111223334445677788888888888776643 225567888889999999999999999887653  


Q ss_pred             CCCCHHHHHH--HHHHHHhcCChHHHHHHHHHHHh
Q 023952          233 SDFDISACNR--LLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       233 ~~~~~~~~~~--li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                       +|+.. |..  ..-.-+..|++++|...++.++.
T Consensus       626 -rP~s~-y~~fk~A~~ecd~GkYkeald~l~~ii~  658 (1238)
T KOG1127|consen  626 -RPLSK-YGRFKEAVMECDNGKYKEALDALGLIIY  658 (1238)
T ss_pred             -CcHhH-HHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence             34332 222  22334567888888888877653

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.97  E-value=0.0013  Score=55.45  Aligned_cols=64  Identities=16%  Similarity=0.088  Sum_probs=42.5

Q ss_pred             chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          165 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       165 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +...|..+.......|++++|...+++....  .|+...|..+...+...|+.++|.+.+.+....
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L--~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L  482 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDL--EMSWLNYVLLGKVYELKGDNRLAADAYSTAFNL  482 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHc--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            3455555555555567777777777776664  356666777777777777777777777776654

>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=97.95  E-value=7.5e-06  Score=48.74  Aligned_cols=52  Identities=21%  Similarity=0.226  Sum_probs=27.5

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           36 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        36 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      +.|++++|.++|+.+.... |-+...+..+..+|.+.|++++|.++++.+...
T Consensus         3 ~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~   54 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQRN-PDNPEARLLLAQCYLKQGQYDEAEELLERLLKQ   54 (68)
T ss_dssp             HTTHHHHHHHHHHHHHHHT-TTSHHHHHHHHHHHHHTT-HHHHHHHHHCCHGG
T ss_pred             hccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            4455555555555555443 234555555555555555555555555555553

...

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.95  E-value=0.0056  Score=48.35  Aligned_cols=106  Identities=18%  Similarity=0.146  Sum_probs=77.3

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHH
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL  212 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  212 (275)
                      .+..+.-+...|+...|.+     +.+....|+-.-|-..+.+++..++|++..++-..      .-++..|..++..|.
T Consensus       180 l~~Ti~~li~~~~~k~A~k-----l~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s------kKsPIGyepFv~~~~  248 (319)
T PF04840_consen  180 LNDTIRKLIEMGQEKQAEK-----LKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS------KKSPIGYEPFVEACL  248 (319)
T ss_pred             HHHHHHHHHHCCCHHHHHH-----HHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC------CCCCCChHHHHHHHH
Confidence            3444556667788877777     44555668888899999999999999988776432      224578889999999


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          213 MLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                      +.|+..+|..++..+       ++    ..-+..|.++|.+.+|.+.-
T Consensus       249 ~~~~~~eA~~yI~k~-------~~----~~rv~~y~~~~~~~~A~~~A  285 (319)
T PF04840_consen  249 KYGNKKEASKYIPKI-------PD----EERVEMYLKCGDYKEAAQEA  285 (319)
T ss_pred             HCCCHHHHHHHHHhC-------Ch----HHHHHHHHHCCCHHHHHHHH
Confidence            999999998888762       11    22466778888888876553

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

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=97.95  E-value=0.0063  Score=50.19  Aligned_cols=186  Identities=12%  Similarity=0.065  Sum_probs=132.9

Q ss_pred             HHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhC---CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHH
Q 023952           75 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL---NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAES  151 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  151 (275)
                      -+++.++++.....-..-+..+|..+...--..-   ..+.....++++.......|+ -+|..+++.-.+..-++.|..
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            3556666665554322334444544433321111   366677777777765333444 457788888888888999999


Q ss_pred             HHHHHHHHccCCc-chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          152 STLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       152 ~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                       +|.+..+....+ ++..+++++.-|| .++.+.|.++|+.=.+. ..-++.-....+.-+...++-..|..+|++...+
T Consensus       388 -iF~kaR~~~r~~hhVfVa~A~mEy~c-skD~~~AfrIFeLGLkk-f~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s  464 (656)
T KOG1914|consen  388 -IFKKAREDKRTRHHVFVAAALMEYYC-SKDKETAFRIFELGLKK-FGDSPEYVLKYLDFLSHLNDDNNARALFERVLTS  464 (656)
T ss_pred             -HHHHHhhccCCcchhhHHHHHHHHHh-cCChhHHHHHHHHHHHh-cCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhc
Confidence             999999988877 7888899998776 67899999999864332 2223444567888888999999999999999987


Q ss_pred             CCCCC--CHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          231 ATSDF--DISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       231 ~~~~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      . .++  ....|..+++-=..-|+...+.++-+++..
T Consensus       465 ~-l~~~ks~~Iw~r~l~yES~vGdL~si~~lekR~~~  500 (656)
T KOG1914|consen  465 V-LSADKSKEIWDRMLEYESNVGDLNSILKLEKRRFT  500 (656)
T ss_pred             c-CChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHHH
Confidence            3 333  457899999999999999999999887754

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.94  E-value=0.00061  Score=48.69  Aligned_cols=65  Identities=14%  Similarity=-0.098  Sum_probs=35.4

Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCC-CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      ..|..+...+...|++++|...|++......-++ ...++..+..+|...|++++|+. .+......
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~-~~~~Al~~  101 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALE-YYFQALER  101 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHh
Confidence            3445555555566666666666666654311111 12355566666666666666666 55555443

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.94  E-value=0.0027  Score=53.68  Aligned_cols=63  Identities=14%  Similarity=0.037  Sum_probs=38.6

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          200 TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ++..|..+.-.+...|++++|...+++.....   |+...|..+...+...|+.++|...+++...
T Consensus       419 ~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~---ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~  481 (517)
T PRK10153        419 LPRIYEILAVQALVKGKTDEAYQAINKAIDLE---MSWLNYVLLGKVYELKGDNRLAADAYSTAFN  481 (517)
T ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcC---CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            33455555445555666777777666666632   4556666666666666777777666666543

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.93  E-value=6.7e-05  Score=56.75  Aligned_cols=102  Identities=15%  Similarity=0.079  Sum_probs=63.2

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc-hhhHHHHHHHHHhhCCH
Q 023952           32 HLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNI  110 (275)
Q Consensus        32 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~  110 (275)
                      .-+.+.+++++|+..|.+.++.. +-|++-|..-..+|.+.|.++.|++--+..++.  .|. ..+|..|..+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~i--Dp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALSI--DPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHhc--ChHHHHHHHHHHHHHHccCcH
Confidence            34556677777777777766653 445666666666777777777776666666553  332 34666677777777777


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 023952          111 DQVKKFLDEMSCDSGGSDDWVKYVNLVNI  139 (275)
Q Consensus       111 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  139 (275)
                      ++|+..|++..+   +.|+..+|-.=+..
T Consensus       166 ~~A~~aykKaLe---ldP~Ne~~K~nL~~  191 (304)
T KOG0553|consen  166 EEAIEAYKKALE---LDPDNESYKSNLKI  191 (304)
T ss_pred             HHHHHHHHhhhc---cCCCcHHHHHHHHH
Confidence            777777766664   34555555443333

>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=97.92  E-value=0.00056  Score=49.69  Aligned_cols=88  Identities=18%  Similarity=0.236  Sum_probs=62.7

Q ss_pred             CCHHHHHHHHHHhh-----ccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhC----------------CHHHHHH
Q 023952           57 FNALMYNEMMTLYM-----SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL----------------NIDQVKK  115 (275)
Q Consensus        57 ~~~~~~~~li~~~~-----~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----------------~~~~a~~  115 (275)
                      .|-.+|..++..|.     +.|..+-....++.|.+-|+.-|..+|+.||+.+=+..                +.+-|++
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            46677777777765     45889999999999999999999999999999876521                2345555


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHHHHHhcCc
Q 023952          116 FLDEMSCDSGGSDDWVKYVNLVNIYITASH  145 (275)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  145 (275)
                      ++++|... |+-||..++..+++.+++.+.
T Consensus       125 lL~qME~~-gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  125 LLEQMENN-GVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             HHHHHHHc-CCCCcHHHHHHHHHHhccccH
Confidence            66666554 556666666666666555444

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.89  E-value=0.0013  Score=43.67  Aligned_cols=84  Identities=13%  Similarity=-0.047  Sum_probs=46.0

Q ss_pred             HHHhhccCCHHHHHHHHHHHhhCCCCCc--hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCC---CHHHHHHHHHHH
Q 023952           66 MTLYMSVGQVEKVALVVEEIKRKNVVPD--IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD---DWVKYVNLVNIY  140 (275)
Q Consensus        66 i~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~  140 (275)
                      ..++-..|+.++|+.+|++....|+...  ...+-.+.+.+...|++++|..++++....  .+.   +......+..++
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 AWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEE--FPDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCccccHHHHHHHHHHH
Confidence            3445556666666666666666655433  223444555566666666666666666553  121   222222333455


Q ss_pred             HhcCchHHHHH
Q 023952          141 ITASHLVNAES  151 (275)
Q Consensus       141 ~~~g~~~~a~~  151 (275)
                      ...|+.++|.+
T Consensus        86 ~~~gr~~eAl~   96 (120)
T PF12688_consen   86 YNLGRPKEALE   96 (120)
T ss_pred             HHCCCHHHHHH
Confidence            56666666666

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.86  E-value=0.0021  Score=50.09  Aligned_cols=27  Identities=30%  Similarity=0.340  Sum_probs=16.1

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERV   50 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m   50 (275)
                      ...|......|-..|++++|...|...
T Consensus        35 a~~y~~Aa~~fk~~~~~~~A~~ay~kA   61 (282)
T PF14938_consen   35 ADLYEKAANCFKLAKDWEKAAEAYEKA   61 (282)
T ss_dssp             HHHHHHHHHHHHHTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccchhHHHHHHH
Confidence            444666666666666666666666654

>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=97.85  E-value=7.8e-05  Score=44.27  Aligned_cols=50  Identities=12%  Similarity=0.121  Sum_probs=23.9

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           72 VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        72 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      .|++++|+++|+++.+.... +...+..+..+|.+.|++++|..+++++..
T Consensus         4 ~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~   53 (68)
T PF14559_consen    4 QGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLK   53 (68)
T ss_dssp             TTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHG
T ss_pred             ccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            44555555555555443222 334444455555555555555555555444

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.83  E-value=0.0072  Score=45.92  Aligned_cols=186  Identities=9%  Similarity=0.025  Sum_probs=108.2

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchh--hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF--TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN  135 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~--~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  135 (275)
                      ++..+-.....+.+.|++++|.+.|+++...-..+...  ..-.+..++.+.+++++|...+++..+...-.|+.. +..
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~P~~~~~~-~a~  109 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLNPTHPNID-YVL  109 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCcCCCchH-HHH
Confidence            34444444555667889999999999988853332111  123456778888999999999988887532233322 223


Q ss_pred             HHHHHHh--cC---------------c---hHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          136 LVNIYIT--AS---------------H---LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       136 l~~~~~~--~g---------------~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      .+.+.+.  .+               +   ..+|.. .++.+.+               -|=.+.-..+|...+..+.+.
T Consensus       110 Y~~g~~~~~~~~~~~~~~~~~~~~~rD~~~~~~A~~-~~~~li~---------------~yP~S~ya~~A~~rl~~l~~~  173 (243)
T PRK10866        110 YMRGLTNMALDDSALQGFFGVDRSDRDPQHARAAFR-DFSKLVR---------------GYPNSQYTTDATKRLVFLKDR  173 (243)
T ss_pred             HHHHHhhhhcchhhhhhccCCCccccCHHHHHHHHH-HHHHHHH---------------HCcCChhHHHHHHHHHHHHHH
Confidence            3333221  11               1   123333 3333333               333333344554444443321


Q ss_pred             cCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          196 KQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD-FDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       196 ~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                         .-. .--.+..-|.+.|.+..|..-++.+.++.... ........++.+|.+.|..++|..+...+.
T Consensus       174 ---la~-~e~~ia~~Y~~~~~y~AA~~r~~~v~~~Yp~t~~~~eal~~l~~ay~~lg~~~~a~~~~~~l~  239 (243)
T PRK10866        174 ---LAK-YELSVAEYYTKRGAYVAVVNRVEQMLRDYPDTQATRDALPLMENAYRQLQLNAQADKVAKIIA  239 (243)
T ss_pred             ---HHH-HHHHHHHHHHHcCchHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHcCChHHHHHHHHHHh
Confidence               011 11256777888899998998898888764221 233456677889999999999888776654

>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=0.00011  Score=43.17  Aligned_cols=56  Identities=11%  Similarity=0.048  Sum_probs=29.5

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhh
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR   87 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   87 (275)
                      ...+.+.|++++|...|+++.+.. +-+...+..+..++.+.|++++|..+|+++.+
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            344555555555555555555543 23444555555555555555555555555554

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.80  E-value=0.0032  Score=49.14  Aligned_cols=129  Identities=14%  Similarity=0.115  Sum_probs=65.0

Q ss_pred             HHHHHHHHHHhc-CchHHHHHHHHHHHHHccC---Cc--chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-----C
Q 023952          132 KYVNLVNIYITA-SHLVNAESSTLVEAEKSIT---QR--QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-----T  200 (275)
Q Consensus       132 ~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-----~  200 (275)
                      .+..+...|-.. |+++.|.+ .+++......   .+  -...+..+...+.+.|++++|.++|+++...-...     +
T Consensus       116 ~~~~lA~~ye~~~~d~e~Ai~-~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~  194 (282)
T PF14938_consen  116 CLKELAEIYEEQLGDYEKAIE-YYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYS  194 (282)
T ss_dssp             HHHHHHHHHCCTT--HHHHHH-HHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchh
Confidence            344555556665 67777777 6665543211   11  12445556667777778888888777765532211     1


Q ss_pred             hh-hHHHHHHHHHhcCCHHHHHHHHHHHHhcC-CCC--CCHHHHHHHHHHHHh--cCChHHHHHHHH
Q 023952          201 SR-NYICILSSYLMLGHLKEVGEIIDQWKQSA-TSD--FDISACNRLLGAFSD--VGLTEKANEFHM  261 (275)
Q Consensus       201 ~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~-~~~--~~~~~~~~li~~~~~--~g~~~~a~~~~~  261 (275)
                      .. .+...+-++...|+...|.+.+++..... .+.  ........|+.+|-.  ...++.+..-|+
T Consensus       195 ~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~~~~l~~A~~~~D~e~f~~av~~~d  261 (282)
T PF14938_consen  195 AKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKFLEDLLEAYEEGDVEAFTEAVAEYD  261 (282)
T ss_dssp             HHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHHHHHHHHHHHTT-CCCHHHHCHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHhCCHHHHHHHHHHHc
Confidence            11 22334445566677777777777776532 111  122344555555543  233444444443

>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=97.80  E-value=0.00011  Score=43.75  Aligned_cols=63  Identities=25%  Similarity=0.296  Sum_probs=35.1

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC-CHHHHHHHHHHHhh
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKR   87 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~   87 (275)
                      ...|..+...+...|++++|+..|++..+.+ +-++..|..+..++.+.| ++++|++.+++..+
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            4455555555666666666666666555543 234455555555555555 45566655555544

...

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.77  E-value=0.0094  Score=45.31  Aligned_cols=76  Identities=12%  Similarity=-0.015  Sum_probs=52.0

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHH---HHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKY---VNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                      +-.....+...|++++|...|+++...  .|-+....   -.++.+|.+.++++.|.. .+++..+..|.-.-.-|-..+
T Consensus        35 ~Y~~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~-~~e~fi~~~P~~~~~~~a~Y~  111 (243)
T PRK10866         35 IYATAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQA-AIDRFIRLNPTHPNIDYVLYM  111 (243)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHH-HHHHHHHhCcCCCchHHHHHH
Confidence            334455567789999999999999874  33333333   456778899999999999 888888766553333333333


Q ss_pred             HH
Q 023952          174 IL  175 (275)
Q Consensus       174 ~~  175 (275)
                      .+
T Consensus       112 ~g  113 (243)
T PRK10866        112 RG  113 (243)
T ss_pred             HH
Confidence            33

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.76  E-value=0.00086  Score=50.98  Aligned_cols=96  Identities=15%  Similarity=0.069  Sum_probs=49.9

Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  183 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  183 (275)
                      ..+.+++.+|+..|.++++  -.|-|.+-|..-..+|++.|.++.|++ -.+......+. -..+|..|..+|...|+++
T Consensus        91 ~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVk-Dce~Al~iDp~-yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   91 LMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVK-DCESALSIDPH-YSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHH-HHHHHHhcChH-HHHHHHHHHHHHHccCcHH
Confidence            3445556666666666555  234444445555556666666666555 33333222221 3455555666666666666


Q ss_pred             HHHHHHHHHHhccCCCChhhHH
Q 023952          184 KIDQIWKSLRMTKQKMTSRNYI  205 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~~~  205 (275)
                      +|++.|++..+  +.|+-.+|-
T Consensus       167 ~A~~aykKaLe--ldP~Ne~~K  186 (304)
T KOG0553|consen  167 EAIEAYKKALE--LDPDNESYK  186 (304)
T ss_pred             HHHHHHHhhhc--cCCCcHHHH
Confidence            66666655544  345544443

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.75  E-value=0.00021  Score=41.96  Aligned_cols=56  Identities=14%  Similarity=0.025  Sum_probs=31.9

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          208 LSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ...+.+.|++++|...|+++.+..  +-+...+..+..++...|++++|..+|+++++
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            344556666666666666666543  23455555566666666666666666666554

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.71  E-value=0.0048  Score=41.07  Aligned_cols=107  Identities=15%  Similarity=0.126  Sum_probs=75.2

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc---h-hhHHHHH
Q 023952           28 TALLHLYAGAKWTEKAEELFERVKQSNLSFN--ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD---I-FTYNLWI  101 (275)
Q Consensus        28 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~-~~~~~ll  101 (275)
                      -.+..++-..|+.++|+.+|++....|....  ...+-.+.+.+...|++++|+.+|++.....  |+   . .....+.
T Consensus         5 ~~~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~--p~~~~~~~l~~f~A   82 (120)
T PF12688_consen    5 YELAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF--PDDELNAALRVFLA   82 (120)
T ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC--CCccccHHHHHHHH
Confidence            3456677888999999999999999886544  3456677788999999999999999988753  33   2 2222233


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  141 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  141 (275)
                      -++...|+.++|...+-....     ++...|.--|..|.
T Consensus        83 l~L~~~gr~~eAl~~~l~~la-----~~~~~y~ra~~~ya  117 (120)
T PF12688_consen   83 LALYNLGRPKEALEWLLEALA-----ETLPRYRRAIRFYA  117 (120)
T ss_pred             HHHHHCCCHHHHHHHHHHHHH-----HHHHHHHHHHHHHH
Confidence            456788999999988766554     22234544444443

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=97.71  E-value=0.00063  Score=51.31  Aligned_cols=112  Identities=15%  Similarity=0.194  Sum_probs=86.8

Q ss_pred             hHHHHhhccccCCCCHhHHHHHHHHHHcC-----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC----------
Q 023952            9 SGERYFEGLPLSAKTSETYTALLHLYAGA-----KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG----------   73 (275)
Q Consensus         9 ~A~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g----------   73 (275)
                      ..++.|+..+...+|..+|-..+..+...     +.++-....++.|.+.|+..|..+|+.|+..+-+..          
T Consensus        52 ~~e~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~  131 (406)
T KOG3941|consen   52 HVEKQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKV  131 (406)
T ss_pred             chhhhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHH
Confidence            34566777775557899999999888654     567777888899999999999999999999875542          


Q ss_pred             ------CHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCH-HHHHHHHHHH
Q 023952           74 ------QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI-DQVKKFLDEM  120 (275)
Q Consensus        74 ------~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~-~~a~~~~~~~  120 (275)
                            +-+=+++++++|...|+.||..+-..|++++.+.+-. .+...+.-.|
T Consensus       132 F~HYP~QQ~C~I~vLeqME~hGVmPdkE~e~~lvn~FGr~~~p~~K~~Rm~yWm  185 (406)
T KOG3941|consen  132 FLHYPQQQNCAIKVLEQMEWHGVMPDKEIEDILVNAFGRWNFPTKKVKRMLYWM  185 (406)
T ss_pred             HhhCchhhhHHHHHHHHHHHcCCCCchHHHHHHHHHhccccccHHHHHHHHHhh
Confidence                  2345789999999999999999999999999987753 2333333333

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.70  E-value=0.0017  Score=49.55  Aligned_cols=98  Identities=8%  Similarity=-0.008  Sum_probs=43.3

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcc---CCHHHHHHHHHHHhhCCCCCchhhHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV---GQVEKVALVVEEIKRKNVVPDIFTYNL   99 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~---g~~~~a~~~~~~m~~~~~~p~~~~~~~   99 (275)
                      |...|-.|...|...|+++.|..-|.+..+.. ++++..+..+..++...   ..-.++..+|+++...+.. |+.+...
T Consensus       155 d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~-g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~iral~l  232 (287)
T COG4235         155 DAEGWDLLGRAYMALGRASDALLAYRNALRLA-GDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRALSL  232 (287)
T ss_pred             CchhHHHHHHHHHHhcchhHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHHHH
Confidence            45555555555555555555555555444432 23344443333332211   1233444555555443221 3333444


Q ss_pred             HHHHHHhhCCHHHHHHHHHHHhh
Q 023952          100 WISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus       100 ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      |...+...|++.+|...|+.|.+
T Consensus       233 LA~~afe~g~~~~A~~~Wq~lL~  255 (287)
T COG4235         233 LAFAAFEQGDYAEAAAAWQMLLD  255 (287)
T ss_pred             HHHHHHHcccHHHHHHHHHHHHh
Confidence            44444455555555555555544

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.70  E-value=0.00029  Score=55.85  Aligned_cols=266  Identities=16%  Similarity=0.054  Sum_probs=155.4

Q ss_pred             CccccChhhHHHHhhccccCCC-C----HhHHHHHHHHHHcCCCHHHHHHHHHH--HHhC--CCC-CCHHHHHHHHHHhh
Q 023952            1 MTKVFGIHSGERYFEGLPLSAK-T----SETYTALLHLYAGAKWTEKAEELFER--VKQS--NLS-FNALMYNEMMTLYM   70 (275)
Q Consensus         1 l~~~g~~~~A~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~a~~~~~~--m~~~--~~~-~~~~~~~~li~~~~   70 (275)
                      |||.|+....+.+|+...+.+. |    ...|..|..+|.-.+++++|++....  ...+  |-+ -.+.+-..|-..+-
T Consensus        27 Lck~gdcraGv~ff~aA~qvGTeDl~tLSAIYsQLGNAyfyL~DY~kAl~yH~hDltlar~lgdklGEAKssgNLGNtlK  106 (639)
T KOG1130|consen   27 LCKMGDCRAGVDFFKAALQVGTEDLSTLSAIYSQLGNAYFYLKDYEKALKYHTHDLTLARLLGDKLGEAKSSGNLGNTLK  106 (639)
T ss_pred             HHhccchhhhHHHHHHHHHhcchHHHHHHHHHHHhcchhhhHhhHHHHHhhhhhhHHHHHHhcchhccccccccccchhh
Confidence            6899999999999999888753 3    34577778888888899999886542  1111  100 01122222333334


Q ss_pred             ccCCHHHHHHHHHH----HhhCCC-CCchhhHHHHHHHHHhhCC--------------------HHHHHHHHHHHhh---
Q 023952           71 SVGQVEKVALVVEE----IKRKNV-VPDIFTYNLWISSCAATLN--------------------IDQVKKFLDEMSC---  122 (275)
Q Consensus        71 ~~g~~~~a~~~~~~----m~~~~~-~p~~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~---  122 (275)
                      -.|.+++|+-.-..    ..+.|- ......+-.+...|...|+                    ++.|.++|.+=.+   
T Consensus       107 v~G~fdeA~~cc~rhLd~areLgDrv~e~RAlYNlgnvYhakGk~~g~~~pee~g~f~~ev~~al~~Av~fy~eNL~l~~  186 (639)
T KOG1130|consen  107 VKGAFDEALTCCFRHLDFARELGDRVLESRALYNLGNVYHAKGKCTGLEAPEEKGAFNAEVTSALENAVKFYMENLELSE  186 (639)
T ss_pred             hhcccchHHHHHHHHhHHHHHHhHHHhhhHHHhhhhhhhhhcccccCCCChhhcccccHHHHHHHHHHHHHHHHHHHHHH
Confidence            44556665432211    112111 0122344446666655443                    2334444443111   


Q ss_pred             cCC-CCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH----HHccCC-cchhhHHHHHHHHHccCCHHHHHHHHHHHHhc-
Q 023952          123 DSG-GSDDWVKYVNLVNIYITASHLVNAESSTLVEA----EKSITQ-RQWITYDFLIILYAGLGNKDKIDQIWKSLRMT-  195 (275)
Q Consensus       123 ~~~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-  195 (275)
                      .-| --.-...|..|-+.|.-.|+++.|+. .-+.-    .+.|.. ..-..++.+..++.-.|+++.|.+.|+..... 
T Consensus       187 ~lgDr~aqGRa~GnLGNTyYlLGdf~~ai~-~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LA  265 (639)
T KOG1130|consen  187 KLGDRLAQGRAYGNLGNTYYLLGDFDQAIH-FHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLA  265 (639)
T ss_pred             HhhhHHhhcchhcccCceeeeeccHHHHHH-HHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHH
Confidence            101 01112345566666667888999887 32211    112221 12356777888889999999999988764322 


Q ss_pred             ---cC-CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh----cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          196 ---KQ-KMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ----SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       196 ---~~-~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                         |- .......-+|...|.-..++++|+.++.+-..    .+...-....|.+|..+|...|..++|+.+...-++..
T Consensus       266 ielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~s  345 (639)
T KOG1130|consen  266 IELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRSS  345 (639)
T ss_pred             HHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHH
Confidence               21 12233455788888888899999998876542    11112356778889999999999999998887665443

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.67  E-value=0.0054  Score=46.01  Aligned_cols=132  Identities=11%  Similarity=0.038  Sum_probs=71.4

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHH-
Q 023952           96 TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII-  174 (275)
Q Consensus        96 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~-  174 (275)
                      ..+.+++.+.-.|.+.-....+.+.++. ..+.++.....|.+.-.+.|+.+.|.. .++...+.....|..+.+.++. 
T Consensus       179 Vmy~~~~~llG~kEy~iS~d~~~~vi~~-~~e~~p~L~s~Lgr~~MQ~GD~k~a~~-yf~~vek~~~kL~~~q~~~~V~~  256 (366)
T KOG2796|consen  179 VMYSMANCLLGMKEYVLSVDAYHSVIKY-YPEQEPQLLSGLGRISMQIGDIKTAEK-YFQDVEKVTQKLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHhcchhhhhhHHHHHHHHHh-CCcccHHHHHHHHHHHHhcccHHHHHH-HHHHHHHHHhhhhccchhHHHHh
Confidence            3445555555556666666666666654 334555555666666666666666666 6665555444444444443332 


Q ss_pred             ----HHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          175 ----LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       175 ----~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                          .|...+++..|...+.++.... +.++...|.=.-+..-.|+..+|.+.++.|.+.
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D-~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMD-PRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccC-CCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence                3444556666666666655442 223333333333333456666677777766653

>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=97.63  E-value=0.0014  Score=44.02  Aligned_cols=99  Identities=11%  Similarity=-0.024  Sum_probs=59.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      |..++..+|.++++.|+++....+.+..=.-+  ++..         ...+.         --......|+..+..+++.
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~WgI~--~~~~---------~~~~~---------~~~~spl~Pt~~lL~AIv~   60 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVWGID--VNGK---------KKEGD---------YPPSSPLYPTSRLLIAIVH   60 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhcCCC--CCCc---------cccCc---------cCCCCCCCCCHHHHHHHHH
Confidence            45667777777888887777777776542111  1100         00000         1122345677777777777


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  141 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  141 (275)
                      +|+..+++..|.++.+...+..+++.+..+|..|+.-..
T Consensus        61 sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   61 SFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             HHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            777777777777777777666666666677776666443

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=97.63  E-value=0.034  Score=47.86  Aligned_cols=234  Identities=13%  Similarity=0.098  Sum_probs=140.2

Q ss_pred             cccChhhHHHHhhccccCC---C---CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC-----------CCCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSA---K---TSETYTALLHLYAGAKWTEKAEELFERVKQSN-----------LSFNALMYNEM   65 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~---~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----------~~~~~~~~~~l   65 (275)
                      .+|+++.|..+.+.=+..+   |   +...+..-+.-+.+.|+.+....++-.+...-           .+.....|.-+
T Consensus       519 ~~GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~~~~s~l~~~l~~~p~a~~lY~~~  598 (829)
T KOG2280|consen  519 QEGRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNKLNRSSLFMTLRNQPLALSLYRQF  598 (829)
T ss_pred             hcCcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHH
Confidence            3688888888877654432   2   55667777888888888888877776665431           12222233333


Q ss_pred             HHH--------hhccCCHHHHHHHHH--HHh----hCCCCCchhhHHHHHHHHHhhCCHH----------HHHHHHHHHh
Q 023952           66 MTL--------YMSVGQVEKVALVVE--EIK----RKNVVPDIFTYNLWISSCAATLNID----------QVKKFLDEMS  121 (275)
Q Consensus        66 i~~--------~~~~g~~~~a~~~~~--~m~----~~~~~p~~~~~~~ll~~~~~~~~~~----------~a~~~~~~~~  121 (275)
                      ++-        +.+.++-.++..-|.  ...    ..|..|+   .....+.+++.....          .-+++.+.+.
T Consensus       599 ~r~~~~~~l~d~y~q~dn~~~~a~~~~q~~~~~~~~~~r~~~---lk~~a~~~a~sk~~s~e~ka~ed~~kLl~lQ~~Le  675 (829)
T KOG2280|consen  599 MRHQDRATLYDFYNQDDNHQALASFHLQASYAAETIEGRIPA---LKTAANAFAKSKEKSFEAKALEDQMKLLKLQRTLE  675 (829)
T ss_pred             HHhhchhhhhhhhhcccchhhhhhhhhhhhhhhhhhcccchh---HHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHH
Confidence            331        111122122222111  100    0122333   233444455544321          1222333333


Q ss_pred             hcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh
Q 023952          122 CDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS  201 (275)
Q Consensus       122 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  201 (275)
                      ...+..-..-+.+--+.-+...|+..+|.+     +.+....||-..|-.-+.+++..+++++.+++-+.++      ++
T Consensus       676 ~q~~~~f~dlSl~dTv~~li~~g~~k~a~q-----l~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sP  744 (829)
T KOG2280|consen  676 DQFGGSFVDLSLHDTVTTLILIGQNKRAEQ-----LKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SP  744 (829)
T ss_pred             HHhccccccCcHHHHHHHHHHccchHHHHH-----HHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CC
Confidence            333333333344455566778899999988     5566677898999888999999999998877765432      25


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          202 RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                      .-|.-++..|.+.|+.++|.+++.+..      +..    -.+.+|.+.|++.+|.++-
T Consensus       745 IGy~PFVe~c~~~~n~~EA~KYiprv~------~l~----ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  745 IGYLPFVEACLKQGNKDEAKKYIPRVG------GLQ----EKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             CCchhHHHHHHhcccHHHHhhhhhccC------ChH----HHHHHHHHhccHHHHHHHH
Confidence            678889999999999999999988642      111    4677888889888887654

>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=97.62  E-value=0.00049  Score=40.90  Aligned_cols=63  Identities=19%  Similarity=0.121  Sum_probs=35.6

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcC-ChHHHHHHHHHHHh
Q 023952          201 SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG-LTEKANEFHMLLLQ  265 (275)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~  265 (275)
                      +..|..+...+...|++++|+..|.+..+..  +.+...|..+..+|...| ++++|.+.+++.++
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            3445555555666666666666666665543  234555555566666666 46666666655544

...

>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=97.60  E-value=0.0017  Score=43.68  Aligned_cols=97  Identities=6%  Similarity=-0.062  Sum_probs=67.4

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      |..++.++|.++++.|+++....+++..-  |+.++...         ..+.          ........|+..+..+++
T Consensus         1 de~~~~~ii~al~r~g~~~~i~~~i~~~W--gI~~~~~~---------~~~~----------~~~~spl~Pt~~lL~AIv   59 (126)
T PF12921_consen    1 DEELLCNIIYALGRSGQLDSIKSYIKSVW--GIDVNGKK---------KEGD----------YPPSSPLYPTSRLLIAIV   59 (126)
T ss_pred             ChHHHHHHHHHHhhcCCHHHHHHHHHHhc--CCCCCCcc---------ccCc----------cCCCCCCCCCHHHHHHHH
Confidence            45677888888888888888887776543  33322210         0000          223336789999999999


Q ss_pred             HHHHhcCchHHHHHHHHHHHHH-ccCCcchhhHHHHHHHH
Q 023952          138 NIYITASHLVNAESSTLVEAEK-SITQRQWITYDFLIILY  176 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~  176 (275)
                      .+|+..|++..|.+ +++...+ .+.+.+...|..|+.-.
T Consensus        60 ~sf~~n~~i~~al~-~vd~fs~~Y~I~i~~~~W~~Ll~W~   98 (126)
T PF12921_consen   60 HSFGYNGDIFSALK-LVDFFSRKYPIPIPKEFWRRLLEWA   98 (126)
T ss_pred             HHHHhcccHHHHHH-HHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            99999999999999 7777665 34444578888888643

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>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=97.59  E-value=0.0022  Score=44.59  Aligned_cols=68  Identities=15%  Similarity=0.130  Sum_probs=50.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH-----hcCCCCCC
Q 023952          203 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL-----QKNCAPTN  272 (275)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~~~p~~  272 (275)
                      ....++..+...|+++.|..+.+.+....  +.+...|..++.+|...|+...|.++|+++.     +.|+.|+.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d--P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~  136 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD--PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSP  136 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS--TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----H
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC--CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCH
Confidence            44567777888999999999999998865  5688889999999999999999999998873     45888875

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.57  E-value=0.013  Score=41.65  Aligned_cols=136  Identities=10%  Similarity=-0.002  Sum_probs=97.3

Q ss_pred             CCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC-cchhh
Q 023952           90 VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQWIT  168 (275)
Q Consensus        90 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~  168 (275)
                      ..|+...--.|..+..+.|+..+|...|++.... -+-.|....-.+.++....+++..|.. .++.+.+..+. ....+
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            4577777777888888999999999999888773 566777778888888888889888888 77777765432 12223


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          169 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       169 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      .-.+.+.+...|.+..|+.-|+.....  -|+...-......+.+.|+.+++..-+..+.+
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            345667788889998898888887774  55555544555666777777666554444443

>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=97.56  E-value=0.00059  Score=47.46  Aligned_cols=72  Identities=11%  Similarity=0.070  Sum_probs=41.2

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh----cCCCCCCHHH
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVK  132 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  132 (275)
                      .+...++..+...|++++|+.+.+.+....+ .|...|..+|.++...|+...|.++|+++.+    .-|+.|+..+
T Consensus        63 ~~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP-~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   63 DALERLAEALLEAGDYEEALRLLQRALALDP-YDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHST-T-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHHhccCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            4455566666667777777777777776532 2556677777777777777777777766533    1256666654

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=97.52  E-value=0.016  Score=44.47  Aligned_cols=114  Identities=11%  Similarity=-0.067  Sum_probs=76.3

Q ss_pred             CCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHc---cCCHHHHHHHHHHHHhccCCCChhh
Q 023952          127 SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG---LGNKDKIDQIWKSLRMTKQKMTSRN  203 (275)
Q Consensus       127 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~~~~~p~~~~  203 (275)
                      |.|...|..|...|.+.|+.+.|.. .|....+.-++ |...+..+..++..   .....++.++|+++.... .-+...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~-AY~~A~rL~g~-n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D-~~~ira  229 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALL-AYRNALRLAGD-NPEILLGLAEALYYQAGQQMTAKARALLRQALALD-PANIRA  229 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcC-CccHHH
Confidence            6777888888888888888888888 77777664432 44455555544333   224567888888887753 224455


Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH
Q 023952          204 YICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  246 (275)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  246 (275)
                      ...|...+...|++.+|...|+.|.+..  +|+. .+..+|+.
T Consensus       230 l~lLA~~afe~g~~~~A~~~Wq~lL~~l--p~~~-~rr~~ie~  269 (287)
T COG4235         230 LSLLAFAAFEQGDYAEAAAAWQMLLDLL--PADD-PRRSLIER  269 (287)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhcC--CCCC-chHHHHHH
Confidence            5666777888888888888888888854  3333 24444443

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.52  E-value=0.016  Score=49.14  Aligned_cols=202  Identities=11%  Similarity=0.119  Sum_probs=115.2

Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC----CchhhHHHHHHHHHhhCCHHHHHHHHHHHh
Q 023952           46 LFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV----PDIFTYNLWISSCAATLNIDQVKKFLDEMS  121 (275)
Q Consensus        46 ~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~----p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  121 (275)
                      -+++++++|-.|+...   +...++-.|++.+|-++|.+--..+-.    .|...|. +..-+...|..++-..+.++--
T Consensus       622 EL~~~k~rge~P~~iL---lA~~~Ay~gKF~EAAklFk~~G~enRAlEmyTDlRMFD-~aQE~~~~g~~~eKKmL~RKRA  697 (1081)
T KOG1538|consen  622 ELEERKKRGETPNDLL---LADVFAYQGKFHEAAKLFKRSGHENRALEMYTDLRMFD-YAQEFLGSGDPKEKKMLIRKRA  697 (1081)
T ss_pred             HHHHHHhcCCCchHHH---HHHHHHhhhhHHHHHHHHHHcCchhhHHHHHHHHHHHH-HHHHHhhcCChHHHHHHHHHHH
Confidence            3456777887777654   344566677888888777543221100    0111111 1222344444444333333211


Q ss_pred             hc--CCCCCCHHHHHHHHHHHHhcCchHHHHHHH--------HHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHH
Q 023952          122 CD--SGGSDDWVKYVNLVNIYITASHLVNAESST--------LVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKS  191 (275)
Q Consensus       122 ~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~--------~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  191 (275)
                      ..  ....|.     +-..++...|+.++|..++        +-++.......+..+...+...+-+...+.-|-++|.+
T Consensus       698 ~WAr~~kePk-----aAAEmLiSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAaeIF~k  772 (1081)
T KOG1538|consen  698 DWARNIKEPK-----AAAEMLISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAEIFLK  772 (1081)
T ss_pred             HHhhhcCCcH-----HHHHHhhcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHHHHHH
Confidence            10  011222     3345566778888887731        11222223333445555555556667778888888887


Q ss_pred             HHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHH-----------HHHHHHHHHhcCChHHHHHHH
Q 023952          192 LRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA-----------CNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       192 m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~-----------~~~li~~~~~~g~~~~a~~~~  260 (275)
                      |-+.         ..++......+++++|..+-+...+-   .||+..           |..--++|.++|+-.+|.+++
T Consensus       773 ~gD~---------ksiVqlHve~~~W~eAFalAe~hPe~---~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vL  840 (1081)
T KOG1538|consen  773 MGDL---------KSLVQLHVETQRWDEAFALAEKHPEF---KDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVL  840 (1081)
T ss_pred             hccH---------HHHhhheeecccchHhHhhhhhCccc---cccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHH
Confidence            7542         35788889999999999888776542   244431           334456888999999999999


Q ss_pred             HHHHhcCC
Q 023952          261 MLLLQKNC  268 (275)
Q Consensus       261 ~~m~~~~~  268 (275)
                      +++....+
T Consensus       841 eQLtnnav  848 (1081)
T KOG1538|consen  841 EQLTNNAV  848 (1081)
T ss_pred             HHhhhhhh
Confidence            88765443

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.51  E-value=0.0053  Score=47.09  Aligned_cols=87  Identities=10%  Similarity=0.001  Sum_probs=43.3

Q ss_pred             HccCCHHHHHHHHHHHHhccCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHHHhcC
Q 023952          177 AGLGNKDKIDQIWKSLRMTKQKMTS----RNYICILSSYLMLGHLKEVGEIIDQWKQSATSD-FDISACNRLLGAFSDVG  251 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g  251 (275)
                      .+.|++++|...|+.+.+.  .|+.    ..+-.+...|...|++++|...|..+.+..... .....+-.+...+...|
T Consensus       154 ~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g  231 (263)
T PRK10803        154 QDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKG  231 (263)
T ss_pred             HhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcC
Confidence            3445566666666555543  2222    234455555556666666666666655432111 12223333444555556


Q ss_pred             ChHHHHHHHHHHHh
Q 023952          252 LTEKANEFHMLLLQ  265 (275)
Q Consensus       252 ~~~~a~~~~~~m~~  265 (275)
                      +.++|..+|++.++
T Consensus       232 ~~~~A~~~~~~vi~  245 (263)
T PRK10803        232 DTAKAKAVYQQVIK  245 (263)
T ss_pred             CHHHHHHHHHHHHH
Confidence            66666666655544

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.49  E-value=0.015  Score=43.76  Aligned_cols=153  Identities=7%  Similarity=-0.010  Sum_probs=101.9

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHH
Q 023952           40 TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE  119 (275)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  119 (275)
                      .+...+.|+.-.       ....+.++..+.-.|.+.-...++++.++...+.++.....|.+.-...||.+.|...|+.
T Consensus       165 ~ESsv~lW~KRl-------~~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~  237 (366)
T KOG2796|consen  165 EESSIRLWRKRL-------GRVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQD  237 (366)
T ss_pred             hhhHHHHHHHHH-------HHHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHH
Confidence            355666666422       3566778888888888888888888888877666778888888888888999999999987


Q ss_pred             HhhcCC----CCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          120 MSCDSG----GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       120 ~~~~~~----~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      ..+..+    ...+..+.......|.-.+++..|.. .+.++....+. |+..-|.-.-...-.|+...|.+..+.|...
T Consensus       238 vek~~~kL~~~q~~~~V~~n~a~i~lg~nn~a~a~r-~~~~i~~~D~~-~~~a~NnKALcllYlg~l~DAiK~~e~~~~~  315 (366)
T KOG2796|consen  238 VEKVTQKLDGLQGKIMVLMNSAFLHLGQNNFAEAHR-FFTEILRMDPR-NAVANNNKALCLLYLGKLKDALKQLEAMVQQ  315 (366)
T ss_pred             HHHHHhhhhccchhHHHHhhhhhheecccchHHHHH-HHhhccccCCC-chhhhchHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            665422    22222333344445556677777777 66665554432 4444444333444568888899999888875


Q ss_pred             cCCCChhh
Q 023952          196 KQKMTSRN  203 (275)
Q Consensus       196 ~~~p~~~~  203 (275)
                        .|...+
T Consensus       316 --~P~~~l  321 (366)
T KOG2796|consen  316 --DPRHYL  321 (366)
T ss_pred             --CCccch
Confidence              444433

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.45  E-value=0.0011  Score=39.90  Aligned_cols=55  Identities=16%  Similarity=0.178  Sum_probs=30.2

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           33 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      .|.+.+++++|.++++.+...+ |.++..|.....++.+.|++++|.+.|+...+.
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            4455555555555555555543 334445555555555555555555555555553

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.39  E-value=0.0058  Score=46.91  Aligned_cols=97  Identities=10%  Similarity=0.015  Sum_probs=53.0

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc--chhhHH
Q 023952           96 TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR--QWITYD  170 (275)
Q Consensus        96 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~  170 (275)
                      .|...+....+.|++++|...|+.+.+.  .|.+   ...+..+...|...|++++|.. .|..+....+..  ....+-
T Consensus       145 ~Y~~A~~l~~~~~~y~~Ai~af~~fl~~--yP~s~~a~~A~y~LG~~y~~~g~~~~A~~-~f~~vv~~yP~s~~~~dAl~  221 (263)
T PRK10803        145 DYNAAIALVQDKSRQDDAIVAFQNFVKK--YPDSTYQPNANYWLGQLNYNKGKKDDAAY-YFASVVKNYPKSPKAADAMF  221 (263)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCcchHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHCCCCcchhHHHH
Confidence            3444444444556666666666666653  1222   2355566666666666666666 666665543321  122333


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      .+...+...|+.++|..+|+++.+.
T Consensus       222 klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        222 KVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444555666777777776666554

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.34  E-value=0.035  Score=41.02  Aligned_cols=184  Identities=12%  Similarity=0.048  Sum_probs=87.4

Q ss_pred             HHHhhccCCHHHHHHHHHHHhhCCCC--CchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 023952           66 MTLYMSVGQVEKVALVVEEIKRKNVV--PDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  143 (275)
Q Consensus        66 i~~~~~~g~~~~a~~~~~~m~~~~~~--p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  143 (275)
                      ...+...|++++|.+.|+.+...-..  --....-.++.++.+.|+++.|...+++..+...-.|.. .+...+.+.+..
T Consensus        12 a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~-~~A~Y~~g~~~~   90 (203)
T PF13525_consen   12 ALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKA-DYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTH-HHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcch-hhHHHHHHHHHH
Confidence            34455666777777777776654211  112334455666667777777777777766542111111 111222222111


Q ss_pred             CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 023952          144 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI  223 (275)
Q Consensus       144 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  223 (275)
                      ........ .-..  ......-...+..++.-|=.+.-..+|...+..+.+.   . ...--.+...|.+.|.+..|..-
T Consensus        91 ~~~~~~~~-~~~D--~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~---l-a~~e~~ia~~Y~~~~~y~aA~~r  163 (203)
T PF13525_consen   91 KQIPGILR-SDRD--QTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR---L-AEHELYIARFYYKRGKYKAAIIR  163 (203)
T ss_dssp             HHHHHHH--TT-----HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH---H-HHHHHHHHHHHHCTT-HHHHHHH
T ss_pred             HhCccchh-cccC--hHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH---H-HHHHHHHHHHHHHcccHHHHHHH
Confidence            11110000 0000  0000001234445555555555566666555554332   0 11112367778899999999999


Q ss_pred             HHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHH
Q 023952          224 IDQWKQSATSDF-DISACNRLLGAFSDVGLTEKAN  257 (275)
Q Consensus       224 ~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~  257 (275)
                      ++.+.+.....+ .......++.+|.+.|..+.+.
T Consensus       164 ~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  164 FQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            999888642111 1234567788888888877544

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=97.30  E-value=0.046  Score=41.93  Aligned_cols=144  Identities=13%  Similarity=0.078  Sum_probs=66.7

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHH
Q 023952           33 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  112 (275)
                      .....|++.+|..+|....... +-+...--.+..+|...|+.+.|..++..+...--.........-|..+.+.....+
T Consensus       143 ~~~~~e~~~~a~~~~~~al~~~-~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         143 ELIEAEDFGEAAPLLKQALQAA-PENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhhccchhhHHHHHHHHHHhC-cccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            3445566666666666555442 223444455556666666666666666655443221122222223333444444443


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccC
Q 023952          113 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG  180 (275)
Q Consensus       113 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  180 (275)
                      ...+-.+.-..   +.|...-..+...+...|+.+.|.+.++..+.+.....|...-..++..+...|
T Consensus       222 ~~~l~~~~aad---Pdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g  286 (304)
T COG3118         222 IQDLQRRLAAD---PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHHhC---CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcC
Confidence            33333333332   335555555666666666666666633333333222223334444444444444

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.30  E-value=0.032  Score=39.77  Aligned_cols=126  Identities=10%  Similarity=-0.043  Sum_probs=65.5

Q ss_pred             CCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-CChhhHHH
Q 023952          128 DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MTSRNYIC  206 (275)
Q Consensus       128 ~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~~~~~~~  206 (275)
                      |++..-..|..+..+.|+..+|.. .+.+.......-|....-.+.++....+++..|...++.+.+.... -++.+...
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~-hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll  165 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVP-HYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLL  165 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHH-HHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHH
Confidence            555555556666666666666666 5665555444445555555555556666666666666655543210 01223344


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 023952          207 ILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKAN  257 (275)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  257 (275)
                      +...+.-.|+..+|..-|+......   |+...-......+.++|+.+++.
T Consensus       166 ~aR~laa~g~~a~Aesafe~a~~~y---pg~~ar~~Y~e~La~qgr~~ea~  213 (251)
T COG4700         166 FARTLAAQGKYADAESAFEVAISYY---PGPQARIYYAEMLAKQGRLREAN  213 (251)
T ss_pred             HHHHHHhcCCchhHHHHHHHHHHhC---CCHHHHHHHHHHHHHhcchhHHH
Confidence            5555666666666666666655532   22222222334455555544443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.25  E-value=0.0028  Score=38.04  Aligned_cols=56  Identities=9%  Similarity=0.083  Sum_probs=32.2

Q ss_pred             HHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          175 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .|.+.+++++|.++++.+...+ +.+...+.....++.+.|++++|...|+...+..
T Consensus         4 ~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~   59 (73)
T PF13371_consen    4 IYLQQEDYEEALEVLERALELD-PDDPELWLQRARCLFQLGRYEEALEDLERALELS   59 (73)
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-cccchhhHHHHHHHHHhccHHHHHHHHHHHHHHC
Confidence            4555666666666666665542 2233445555566666666666666666666543

>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=97.24  E-value=0.0015  Score=39.87  Aligned_cols=60  Identities=20%  Similarity=0.190  Sum_probs=27.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCCC-HHHHHHHHHHHHhcCChHHHHHHHHHH
Q 023952          204 YICILSSYLMLGHLKEVGEIIDQWKQS----ATSDFD-ISACNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      ++.+...|.+.|++++|+..|++..+.    +...|+ ..++..+..+|...|++++|.+++++.
T Consensus         8 ~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~a   72 (78)
T PF13424_consen    8 YNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKA   72 (78)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            444445555555555555555544321    100111 334555555555555555555555554

...

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.14  E-value=0.1  Score=43.87  Aligned_cols=159  Identities=16%  Similarity=0.159  Sum_probs=82.2

Q ss_pred             HHHHhhccCCHHHHHHHHHHHhhC-CCCCch-----hhHHHHHHHHHh----hCCHHHHHHHHHHHhhcCCCCCCHHHHH
Q 023952           65 MMTLYMSVGQVEKVALVVEEIKRK-NVVPDI-----FTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYV  134 (275)
Q Consensus        65 li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~-----~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~  134 (275)
                      +++...-.|+-+.+++.+.+-.+. ++.-..     -+|...+..++.    ..+.+.|.++++.+.+.  + |+...|.
T Consensus       194 ll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--y-P~s~lfl  270 (468)
T PF10300_consen  194 LLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--Y-PNSALFL  270 (468)
T ss_pred             HHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--C-CCcHHHH
Confidence            334445567777777777665543 222111     123333333332    33566677777777764  2 4443332


Q ss_pred             -HHHHHHHhcCchHHHHHHHHHHHHH---ccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHH
Q 023952          135 -NLVNIYITASHLVNAESSTLVEAEK---SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSS  210 (275)
Q Consensus       135 -~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  210 (275)
                       .-.+.+...|++++|++ .++....   ..+......+--+...+....+|++|.+.|..+.+.. .-+..+|.-+..+
T Consensus       271 ~~~gR~~~~~g~~~~Ai~-~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a~  348 (468)
T PF10300_consen  271 FFEGRLERLKGNLEEAIE-SFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAAA  348 (468)
T ss_pred             HHHHHHHHHhcCHHHHHH-HHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHHH
Confidence             33445556777777777 6664332   1112223333444555666777777777777776542 2233333333322


Q ss_pred             -HHhcCCH-------HHHHHHHHHHH
Q 023952          211 -YLMLGHL-------KEVGEIIDQWK  228 (275)
Q Consensus       211 -~~~~g~~-------~~a~~~~~~~~  228 (275)
                       +...|+.       ++|.++|.++.
T Consensus       349 c~~~l~~~~~~~~~~~~a~~l~~~vp  374 (468)
T PF10300_consen  349 CLLMLGREEEAKEHKKEAEELFRKVP  374 (468)
T ss_pred             HHHhhccchhhhhhHHHHHHHHHHHH
Confidence             2355665       66667766654

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.

>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=97.13  E-value=0.036  Score=37.10  Aligned_cols=66  Identities=18%  Similarity=0.227  Sum_probs=38.4

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 023952          201 SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNC  268 (275)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  268 (275)
                      ...+...+......|+-|.-.++..++.+.+  ++++...-.+..+|.+.|+..++.+++.+.-++|+
T Consensus        86 se~vD~ALd~lv~~~kkDqLdki~~~l~kn~--~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   86 SEYVDLALDILVKQGKKDQLDKIYNELKKNE--EINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             -HHHHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHhhcc--CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            3445556666667777777777777766543  35555566677777777777777777777776665

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=97.13  E-value=0.073  Score=44.76  Aligned_cols=159  Identities=15%  Similarity=0.072  Sum_probs=104.8

Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHH-----HHHHHHHHHHh----cCchHHHHHHHHHHHHHccCCcchhhHHH-
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWV-----KYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYDF-  171 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-----~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~-  171 (275)
                      ....=.||-+.+.+.+.+..+..++.-...     .|+.++..++.    ....+.|.+ ++..+...-|  +...|.. 
T Consensus       196 ~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~-lL~~~~~~yP--~s~lfl~~  272 (468)
T PF10300_consen  196 SFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEE-LLEEMLKRYP--NSALFLFF  272 (468)
T ss_pred             hhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHH-HHHHHHHhCC--CcHHHHHH
Confidence            334445888999999888777544433332     24444444443    356677888 8888877664  4444433 


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhccC---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH-H
Q 023952          172 LIILYAGLGNKDKIDQIWKSLRMTKQ---KMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA-F  247 (275)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~-~  247 (275)
                      -.+.+...|++++|.+.|+.......   ......+--+...+...+++++|.+.|..+.+..  ..+..+|..+..+ +
T Consensus       273 ~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s--~WSka~Y~Y~~a~c~  350 (468)
T PF10300_consen  273 EGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES--KWSKAFYAYLAAACL  350 (468)
T ss_pred             HHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc--ccHHHHHHHHHHHHH
Confidence            33567779999999999997543211   1122334456777889999999999999999864  4555556555443 3


Q ss_pred             HhcCCh-------HHHHHHHHHHHh
Q 023952          248 SDVGLT-------EKANEFHMLLLQ  265 (275)
Q Consensus       248 ~~~g~~-------~~a~~~~~~m~~  265 (275)
                      ...|+.       ++|..+|.+...
T Consensus       351 ~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  351 LMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HhhccchhhhhhHHHHHHHHHHHHH
Confidence            457777       888888887743

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.

>PRK15331 chaperone protein SicA; Provisional

Probab=97.10  E-value=0.03  Score=39.14  Aligned_cols=90  Identities=8%  Similarity=-0.068  Sum_probs=52.5

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCH
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  110 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  110 (275)
                      ..-+-..|++++|..+|+-+...+ +-+..-|..|..++-..+++++|+..|......+.. |+..+-....++...|+.
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~~~  121 (165)
T PRK15331         44 AYEFYNQGRLDEAETFFRFLCIYD-FYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKA  121 (165)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCH
Confidence            333445666777777776655544 234445566666666666677777666665543321 334444455666666666


Q ss_pred             HHHHHHHHHHhh
Q 023952          111 DQVKKFLDEMSC  122 (275)
Q Consensus       111 ~~a~~~~~~~~~  122 (275)
                      +.|...|.....
T Consensus       122 ~~A~~~f~~a~~  133 (165)
T PRK15331        122 AKARQCFELVNE  133 (165)
T ss_pred             HHHHHHHHHHHh
Confidence            777666666665

>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=0.0024  Score=38.99  Aligned_cols=62  Identities=18%  Similarity=0.169  Sum_probs=35.4

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHhc--cCC---CC-hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          167 ITYDFLIILYAGLGNKDKIDQIWKSLRMT--KQK---MT-SRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       167 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~--~~~---p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                      .+|+.+...|...|++++|+..|++..+.  ...   |+ ..++..+...|...|++++|.+++++..
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al   73 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKAL   73 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            34556666666666666666666655432  011   11 2345566666777777777777776654

...

>PRK15331 chaperone protein SicA; Provisional

Probab=97.01  E-value=0.0061  Score=42.52  Aligned_cols=85  Identities=12%  Similarity=-0.010  Sum_probs=71.4

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      ..|++++|..+|.-+.-.+| +..-|..|..++-..+++++|...|......+ .-|+..+--...++...|+.+.|...
T Consensus        49 ~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~-~~dp~p~f~agqC~l~l~~~~~A~~~  127 (165)
T PRK15331         49 NQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLL-KNDYRPVFFTGQCQLLMRKAAKARQC  127 (165)
T ss_pred             HCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc-cCCCCccchHHHHHHHhCCHHHHHHH
Confidence            46999999999998776555 78888999999999999999999999866554 24566677778889999999999999


Q ss_pred             HHHHhhC
Q 023952           82 VEEIKRK   88 (275)
Q Consensus        82 ~~~m~~~   88 (275)
                      |....++
T Consensus       128 f~~a~~~  134 (165)
T PRK15331        128 FELVNER  134 (165)
T ss_pred             HHHHHhC
Confidence            9888873

>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=97.01  E-value=0.02  Score=47.45  Aligned_cols=158  Identities=16%  Similarity=0.131  Sum_probs=85.8

Q ss_pred             HHHHcCCCHHHHHHHHH-HHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCH
Q 023952           32 HLYAGAKWTEKAEELFE-RVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  110 (275)
Q Consensus        32 ~~~~~~g~~~~a~~~~~-~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  110 (275)
                      +...-.|+++.+.++.+ .-.-..++  ....+.++..+-+.|..+.|+++-.         |+.+   -.....+.|++
T Consensus       269 k~av~~~d~~~v~~~i~~~~ll~~i~--~~~~~~i~~fL~~~G~~e~AL~~~~---------D~~~---rFeLAl~lg~L  334 (443)
T PF04053_consen  269 KTAVLRGDFEEVLRMIAASNLLPNIP--KDQGQSIARFLEKKGYPELALQFVT---------DPDH---RFELALQLGNL  334 (443)
T ss_dssp             HHHHHTT-HHH-----HHHHTGGG----HHHHHHHHHHHHHTT-HHHHHHHSS----------HHH---HHHHHHHCT-H
T ss_pred             HHHHHcCChhhhhhhhhhhhhcccCC--hhHHHHHHHHHHHCCCHHHHHhhcC---------ChHH---HhHHHHhcCCH
Confidence            34455677777766665 11111222  4456777777778888888877652         2221   22334566777


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH
Q 023952          111 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  190 (275)
Q Consensus       111 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  190 (275)
                      +.|.++.+       ..++...|..|.....+.|+++-|++ .+.+.         .-|..|+-.|...|+.++..++.+
T Consensus       335 ~~A~~~a~-------~~~~~~~W~~Lg~~AL~~g~~~lAe~-c~~k~---------~d~~~L~lLy~~~g~~~~L~kl~~  397 (443)
T PF04053_consen  335 DIALEIAK-------ELDDPEKWKQLGDEALRQGNIELAEE-CYQKA---------KDFSGLLLLYSSTGDREKLSKLAK  397 (443)
T ss_dssp             HHHHHHCC-------CCSTHHHHHHHHHHHHHTTBHHHHHH-HHHHC---------T-HHHHHHHHHHCT-HHHHHHHHH
T ss_pred             HHHHHHHH-------hcCcHHHHHHHHHHHHHcCCHHHHHH-HHHhh---------cCccccHHHHHHhCCHHHHHHHHH
Confidence            77776521       23456677788888888888887777 55432         224455556677777777777776


Q ss_pred             HHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023952          191 SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  226 (275)
Q Consensus       191 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (275)
                      .....|-      ++....++.-.|+.++..+++.+
T Consensus       398 ~a~~~~~------~n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  398 IAEERGD------INIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHHTT-------HHHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHHccC------HHHHHHHHHHcCCHHHHHHHHHH
Confidence            6665542      23344444555666666666554

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.

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.01  E-value=0.081  Score=39.06  Aligned_cols=175  Identities=13%  Similarity=0.110  Sum_probs=100.9

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      ...+-.....+.+.|++++|...|+.+...-  -+--....-.++.++.+.|+++.|...++++.+.-+.-...-+...+
T Consensus         5 ~~~lY~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~   84 (203)
T PF13525_consen    5 AEALYQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYM   84 (203)
T ss_dssp             HHHHHHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHH
Confidence            3444455666778899999999999998753  11223456677888999999999999999988753322222233333


Q ss_pred             HHHHhhCC-------------HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhh
Q 023952          102 SSCAATLN-------------IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT  168 (275)
Q Consensus       102 ~~~~~~~~-------------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  168 (275)
                      .+.+....             ..+|...|+.                ++.-|=.+.-..+|.. .+..+....-.   .-
T Consensus        85 ~g~~~~~~~~~~~~~~~D~~~~~~A~~~~~~----------------li~~yP~S~y~~~A~~-~l~~l~~~la~---~e  144 (203)
T PF13525_consen   85 LGLSYYKQIPGILRSDRDQTSTRKAIEEFEE----------------LIKRYPNSEYAEEAKK-RLAELRNRLAE---HE  144 (203)
T ss_dssp             HHHHHHHHHHHHH-TT---HHHHHHHHHHHH----------------HHHH-TTSTTHHHHHH-HHHHHHHHHHH---HH
T ss_pred             HHHHHHHhCccchhcccChHHHHHHHHHHHH----------------HHHHCcCchHHHHHHH-HHHHHHHHHHH---HH
Confidence            33322111             2233334444                4444444444445544 33333322211   11


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh----hhHHHHHHHHHhcCCHHHHH
Q 023952          169 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS----RNYICILSSYLMLGHLKEVG  221 (275)
Q Consensus       169 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~  221 (275)
                       -.+...|.+.|.+..|..-++.+.+.  -|+.    .....++.+|.+.|..+.+.
T Consensus       145 -~~ia~~Y~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  145 -LYIARFYYKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             -HHHHHHHHCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             -HHHHHHHHHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence             13456788999999999999988876  3333    33566888888888887543

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.86  E-value=0.11  Score=44.65  Aligned_cols=86  Identities=12%  Similarity=0.078  Sum_probs=50.9

Q ss_pred             CCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCC--------CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC
Q 023952           21 AKTSETYTALLHLYAGAKWTEKAEELFERVKQS-NLSF--------NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV   91 (275)
Q Consensus        21 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~--------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~   91 (275)
                      .|.+..|..|.....+.-.++.|...|-+.... |++.        +...-.+=+.  +--|++++|+++|-+|.++++ 
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEIS--AFYGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHh--hhhcchhHhhhhhhccchhhh-
Confidence            477888998888888877888888888766543 2211        0001111122  234788899988877766532 


Q ss_pred             CchhhHHHHHHHHHhhCCHHHHHHHH
Q 023952           92 PDIFTYNLWISSCAATLNIDQVKKFL  117 (275)
Q Consensus        92 p~~~~~~~ll~~~~~~~~~~~a~~~~  117 (275)
                              .+..+.+.|++-.+.+++
T Consensus       766 --------Aielr~klgDwfrV~qL~  783 (1189)
T KOG2041|consen  766 --------AIELRKKLGDWFRVYQLI  783 (1189)
T ss_pred             --------hHHHHHhhhhHHHHHHHH
Confidence                    233444555554444443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.86  E-value=0.18  Score=40.67  Aligned_cols=27  Identities=26%  Similarity=0.042  Sum_probs=15.0

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      +..++.++.-.|++++|.+..++|...
T Consensus       308 ~ATl~Ea~vL~~d~~ka~~a~e~~~~l  334 (374)
T PF13281_consen  308 VATLLEASVLAGDYEKAIQAAEKAFKL  334 (374)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHhhc
Confidence            344555555556666666666555543

>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=96.84  E-value=0.15  Score=39.69  Aligned_cols=225  Identities=13%  Similarity=0.088  Sum_probs=109.5

Q ss_pred             HcCCCHHHHHHHHHHHHhCC--CCCCH------HHHHHHHHHhhccCCHHHHHHHHHHHhhC--------CCCCch----
Q 023952           35 AGAKWTEKAEELFERVKQSN--LSFNA------LMYNEMMTLYMSVGQVEKVALVVEEIKRK--------NVVPDI----   94 (275)
Q Consensus        35 ~~~g~~~~a~~~~~~m~~~~--~~~~~------~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------~~~p~~----   94 (275)
                      .+.|+++.|..++.+.....  ..|+.      ..||.-...+.+..+++.|...+++..+.        ...|+.    
T Consensus         4 ~~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr   83 (278)
T PF08631_consen    4 WKQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELR   83 (278)
T ss_pred             hhhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHH
Confidence            35567777777776655432  12221      12333333333332666665555553321        122222    


Q ss_pred             -hhHHHHHHHHHhhCCHH---HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHH
Q 023952           95 -FTYNLWISSCAATLNID---QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYD  170 (275)
Q Consensus        95 -~~~~~ll~~~~~~~~~~---~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  170 (275)
                       .++..++.+|...+..+   +|..+++.+....  +..+.++..-+..+.+.++.+.+.+ .+..|......++ ..+.
T Consensus        84 ~~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~--~~~~~~~~L~l~il~~~~~~~~~~~-~L~~mi~~~~~~e-~~~~  159 (278)
T PF08631_consen   84 LSILRLLANAYLEWDTYESVEKALNALRLLESEY--GNKPEVFLLKLEILLKSFDEEEYEE-ILMRMIRSVDHSE-SNFD  159 (278)
T ss_pred             HHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC--CCCcHHHHHHHHHHhccCChhHHHH-HHHHHHHhccccc-chHH
Confidence             45666677776666543   4555666665532  2334444445555555777777777 6777766554222 2333


Q ss_pred             HHHHHH---HccCCHHHHHHHHHHHHhccCCCChh-hHH-HHHH---HHHhcC------CHHHHHHHHHHHHhcCCCCCC
Q 023952          171 FLIILY---AGLGNKDKIDQIWKSLRMTKQKMTSR-NYI-CILS---SYLMLG------HLKEVGEIIDQWKQSATSDFD  236 (275)
Q Consensus       171 ~l~~~~---~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~-~li~---~~~~~g------~~~~a~~~~~~~~~~~~~~~~  236 (275)
                      ..+..+   ... ....+...+..+....+.|... ... .++.   ...+.+      +++...+++..+.+....+.+
T Consensus       160 ~~l~~i~~l~~~-~~~~a~~~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls  238 (278)
T PF08631_consen  160 SILHHIKQLAEK-SPELAAFCLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLS  238 (278)
T ss_pred             HHHHHHHHHHhh-CcHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCC
Confidence            333333   322 3345555555554444555543 111 1111   111211      245555556644433222333


Q ss_pred             HHH---HHHH----HHHHHhcCChHHHHHHHHHHH
Q 023952          237 ISA---CNRL----LGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       237 ~~~---~~~l----i~~~~~~g~~~~a~~~~~~m~  264 (275)
                      ..+   ..+|    ...+.+.++++.|.++|+-..
T Consensus       239 ~~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  239 AEAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            333   2222    334566899999999998544

It is also involved in sporulation [].

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.82  E-value=0.073  Score=42.65  Aligned_cols=96  Identities=10%  Similarity=-0.013  Sum_probs=68.6

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH
Q 023952          167 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  246 (275)
Q Consensus       167 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  246 (275)
                      .+++.+.-+|.+.+++.+|++..++.+..+ ++|....-.=..+|...|+++.|+..|+++++..  +.|-..-+.|+..
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            456677778889999999999988888765 5566666677788889999999999999998853  3344444555554


Q ss_pred             HHhcCChH-HHHHHHHHHHh
Q 023952          247 FSDVGLTE-KANEFHMLLLQ  265 (275)
Q Consensus       247 ~~~~g~~~-~a~~~~~~m~~  265 (275)
                      -.+..+.. ...++|..|..
T Consensus       335 ~~k~~~~~~kekk~y~~mF~  354 (397)
T KOG0543|consen  335 KQKIREYEEKEKKMYANMFA  354 (397)
T ss_pred             HHHHHHHHHHHHHHHHHHhh
Confidence            44444433 34678888754

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.81  E-value=0.046  Score=44.45  Aligned_cols=134  Identities=13%  Similarity=0.154  Sum_probs=99.5

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhH-HHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTY-NLWI  101 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~-~~ll  101 (275)
                      ..+|..+|....+..-++.|..+|-++.+.+ +.+++.+++++|..++. |+..-|..+|+-=...  -||...| .-.+
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~ifelGl~~--f~d~~~y~~kyl  473 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYNIFELGLLK--FPDSTLYKEKYL  473 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHHHHHHHHHh--CCCchHHHHHHH
Confidence            5677788888888778899999999998888 67888899999987664 6677888888765543  2344443 4566


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCC--HHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDD--WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      ..+...++-+.|..+|+..+.+  +..+  ...|..+|.--..-|++..+.. +-+.+....+.
T Consensus       474 ~fLi~inde~naraLFetsv~r--~~~~q~k~iy~kmi~YEs~~G~lN~v~s-Le~rf~e~~pQ  534 (660)
T COG5107         474 LFLIRINDEENARALFETSVER--LEKTQLKRIYDKMIEYESMVGSLNNVYS-LEERFRELVPQ  534 (660)
T ss_pred             HHHHHhCcHHHHHHHHHHhHHH--HHHhhhhHHHHHHHHHHHhhcchHHHHh-HHHHHHHHcCc
Confidence            7778889999999999976653  2333  5678888888888899888887 65666555544

>PRK11906 transcriptional regulator; Provisional

Probab=96.76  E-value=0.12  Score=42.37  Aligned_cols=80  Identities=8%  Similarity=0.001  Sum_probs=33.2

Q ss_pred             HHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHH
Q 023952           76 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  155 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  155 (275)
                      .+|.++.+...+.+.. |+.....+..+..-.++++.|...|++...-  .|....+|........-+|+.++|.+ .++
T Consensus       321 ~~a~~~A~rAveld~~-Da~a~~~~g~~~~~~~~~~~a~~~f~rA~~L--~Pn~A~~~~~~~~~~~~~G~~~~a~~-~i~  396 (458)
T PRK11906        321 QKALELLDYVSDITTV-DGKILAIMGLITGLSGQAKVSHILFEQAKIH--STDIASLYYYRALVHFHNEKIEEARI-CID  396 (458)
T ss_pred             HHHHHHHHHHHhcCCC-CHHHHHHHHHHHHhhcchhhHHHHHHHHhhc--CCccHHHHHHHHHHHHHcCCHHHHHH-HHH
Confidence            3444444444443322 3444444444444444455555555554432  12222333333333344455555555 444


Q ss_pred             HHHH
Q 023952          156 EAEK  159 (275)
Q Consensus       156 ~~~~  159 (275)
                      +..+
T Consensus       397 ~alr  400 (458)
T PRK11906        397 KSLQ  400 (458)
T ss_pred             HHhc
Confidence            4333

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.76  E-value=0.2  Score=39.81  Aligned_cols=226  Identities=14%  Similarity=0.029  Sum_probs=101.0

Q ss_pred             cCCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhhccCCHHHHHHHHH-HH---hhC-CCCCchhhHHHHHHHHHhhC
Q 023952           36 GAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVE-EI---KRK-NVVPDIFTYNLWISSCAATL  108 (275)
Q Consensus        36 ~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~-~m---~~~-~~~p~~~~~~~ll~~~~~~~  108 (275)
                      ...+.++|+..|..-..+-  ..---.++..+..+.++.|++++++..-- +|   .+. +-..--..|..+.+++-+.-
T Consensus        18 ~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~   97 (518)
T KOG1941|consen   18 QSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLC   97 (518)
T ss_pred             cCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3445555555555433220  00112345555566666666665544221 11   110 00001234444555555555


Q ss_pred             CHHHHHHHHHHHhhcCCCCC---CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC-----cchhhHHHHHHHHHccC
Q 023952          109 NIDQVKKFLDEMSCDSGGSD---DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-----RQWITYDFLIILYAGLG  180 (275)
Q Consensus       109 ~~~~a~~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~~  180 (275)
                      ++.+++.+-..-....|..|   ......++..++...+.++++++ .|+...+.-..     ....++-.|...|.+..
T Consensus        98 ~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Le-sfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~  176 (518)
T KOG1941|consen   98 EFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALE-SFEKALRYAHNNDDAMLELQVCVSLGSLFAQLK  176 (518)
T ss_pred             HhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHH-HHHHHHHHhhccCCceeeeehhhhHHHHHHHHH
Confidence            55555554443332222222   11223345555556666666666 55554432111     12345556666666667


Q ss_pred             CHHHHHHHHHHHHhc----cCCCChhhH-----HHHHHHHHhcCCHHHHHHHHHHHHh----cCCCCCCHHHHHHHHHHH
Q 023952          181 NKDKIDQIWKSLRMT----KQKMTSRNY-----ICILSSYLMLGHLKEVGEIIDQWKQ----SATSDFDISACNRLLGAF  247 (275)
Q Consensus       181 ~~~~a~~~~~~m~~~----~~~p~~~~~-----~~li~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~~~~~~li~~~  247 (275)
                      |+++|.-+..+..+.    ++.--..-|     -.|.-++...|++-+|.+.-++..+    .|...........+.+.|
T Consensus       177 D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIy  256 (518)
T KOG1941|consen  177 DYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIY  256 (518)
T ss_pred             hhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHH
Confidence            776666555443221    111001111     1233445556666666666555433    221111223344455666


Q ss_pred             HhcCChHHHHHHHHH
Q 023952          248 SDVGLTEKANEFHML  262 (275)
Q Consensus       248 ~~~g~~~~a~~~~~~  262 (275)
                      ...|+.+.|..-|+.
T Consensus       257 R~~gd~e~af~rYe~  271 (518)
T KOG1941|consen  257 RSRGDLERAFRRYEQ  271 (518)
T ss_pred             HhcccHhHHHHHHHH
Confidence            666666666554443

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.75  E-value=0.097  Score=42.11  Aligned_cols=89  Identities=18%  Similarity=0.004  Sum_probs=46.8

Q ss_pred             HHccCCHHHHHHHHHHHHhc---cCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCC
Q 023952          176 YAGLGNKDKIDQIWKSLRMT---KQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGL  252 (275)
Q Consensus       176 ~~~~~~~~~a~~~~~~m~~~---~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  252 (275)
                      ..+.|++.+|.+.|.+....   +..|+...|........+.|+..+|+.--+...+-.  +.=+..+..-..++...++
T Consensus       259 ~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD--~syikall~ra~c~l~le~  336 (486)
T KOG0550|consen  259 AFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKID--SSYIKALLRRANCHLALEK  336 (486)
T ss_pred             HhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcC--HHHHHHHHHHHHHHHHHHH
Confidence            45667777777777765542   112333334445555566777777776666654411  1111222222334445566


Q ss_pred             hHHHHHHHHHHHhc
Q 023952          253 TEKANEFHMLLLQK  266 (275)
Q Consensus       253 ~~~a~~~~~~m~~~  266 (275)
                      |++|.+-+++..+.
T Consensus       337 ~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  337 WEEAVEDYEKAMQL  350 (486)
T ss_pred             HHHHHHHHHHHHhh
Confidence            66666666665443

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.74  E-value=0.26  Score=40.85  Aligned_cols=168  Identities=11%  Similarity=0.058  Sum_probs=88.8

Q ss_pred             HHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 023952           65 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  144 (275)
Q Consensus        65 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  144 (275)
                      +|.-.-+..+.+.-+++-++..+  +.||..+--.++ +--...-+.+++++|++..+.+.....   .....   ...|
T Consensus       174 IMq~AWRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE~~lg---~s~~~---~~~g  244 (539)
T PF04184_consen  174 IMQKAWRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKAGEASLG---KSQFL---QHHG  244 (539)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHHHhhc---hhhhh---hccc
Confidence            33333445555555555555555  445543322221 122344578888888887764210000   00000   1111


Q ss_pred             chHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHH
Q 023952          145 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEI  223 (275)
Q Consensus       145 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~  223 (275)
                      ..-+.       .......+-..+--.+..+..+.|+.++|.+.+++|.+..... .......|+.++...+.+.++..+
T Consensus       245 ~~~e~-------~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~l  317 (539)
T PF04184_consen  245 HFWEA-------WHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQAL  317 (539)
T ss_pred             chhhh-------hhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHH
Confidence            11111       1111111112222345556678899999999999987643221 223456789999999999999999


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHH
Q 023952          224 IDQWKQSATSDFDISACNRLLGAFS  248 (275)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~li~~~~  248 (275)
                      +.+..+...++.-..+|+..+-.+.
T Consensus       318 L~kYdDi~lpkSAti~YTaALLkaR  342 (539)
T PF04184_consen  318 LAKYDDISLPKSATICYTAALLKAR  342 (539)
T ss_pred             HHHhccccCCchHHHHHHHHHHHHH
Confidence            9987654433334556766554333

The molecular function of this protein is uncertain.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.72  E-value=0.012  Score=48.01  Aligned_cols=95  Identities=16%  Similarity=0.056  Sum_probs=71.2

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA----LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYN   98 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~   98 (275)
                      +...|+.+..+|.+.|++++|+..|++..+.+  |+.    .+|..+..+|...|+.++|++.+++..+.+ .   ..|.
T Consensus        74 ~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~--Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALels-n---~~f~  147 (453)
T PLN03098         74 TAEDAVNLGLSLFSKGRVKDALAQFETALELN--PNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDY-N---LKFS  147 (453)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--CCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhc-c---hhHH
Confidence            68899999999999999999999999988865  553    459999999999999999999999999852 1   1232


Q ss_pred             HHHHH--HHhhCCHHHHHHHHHHHhhc
Q 023952           99 LWISS--CAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        99 ~ll~~--~~~~~~~~~a~~~~~~~~~~  123 (275)
                      .+...  +....+.++..++++.+.+.
T Consensus       148 ~i~~DpdL~plR~~pef~eLlee~rk~  174 (453)
T PLN03098        148 TILNDPDLAPFRASPEFKELQEEARKG  174 (453)
T ss_pred             HHHhCcchhhhcccHHHHHHHHHHHHh
Confidence            22111  12223445677777777775

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.69  E-value=0.052  Score=41.15  Aligned_cols=97  Identities=14%  Similarity=0.144  Sum_probs=52.7

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHhccCC--CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-CHHHHHHHH
Q 023952          168 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQK--MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF-DISACNRLL  244 (275)
Q Consensus       168 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li  244 (275)
                      .|+.-+.. .+.|++..|..-|....+....  -....+-.|..++...|++++|..+|..+.+.....| -..++-.|.
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 LYNAALDL-YKSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLG  222 (262)
T ss_pred             HHHHHHHH-HHcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHH
Confidence            35444433 3455566666666666554211  0112244566666666666666666666655432222 224455556


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 023952          245 GAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       245 ~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ....+.|+.++|..+|++..+
T Consensus       223 ~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         223 VSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHhcCHHHHHHHHHHHHH
Confidence            666666666666666666654

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.58  E-value=0.29  Score=39.34  Aligned_cols=57  Identities=12%  Similarity=0.051  Sum_probs=25.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHH-hcCChHHHHHHHHHHHh
Q 023952          206 CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFS-DVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~-~~g~~~~a~~~~~~m~~  265 (275)
                      .+..+....|++..|..--+.....   .|....|..|...-. ..|+-.+++..+.+...
T Consensus       334 ~va~aAlda~e~~~ARa~Aeaa~r~---~pres~~lLlAdIeeAetGDqg~vR~wlAqav~  391 (531)
T COG3898         334 AVAEAALDAGEFSAARAKAEAAARE---APRESAYLLLADIEEAETGDQGKVRQWLAQAVK  391 (531)
T ss_pred             HHHHHHHhccchHHHHHHHHHHhhh---CchhhHHHHHHHHHhhccCchHHHHHHHHHHhc
Confidence            3444444555555544444433321   244444444443332 23555555555555443

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=96.49  E-value=0.34  Score=39.10  Aligned_cols=168  Identities=11%  Similarity=0.009  Sum_probs=103.9

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCC---CCCchhhHHHHHHHHHh---hCCHHHHHHHHHHHhhcCCCCCCHHHH
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKN---VVPDIFTYNLWISSCAA---TLNIDQVKKFLDEMSCDSGGSDDWVKY  133 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---~~p~~~~~~~ll~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~  133 (275)
                      .+...++-+|....+++..+++.+.|....   +.-+...-....-++.+   .|+.++|..++..+... ...++..+|
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~-~~~~~~d~~  220 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLES-DENPDPDTL  220 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhc-cCCCChHHH
Confidence            334456667899999999999999998751   11122222344555666   89999999999995554 456888888


Q ss_pred             HHHHHHHHh---------cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC-HH---HHHHHH---HH-HHhcc
Q 023952          134 VNLVNIYIT---------ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN-KD---KIDQIW---KS-LRMTK  196 (275)
Q Consensus       134 ~~l~~~~~~---------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~---~a~~~~---~~-m~~~~  196 (275)
                      ..+.+.|..         ....++|+. .+.+.....  ||..+=-.+...+...|. .+   +..++-   .. +.+.|
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~-~Y~kgFe~~--~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg  297 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIE-WYRKGFEIE--PDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHH-HHHHHHcCC--ccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            887777653         224667777 666555433  332211111112222222 11   222222   21 22333


Q ss_pred             C---CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          197 Q---KMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       197 ~---~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .   ..+-+-+.+++.++.-.|+.++|.+..++|.+..
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            2   3455667889999999999999999999998753

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.46  E-value=0.39  Score=39.39  Aligned_cols=262  Identities=12%  Similarity=0.003  Sum_probs=147.9

Q ss_pred             ccccChhhHHHHhhccccCC---C---C-HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH--hhcc
Q 023952            2 TKVFGIHSGERYFEGLPLSA---K---T-SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL--YMSV   72 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~---~---~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~--~~~~   72 (275)
                      -+.+++++|.++|.++.+..   |   . ...-+-++++|... +.+.....+....+..  | ...|-.+..+  +-+.
T Consensus        17 qkq~~~~esEkifskI~~e~~~~~f~lkeEvl~grilnAffl~-nld~Me~~l~~l~~~~--~-~s~~l~LF~~L~~Y~~   92 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEKESSPFLLKEEVLGGRILNAFFLN-NLDLMEKQLMELRQQF--G-KSAYLPLFKALVAYKQ   92 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHhhcchHHHHHHHHhhHHHHHHHHh-hHHHHHHHHHHHHHhc--C-CchHHHHHHHHHHHHh
Confidence            36789999999999886642   2   1 33345667777665 4676666666665542  2 2333334333  3467


Q ss_pred             CCHHHHHHHHHHHhhC--CCCC------------chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCC----CCHHHHH
Q 023952           73 GQVEKVALVVEEIKRK--NVVP------------DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGS----DDWVKYV  134 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~--~~~p------------~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~  134 (275)
                      +++.+|++.+....+.  +-.|            |...=+..+.++...|+++++..+++++... -.+    -+..+|+
T Consensus        93 k~~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~-llkrE~~w~~d~yd  171 (549)
T PF07079_consen   93 KEYRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIER-LLKRECEWNSDMYD  171 (549)
T ss_pred             hhHHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHH-HhhhhhcccHHHHH
Confidence            8899999999887765  3322            2223345677788999999999999998875 333    6788898


Q ss_pred             HHHHHHHhcCchHH--------HHH----H--HHHHHHHc------cCCcchhhHHHHHHHHHcc--CCHHHHHHHHHHH
Q 023952          135 NLVNIYITASHLVN--------AES----S--TLVEAEKS------ITQRQWITYDFLIILYAGL--GNKDKIDQIWKSL  192 (275)
Q Consensus       135 ~l~~~~~~~g~~~~--------a~~----~--~~~~~~~~------~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~m  192 (275)
                      .++-.++++=-.+.        +-.    +  ..+++...      ...|.......++....-.  .+..--.++++.-
T Consensus       172 ~~vlmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~W  251 (549)
T PF07079_consen  172 RAVLMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENW  251 (549)
T ss_pred             HHHHHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHH
Confidence            87777765321111        111    0  01111110      1112222222222221111  1111222222222


Q ss_pred             HhccCCCChhh-HHHHHHHHHhcCCHHHHHHHHHHHHhcCC---CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 023952          193 RMTKQKMTSRN-YICILSSYLMLGHLKEVGEIIDQWKQSAT---SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNC  268 (275)
Q Consensus       193 ~~~~~~p~~~~-~~~li~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  268 (275)
                      .+.-+.|+... ...++..+..  +.+++..+-+.+.....   .+.-+.++..++...++.++...|.+.+.-+.-  +
T Consensus       252 e~~yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~--l  327 (549)
T PF07079_consen  252 ENFYVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKI--L  327 (549)
T ss_pred             HhhccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHh--c
Confidence            33445565433 2334444444  66666666666554321   122345788888899999999999999987765  4


Q ss_pred             CCCC
Q 023952          269 APTN  272 (275)
Q Consensus       269 ~p~~  272 (275)
                      .|+.
T Consensus       328 dp~~  331 (549)
T PF07079_consen  328 DPRI  331 (549)
T ss_pred             CCcc
Confidence            5544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.45  E-value=0.29  Score=37.77  Aligned_cols=152  Identities=11%  Similarity=0.070  Sum_probs=95.5

Q ss_pred             HHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccC
Q 023952          101 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG  180 (275)
Q Consensus       101 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  180 (275)
                      .......|++.+|...|+.....  .+.+...--.++.+|...|+.+.|.. ++..+-..-..........-|..+.+..
T Consensus       141 ~~~~~~~e~~~~a~~~~~~al~~--~~~~~~~~~~la~~~l~~g~~e~A~~-iL~~lP~~~~~~~~~~l~a~i~ll~qaa  217 (304)
T COG3118         141 AKELIEAEDFGEAAPLLKQALQA--APENSEAKLLLAECLLAAGDVEAAQA-ILAALPLQAQDKAAHGLQAQIELLEQAA  217 (304)
T ss_pred             hhhhhhccchhhHHHHHHHHHHh--CcccchHHHHHHHHHHHcCChHHHHH-HHHhCcccchhhHHHHHHHHHHHHHHHh
Confidence            34456778888888888888774  34455666688888899999999888 7766544333333333223333444444


Q ss_pred             CHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 023952          181 NKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANE  258 (275)
Q Consensus       181 ~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  258 (275)
                      ...+...+-.+...   .| |...-..+...+...|+.+.|.+.+-.+.++..-..|...-..|++.+.-.|.-+.+..
T Consensus       218 ~~~~~~~l~~~~aa---dPdd~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~d~~~~d~~~Rk~lle~f~~~g~~Dp~~~  293 (304)
T COG3118         218 ATPEIQDLQRRLAA---DPDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGFEDGEARKTLLELFEAFGPADPLVL  293 (304)
T ss_pred             cCCCHHHHHHHHHh---CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccccCcHHHHHHHHHHHhcCCCCHHHH
Confidence            44444444443332   45 44555567788888899998888777776554334566667778887777775444433

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.45  E-value=0.19  Score=35.58  Aligned_cols=139  Identities=17%  Similarity=0.158  Sum_probs=86.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchh-hHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF-TYNLW  100 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~-~~~~l  100 (275)
                      +...|..-++. ++.+..++|+.-|..+.+.|..-=+. .---+.....+.|+...|...|++.-.....|-+. -..-|
T Consensus        58 sgd~flaAL~l-A~~~k~d~Alaaf~~lektg~g~YpvLA~mr~at~~a~kgdta~AV~aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          58 SGDAFLAALKL-AQENKTDDALAAFTDLEKTGYGSYPVLARMRAATLLAQKGDTAAAVAAFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             chHHHHHHHHH-HHcCCchHHHHHHHHHHhcCCCcchHHHHHHHHHHHhhcccHHHHHHHHHHHhccCCCcchhhHHHHH
Confidence            44455555543 45566788888888888776422111 12223345677888888888888887754444333 11111


Q ss_pred             H--HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc
Q 023952          101 I--SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR  164 (275)
Q Consensus       101 l--~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  164 (275)
                      =  -.+...|.++++..-.+-+... +.+.-...-.+|.-+-.+.|++.+|.+ .|..+......|
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d-~n~mR~sArEALglAa~kagd~a~A~~-~F~qia~Da~ap  200 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGD-GNPMRHSAREALGLAAYKAGDFAKAKS-WFVQIANDAQAP  200 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCC-CChhHHHHHHHHhHHHHhccchHHHHH-HHHHHHccccCc
Confidence            1  1245778888888877777654 444445556677777778888888888 777776644443

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.44  E-value=0.086  Score=40.02  Aligned_cols=96  Identities=11%  Similarity=0.023  Sum_probs=49.5

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH---HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc--chhhHH
Q 023952           96 TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW---VKYVNLVNIYITASHLVNAESSTLVEAEKSITQR--QWITYD  170 (275)
Q Consensus        96 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~  170 (275)
                      .|+.-+. +.+.|++..|...|....+.  +|.+.   ..+..|..++...|++++|.. +|..+.+..+.-  -...+-
T Consensus       144 ~Y~~A~~-~~ksgdy~~A~~~F~~fi~~--YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~-~f~~~~k~~P~s~KApdall  219 (262)
T COG1729         144 LYNAALD-LYKSGDYAEAEQAFQAFIKK--YPNSTYTPNAYYWLGESLYAQGDYEDAAY-IFARVVKDYPKSPKAPDALL  219 (262)
T ss_pred             HHHHHHH-HHHcCCHHHHHHHHHHHHHc--CCCCcccchhHHHHHHHHHhcccchHHHH-HHHHHHHhCCCCCCChHHHH
Confidence            4444433 33445566666666665552  22222   234456666666666666666 555555433321  123344


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      .|.....+.|+.++|..+|+++.+.
T Consensus       220 Klg~~~~~l~~~d~A~atl~qv~k~  244 (262)
T COG1729         220 KLGVSLGRLGNTDEACATLQQVIKR  244 (262)
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            4455555666666666666666554

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=96.44  E-value=0.34  Score=38.51  Aligned_cols=110  Identities=17%  Similarity=0.104  Sum_probs=85.2

Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHH
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  174 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  174 (275)
                      .+.+.-+.-+...|+...|.++-.+..     .|+...|...+.+++..+++++-.. +.    ..  +..+..|..++.
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            345556777788898888877755542     3888889999999999999998877 32    22  234588999999


Q ss_pred             HHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023952          175 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  226 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (275)
                      .|...|+..+|..+..++          ++..-+..|.+.|++.+|.+.-.+
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            999999999999998762          225678889999999999876554

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

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.41  E-value=0.43  Score=39.34  Aligned_cols=66  Identities=15%  Similarity=-0.021  Sum_probs=58.1

Q ss_pred             CCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCch----hhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           56 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI----FTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        56 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      +.+...|+.+..+|.+.|++++|+..|++.++.  .|+.    .+|..+..+|...|+.++|...+++..+.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL--~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALel  141 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALEL--NPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRD  141 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            557889999999999999999999999999885  4553    35889999999999999999999998874

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=96.40  E-value=0.061  Score=41.40  Aligned_cols=80  Identities=9%  Similarity=0.019  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh----cCCCCCCHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVKYV  134 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~~  134 (275)
                      ..++..++..+...|+++.+.+.++++...... |...|..++.+|.+.|+...|+..|+++.+    .-|+.|...+..
T Consensus       153 ~~~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~  231 (280)
T COG3629         153 IKALTKLAEALIACGRADAVIEHLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRA  231 (280)
T ss_pred             HHHHHHHHHHHHhcccHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHH
Confidence            345566666666666666666666666665432 555666666666666666666666666544    125566665555


Q ss_pred             HHHHH
Q 023952          135 NLVNI  139 (275)
Q Consensus       135 ~l~~~  139 (275)
                      .....
T Consensus       232 ~y~~~  236 (280)
T COG3629         232 LYEEI  236 (280)
T ss_pred             HHHHH
Confidence            44444

>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=96.39  E-value=0.056  Score=37.67  Aligned_cols=112  Identities=16%  Similarity=0.191  Sum_probs=66.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNL-SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  109 (275)
                      +..-.+.++.+++..+++.+.-... .|...++..+  .+.+.|++.+|+.+|+++.+..  |.......|+..|....+
T Consensus        17 ~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~--l~i~r~~w~dA~rlLr~l~~~~--~~~p~~kALlA~CL~~~~   92 (160)
T PF09613_consen   17 LSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGW--LHIVRGDWDDALRLLRELEERA--PGFPYAKALLALCLYALG   92 (160)
T ss_pred             HHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHH--HHHHhCCHHHHHHHHHHHhccC--CCChHHHHHHHHHHHHcC
Confidence            3445677899999999998876431 1223344444  4578999999999999987753  333334445554444333


Q ss_pred             HHHHHHHHH-HHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHH
Q 023952          110 IDQVKKFLD-EMSCDSGGSDDWVKYVNLVNIYITASHLVNAES  151 (275)
Q Consensus       110 ~~~a~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  151 (275)
                       +..+..+. ++.+. +-.|+..   .++..+....+...|..
T Consensus        93 -D~~Wr~~A~evle~-~~d~~a~---~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   93 -DPSWRRYADEVLES-GADPDAR---ALVRALLARADLEPAHE  130 (160)
T ss_pred             -ChHHHHHHHHHHhc-CCChHHH---HHHHHHHHhccccchhh
Confidence             33444443 35554 3233333   56666666666655555

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.39  E-value=0.17  Score=40.65  Aligned_cols=128  Identities=5%  Similarity=-0.011  Sum_probs=84.3

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhC-----CCC---------CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchh
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQS-----NLS---------FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF   95 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~-----~~~---------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~   95 (275)
                      -...|.+.|++..|...|+.....     +.+         .-..+++.+.-++.+.+++..|++.-+..+..+. +|.-
T Consensus       214 ~Gn~~fK~gk~~~A~~~Yerav~~l~~~~~~~~ee~~~~~~~k~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~-~N~K  292 (397)
T KOG0543|consen  214 RGNVLFKEGKFKLAKKRYERAVSFLEYRRSFDEEEQKKAEALKLACHLNLAACYLKLKEYKEAIESCNKVLELDP-NNVK  292 (397)
T ss_pred             hhhHHHhhchHHHHHHHHHHHHHHhhccccCCHHHHHHHHHHHHHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCC-Cchh
Confidence            345678889999998888775431     111         1234567777778888888888888888777643 3555


Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHH-HHHHHHHHHHcc
Q 023952           96 TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA-ESSTLVEAEKSI  161 (275)
Q Consensus        96 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~~~~  161 (275)
                      ..---..++...|+++.|+..|+++.+.  -|.|-.+-+.|+.+-.+....... .+ +|..|+...
T Consensus       293 ALyRrG~A~l~~~e~~~A~~df~ka~k~--~P~Nka~~~el~~l~~k~~~~~~kekk-~y~~mF~k~  356 (397)
T KOG0543|consen  293 ALYRRGQALLALGEYDLARDDFQKALKL--EPSNKAARAELIKLKQKIREYEEKEKK-MYANMFAKL  356 (397)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHHHHHHHHH-HHHHHhhcc
Confidence            6666777788888888888888888873  345555555666655555444433 34 666666533

>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=96.37  E-value=0.34  Score=37.79  Aligned_cols=221  Identities=10%  Similarity=0.007  Sum_probs=126.2

Q ss_pred             cccChhhHHHHhhccccC----CCC------HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC--------CCCCCH-----
Q 023952            3 KVFGIHSGERYFEGLPLS----AKT------SETYTALLHLYAGAKWTEKAEELFERVKQS--------NLSFNA-----   59 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~----~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------~~~~~~-----   59 (275)
                      +.|+++.|...+.+....    .|+      ...|+.-...+.+..+++.|..++++..+.        ...|+.     
T Consensus         5 ~~~~~~~A~~~~~K~~~~~~~~~~~~~~~La~~~yn~G~~l~~~~~~~~~a~~wL~~a~~~l~~~~~~~~~~~~~~elr~   84 (278)
T PF08631_consen    5 KQGDLDLAEHMYSKAKDLLNSLDPDMAEELARVCYNIGKSLLSKKDKYEEAVKWLQRAYDILEKPGKMDKLSPDGSELRL   84 (278)
T ss_pred             hhCCHHHHHHHHHHhhhHHhcCCcHHHHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhhhhccccCCcHHHHHH
Confidence            679999999999987653    232      233444444444443888888887764432        122333     


Q ss_pred             HHHHHHHHHhhccCCH---HHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           60 LMYNEMMTLYMSVGQV---EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      .+...++.+|...+..   ++|.++++.+.+.... .+.++..-+..+.+.++.+.+.+++.+|...  +.-....+..+
T Consensus        85 ~iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~~~-~~~~~~L~l~il~~~~~~~~~~~~L~~mi~~--~~~~e~~~~~~  161 (278)
T PF08631_consen   85 SILRLLANAYLEWDTYESVEKALNALRLLESEYGN-KPEVFLLKLEILLKSFDEEEYEEILMRMIRS--VDHSESNFDSI  161 (278)
T ss_pred             HHHHHHHHHHHcCCChHHHHHHHHHHHHHHHhCCC-CcHHHHHHHHHHhccCChhHHHHHHHHHHHh--cccccchHHHH
Confidence            4667888888888765   4566677777654322 3455666777787889999999999999985  23233444444


Q ss_pred             HHHH---HhcCchHHHHHHHHHHHHHccCCcchh-hHHH-HHH---HHHccCC------HHHHHHHHHHHHh-ccCCCCh
Q 023952          137 VNIY---ITASHLVNAESSTLVEAEKSITQRQWI-TYDF-LII---LYAGLGN------KDKIDQIWKSLRM-TKQKMTS  201 (275)
Q Consensus       137 ~~~~---~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~~-l~~---~~~~~~~------~~~a~~~~~~m~~-~~~~p~~  201 (275)
                      +..+   ..... ..|.. .+..+......|... .... ++.   ...+.++      .+...++++.+.+ .+.+.+.
T Consensus       162 l~~i~~l~~~~~-~~a~~-~ld~~l~~r~~~~~~~~~e~~vl~~~~~~~~~~~~~~~~~i~~l~~~~~~v~~~~~~~ls~  239 (278)
T PF08631_consen  162 LHHIKQLAEKSP-ELAAF-CLDYLLLNRFKSSEDQWLEKLVLTRVLLTTQSKDLSSSEKIESLEELLSIVEHSLGKQLSA  239 (278)
T ss_pred             HHHHHHHHhhCc-HHHHH-HHHHHHHHHhCCChhHHHHHHHHHHHHHHcCCccccchhHHHHHHHHHHHHHHHhcCCCCH
Confidence            4544   44333 34445 454444444343332 1111 111   1122222      4444455554332 2233344


Q ss_pred             hhHHH---H----HHHHHhcCCHHHHHHHHHHHH
Q 023952          202 RNYIC---I----LSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       202 ~~~~~---l----i~~~~~~g~~~~a~~~~~~~~  228 (275)
                      .+-.+   +    ...+.+.++++.|.++|+-..
T Consensus       240 ~~~~a~~~LLW~~~~~~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  240 EAASAIHTLLWNKGKKHYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHH
Confidence            44333   2    234567899999999988543

It is also involved in sporulation [].

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=96.36  E-value=0.41  Score=38.54  Aligned_cols=246  Identities=13%  Similarity=0.007  Sum_probs=140.2

Q ss_pred             ccChhhHHHHhhccccC-CCCHhHHHHHHH--HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLS-AKTSETYTALLH--LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~-~~~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      .|+-..|.+.-.+.... ..|......|+.  .-.-.|+++.|.+-|+.|...- +.-..-...|.-.--+.|..+.|.+
T Consensus        97 AGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~dP-EtRllGLRgLyleAqr~GareaAr~  175 (531)
T COG3898          97 AGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLDDP-ETRLLGLRGLYLEAQRLGAREAARH  175 (531)
T ss_pred             cCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhcCh-HHHHHhHHHHHHHHHhcccHHHHHH
Confidence            46666676666554322 234444444443  3445689999999999887641 1111123344444567788888888


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHH--HHHHHHHh---cCchHHHHHHHHH
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYV--NLVNIYIT---ASHLVNAESSTLV  155 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~l~~~~~~---~g~~~~a~~~~~~  155 (275)
                      +-+..-..-.. -...+...+...|..|+++.|+++.+.-+....+.++..--.  .|+.+-..   ..+...|.. .-.
T Consensus       176 yAe~Aa~~Ap~-l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~ldadp~~Ar~-~A~  253 (531)
T COG3898         176 YAERAAEKAPQ-LPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSLLDADPASARD-DAL  253 (531)
T ss_pred             HHHHHHhhccC-CchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHHhcCChHHHHH-HHH
Confidence            88877664222 345677888888889999999998887766545566654321  22222111   123344444 322


Q ss_pred             HHHHccCCcchhhH-HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          156 EAEKSITQRQWITY-DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       156 ~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      +..+  ..||...- -.-..++.+.|+..++-.+++.+-+....|+  .  ..+..+.+.|+.  +..-+++..+....+
T Consensus       254 ~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK~ePHP~--i--a~lY~~ar~gdt--a~dRlkRa~~L~slk  325 (531)
T COG3898         254 EANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWKAEPHPD--I--ALLYVRARSGDT--ALDRLKRAKKLESLK  325 (531)
T ss_pred             HHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHhcCCChH--H--HHHHHHhcCCCc--HHHHHHHHHHHHhcC
Confidence            2222  23332221 1223567888888888888888877644443  2  233344455543  444444443322223


Q ss_pred             -CCHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          235 -FDISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       235 -~~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                       .+..+-..+..+-...|++..|+.--
T Consensus       326 ~nnaes~~~va~aAlda~e~~~ARa~A  352 (531)
T COG3898         326 PNNAESSLAVAEAALDAGEFSAARAKA  352 (531)
T ss_pred             ccchHHHHHHHHHHHhccchHHHHHHH
Confidence             34556666777777888887766543

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=96.35  E-value=0.48  Score=39.37  Aligned_cols=57  Identities=9%  Similarity=0.086  Sum_probs=33.8

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952          100 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus       100 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      +..++-+.|+.++|.+.+.++.+......+..+...|+.++...+.+.++.. ++.+-
T Consensus       265 LAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~-lL~kY  321 (539)
T PF04184_consen  265 LAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQA-LLAKY  321 (539)
T ss_pred             HHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHH-HHHHh
Confidence            3334445677777777777776531111234456667777777777777777 55543

The molecular function of this protein is uncertain.

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.30  E-value=0.2  Score=34.41  Aligned_cols=88  Identities=11%  Similarity=0.160  Sum_probs=54.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      .-..++..+.+.+........++.+...+ +.+...++.++..|++.+ .++.++.++.      .++......+++.|.
T Consensus         9 ~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~------~~~~yd~~~~~~~c~   80 (140)
T smart00299        9 DVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN------KSNHYDIEKVGKLCE   80 (140)
T ss_pred             CHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh------ccccCCHHHHHHHHH
Confidence            34566777777777788888888777765 366677777888777653 3344444432      123334445666666


Q ss_pred             hhCCHHHHHHHHHHHh
Q 023952          106 ATLNIDQVKKFLDEMS  121 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~  121 (275)
                      +.+.++++.-++.++.
T Consensus        81 ~~~l~~~~~~l~~k~~   96 (140)
T smart00299       81 KAKLYEEAVELYKKDG   96 (140)
T ss_pred             HcCcHHHHHHHHHhhc
Confidence            6666666666665543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=96.28  E-value=0.29  Score=36.10  Aligned_cols=222  Identities=14%  Similarity=-0.020  Sum_probs=104.4

Q ss_pred             CCHHHHHHHHHHHHhCCCC-CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC-CCCCchhhHHHHHHHHHhhCCHHHHHH
Q 023952           38 KWTEKAEELFERVKQSNLS-FNALMYNEMMTLYMSVGQVEKVALVVEEIKRK-NVVPDIFTYNLWISSCAATLNIDQVKK  115 (275)
Q Consensus        38 g~~~~a~~~~~~m~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~~~~~ll~~~~~~~~~~~a~~  115 (275)
                      +....+...+......... .....+......+...+.+..+...+...... ........+......+...+++..+..
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            4445555555544443311 12445555555556666666666655555431 122233444445555555555666666


Q ss_pred             HHHHHhhcCCCCCCHHHHHHHHH-HHHhcCchHHHHHHHHHHHHHccC--CcchhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023952          116 FLDEMSCDSGGSDDWVKYVNLVN-IYITASHLVNAESSTLVEAEKSIT--QRQWITYDFLIILYAGLGNKDKIDQIWKSL  192 (275)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~l~~-~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  192 (275)
                      .+...... . +.+......... .+...|+++.|.. .+.......+  ......+......+...++.+.+...+...
T Consensus       117 ~~~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~  193 (291)
T COG0457         117 LLEKALAL-D-PDPDLAEALLALGALYELGDYEEALE-LYEKALELDPELNELAEALLALGALLEALGRYEEALELLEKA  193 (291)
T ss_pred             HHHHHHcC-C-CCcchHHHHHHHHHHHHcCCHHHHHH-HHHHHHhcCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHH
Confidence            66655542 1 111111122222 4556666666666 5555533221  112223333333345556666666666655


Q ss_pred             HhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          193 RMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       193 ~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      ...........+..+...+...++++.|...+.......  +.....+..+...+...+..+.+...+.+..
T Consensus       194 ~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  263 (291)
T COG0457         194 LKLNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELD--PDNAEALYNLALLLLELGRYEEALEALEKAL  263 (291)
T ss_pred             HhhCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhC--cccHHHHhhHHHHHHHcCCHHHHHHHHHHHH
Confidence            543211123445555555566666666666666655532  1112333333333334455566665555544

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=96.27  E-value=0.04  Score=44.26  Aligned_cols=230  Identities=14%  Similarity=0.044  Sum_probs=132.7

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHhhccCCHHHHHHHHHHHh--h--CCCC-CchhhHHHHHH
Q 023952           32 HLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIK--R--KNVV-PDIFTYNLWIS  102 (275)
Q Consensus        32 ~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~--~--~~~~-p~~~~~~~ll~  102 (275)
                      .-+++.|+...-..+|+...+-|- -|    ..+|..|-.+|.-.+++++|+++...=.  .  .|-+ -...+...|.+
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            457899999999999999998872 33    3456777778888889999998754311  1  0100 01122333444


Q ss_pred             HHHhhCCHHHHHHHHHH----HhhcCCCCCCHHHHHHHHHHHHhcCc--------------------hHHHHHHHHHHHH
Q 023952          103 SCAATLNIDQVKKFLDE----MSCDSGGSDDWVKYVNLVNIYITASH--------------------LVNAESSTLVEAE  158 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~----~~~~~~~~~~~~~~~~l~~~~~~~g~--------------------~~~a~~~~~~~~~  158 (275)
                      .+--.|.+++|...-.+    ..+.+.-......+..|...|...|+                    ++.|.+ +|.+=.
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            44455666666543221    12211111223455566777765543                    122222 222111


Q ss_pred             ----HccCC-cchhhHHHHHHHHHccCCHHHHHHHHHHH----HhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          159 ----KSITQ-RQWITYDFLIILYAGLGNKDKIDQIWKSL----RMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       159 ----~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m----~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                          +.+.. .-...|..|...|.-.|+++.|+..-+.-    ++.|-.. ....+..+..++.-.|+++.|.+.++...
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                11110 11245566666677788999988765532    2223221 23457788999999999999999887653


Q ss_pred             h----cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 023952          229 Q----SATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       229 ~----~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      .    -+.......+.-+|..+|.-..++++|..++.+-
T Consensus       263 ~LAielg~r~vEAQscYSLgNtytll~e~~kAI~Yh~rH  301 (639)
T KOG1130|consen  263 NLAIELGNRTVEAQSCYSLGNTYTLLKEVQKAITYHQRH  301 (639)
T ss_pred             HHHHHhcchhHHHHHHHHhhhHHHHHHHHHHHHHHHHHH
Confidence            2    2221223445566777887778888888887654

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=96.25  E-value=0.21  Score=34.27  Aligned_cols=126  Identities=10%  Similarity=0.058  Sum_probs=77.1

Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHH
Q 023952           98 NLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYA  177 (275)
Q Consensus        98 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  177 (275)
                      ..++..+...+.......+++.+... + +.+....+.++..|++.+. .+..+ .+..   .   .+.......+..|.
T Consensus        11 ~~vv~~~~~~~~~~~l~~yLe~~~~~-~-~~~~~~~~~li~ly~~~~~-~~ll~-~l~~---~---~~~yd~~~~~~~c~   80 (140)
T smart00299       11 SEVVELFEKRNLLEELIPYLESALKL-N-SENPALQTKLIELYAKYDP-QKEIE-RLDN---K---SNHYDIEKVGKLCE   80 (140)
T ss_pred             HHHHHHHHhCCcHHHHHHHHHHHHcc-C-ccchhHHHHHHHHHHHHCH-HHHHH-HHHh---c---cccCCHHHHHHHHH
Confidence            45666666677788888888887775 3 3666677888888876643 23333 2221   1   22333445667777


Q ss_pred             ccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc-CCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 023952          178 GLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML-GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  249 (275)
Q Consensus       178 ~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  249 (275)
                      +.+-++++..++.++..         +...+..+... ++++.|.+++.+       ..+...|..++..+..
T Consensus        81 ~~~l~~~~~~l~~k~~~---------~~~Al~~~l~~~~d~~~a~~~~~~-------~~~~~lw~~~~~~~l~  137 (140)
T smart00299       81 KAKLYEEAVELYKKDGN---------FKDAIVTLIEHLGNYEKAIEYFVK-------QNNPELWAEVLKALLD  137 (140)
T ss_pred             HcCcHHHHHHHHHhhcC---------HHHHHHHHHHcccCHHHHHHHHHh-------CCCHHHHHHHHHHHHc
Confidence            77778888777776532         22233334444 778888887775       2355567777766654

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=96.25  E-value=0.49  Score=38.34  Aligned_cols=167  Identities=11%  Similarity=-0.103  Sum_probs=100.2

Q ss_pred             CCHhHHHHH-HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HhhccCCHHHHHHHHHHHhhCCCCCchhhHH
Q 023952           22 KTSETYTAL-LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMT--LYMSVGQVEKVALVVEEIKRKNVVPDIFTYN   98 (275)
Q Consensus        22 ~~~~~~~~l-i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~--~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~   98 (275)
                      |....|-.| ..++.-.|+.++|.+.--...+.+   ..-.+...++  ++--.++.+.+...|++.+..  .|+...-.
T Consensus       166 pac~~a~~lka~cl~~~~~~~~a~~ea~~ilkld---~~n~~al~vrg~~~yy~~~~~ka~~hf~qal~l--dpdh~~sk  240 (486)
T KOG0550|consen  166 PACFKAKLLKAECLAFLGDYDEAQSEAIDILKLD---ATNAEALYVRGLCLYYNDNADKAINHFQQALRL--DPDHQKSK  240 (486)
T ss_pred             chhhHHHHhhhhhhhhcccchhHHHHHHHHHhcc---cchhHHHHhcccccccccchHHHHHHHhhhhcc--ChhhhhHH
Confidence            445566655 456677888888888877766654   1223333333  334567788888888888774  45543222


Q ss_pred             -------------HHHHHHHhhCCHHHHHHHHHHHhhcC--CCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952           99 -------------LWISSCAATLNIDQVKKFLDEMSCDS--GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus        99 -------------~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                                   .-.+-..+.|.+..|.+.|.+.....  ...++...|.....+..+.|+.++|+. --++.......
T Consensus       241 ~~~~~~k~le~~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eais-dc~~Al~iD~s  319 (486)
T KOG0550|consen  241 SASMMPKKLEVKKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAIS-DCNEALKIDSS  319 (486)
T ss_pred             hHhhhHHHHHHHHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhh-hhhhhhhcCHH
Confidence                         22334566788888888888877531  234445556666677778888888887 44444332211


Q ss_pred             cchhhHHHHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          164 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                       =+..|..-..++...++|++|.+-+++..+.
T Consensus       320 -yikall~ra~c~l~le~~e~AV~d~~~a~q~  350 (486)
T KOG0550|consen  320 -YIKALLRRANCHLALEKWEEAVEDYEKAMQL  350 (486)
T ss_pred             -HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence             1122222233455677888888888776554

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=96.25  E-value=0.056  Score=41.24  Aligned_cols=101  Identities=15%  Similarity=0.062  Sum_probs=77.1

Q ss_pred             CCCHHHHHHHHHHhh-----ccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhC----------------CHHHHH
Q 023952           56 SFNALMYNEMMTLYM-----SVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL----------------NIDQVK  114 (275)
Q Consensus        56 ~~~~~~~~~li~~~~-----~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----------------~~~~a~  114 (275)
                      ..|-.+|-+.+..+.     +.+.++-....++.|.+-|+.-|..+|+.||+.+-+..                +-.-++
T Consensus        64 ~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I  143 (406)
T KOG3941|consen   64 KRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAI  143 (406)
T ss_pred             cccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHH
Confidence            346667777766654     34678888888999999999999999999998875542                245688


Q ss_pred             HHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchH-HHHHHHHHHHH
Q 023952          115 KFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV-NAESSTLVEAE  158 (275)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~-~a~~~~~~~~~  158 (275)
                      +++++|... |+.||..+-..|++++.+.+..- +..+ ++..|-
T Consensus       144 ~vLeqME~h-GVmPdkE~e~~lvn~FGr~~~p~~K~~R-m~yWmP  186 (406)
T KOG3941|consen  144 KVLEQMEWH-GVMPDKEIEDILVNAFGRWNFPTKKVKR-MLYWMP  186 (406)
T ss_pred             HHHHHHHHc-CCCCchHHHHHHHHHhccccccHHHHHH-HHHhhh
Confidence            999999987 99999999999999999877643 4444 444443

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=96.21  E-value=0.74  Score=40.04  Aligned_cols=38  Identities=8%  Similarity=-0.057  Sum_probs=22.5

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFE   48 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   48 (275)
                      -|+|++|++++-++..+  |     ..|..+.+.|++-.+.++++
T Consensus       747 ~g~feeaek~yld~drr--D-----LAielr~klgDwfrV~qL~r  784 (1189)
T KOG2041|consen  747 YGEFEEAEKLYLDADRR--D-----LAIELRKKLGDWFRVYQLIR  784 (1189)
T ss_pred             hcchhHhhhhhhccchh--h-----hhHHHHHhhhhHHHHHHHHH
Confidence            37888888888777653  2     22344455555555555443

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=96.20  E-value=0.024  Score=30.09  Aligned_cols=38  Identities=18%  Similarity=0.246  Sum_probs=20.4

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE   64 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~   64 (275)
                      +|..+...|.+.|++++|.++|++..+.. |-|...|..
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~-P~~~~a~~~   40 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD-PDDPEAWRA   40 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCCHHHHHH
Confidence            45555566666666666666666655543 233444433

>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=96.19  E-value=0.46  Score=39.63  Aligned_cols=155  Identities=12%  Similarity=0.063  Sum_probs=98.4

Q ss_pred             hhccCCHHHHHHHHH--HHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952           69 YMSVGQVEKVALVVE--EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~--~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      ..-.|+++++.+..+  ++.. .++  ..-.+.++..+-+.|..+.|.++-..-.             .-.....+.|++
T Consensus       271 av~~~d~~~v~~~i~~~~ll~-~i~--~~~~~~i~~fL~~~G~~e~AL~~~~D~~-------------~rFeLAl~lg~L  334 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLLP-NIP--KDQGQSIARFLEKKGYPELALQFVTDPD-------------HRFELALQLGNL  334 (443)
T ss_dssp             HHHTT-HHH-----HHHHTGG-G----HHHHHHHHHHHHHTT-HHHHHHHSS-HH-------------HHHHHHHHCT-H
T ss_pred             HHHcCChhhhhhhhhhhhhcc-cCC--hhHHHHHHHHHHHCCCHHHHHhhcCChH-------------HHhHHHHhcCCH
Confidence            344678888777665  2221 122  3346778888889999999988743322             233566789999


Q ss_pred             HHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023952          147 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  226 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (275)
                      +.|.+ +.      ....+...|..|.......|+++-|++.|.+..         -+..|+-.|.-.|+.+...++.+.
T Consensus       335 ~~A~~-~a------~~~~~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~---------d~~~L~lLy~~~g~~~~L~kl~~~  398 (443)
T PF04053_consen  335 DIALE-IA------KELDDPEKWKQLGDEALRQGNIELAEECYQKAK---------DFSGLLLLYSSTGDREKLSKLAKI  398 (443)
T ss_dssp             HHHHH-HC------CCCSTHHHHHHHHHHHHHTTBHHHHHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHH
T ss_pred             HHHHH-HH------HhcCcHHHHHHHHHHHHHcCCHHHHHHHHHhhc---------CccccHHHHHHhCCHHHHHHHHHH
Confidence            99988 22      223467899999999999999999999998643         356788888999999888888877


Q ss_pred             HHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 023952          227 WKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       227 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  262 (275)
                      ....+  +.     +....++.-.|++++..+++.+
T Consensus       399 a~~~~--~~-----n~af~~~~~lgd~~~cv~lL~~  427 (443)
T PF04053_consen  399 AEERG--DI-----NIAFQAALLLGDVEECVDLLIE  427 (443)
T ss_dssp             HHHTT---H-----HHHHHHHHHHT-HHHHHHHHHH
T ss_pred             HHHcc--CH-----HHHHHHHHHcCCHHHHHHHHHH
Confidence            76655  22     3334445555777766666644

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.

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.18  E-value=0.18  Score=33.80  Aligned_cols=89  Identities=17%  Similarity=0.130  Sum_probs=45.0

Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH-ccCCcchhhHHHH---HHHHHcc
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK-SITQRQWITYDFL---IILYAGL  179 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~l---~~~~~~~  179 (275)
                      .+..|+.+.|++.|.+...  ..|.....||.-..++.-.|+.++|++ -+++... .|.. .-....+.   ...|...
T Consensus        53 laE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALd-DLn~AleLag~~-trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   53 LAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALD-DLNKALELAGDQ-TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHH-HHHHHHHhcCcc-chHHHHHHHHHHHHHHHh
Confidence            4555666666666666554  344555566666666666666666665 4444333 2222 21122222   1234455


Q ss_pred             CCHHHHHHHHHHHHhcc
Q 023952          180 GNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       180 ~~~~~a~~~~~~m~~~~  196 (275)
                      |+-+.|..=|+...+.|
T Consensus       129 g~dd~AR~DFe~AA~LG  145 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQLG  145 (175)
T ss_pred             CchHHHHHhHHHHHHhC
Confidence            55555555555544444

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.16  E-value=0.42  Score=37.66  Aligned_cols=161  Identities=9%  Similarity=-0.083  Sum_probs=96.5

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC---CCCCCHHHHHHHHHHhhccCCHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS---NLSFNALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      .|++.+|-..++++.+..| |..+++-.=.+|.-.|+.+.....++.+...   ++|-.......+..++...|-+++|+
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            4666666667777666655 7777777777888888888888888777654   22222333344555566778888888


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC--CCCCCHHHHHHHHHHHHhcCchHHHHHHHHH-H
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDS--GGSDDWVKYVNLVNIYITASHLVNAESSTLV-E  156 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~-~  156 (275)
                      +.-++..+.+. .|...-.++...+-..+++.++.++..+-...-  +--.-..-|-...-.+...+.++.|++ +|+ +
T Consensus       196 k~A~ralqiN~-~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~ale-IyD~e  273 (491)
T KOG2610|consen  196 KQADRALQINR-FDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALE-IYDRE  273 (491)
T ss_pred             HHHHhhccCCC-cchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHH-HHHHH
Confidence            88877777543 255555666666777778888777755433210  000000112223334556678888888 554 3


Q ss_pred             HHHccCCcch
Q 023952          157 AEKSITQRQW  166 (275)
Q Consensus       157 ~~~~~~~~~~  166 (275)
                      +.+...+.|.
T Consensus       274 i~k~l~k~Da  283 (491)
T KOG2610|consen  274 IWKRLEKDDA  283 (491)
T ss_pred             HHHHhhccch
Confidence            4444444343

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=96.13  E-value=0.61  Score=38.34  Aligned_cols=132  Identities=11%  Similarity=0.201  Sum_probs=97.8

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhH-HHH
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY-DFL  172 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~~l  172 (275)
                      ..+|...++...+..-.+.|..+|-+..+.+-..+++.++++++..++. |+...|.. +|+.-....+  |...| +..
T Consensus       397 t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h~vyi~~A~~E~~~~-~d~~ta~~-ifelGl~~f~--d~~~y~~ky  472 (660)
T COG5107         397 TFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGHHVYIYCAFIEYYAT-GDRATAYN-IFELGLLKFP--DSTLYKEKY  472 (660)
T ss_pred             hhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCcceeeeHHHHHHHhc-CCcchHHH-HHHHHHHhCC--CchHHHHHH
Confidence            3567778888888888999999999999884477888899999987764 67778888 6765555443  33333 455


Q ss_pred             HHHHHccCCHHHHHHHHHHHHhccCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          173 IILYAGLGNKDKIDQIWKSLRMTKQKMT--SRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +.-+...++-+.|..+|+.-... +.-+  ...|..+|.--..-|++..+..+=++|.+.
T Consensus       473 l~fLi~inde~naraLFetsv~r-~~~~q~k~iy~kmi~YEs~~G~lN~v~sLe~rf~e~  531 (660)
T COG5107         473 LLFLIRINDEENARALFETSVER-LEKTQLKRIYDKMIEYESMVGSLNNVYSLEERFREL  531 (660)
T ss_pred             HHHHHHhCcHHHHHHHHHHhHHH-HHHhhhhHHHHHHHHHHHhhcchHHHHhHHHHHHHH
Confidence            56667889999999999854322 1212  467888998888999998888877777664

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=96.13  E-value=0.08  Score=35.44  Aligned_cols=89  Identities=15%  Similarity=-0.062  Sum_probs=58.8

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC-CCCCchh---hHHHHHHHHHhh
Q 023952           32 HLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK-NVVPDIF---TYNLWISSCAAT  107 (275)
Q Consensus        32 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~~~---~~~~ll~~~~~~  107 (275)
                      -+.+..|+++.|++.|.+.... .|-.+..||.-..++.-.|+.++|+.=+++..+. |.+ +..   .|.--...|-..
T Consensus        51 valaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~-trtacqa~vQRg~lyRl~  128 (175)
T KOG4555|consen   51 IALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQ-TRTACQAFVQRGLLYRLL  128 (175)
T ss_pred             HHHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHHHh
Confidence            4566778888888888876654 2456778888888888888888888877777764 322 222   233333445667


Q ss_pred             CCHHHHHHHHHHHhh
Q 023952          108 LNIDQVKKFLDEMSC  122 (275)
Q Consensus       108 ~~~~~a~~~~~~~~~  122 (275)
                      |+.+.|..=|+..-+
T Consensus       129 g~dd~AR~DFe~AA~  143 (175)
T KOG4555|consen  129 GNDDAARADFEAAAQ  143 (175)
T ss_pred             CchHHHHHhHHHHHH
Confidence            777777776666544

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.11  E-value=0.3  Score=43.00  Aligned_cols=141  Identities=13%  Similarity=0.154  Sum_probs=84.2

Q ss_pred             HHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHH
Q 023952           32 HLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID  111 (275)
Q Consensus        32 ~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  111 (275)
                      .-+-+.|++++|...+-+-... +.|.     -+|.-|....+..+-..+++.+.+.|+. +...-+.|+.+|.+.++.+
T Consensus       376 d~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~gla-~~dhttlLLncYiKlkd~~  448 (933)
T KOG2114|consen  376 DYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKKGLA-NSDHTTLLLNCYIKLKDVE  448 (933)
T ss_pred             HHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHcccc-cchhHHHHHHHHHHhcchH
Confidence            3345678888887777654433 2222     2455566666777777788888888776 4444467888888888887


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHH
Q 023952          112 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKS  191 (275)
Q Consensus       112 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  191 (275)
                      .-.++.+.-.+ +...-|   ....+..+.+.+-.++|.. +-...   .  .+......+   +-..+++++|.+++..
T Consensus       449 kL~efI~~~~~-g~~~fd---~e~al~Ilr~snyl~~a~~-LA~k~---~--~he~vl~il---le~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  449 KLTEFISKCDK-GEWFFD---VETALEILRKSNYLDEAEL-LATKF---K--KHEWVLDIL---LEDLHNYEEALRYISS  515 (933)
T ss_pred             HHHHHHhcCCC-cceeee---HHHHHHHHHHhChHHHHHH-HHHHh---c--cCHHHHHHH---HHHhcCHHHHHHHHhc
Confidence            77766655442 111112   2345566667777777766 22111   1  123333333   3557788888888876


Q ss_pred             H
Q 023952          192 L  192 (275)
Q Consensus       192 m  192 (275)
                      +
T Consensus       516 l  516 (933)
T KOG2114|consen  516 L  516 (933)
T ss_pred             C
Confidence            5

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=96.05  E-value=0.54  Score=36.98  Aligned_cols=201  Identities=14%  Similarity=0.181  Sum_probs=109.0

Q ss_pred             HHHHHHHHcCCC---HHHHHHHHHHHHhC-C----CCC-CHHHHHHHHHHhhc--cCCHHHHHHHHHHHhhCCCCCchhh
Q 023952           28 TALLHLYAGAKW---TEKAEELFERVKQS-N----LSF-NALMYNEMMTLYMS--VGQVEKVALVVEEIKRKNVVPDIFT   96 (275)
Q Consensus        28 ~~li~~~~~~g~---~~~a~~~~~~m~~~-~----~~~-~~~~~~~li~~~~~--~g~~~~a~~~~~~m~~~~~~p~~~~   96 (275)
                      ......|.-.++   .++...+-+.+++. |    +.. ...++.+++.....  ...+++.+.+++.|.+.|++-+..+
T Consensus        20 ~~~A~~~~~~~~~~d~~~~~~~~~~IK~~t~~fS~lr~~~~~~la~~l~~~~~~p~~~~~~~~~~y~~L~~~gFk~~~y~   99 (297)
T PF13170_consen   20 MFIALMYTVNNKEFDAERFKEISKYIKKNTGWFSPLRGNHRFILAALLDISFEDPEEAFKEVLDIYEKLKEAGFKRSEYL   99 (297)
T ss_pred             HHHHHHHHhcCCCCCHHHHHHHHHHHHHcccccccccccHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHhccCccChH
Confidence            333444444443   44444444455542 1    221 23344444443333  1235677889999999999888777


Q ss_pred             HHHHHHHHHh--hC----CHHHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHHhcCch----HHHHHHHHHHHHHccCCc
Q 023952           97 YNLWISSCAA--TL----NIDQVKKFLDEMSCDSGG--SDDWVKYVNLVNIYITASHL----VNAESSTLVEAEKSITQR  164 (275)
Q Consensus        97 ~~~ll~~~~~--~~----~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~----~~a~~~~~~~~~~~~~~~  164 (275)
                      +.+.......  ..    ....+..+|+.|++...+  .++...+.+++..  ...+.    +.++. .++.+...+...
T Consensus       100 ~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e~l~~~~E~-~Y~~L~~~~f~k  176 (297)
T PF13170_consen  100 YLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVEELAERMEQ-CYQKLADAGFKK  176 (297)
T ss_pred             HHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHHHHHHHHHH-HHHHHHHhCCCC
Confidence            6654433333  22    357788999999986432  2344445555443  33333    44555 677776644433


Q ss_pred             -ch-hhHHHHHHHHHccCC--HHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCC----HHHHHHHHHHHHhcC
Q 023952          165 -QW-ITYDFLIILYAGLGN--KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH----LKEVGEIIDQWKQSA  231 (275)
Q Consensus       165 -~~-~~~~~l~~~~~~~~~--~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~----~~~a~~~~~~~~~~~  231 (275)
                       |. ...+.++........  ..++.++++.+.+.|+++....|..+.-...-.+.    .+...++.+.+.+..
T Consensus       177 gn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~~~~~~~i~ev~~~L~~~k  251 (297)
T PF13170_consen  177 GNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPEEKIVEEIKEVIDELKEQK  251 (297)
T ss_pred             CcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCchHHHHHHHHHHHHHHhhCc
Confidence             33 333333332222222  34788899999999999888777655443332222    334445555554443

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=96.04  E-value=0.28  Score=33.62  Aligned_cols=86  Identities=9%  Similarity=0.040  Sum_probs=59.6

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      ...+-.-.....+.|++++|.+.|+.+..+-  -+-....--.|+.+|.+.+++++|...+++.++....--..-|...+
T Consensus        10 ~~~ly~~a~~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~   89 (142)
T PF13512_consen   10 PQELYQEAQEALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYM   89 (142)
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHH
Confidence            3334444455567889999999999988762  11234556678889999999999999999999865443345566666


Q ss_pred             HHHHhhCC
Q 023952          102 SSCAATLN  109 (275)
Q Consensus       102 ~~~~~~~~  109 (275)
                      .+++....
T Consensus        90 ~gL~~~~~   97 (142)
T PF13512_consen   90 RGLSYYEQ   97 (142)
T ss_pred             HHHHHHHH
Confidence            66655443

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=96.00  E-value=0.58  Score=36.94  Aligned_cols=151  Identities=12%  Similarity=0.022  Sum_probs=96.6

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhH----HHHHHHHHhhCCHH
Q 023952           36 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTY----NLWISSCAATLNID  111 (275)
Q Consensus        36 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~----~~ll~~~~~~~~~~  111 (275)
                      .+|++.+|-..++++.+. .|.|...++---.+|.-.|+.+.-...+++..-. ..||...|    ..+.-++...|-++
T Consensus       115 ~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip~-wn~dlp~~sYv~GmyaFgL~E~g~y~  192 (491)
T KOG2610|consen  115 GRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             ccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            456667777777777664 5677777887788888888888888888777654 23343222    22333456788888


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc---hhhHHHHHHHHHccCCHHHHHHH
Q 023952          112 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ---WITYDFLIILYAGLGNKDKIDQI  188 (275)
Q Consensus       112 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~  188 (275)
                      +|++.-++..+-  .+.|...-.+....+--.|+..++.+ ++.+-...-...+   ..-|-...-.+...+.++.|+++
T Consensus       193 dAEk~A~ralqi--N~~D~Wa~Ha~aHVlem~~r~Keg~e-FM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleI  269 (491)
T KOG2610|consen  193 DAEKQADRALQI--NRFDCWASHAKAHVLEMNGRHKEGKE-FMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEI  269 (491)
T ss_pred             hHHHHHHhhccC--CCcchHHHHHHHHHHHhcchhhhHHH-HHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHH
Confidence            998888887763  35666677788888888888888888 5544322111111   01111112234455888999998


Q ss_pred             HHH
Q 023952          189 WKS  191 (275)
Q Consensus       189 ~~~  191 (275)
                      |+.
T Consensus       270 yD~  272 (491)
T KOG2610|consen  270 YDR  272 (491)
T ss_pred             HHH
Confidence            864

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.98  E-value=0.043  Score=29.11  Aligned_cols=39  Identities=18%  Similarity=0.237  Sum_probs=23.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 023952          203 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRL  243 (275)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  243 (275)
                      ++..+...|.+.|++++|.++|++..+..  +-|...|..+
T Consensus         3 ~~~~la~~~~~~G~~~~A~~~~~~~l~~~--P~~~~a~~~L   41 (44)
T PF13428_consen    3 AWLALARAYRRLGQPDEAERLLRRALALD--PDDPEAWRAL   41 (44)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC--cCCHHHHHHh
Confidence            45556666777777777777777776653  2344444433

>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=95.97  E-value=0.16  Score=36.51  Aligned_cols=64  Identities=13%  Similarity=0.167  Sum_probs=48.4

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc--hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD--IFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      ..+..+...|.+.|+.++|++.|.++.+....|.  ...+-.+|....-.+++..+.....++...
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~  102 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESL  102 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            4677888888888888888888888887654443  345667777788888888888887776653

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=95.96  E-value=0.55  Score=36.92  Aligned_cols=130  Identities=8%  Similarity=0.206  Sum_probs=83.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc--cC----CHHHHHHHHHHHhhCCC---CCchhhHHHHHHHHHhhCC-
Q 023952           40 TEKAEELFERVKQSNLSFNALMYNEMMTLYMS--VG----QVEKVALVVEEIKRKNV---VPDIFTYNLWISSCAATLN-  109 (275)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~--~g----~~~~a~~~~~~m~~~~~---~p~~~~~~~ll~~~~~~~~-  109 (275)
                      +++...+++.|.+.|+.-+..+|-+.......  ..    ...+|.++|+.|++..+   .++...+..++..  ..++ 
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            45667788999999998888777663333322  33    35689999999998743   3455666666555  3333 


Q ss_pred             ---HHHHHHHHHHHhhcCCCCCCHH--HHHHHHHHHHhcCc--hHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952          110 ---IDQVKKFLDEMSCDSGGSDDWV--KYVNLVNIYITASH--LVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus       110 ---~~~a~~~~~~~~~~~~~~~~~~--~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                         .+.++.+|+.+.+. |+..+..  ....++........  ...+.+ +++.+.+.+.++....|..+.
T Consensus       156 e~l~~~~E~~Y~~L~~~-~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~-l~~~l~~~~~kik~~~yp~lG  224 (297)
T PF13170_consen  156 EELAERMEQCYQKLADA-GFKKGNDLQFLSHILALSEGDDQEKVARVIE-LYNALKKNGVKIKYMHYPTLG  224 (297)
T ss_pred             HHHHHHHHHHHHHHHHh-CCCCCcHHHHHHHHHHhccccchHHHHHHHH-HHHHHHHcCCccccccccHHH
Confidence               46778888888885 6555443  23333333222222  346677 888888888887776666554

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.91  E-value=0.06  Score=36.78  Aligned_cols=69  Identities=13%  Similarity=0.032  Sum_probs=52.4

Q ss_pred             cccChhhHHHHhhccccCCC----CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc
Q 023952            3 KVFGIHSGERYFEGLPLSAK----TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   71 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   71 (275)
                      +.|++++|++.|+.+....|    ...+--.|+.+|.+.+++++|...+++..+....---.-|-..+.+++.
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~hp~vdYa~Y~~gL~~   94 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPTHPNVDYAYYMRGLSY   94 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCCCccHHHHHHHHHH
Confidence            56899999999999988744    5777888999999999999999999999886521112344444454443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.86  E-value=0.48  Score=34.93  Aligned_cols=220  Identities=14%  Similarity=0.026  Sum_probs=157.0

Q ss_pred             hhhHHHHhhccccCCCC---HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            7 IHSGERYFEGLPLSAKT---SETYTALLHLYAGAKWTEKAEELFERVKQS-NLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      ...+...+.......+.   ...+......+...+++..+...+...... ........+......+...+++..+.+.+
T Consensus        39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  118 (291)
T COG0457          39 LAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELL  118 (291)
T ss_pred             HHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            34444555544443333   578888889999999999999999887752 23456677888888888889999999999


Q ss_pred             HHHhhCCCCCchhhHHHHHH-HHHhhCCHHHHHHHHHHHhhcCCC--CCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           83 EEIKRKNVVPDIFTYNLWIS-SCAATLNIDQVKKFLDEMSCDSGG--SDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~-~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      .........+ ......... .+...|+++.+...+.+.... ..  ......+......+...++.+.+.. .+.....
T Consensus       119 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~~~~~~  195 (291)
T COG0457         119 EKALALDPDP-DLAEALLALGALYELGDYEEALELYEKALEL-DPELNELAEALLALGALLEALGRYEEALE-LLEKALK  195 (291)
T ss_pred             HHHHcCCCCc-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhc-CCCccchHHHHHHhhhHHHHhcCHHHHHH-HHHHHHh
Confidence            9998864443 222333333 788999999999999998552 21  1234444555555778899999999 7777766


Q ss_pred             ccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          160 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .........+..+...+...++++.+...+......  .|+ ...+..+...+...+..+.+...+.......
T Consensus       196 ~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (291)
T COG0457         196 LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALEL--DPDNAEALYNLALLLLELGRYEEALEALEKALELD  266 (291)
T ss_pred             hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhh--CcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            554424567778888888899999999999988765  333 3444455555557778999999999887753

>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=95.73  E-value=0.42  Score=34.42  Aligned_cols=99  Identities=11%  Similarity=0.010  Sum_probs=70.4

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHhhccCCHHHHHHHHHHHhhC---CCCCchhhHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN--ALMYNEMMTLYMSVGQVEKVALVVEEIKRK---NVVPDIFTYN   98 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~~~   98 (275)
                      ...+..+...|.+.|+.+.|.+.|.++.+....+.  ...+-.+|+.....+++..+...+.+....   |-.++...--
T Consensus        36 r~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrl  115 (177)
T PF10602_consen   36 RMALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRL  115 (177)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHH
Confidence            46788999999999999999999999988765444  346788889999999999999988887653   2222222111


Q ss_pred             HHHHH--HHhhCCHHHHHHHHHHHhh
Q 023952           99 LWISS--CAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        99 ~ll~~--~~~~~~~~~a~~~~~~~~~  122 (275)
                      ....+  +...+++..|-+.|-+...
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~~~  141 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDSLS  141 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHccCc
Confidence            12222  2346788888777766554

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.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=95.69  E-value=0.38  Score=32.42  Aligned_cols=62  Identities=19%  Similarity=0.127  Sum_probs=30.7

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      ....++.....|+-++-.+++..+.+.  -.+++.....+..+|.+.|+..++.+ ++.++-+.|
T Consensus        89 vD~ALd~lv~~~kkDqLdki~~~l~kn--~~~~p~~L~kia~Ay~klg~~r~~~e-ll~~ACekG  150 (161)
T PF09205_consen   89 VDLALDILVKQGKKDQLDKIYNELKKN--EEINPEFLVKIANAYKKLGNTREANE-LLKEACEKG  150 (161)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHH-------S-HHHHHHHHHHHHHTT-HHHHHH-HHHHHHHTT
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhc--cCCCHHHHHHHHHHHHHhcchhhHHH-HHHHHHHhc
Confidence            344455555556656666666555542  24555555566666666666666666 555555444

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.64  E-value=0.66  Score=34.90  Aligned_cols=210  Identities=13%  Similarity=0.114  Sum_probs=92.6

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ...|..-..+|-..+++++|...+.+..+- .+.+...|++       .+.++.|.-+.++|.+.  .--...|.-....
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            555667777788888888888877765531 1122222221       12244444445444442  1112234444455


Q ss_pred             HHhhCCHHHHHHHHHHHhhc-CCCCCCHHH--HHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccC
Q 023952          104 CAATLNIDQVKKFLDEMSCD-SGGSDDWVK--YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG  180 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~--~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  180 (275)
                      |...|.++.|-..+++.-+. ..+.|+...  |.--+...-..++...|.                ..+..+...+.+..
T Consensus       101 Y~E~GspdtAAmaleKAak~lenv~Pd~AlqlYqralavve~~dr~~ma~----------------el~gk~sr~lVrl~  164 (308)
T KOG1585|consen  101 YVECGSPDTAAMALEKAAKALENVKPDDALQLYQRALAVVEEDDRDQMAF----------------ELYGKCSRVLVRLE  164 (308)
T ss_pred             HHHhCCcchHHHHHHHHHHHhhcCCHHHHHHHHHHHHHHHhccchHHHHH----------------HHHHHhhhHhhhhH
Confidence            55555555555544443221 012222211  111111111111111111                12223333445555


Q ss_pred             CHHHHHHHHHHHHhc----cCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC--CCCCHHHHHHHHHHHHhcCCh
Q 023952          181 NKDKIDQIWKSLRMT----KQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSAT--SDFDISACNRLLGAFSDVGLT  253 (275)
Q Consensus       181 ~~~~a~~~~~~m~~~----~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~li~~~~~~g~~  253 (275)
                      .+++|-..+.+-...    .-.++. ..|...|-.|.-..++..|.+.++.--+.+.  .+-+..+...|+.+|-. |+.
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 KFTEAATAFLKEGVAADKCDAYNSQCKAYVAAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAYDE-GDI  243 (308)
T ss_pred             HhhHHHHHHHHhhhHHHHHhhcccHHHHHHHHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHhcc-CCH
Confidence            555554443322111    001111 2244555555666677777777766433211  12345566666665543 566


Q ss_pred             HHHHHHH
Q 023952          254 EKANEFH  260 (275)
Q Consensus       254 ~~a~~~~  260 (275)
                      +++.+++
T Consensus       244 E~~~kvl  250 (308)
T KOG1585|consen  244 EEIKKVL  250 (308)
T ss_pred             HHHHHHH
Confidence            6655543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.43  E-value=0.28  Score=37.84  Aligned_cols=73  Identities=11%  Similarity=-0.002  Sum_probs=40.5

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh-----ccCCCChhhHHH
Q 023952          132 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM-----TKQKMTSRNYIC  206 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~-----~~~~p~~~~~~~  206 (275)
                      ++..++..+...|+.+.+.+ .++++....+. +...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...
T Consensus       155 ~l~~lae~~~~~~~~~~~~~-~l~~Li~~dp~-~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~  232 (280)
T COG3629         155 ALTKLAEALIACGRADAVIE-HLERLIELDPY-DEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRAL  232 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHH-HHHHHHhcCcc-chHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHH
Confidence            34445555555666666666 55555554443 555666666666666666666666655543     355555544333

>PRK11906 transcriptional regulator; Provisional

Probab=95.34  E-value=1.4  Score=36.60  Aligned_cols=113  Identities=11%  Similarity=-0.062  Sum_probs=77.4

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHH
Q 023952          109 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  188 (275)
Q Consensus       109 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  188 (275)
                      +..+|...-+...+.  -+.|......+..+..-.++++.|.. .|++.....+. ...+|........-.|+.++|.+.
T Consensus       319 ~~~~a~~~A~rAvel--d~~Da~a~~~~g~~~~~~~~~~~a~~-~f~rA~~L~Pn-~A~~~~~~~~~~~~~G~~~~a~~~  394 (458)
T PRK11906        319 AAQKALELLDYVSDI--TTVDGKILAIMGLITGLSGQAKVSHI-LFEQAKIHSTD-IASLYYYRALVHFHNEKIEEARIC  394 (458)
T ss_pred             HHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHhhcchhhHHH-HHHHHhhcCCc-cHHHHHHHHHHHHHcCCHHHHHHH
Confidence            345667777777764  36777777777777788888999999 88888776654 455666666666778999999999


Q ss_pred             HHHHHhccCCCChhh---HHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          189 WKSLRMTKQKMTSRN---YICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       189 ~~~m~~~~~~p~~~~---~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                      +++..+.  .|....   ....+..|+. ..++.|+.++-+-.
T Consensus       395 i~~alrL--sP~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~  434 (458)
T PRK11906        395 IDKSLQL--EPRRRKAVVIKECVDMYVP-NPLKNNIKLYYKET  434 (458)
T ss_pred             HHHHhcc--CchhhHHHHHHHHHHHHcC-CchhhhHHHHhhcc
Confidence            9985553  454322   2233445554 45677777776543

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=95.14  E-value=0.013  Score=29.19  Aligned_cols=22  Identities=32%  Similarity=0.379  Sum_probs=15.7

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAE   44 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~   44 (275)
                      |..+|+.+...|...|++++|+
T Consensus        12 n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   12 NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CHHHHHHHHHHHHHCcCHHhhc
Confidence            6777777777777777777664

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=95.13  E-value=0.23  Score=34.16  Aligned_cols=100  Identities=11%  Similarity=0.095  Sum_probs=57.6

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCC-CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHH
Q 023952           33 LYAGAKWTEKAEELFERVKQSN-LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID  111 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~-~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  111 (275)
                      .-...++++++..+++.|.-.. -.|...++...+  +...|++++|+++|+++.+.+..   ..|..-+.++|-...-|
T Consensus        19 ~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~~~---~p~~kAL~A~CL~al~D   93 (153)
T TIGR02561        19 YALRSADPYDAQAMLDALRVLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSAGA---PPYGKALLALCLNAKGD   93 (153)
T ss_pred             HHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccCCC---chHHHHHHHHHHHhcCC
Confidence            3345889999999999887642 112344444444  57899999999999999886432   13444444444333333


Q ss_pred             HHHHHHHH-HhhcCCCCCCHHHHHHHHHHHH
Q 023952          112 QVKKFLDE-MSCDSGGSDDWVKYVNLVNIYI  141 (275)
Q Consensus       112 ~a~~~~~~-~~~~~~~~~~~~~~~~l~~~~~  141 (275)
                      -.+..+.. +... +-+|+..   .|++.+.
T Consensus        94 p~Wr~~A~~~le~-~~~~~a~---~Lv~al~  120 (153)
T TIGR02561        94 AEWHVHADEVLAR-DADADAV---ALVRALL  120 (153)
T ss_pred             hHHHHHHHHHHHh-CCCHhHH---HHHHHHh
Confidence            34443333 3343 4444444   3444444

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.05  E-value=1.1  Score=35.87  Aligned_cols=222  Identities=8%  Similarity=0.009  Sum_probs=127.7

Q ss_pred             cChhhHHHHhhccccCC----CCHhHHHHHHHHHHcCCCHHHHHHHH----HHHHhCC-CCCCHHHHHHHHHHhhccCCH
Q 023952            5 FGIHSGERYFEGLPLSA----KTSETYTALLHLYAGAKWTEKAEELF----ERVKQSN-LSFNALMYNEMMTLYMSVGQV   75 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~----~~m~~~~-~~~~~~~~~~li~~~~~~g~~   75 (275)
                      .+.++|+..+.....+-    --..+|..+..+.++.|++++++..-    +...+.. -..-...|..+.+++-+.-++
T Consensus        20 ~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~l~~f   99 (518)
T KOG1941|consen   20 NQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEKLCEF   99 (518)
T ss_pred             chHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            44455555554443321    13456777788888888888765432    2222111 001123455566666666666


Q ss_pred             HHHHHHHHHHhhC-CCCCc---hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCC----CCCCHHHHHHHHHHHHhcCchH
Q 023952           76 EKVALVVEEIKRK-NVVPD---IFTYNLWISSCAATLNIDQVKKFLDEMSCDSG----GSDDWVKYVNLVNIYITASHLV  147 (275)
Q Consensus        76 ~~a~~~~~~m~~~-~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~~~~~~l~~~~~~~g~~~  147 (275)
                      .+++.+=+.-... |..|.   .....++..+....+.++++.+.|+...+-..    -.....+|..|-..|.+..+++
T Consensus       100 ~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l~D~~  179 (518)
T KOG1941|consen  100 HKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQLKDYE  179 (518)
T ss_pred             hhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHHHhhh
Confidence            6676665554432 22221   12334566677777889999999988665311    1223457889999999999999


Q ss_pred             HHHHHHHHHHHHc---cCCcchh-hHH-----HHHHHHHccCCHHHHHHHHHHHH----hccCCCC-hhhHHHHHHHHHh
Q 023952          148 NAESSTLVEAEKS---ITQRQWI-TYD-----FLIILYAGLGNKDKIDQIWKSLR----MTKQKMT-SRNYICILSSYLM  213 (275)
Q Consensus       148 ~a~~~~~~~~~~~---~~~~~~~-~~~-----~l~~~~~~~~~~~~a~~~~~~m~----~~~~~p~-~~~~~~li~~~~~  213 (275)
                      +|.- +..+....   ....|.. -|.     .+.-++...|.+..|.+.-++..    ..|-.|. ......+.+.|..
T Consensus       180 Kal~-f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDIyR~  258 (518)
T KOG1941|consen  180 KALF-FPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADIYRS  258 (518)
T ss_pred             HHhh-hhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHHHHh
Confidence            9876 44443321   1111221 122     23345677788777777776643    3332221 2234567788889


Q ss_pred             cCCHHHHHHHHHHH
Q 023952          214 LGHLKEVGEIIDQW  227 (275)
Q Consensus       214 ~g~~~~a~~~~~~~  227 (275)
                      .|+.+.|+.-++..
T Consensus       259 ~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  259 RGDLERAFRRYEQA  272 (518)
T ss_pred             cccHhHHHHHHHHH
Confidence            99998887777654

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.01  E-value=0.58  Score=36.55  Aligned_cols=103  Identities=15%  Similarity=0.086  Sum_probs=54.1

Q ss_pred             CCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC---CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh
Q 023952          125 GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT---QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS  201 (275)
Q Consensus       125 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  201 (275)
                      |.+.+..+...++..-.+..+++.++. .+..+.....   .|+...+ ..++. +-.-++++++.++..=.+-|+-||.
T Consensus        59 g~~~s~~~Vd~~V~v~~~~~~idd~~~-~LyKlRhs~~a~~~~~~~~~-~~irl-llky~pq~~i~~l~npIqYGiF~dq  135 (418)
T KOG4570|consen   59 GLPVSSLTVDRLVDVISSREEIDDAEY-YLYKLRHSPNAWYLRNWTIH-TWIRL-LLKYDPQKAIYTLVNPIQYGIFPDQ  135 (418)
T ss_pred             CCCcceeehhhhhhccccccchhHHHH-HHHHHhcCcchhhhccccHH-HHHHH-HHccChHHHHHHHhCcchhccccch
Confidence            334444444555555555566666666 4433332111   1111111 12222 2233555666666666666777777


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          202 RNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      .+++.+|+.+.+.+++.+|.++...|...
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            77777777777777777766666665543

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=94.93  E-value=1.3  Score=34.25  Aligned_cols=62  Identities=10%  Similarity=0.068  Sum_probs=30.1

Q ss_pred             CCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc-cCCcchhhHHHHHHHHHccCCHHHHHHH
Q 023952          126 GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS-ITQRQWITYDFLIILYAGLGNKDKIDQI  188 (275)
Q Consensus       126 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~~  188 (275)
                      -.++..+...++..+++.+++.+-.+ ++...... ++..|...|..+|..-...|+..-...+
T Consensus       198 ~~l~~~vi~~Il~~L~~~~dW~kl~~-fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~ki  260 (292)
T PF13929_consen  198 KSLTRNVIISILEILAESRDWNKLFQ-FWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKI  260 (292)
T ss_pred             cCCChhHHHHHHHHHHhcccHHHHHH-HHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHH
Confidence            34444455555555555555555555 33333222 3334555555555555555554444333

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.91  E-value=1.6  Score=35.16  Aligned_cols=47  Identities=21%  Similarity=0.188  Sum_probs=24.7

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQ   52 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   52 (275)
                      .|+++.-.++........++...|.++...  ..|+++++....+....
T Consensus        11 l~~Wd~l~~~~~~~~~~~~~~~~~~al~~l--~~~~~~~~~~~i~~~r~   57 (352)
T PF02259_consen   11 LGDWDLLEEYLSQSNEDSPEYSFYRALLAL--RQGDYDEAKKYIEKARQ   57 (352)
T ss_pred             cCChhhHHHHHhhccCCChhHHHHHHHHHH--hCccHHHHHHHHHHHHH
Confidence            455555555555544433444444444444  66666666666655443

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.78  E-value=1.1  Score=33.84  Aligned_cols=55  Identities=20%  Similarity=0.386  Sum_probs=26.3

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHc---cCCcchhhHHHHHHHHHccCCHHHHHHHH
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKS---ITQRQWITYDFLIILYAGLGNKDKIDQIW  189 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  189 (275)
                      |.+.|-.|.-..++..|.. .++.-.+.   ....+..+...|+.+|- .|+.+++.+++
T Consensus       193 ~va~ilv~L~~~Dyv~aek-c~r~~~qip~f~~sed~r~lenLL~ayd-~gD~E~~~kvl  250 (308)
T KOG1585|consen  193 YVAAILVYLYAHDYVQAEK-CYRDCSQIPAFLKSEDSRSLENLLTAYD-EGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHHHhhHHHHHHHHH-HhcchhcCccccChHHHHHHHHHHHHhc-cCCHHHHHHHH
Confidence            3344445555556666666 55442221   11224455556665543 45555554443

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.78  E-value=0.083  Score=26.57  Aligned_cols=23  Identities=30%  Similarity=0.310  Sum_probs=12.8

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHH
Q 023952           27 YTALLHLYAGAKWTEKAEELFER   49 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~   49 (275)
                      |+.|...|.+.|++++|..+|++
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            45555555566666666655555

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.67  E-value=0.053  Score=27.29  Aligned_cols=24  Identities=29%  Similarity=0.189  Sum_probs=12.9

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHH
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      |..|...|.+.|++++|..++++.
T Consensus         2 l~~Lg~~~~~~g~~~~Ai~~y~~a   25 (36)
T PF13176_consen    2 LNNLGRIYRQQGDYEKAIEYYEQA   25 (36)
T ss_dssp             HHHHHHHHHHCT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            445555555555555555555553

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.65  E-value=0.84  Score=38.94  Aligned_cols=99  Identities=9%  Similarity=0.063  Sum_probs=55.6

Q ss_pred             hccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHH
Q 023952           70 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  149 (275)
Q Consensus        70 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  149 (275)
                      .+.|+++.|.++..+..      +..-|..|.++....+++..|.+.|.....-          ..|+-.+...|+-+..
T Consensus       648 l~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d~----------~~LlLl~t~~g~~~~l  711 (794)
T KOG0276|consen  648 LKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARDL----------GSLLLLYTSSGNAEGL  711 (794)
T ss_pred             hhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcch----------hhhhhhhhhcCChhHH
Confidence            45666666666554432      3455777777777777777777776665542          2455555666665544


Q ss_pred             HHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHH
Q 023952          150 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKS  191 (275)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  191 (275)
                      .. +-....+.+.. |     .-..+|...|+++++.+++.+
T Consensus       712 ~~-la~~~~~~g~~-N-----~AF~~~~l~g~~~~C~~lLi~  746 (794)
T KOG0276|consen  712 AV-LASLAKKQGKN-N-----LAFLAYFLSGDYEECLELLIS  746 (794)
T ss_pred             HH-HHHHHHhhccc-c-----hHHHHHHHcCCHHHHHHHHHh
Confidence            44 33333333322 2     222345566777777766643

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.56  E-value=1.1  Score=31.80  Aligned_cols=134  Identities=10%  Similarity=0.012  Sum_probs=71.6

Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCC-CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                      ..|...++ +...+..++|..-|..+.+. |... .+-...-......+.|+...|.. .|.++-...+.|-+.-=..-+
T Consensus        60 d~flaAL~-lA~~~k~d~Alaaf~~lekt-g~g~YpvLA~mr~at~~a~kgdta~AV~-aFdeia~dt~~P~~~rd~ARl  136 (221)
T COG4649          60 DAFLAALK-LAQENKTDDALAAFTDLEKT-GYGSYPVLARMRAATLLAQKGDTAAAVA-AFDEIAADTSIPQIGRDLARL  136 (221)
T ss_pred             HHHHHHHH-HHHcCCchHHHHHHHHHHhc-CCCcchHHHHHHHHHHHhhcccHHHHHH-HHHHHhccCCCcchhhHHHHH
Confidence            34444444 34556667777777777665 3211 11112233344556777777777 777766655555432111111


Q ss_pred             ---HHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          174 ---ILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       174 ---~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                         ..+...|.++.+....+-+...+-......-..|.-+-.+.|++.+|.+.|..+....
T Consensus       137 raa~lLvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~Da  197 (221)
T COG4649         137 RAAYLLVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIANDA  197 (221)
T ss_pred             HHHHHHhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHccc
Confidence               1245566677666666655443322222233455666667788888888777776643

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=94.54  E-value=3.1  Score=36.64  Aligned_cols=85  Identities=9%  Similarity=0.090  Sum_probs=64.3

Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Q 023952          168 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  247 (275)
Q Consensus       168 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  247 (275)
                      +.+--+.-+...|+..+|.++-.+.+    -||...|..=+.+++..+++++-+++-+..       ..+.-|.-.+.+|
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~Fk----ipdKr~~wLk~~aLa~~~kweeLekfAksk-------ksPIGy~PFVe~c  754 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFK----IPDKRLWWLKLTALADIKKWEELEKFAKSK-------KSPIGYLPFVEAC  754 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcC----CcchhhHHHHHHHHHhhhhHHHHHHHHhcc-------CCCCCchhHHHHH
Confidence            44444556677888888888876654    678888988999999999998866554432       2245577789999


Q ss_pred             HhcCChHHHHHHHHHH
Q 023952          248 SDVGLTEKANEFHMLL  263 (275)
Q Consensus       248 ~~~g~~~~a~~~~~~m  263 (275)
                      .+.|+.++|.+++.+.
T Consensus       755 ~~~~n~~EA~KYiprv  770 (829)
T KOG2280|consen  755 LKQGNKDEAKKYIPRV  770 (829)
T ss_pred             HhcccHHHHhhhhhcc
Confidence            9999999999988654

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=94.49  E-value=0.47  Score=29.90  Aligned_cols=62  Identities=8%  Similarity=-0.046  Sum_probs=44.4

Q ss_pred             HHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023952          182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  245 (275)
Q Consensus       182 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  245 (275)
                      .-++.+-++.+......|++....+.+++|.|.+++..|.++|+-++.+..  .+...|..+++
T Consensus        23 ~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~--~~~~~y~~~lq   84 (103)
T cd00923          23 GWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCG--AHKEIYPYILQ   84 (103)
T ss_pred             HHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--CchhhHHHHHH
Confidence            335566666667777888888888888888888888888888888775542  23445655553

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.

>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=94.37  E-value=1.2  Score=31.24  Aligned_cols=111  Identities=9%  Similarity=0.098  Sum_probs=65.3

Q ss_pred             HHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHH-HHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH-hcC
Q 023952           67 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW-ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI-TAS  144 (275)
Q Consensus        67 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g  144 (275)
                      ..-.+.++.+++..++..+.-  +.|.......+ ...+...|++.+|..+|+++...   .|......+|+..|. ..|
T Consensus        18 ~~al~~~~~~D~e~lL~ALrv--LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~---~~~~p~~kALlA~CL~~~~   92 (160)
T PF09613_consen   18 SVALRLGDPDDAEALLDALRV--LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEER---APGFPYAKALLALCLYALG   92 (160)
T ss_pred             HHHHccCChHHHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhcc---CCCChHHHHHHHHHHHHcC
Confidence            344567789999999988887  45554443322 23367889999999999998775   244443444444333 334


Q ss_pred             chHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHH
Q 023952          145 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQ  187 (275)
Q Consensus       145 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  187 (275)
                      +.  ..+..-.++...+..|+..   .++..+....+...|..
T Consensus        93 D~--~Wr~~A~evle~~~d~~a~---~Lv~~Ll~~~~~~~a~~  130 (160)
T PF09613_consen   93 DP--SWRRYADEVLESGADPDAR---ALVRALLARADLEPAHE  130 (160)
T ss_pred             Ch--HHHHHHHHHHhcCCChHHH---HHHHHHHHhccccchhh
Confidence            33  2331334455666555553   35555555555555544

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=94.36  E-value=0.8  Score=29.23  Aligned_cols=60  Identities=8%  Similarity=0.005  Sum_probs=40.9

Q ss_pred             HHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023952          184 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  245 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  245 (275)
                      +..+-++.+....+.|++....+.+.+|.|.+++..|.++|+-++.+...+.+  .|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~~~~~--~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCGNKKE--IYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTTT-TT--HHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccChHH--HHHHHHH
Confidence            55566666667778888888999999999999999999999988876543222  5665553

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 ....

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=94.11  E-value=5  Score=37.39  Aligned_cols=79  Identities=11%  Similarity=-0.001  Sum_probs=49.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhccCCCCh--hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 023952          172 LIILYAGLGNKDKIDQIWKSLRMTKQKMTS--RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  249 (275)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  249 (275)
                      -+.+|..+|+|.+|..+..++...   -+.  .+-..|+.-+...++.-+|-++..+...    .|..     .+..|++
T Consensus       971 Al~a~~~~~dWr~~l~~a~ql~~~---~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~s----d~~~-----av~ll~k 1038 (1265)
T KOG1920|consen  971 ALKAYKECGDWREALSLAAQLSEG---KDELVILAEELVSRLVEQRKHYEAAKILLEYLS----DPEE-----AVALLCK 1038 (1265)
T ss_pred             HHHHHHHhccHHHHHHHHHhhcCC---HHHHHHHHHHHHHHHHHcccchhHHHHHHHHhc----CHHH-----HHHHHhh
Confidence            345667777777777776665321   111  1124577778888888888888777643    2222     3556777


Q ss_pred             cCChHHHHHHHHH
Q 023952          250 VGLTEKANEFHML  262 (275)
Q Consensus       250 ~g~~~~a~~~~~~  262 (275)
                      ...+++|..+...
T Consensus      1039 a~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen 1039 AKEWEEALRVASK 1051 (1265)
T ss_pred             HhHHHHHHHHHHh
Confidence            7778888776544

>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=94.08  E-value=1.5  Score=31.17  Aligned_cols=127  Identities=10%  Similarity=0.060  Sum_probs=58.6

Q ss_pred             CCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhH
Q 023952          125 GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNY  204 (275)
Q Consensus       125 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  204 (275)
                      +++|+...+..+++.+.+.|++.....     +...++-+|.......+-.+.  +....+.++=-.|... .   ...+
T Consensus        24 ~i~~~~~L~~lli~lLi~~~~~~~L~q-----llq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkR-L---~~~~   92 (167)
T PF07035_consen   24 NIPVQHELYELLIDLLIRNGQFSQLHQ-----LLQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKR-L---GTAY   92 (167)
T ss_pred             CCCCCHHHHHHHHHHHHHcCCHHHHHH-----HHhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHH-h---hhhH
Confidence            556666666666666666666543333     334444444333322222211  1122222222222221 0   0123


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          205 ICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                      ..++..+...|++-+|.++.+......  ...   ...++++..+.++...-..+++-..+++
T Consensus        93 ~~iievLL~~g~vl~ALr~ar~~~~~~--~~~---~~~fLeAA~~~~D~~lf~~V~~ff~~~n  150 (167)
T PF07035_consen   93 EEIIEVLLSKGQVLEALRYARQYHKVD--SVP---ARKFLEAAANSNDDQLFYAVFRFFEERN  150 (167)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHcCCcc--cCC---HHHHHHHHHHcCCHHHHHHHHHHHHHhh
Confidence            445566666777777776666542211  111   2335666666666555555555554433

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.00  E-value=0.14  Score=25.14  Aligned_cols=21  Identities=29%  Similarity=0.222  Sum_probs=7.4

Q ss_pred             HHHHHHHcCCCHHHHHHHHHH
Q 023952           29 ALLHLYAGAKWTEKAEELFER   49 (275)
Q Consensus        29 ~li~~~~~~g~~~~a~~~~~~   49 (275)
                      .+...|...|++++|+..|++
T Consensus         6 ~~g~~~~~~~~~~~A~~~~~~   26 (34)
T PF00515_consen    6 NLGNAYFQLGDYEEALEYYQR   26 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHhCCchHHHHHHHH
Confidence            333333333333333333333

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=93.97  E-value=1.6  Score=31.05  Aligned_cols=27  Identities=22%  Similarity=0.453  Sum_probs=13.8

Q ss_pred             HHHhCCCCCCHHHHHHHHHHhhccCCH
Q 023952           49 RVKQSNLSFNALMYNEMMTLYMSVGQV   75 (275)
Q Consensus        49 ~m~~~~~~~~~~~~~~li~~~~~~g~~   75 (275)
                      .+.+.+++|+...+..++..+.+.|++
T Consensus        19 Sl~~~~i~~~~~L~~lli~lLi~~~~~   45 (167)
T PF07035_consen   19 SLNQHNIPVQHELYELLIDLLIRNGQF   45 (167)
T ss_pred             HHHHcCCCCCHHHHHHHHHHHHHcCCH
Confidence            333445555555555555555555543

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=93.84  E-value=0.69  Score=29.20  Aligned_cols=49  Identities=8%  Similarity=0.124  Sum_probs=33.0

Q ss_pred             CHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           74 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      +.-++.+-++.+...++.|++....+.+++|-+.+++..|..+|+.++.
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            3345556666666666777777777777777777777777777776664

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.

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=93.80  E-value=2.3  Score=32.35  Aligned_cols=79  Identities=13%  Similarity=0.035  Sum_probs=46.1

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCC--CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNV--VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      .|+.-+. -.+.|++++|.+.|+.+.+..+  +-...+...++-++.+.+++++|...+++..+...-.||.. |...|.
T Consensus        37 LY~~g~~-~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~d-Y~~Ylk  114 (254)
T COG4105          37 LYNEGLT-ELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNAD-YAYYLK  114 (254)
T ss_pred             HHHHHHH-HHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChh-HHHHHH
Confidence            3443333 3567778888888887776521  11234555566667777888888888887766534344432 333444


Q ss_pred             HHH
Q 023952          139 IYI  141 (275)
Q Consensus       139 ~~~  141 (275)
                      +++
T Consensus       115 gLs  117 (254)
T COG4105         115 GLS  117 (254)
T ss_pred             HHH
Confidence            443

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=93.72  E-value=0.59  Score=29.82  Aligned_cols=60  Identities=10%  Similarity=0.199  Sum_probs=34.7

Q ss_pred             HHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           77 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      +..+-++.+...++.|++.+..+.+.+|-+.+++..|..+|+-++..-+  +....|..+++
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            4555566666666777777777777777777777777777777666422  22225555443

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 ....

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=93.68  E-value=2.9  Score=37.25  Aligned_cols=141  Identities=11%  Similarity=0.077  Sum_probs=75.4

Q ss_pred             HHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952           67 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus        67 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      ..+.+.|++++|...|-+-... +.|.     .++.-|....++.+-..+++.+.+. |. .+...-+.|+.+|.+.++.
T Consensus       376 d~Ly~Kgdf~~A~~qYI~tI~~-le~s-----~Vi~kfLdaq~IknLt~YLe~L~~~-gl-a~~dhttlLLncYiKlkd~  447 (933)
T KOG2114|consen  376 DYLYGKGDFDEATDQYIETIGF-LEPS-----EVIKKFLDAQRIKNLTSYLEALHKK-GL-ANSDHTTLLLNCYIKLKDV  447 (933)
T ss_pred             HHHHhcCCHHHHHHHHHHHccc-CChH-----HHHHHhcCHHHHHHHHHHHHHHHHc-cc-ccchhHHHHHHHHHHhcch
Confidence            3345667777777766554432 2322     2445556666666666677777665 32 3344445777777777777


Q ss_pred             HHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023952          147 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  226 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (275)
                      ++-.+ +.+... .|..  ..-....+..+.+.+-.++|..+-.+...     +...   +--.+-..+++++|.+++..
T Consensus       448 ~kL~e-fI~~~~-~g~~--~fd~e~al~Ilr~snyl~~a~~LA~k~~~-----he~v---l~ille~~~ny~eAl~yi~s  515 (933)
T KOG2114|consen  448 EKLTE-FISKCD-KGEW--FFDVETALEILRKSNYLDEAELLATKFKK-----HEWV---LDILLEDLHNYEEALRYISS  515 (933)
T ss_pred             HHHHH-HHhcCC-Ccce--eeeHHHHHHHHHHhChHHHHHHHHHHhcc-----CHHH---HHHHHHHhcCHHHHHHHHhc
Confidence            77666 433221 1110  01123344455555555666555443221     2222   22234467788888888876


Q ss_pred             H
Q 023952          227 W  227 (275)
Q Consensus       227 ~  227 (275)
                      +
T Consensus       516 l  516 (933)
T KOG2114|consen  516 L  516 (933)
T ss_pred             C
Confidence            4

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=93.66  E-value=4.4  Score=35.25  Aligned_cols=185  Identities=10%  Similarity=0.042  Sum_probs=95.3

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH-----HHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHH
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE-----MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  104 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~-----li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  104 (275)
                      +...++-.|++.+|.++|.+--..+  .-...|+.     ...-+...|..++-..+.++-.+-  .-|..--.+....+
T Consensus       638 lA~~~Ay~gKF~EAAklFk~~G~en--RAlEmyTDlRMFD~aQE~~~~g~~~eKKmL~RKRA~W--Ar~~kePkaAAEmL  713 (1081)
T KOG1538|consen  638 LADVFAYQGKFHEAAKLFKRSGHEN--RALEMYTDLRMFDYAQEFLGSGDPKEKKMLIRKRADW--ARNIKEPKAAAEML  713 (1081)
T ss_pred             HHHHHHhhhhHHHHHHHHHHcCchh--hHHHHHHHHHHHHHHHHHhhcCChHHHHHHHHHHHHH--hhhcCCcHHHHHHh
Confidence            4456667788888888886532221  01112221     222344445444443333322211  01111112233445


Q ss_pred             HhhCCHHHHHHHHHH------Hhhc--CCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHH
Q 023952          105 AATLNIDQVKKFLDE------MSCD--SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILY  176 (275)
Q Consensus       105 ~~~~~~~~a~~~~~~------~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  176 (275)
                      ...|+.++|..+.-+      +..-  .--..+..+...+..-+.+...+..|-+ +|..+..         ...+++..
T Consensus       714 iSaGe~~KAi~i~~d~gW~d~lidI~rkld~~ere~l~~~a~ylk~l~~~gLAae-IF~k~gD---------~ksiVqlH  783 (1081)
T KOG1538|consen  714 ISAGEHVKAIEICGDHGWVDMLIDIARKLDKAEREPLLLCATYLKKLDSPGLAAE-IFLKMGD---------LKSLVQLH  783 (1081)
T ss_pred             hcccchhhhhhhhhcccHHHHHHHHHhhcchhhhhHHHHHHHHHhhccccchHHH-HHHHhcc---------HHHHhhhe
Confidence            556666666554211      1110  0112233334444444455566666666 6655422         12456677


Q ss_pred             HccCCHHHHHHHHHHHHhccCCCChhh-----------HHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          177 AGLGNKDKIDQIWKSLRMTKQKMTSRN-----------YICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~~~~~p~~~~-----------~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      ...++|.+|..+-+...+  ..||...           |.-.=.+|.+.|+-.+|.++++++...
T Consensus       784 ve~~~W~eAFalAe~hPe--~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLeQLtnn  846 (1081)
T KOG1538|consen  784 VETQRWDEAFALAEKHPE--FKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLEQLTNN  846 (1081)
T ss_pred             eecccchHhHhhhhhCcc--ccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHHHhhhh
Confidence            788999999988887654  3444322           233446788899999999999888653

>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=93.59  E-value=0.094  Score=36.18  Aligned_cols=130  Identities=15%  Similarity=0.072  Sum_probs=77.1

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHc
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG  178 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  178 (275)
                      .++..+.+.+.+.....+++.+... +...+....+.++..|++.++.++..+ +++    .   .+..-...++..|.+
T Consensus        12 ~vi~~~~~~~~~~~l~~yLe~~~~~-~~~~~~~~~~~L~~ly~~~~~~~~l~~-~L~----~---~~~yd~~~~~~~c~~   82 (143)
T PF00637_consen   12 EVISAFEERNQPEELIEYLEALVKE-NKENNPDLHTLLLELYIKYDPYEKLLE-FLK----T---SNNYDLDKALRLCEK   82 (143)
T ss_dssp             CCHHHCTTTT-GGGCTCCHHHHHHT-STC-SHHHHHHHHHHHHCTTTCCHHHH-TTT----S---SSSS-CTHHHHHHHT
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHhc-ccccCHHHHHHHHHHHHhcCCchHHHH-Hcc----c---ccccCHHHHHHHHHh
Confidence            4667777788888888888888865 445667778888888888877777777 443    1   111222355666677


Q ss_pred             cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCCh
Q 023952          179 LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLT  253 (275)
Q Consensus       179 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  253 (275)
                      .|.++++..++.++....-         .+..+...++++.|.+++.+       .++...|..++..|...+..
T Consensus        83 ~~l~~~a~~Ly~~~~~~~~---------al~i~~~~~~~~~a~e~~~~-------~~~~~l~~~l~~~~l~~~~~  141 (143)
T PF00637_consen   83 HGLYEEAVYLYSKLGNHDE---------ALEILHKLKDYEEAIEYAKK-------VDDPELWEQLLKYCLDSKPF  141 (143)
T ss_dssp             TTSHHHHHHHHHCCTTHTT---------CSSTSSSTHCSCCCTTTGGG-------CSSSHHHHHHHHHHCTSTCT
T ss_pred             cchHHHHHHHHHHcccHHH---------HHHHHHHHccHHHHHHHHHh-------cCcHHHHHHHHHHHHhcCcc
Confidence            7777777776665332211         11112344555555533332       24566677777777766543

These vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transport []. Clathrin coats contain both clathrin (acts as a scaffold) and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors [, ]. Clathrin is a trimer composed of three heavy chains and three light chains, each monomer projecting outwards like a leg; this three-legged structure is known as a triskelion [, ]. The heavy chains form the legs, their N-terminal beta-propeller regions extending outwards, while their C-terminal alpha-alpha-superhelical regions form the central hub of the triskelion. Peptide motifs can bind between the beta-propeller blades. The light chains appear to have a regulatory role, and may help orient the assembly and disassembly of clathrin coats as they interact with hsc70 uncoating ATPase []. Clathrin triskelia self-polymerise into a curved lattice by twisting individual legs together. The clathrin lattice forms around a vesicle as it buds from the TGN, plasma membrane or endosomes, acting to stabilise the vesicle and facilitate the budding process []. The multiple blades created when the triskelia polymerise are involved in multiple protein interactions, enabling the recruitment of different cargo adaptors and membrane attachment proteins []. This entry represents the 7-fold alpha-alpha-superhelical ARM-type repeat found at the C-terminal of clathrin heavy chains and in VPS (vacuolar protein sorting-associated) proteins. In clathrin heavy chains, the C-terminal 7-fold ARM-type repeats interact to form the central hub of the triskelion. VPS proteins are required for vacuolar assembly and vacuolar traffick, and contain one clathrin-type repeat []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport; PDB: 3LVH_A 3LVG_C 1B89_A 3QIL_L.

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=93.31  E-value=0.043  Score=37.89  Aligned_cols=86  Identities=12%  Similarity=0.184  Sum_probs=54.1

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  109 (275)
                      +++.+.+.+.++....+++.+...+...+....+.++..|++.++.++..++++..       +..-...++..|.+.|.
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~-------~~yd~~~~~~~c~~~~l   85 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTS-------NNYDLDKALRLCEKHGL   85 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSS-------SSS-CTHHHHHHHTTTS
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccc-------cccCHHHHHHHHHhcch
Confidence            45666667777777777777776654556777788888888887767777766511       11223345666666777


Q ss_pred             HHHHHHHHHHHhh
Q 023952          110 IDQVKKFLDEMSC  122 (275)
Q Consensus       110 ~~~a~~~~~~~~~  122 (275)
                      ++++.-++.++..
T Consensus        86 ~~~a~~Ly~~~~~   98 (143)
T PF00637_consen   86 YEEAVYLYSKLGN   98 (143)
T ss_dssp             HHHHHHHHHCCTT
T ss_pred             HHHHHHHHHHccc
Confidence            7766666665443

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.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=93.11  E-value=0.15  Score=25.27  Aligned_cols=24  Identities=25%  Similarity=0.205  Sum_probs=17.7

Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHH
Q 023952          234 DFDISACNRLLGAFSDVGLTEKAN  257 (275)
Q Consensus       234 ~~~~~~~~~li~~~~~~g~~~~a~  257 (275)
                      +.+...|+.+...|...|++++|+
T Consensus        10 P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen   10 PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            456777777777777888777775

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=93.02  E-value=4.6  Score=35.08  Aligned_cols=152  Identities=7%  Similarity=-0.046  Sum_probs=63.7

Q ss_pred             hhCCHHHHHHHHHHHhh-------cCCCCCCHHHHHHHHHHHHhcC-----chHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952          106 ATLNIDQVKKFLDEMSC-------DSGGSDDWVKYVNLVNIYITAS-----HLVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                      ...+.+.|..+|+.+.+       . +   .......+..+|.+..     +.+.|.. ++...-..+. |+....-..+
T Consensus       261 ~~~d~e~a~~~l~~aa~~~~~~a~~-~---~~~a~~~lg~~Y~~g~~~~~~d~~~A~~-~~~~aA~~g~-~~a~~~lg~~  334 (552)
T KOG1550|consen  261 VTQDLESAIEYLKLAAESFKKAATK-G---LPPAQYGLGRLYLQGLGVEKIDYEKALK-LYTKAAELGN-PDAQYLLGVL  334 (552)
T ss_pred             ccccHHHHHHHHHHHHHHHHHHHhh-c---CCccccHHHHHHhcCCCCccccHHHHHH-HHHHHHhcCC-chHHHHHHHH
Confidence            44456666666666544       2 2   2223445555555532     3444555 4444444332 2332221111


Q ss_pred             HHHHc-cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHH--HhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhc
Q 023952          174 ILYAG-LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY--LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV  250 (275)
Q Consensus       174 ~~~~~-~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  250 (275)
                      ..... ..+...|.++|....+.|.. ....+..++...  ....+.+.|..++.+..+.+  .|....-...+..+.. 
T Consensus       335 ~~~g~~~~d~~~A~~yy~~Aa~~G~~-~A~~~la~~y~~G~gv~r~~~~A~~~~k~aA~~g--~~~A~~~~~~~~~~g~-  410 (552)
T KOG1550|consen  335 YETGTKERDYRRAFEYYSLAAKAGHI-LAIYRLALCYELGLGVERNLELAFAYYKKAAEKG--NPSAAYLLGAFYEYGV-  410 (552)
T ss_pred             HHcCCccccHHHHHHHHHHHHHcCCh-HHHHHHHHHHHhCCCcCCCHHHHHHHHHHHHHcc--ChhhHHHHHHHHHHcc-
Confidence            11111 13455666666666555522 111111111111  12335566666666666554  1222111222233333 


Q ss_pred             CChHHHHHHHHHHHhcC
Q 023952          251 GLTEKANEFHMLLLQKN  267 (275)
Q Consensus       251 g~~~~a~~~~~~m~~~~  267 (275)
                      ++++.+...+..+.+.|
T Consensus       411 ~~~~~~~~~~~~~a~~g  427 (552)
T KOG1550|consen  411 GRYDTALALYLYLAELG  427 (552)
T ss_pred             ccccHHHHHHHHHHHhh
Confidence            55555555555444433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=92.96  E-value=3.2  Score=31.58  Aligned_cols=183  Identities=12%  Similarity=0.082  Sum_probs=110.7

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      ...|+. +..-.+.|++++|.+.|+.+..+.  -+-...+--.++.++-+.+++++|+..+++....-..-...-|..-|
T Consensus        35 ~~LY~~-g~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~Yl  113 (254)
T COG4105          35 SELYNE-GLTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYL  113 (254)
T ss_pred             HHHHHH-HHHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHH
Confidence            334444 444558899999999999998653  12234566677788899999999999999998864333334455556


Q ss_pred             HHHHhh-------CCHH---HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhH-H
Q 023952          102 SSCAAT-------LNID---QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY-D  170 (275)
Q Consensus       102 ~~~~~~-------~~~~---~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-~  170 (275)
                      .+++.-       .|..   +|..-|++++..  .|.+..+              .+|.. .+..+....     .-+ -
T Consensus       114 kgLs~~~~i~~~~rDq~~~~~A~~~f~~~i~r--yPnS~Ya--------------~dA~~-~i~~~~d~L-----A~~Em  171 (254)
T COG4105         114 KGLSYFFQIDDVTRDQSAARAAFAAFKELVQR--YPNSRYA--------------PDAKA-RIVKLNDAL-----AGHEM  171 (254)
T ss_pred             HHHHHhccCCccccCHHHHHHHHHHHHHHHHH--CCCCcch--------------hhHHH-HHHHHHHHH-----HHHHH
Confidence            655532       2222   333344444442  2222221              12222 111111110     001 1


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhccCCCCh---hhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRMTKQKMTS---RNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~---~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      .+..-|.+.|.+..|..-++.|.+. ..-+.   ..+-.+..+|...|-.++|...-.-+..+
T Consensus       172 ~IaryY~kr~~~~AA~nR~~~v~e~-y~~t~~~~eaL~~l~eaY~~lgl~~~a~~~~~vl~~N  233 (254)
T COG4105         172 AIARYYLKRGAYVAAINRFEEVLEN-YPDTSAVREALARLEEAYYALGLTDEAKKTAKVLGAN  233 (254)
T ss_pred             HHHHHHHHhcChHHHHHHHHHHHhc-cccccchHHHHHHHHHHHHHhCChHHHHHHHHHHHhc
Confidence            3456788899999999999998876 22222   33556788899999998888766655543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.86  E-value=0.32  Score=24.99  Aligned_cols=27  Identities=26%  Similarity=0.282  Sum_probs=15.3

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVK   51 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~   51 (275)
                      .+++.|...|...|++++|..++++..
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            355566666666666666666665543

>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=92.85  E-value=1.8  Score=31.60  Aligned_cols=81  Identities=9%  Similarity=-0.027  Sum_probs=59.4

Q ss_pred             HhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC--CCCCCHHHHHHHHHHHHhcCc
Q 023952           68 LYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDS--GGSDDWVKYVNLVNIYITASH  145 (275)
Q Consensus        68 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~  145 (275)
                      ...+.|+ +.|.+.|-++...+.--++.....|...|. ..+.+++..++-+..+..  +-.+|+..+.+|+..|.+.|+
T Consensus       116 ~Wsr~~d-~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~  193 (203)
T PF11207_consen  116 HWSRFGD-QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKN  193 (203)
T ss_pred             HhhccCc-HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcc
Confidence            3455565 668888888887765545555555555454 678899999988866531  336789999999999999999


Q ss_pred             hHHHH
Q 023952          146 LVNAE  150 (275)
Q Consensus       146 ~~~a~  150 (275)
                      ++.|.
T Consensus       194 ~e~AY  198 (203)
T PF11207_consen  194 YEQAY  198 (203)
T ss_pred             hhhhh
Confidence            99885

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.76  E-value=0.37  Score=23.52  Aligned_cols=29  Identities=14%  Similarity=0.190  Sum_probs=25.4

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      .+|..+...|...|++++|+..|++.++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~   30 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHH
Confidence            57888999999999999999999999884

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 ....

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.58  E-value=0.31  Score=23.69  Aligned_cols=21  Identities=33%  Similarity=0.249  Sum_probs=8.0

Q ss_pred             HHHHHHHcCCCHHHHHHHHHH
Q 023952           29 ALLHLYAGAKWTEKAEELFER   49 (275)
Q Consensus        29 ~li~~~~~~g~~~~a~~~~~~   49 (275)
                      .+...+...|++++|++.|++
T Consensus         6 ~lg~~~~~~~~~~~A~~~~~~   26 (34)
T PF07719_consen    6 YLGQAYYQLGNYEEAIEYFEK   26 (34)
T ss_dssp             HHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHH
Confidence            333333444444444444433

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 ....

>PF13929 mRNA_stabil: mRNA stabilisation

Probab=92.25  E-value=4.4  Score=31.50  Aligned_cols=119  Identities=10%  Similarity=-0.018  Sum_probs=76.9

Q ss_pred             cCchHHHHHHHHHHHHH-ccCCcchhhHHHHHHHHHc-cC-CHHHHHHHHHHHH-hccCCCChhhHHHHHHHHHhcCCHH
Q 023952          143 ASHLVNAESSTLVEAEK-SITQRQWITYDFLIILYAG-LG-NKDKIDQIWKSLR-MTKQKMTSRNYICILSSYLMLGHLK  218 (275)
Q Consensus       143 ~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~-~~-~~~~a~~~~~~m~-~~~~~p~~~~~~~li~~~~~~g~~~  218 (275)
                      +..+.+|+. +++.... ...-.|..+...++..... .+ ....-.++.+-+. ..+..++..+...++..+++.+++.
T Consensus       141 N~~Vv~aL~-L~~~~~~~~~Ii~d~evislLL~sMv~~~~~~l~alYEvV~~l~~t~~~~l~~~vi~~Il~~L~~~~dW~  219 (292)
T PF13929_consen  141 NKIVVEALK-LYDGLNPDESIIFDEEVISLLLKSMVIDENTKLNALYEVVDFLVSTFSKSLTRNVIISILEILAESRDWN  219 (292)
T ss_pred             hHHHHHHHH-HhhccCcccceeeChHHHHHHHHHHHhccccchhhHHHHHHHHHhccccCCChhHHHHHHHHHHhcccHH
Confidence            334445555 4442111 1122355666666665554 22 2222223333332 3345778888899999999999999


Q ss_pred             HHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHH
Q 023952          219 EVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       219 ~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~  262 (275)
                      .-.+++........+..|...|..+|......|+..-..++.++
T Consensus       220 kl~~fW~~~~~~~~~~~D~rpW~~FI~li~~sgD~~~~~kiI~~  263 (292)
T PF13929_consen  220 KLFQFWEQCIPNSVPGNDPRPWAEFIKLIVESGDQEVMRKIIDD  263 (292)
T ss_pred             HHHHHHHHhcccCCCCCCCchHHHHHHHHHHcCCHHHHHHHhhC
Confidence            99999998877644567889999999999999998766665543

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=92.19  E-value=0.47  Score=24.30  Aligned_cols=28  Identities=36%  Similarity=0.311  Sum_probs=19.7

Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          238 SACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       238 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      .+++.|...|...|++++|..++++...
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            4567777777788888888877777643

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=92.09  E-value=0.5  Score=22.91  Aligned_cols=29  Identities=14%  Similarity=0.127  Sum_probs=24.5

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      ..|..+...+.+.|++++|++.|++..+.
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l   30 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALEL   30 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHH
Confidence            46778888999999999999999999874

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 ....

>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=91.91  E-value=3.1  Score=30.48  Aligned_cols=79  Identities=10%  Similarity=-0.019  Sum_probs=60.6

Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH---ccCCcchhhHHHHHHHHHccC
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK---SITQRQWITYDFLIILYAGLG  180 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~~~~~~l~~~~~~~~  180 (275)
                      ..+.|+ +.|...|-++... +.-.++....+|...|. ..+.+++.. ++.....   .+..+|+..+..|+..|.+.|
T Consensus       117 Wsr~~d-~~A~~~fL~~E~~-~~l~t~elq~aLAtyY~-krD~~Kt~~-ll~~~L~l~~~~~~~n~eil~sLas~~~~~~  192 (203)
T PF11207_consen  117 WSRFGD-QEALRRFLQLEGT-PELETAELQYALATYYT-KRDPEKTIQ-LLLRALELSNPDDNFNPEILKSLASIYQKLK  192 (203)
T ss_pred             hhccCc-HHHHHHHHHHcCC-CCCCCHHHHHHHHHHHH-ccCHHHHHH-HHHHHHHhcCCCCCCCHHHHHHHHHHHHHhc
Confidence            566676 6788888888886 55577777778877776 567888999 6665554   233578899999999999999


Q ss_pred             CHHHHH
Q 023952          181 NKDKID  186 (275)
Q Consensus       181 ~~~~a~  186 (275)
                      +++.|.
T Consensus       193 ~~e~AY  198 (203)
T PF11207_consen  193 NYEQAY  198 (203)
T ss_pred             chhhhh
Confidence            999885

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=91.88  E-value=5.7  Score=31.99  Aligned_cols=65  Identities=12%  Similarity=0.008  Sum_probs=40.2

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--CCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          201 SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD--FDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..++..+...+.+.|.++.|...+..+.......  ......-.-+..+...|+.++|...+++..+
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            4556677777777788877777777776532100  0222233345666677777777777777665

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=91.69  E-value=5.3  Score=31.51  Aligned_cols=127  Identities=11%  Similarity=0.109  Sum_probs=76.9

Q ss_pred             HHHHHHcCCCHHHHHHHHHHH----------HhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC---CCCCchhh
Q 023952           30 LLHLYAGAKWTEKAEELFERV----------KQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK---NVVPDIFT   96 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m----------~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~p~~~~   96 (275)
                      |.++|+....++.-....-.+          ...|.+....+...++..-....+++.++.++-.++..   -..|+...
T Consensus        25 LsS~fs~e~~w~~r~~~~~kla~~g~~~~kkF~~g~~~s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~  104 (418)
T KOG4570|consen   25 LSSAFSDEHKWEAREKEHYKLADLGSLMDKKFERGLPVSSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI  104 (418)
T ss_pred             hHHHhhhhhhhhHHHHHHHHHhcccccchhhhhcCCCcceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH
Confidence            555666666665432222122          12344555666667777666677888888877777653   12333322


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      + ++++.+.+ -++++++.++..=++. |+-||..+++.+++.+.+.+++.+|.+++...|.+
T Consensus       105 ~-~~irlllk-y~pq~~i~~l~npIqY-GiF~dqf~~c~l~D~flk~~n~~~aa~vvt~~~~q  164 (418)
T KOG4570|consen  105 H-TWIRLLLK-YDPQKAIYTLVNPIQY-GIFPDQFTFCLLMDSFLKKENYKDAASVVTEVMMQ  164 (418)
T ss_pred             H-HHHHHHHc-cChHHHHHHHhCcchh-ccccchhhHHHHHHHHHhcccHHHHHHHHHHHHHH
Confidence            2 23333333 3566777777776665 78888888888888888888888888833333333

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=91.22  E-value=3.7  Score=28.47  Aligned_cols=52  Identities=12%  Similarity=0.207  Sum_probs=32.1

Q ss_pred             hccCCHHHHHHHHHHHhhCCCCCchhhHHHH-HHHHHhhCCHHHHHHHHHHHhhc
Q 023952           70 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLW-ISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        70 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l-l~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      ...++.+++..+++.|.-  +.|+..-...+ .-.+...|++++|..+|+++...
T Consensus        21 L~~~d~~D~e~lLdALrv--LrP~~~e~d~~dg~l~i~rg~w~eA~rvlr~l~~~   73 (153)
T TIGR02561        21 LRSADPYDAQAMLDALRV--LRPNLKELDMFDGWLLIARGNYDEAARILRELLSS   73 (153)
T ss_pred             HhcCCHHHHHHHHHHHHH--hCCCccccchhHHHHHHHcCCHHHHHHHHHhhhcc
Confidence            346777777777777765  34443222211 22245777888888888887765

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=90.97  E-value=2.4  Score=27.07  Aligned_cols=77  Identities=9%  Similarity=0.078  Sum_probs=39.3

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHH
Q 023952           40 TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDE  119 (275)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~  119 (275)
                      .++|..+-+-+...+-. ...+--+-+..+...|++++|..+.+.+    ..||...|..|-.  .+.|..+....-+..
T Consensus        21 HqEA~tIAdwL~~~~~~-~E~v~lIRlsSLmNrG~Yq~Al~l~~~~----~~pdlepw~ALce--~rlGl~s~l~~rl~r   93 (115)
T TIGR02508        21 HQEANTIADWLHLKGES-EEAVQLIRLSSLMNRGDYQSALQLGNKL----CYPDLEPWLALCE--WRLGLGSALESRLNR   93 (115)
T ss_pred             HHHHHHHHHHHhcCCch-HHHHHHHHHHHHHccchHHHHHHhcCCC----CCchHHHHHHHHH--HhhccHHHHHHHHHH
Confidence            45555555555444311 1111122223455667777776665544    3566666655533  355555555555555


Q ss_pred             Hhhc
Q 023952          120 MSCD  123 (275)
Q Consensus       120 ~~~~  123 (275)
                      +..+
T Consensus        94 la~s   97 (115)
T TIGR02508        94 LAAS   97 (115)
T ss_pred             HHhC
Confidence            5554

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.

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.18  E-value=11  Score=32.09  Aligned_cols=164  Identities=11%  Similarity=0.031  Sum_probs=87.7

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      |....-+++..++++....-+..+-.+|...|  .+-..|..++.+|..+ .-+.-..+++++.+..+. | ....--+.
T Consensus        65 ~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~dfn-D-vv~~ReLa  139 (711)
T COG1747          65 DDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEYDFN-D-VVIGRELA  139 (711)
T ss_pred             cchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHhcch-h-HHHHHHHH
Confidence            44445566666766666666666767776655  3566677777777766 455666677766665443 3 33333333


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCC-----CHHHHHHHHHHHHhcCchHHHHHHHHHHHHH-ccCCcchhhHHHHHHHH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSD-----DWVKYVNLVNIYITASHLVNAESSTLVEAEK-SITQRQWITYDFLIILY  176 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~~  176 (275)
                      -+...++.+.+..+|.++..+ -++.     -..+|..+...-  ..+.+.... +...+.. .+...-.+.+.-+-.-|
T Consensus       140 ~~yEkik~sk~a~~f~Ka~yr-fI~~~q~~~i~evWeKL~~~i--~dD~D~fl~-l~~kiqt~lg~~~~~Vl~qdv~~~Y  215 (711)
T COG1747         140 DKYEKIKKSKAAEFFGKALYR-FIPRRQNAAIKEVWEKLPELI--GDDKDFFLR-LQKKIQTKLGEGRGSVLMQDVYKKY  215 (711)
T ss_pred             HHHHHhchhhHHHHHHHHHHH-hcchhhhhhHHHHHHHHHHhc--cccHHHHHH-HHHHHHHhhccchHHHHHHHHHHHh
Confidence            333346666666666666553 1110     112333333211  234444444 3333332 22233334444454556


Q ss_pred             HccCCHHHHHHHHHHHHhc
Q 023952          177 AGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~~  195 (275)
                      ....++.+|++++..+.+.
T Consensus       216 s~~eN~~eai~Ilk~il~~  234 (711)
T COG1747         216 SENENWTEAIRILKHILEH  234 (711)
T ss_pred             ccccCHHHHHHHHHHHhhh
Confidence            6677777777777766554

>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=90.08  E-value=0.5  Score=21.60  Aligned_cols=22  Identities=23%  Similarity=0.170  Sum_probs=12.6

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHH
Q 023952           27 YTALLHLYAGAKWTEKAEELFE   48 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~   48 (275)
                      ...+...+...|++++|..+++
T Consensus         4 ~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    4 RLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHh
Confidence            3445556666666666665554

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

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=90.01  E-value=0.7  Score=24.50  Aligned_cols=24  Identities=25%  Similarity=0.345  Sum_probs=17.4

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhc
Q 023952          243 LLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       243 li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      |..+|...|+.+.|+.++++....
T Consensus         5 LA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         5 LARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHcCChHHHHHHHHHHHHc
Confidence            566777777777777777777654

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=89.65  E-value=7.7  Score=30.08  Aligned_cols=88  Identities=8%  Similarity=0.000  Sum_probs=59.6

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHH-----
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC-----  104 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~-----  104 (275)
                      =|++++..+++.++....-+-.+.--..-+.+...-|-.|.+.++...+.++-....+..-.-+...|..++..|     
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~pEklPpkIleLCILLysKv~Ep~amlev~~~WL~~p~Nq~lp~y~~vaELyLl~VL  168 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQVPEKLPPKILELCILLYSKVQEPAAMLEVASAWLQDPSNQSLPEYGTVAELYLLHVL  168 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcCcccCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHhCcccCCchhhHHHHHHHHHHHH
Confidence            378999999999988876655443222234455556667789999998888888887642222334466665554     


Q ss_pred             HhhCCHHHHHHHH
Q 023952          105 AATLNIDQVKKFL  117 (275)
Q Consensus       105 ~~~~~~~~a~~~~  117 (275)
                      .-.|.+++|+++.
T Consensus       169 lPLG~~~eAeelv  181 (309)
T PF07163_consen  169 LPLGHFSEAEELV  181 (309)
T ss_pred             hccccHHHHHHHH
Confidence            4468888888876

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

>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=89.56  E-value=1.2  Score=21.52  Aligned_cols=27  Identities=30%  Similarity=0.342  Sum_probs=14.9

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHh
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQ   52 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~   52 (275)
                      +|..+...|.+.|++++|...|++..+
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            445555555555666666555555443

...

>KOG2063 consensus Vacuolar assembly/sorting proteins VPS39/VAM6/VPS3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=89.53  E-value=17  Score=33.40  Aligned_cols=116  Identities=16%  Similarity=0.229  Sum_probs=70.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCC--C-CCCHHHHHHHHHHhhccCCH--HHHHHHHHHHhhCCCCCchhhHHH-
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSN--L-SFNALMYNEMMTLYMSVGQV--EKVALVVEEIKRKNVVPDIFTYNL-   99 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~-~~~~~~~~~li~~~~~~g~~--~~a~~~~~~m~~~~~~p~~~~~~~-   99 (275)
                      -|..|+..|...|..++|+++|.+.....  . .--...+.-++..+-+.+..  +-++++-+...+....-....++. 
T Consensus       506 ~y~~Li~LY~~kg~h~~AL~ll~~l~d~~~~~d~~~~~~~e~ii~YL~~l~~~~~~Li~~y~~wvl~~~p~~gi~Ift~~  585 (877)
T KOG2063|consen  506 KYRELIELYATKGMHEKALQLLRDLVDEDSDTDSFQLDGLEKIIEYLKKLGAENLDLILEYADWVLNKNPEAGIQIFTSE  585 (877)
T ss_pred             cHHHHHHHHHhccchHHHHHHHHHHhccccccccchhhhHHHHHHHHHHhcccchhHHHHHhhhhhccCchhheeeeecc
Confidence            48889999999999999999999887632  0 01112233355554444443  555555444444322211122222 


Q ss_pred             -----------HHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 023952          100 -----------WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  142 (275)
Q Consensus       100 -----------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  142 (275)
                                 .+-.|......+.+..+++.+... .-.++....+.++..|+.
T Consensus       586 ~~~~~~sis~~~Vl~~l~~~~~~l~I~YLE~li~~-~~~~~~~lht~ll~ly~e  638 (877)
T KOG2063|consen  586 DKQEAESISRDDVLNYLKSKEPKLLIPYLEHLISD-NRLTSTLLHTVLLKLYLE  638 (877)
T ss_pred             ChhhhccCCHHHHHHHhhhhCcchhHHHHHHHhHh-ccccchHHHHHHHHHHHH
Confidence                       233356667778888888888775 445666777778887775

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=89.06  E-value=12  Score=31.21  Aligned_cols=68  Identities=12%  Similarity=-0.019  Sum_probs=42.1

Q ss_pred             hhHHHHHHH--HHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHH
Q 023952          167 ITYDFLIIL--YAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR  242 (275)
Q Consensus       167 ~~~~~l~~~--~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (275)
                      ..-|.|.++  +...|++.++.-.-.-+.+  +.|++.+|..+.-+.....++++|..++..+      +|+..+++.
T Consensus       461 eian~LaDAEyLysqgey~kc~~ys~WL~~--iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~L------P~n~~~~ds  530 (549)
T PF07079_consen  461 EIANFLADAEYLYSQGEYHKCYLYSSWLTK--IAPSPQAYRLLGLCLMENKRYQEAWEYLQKL------PPNERMRDS  530 (549)
T ss_pred             HHHHHHHHHHHHHhcccHHHHHHHHHHHHH--hCCcHHHHHHHHHHHHHHhhHHHHHHHHHhC------CCchhhHHH
Confidence            344444443  3456777777655444443  5777777777777777777777777777763      455555543

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=89.02  E-value=7.8  Score=28.93  Aligned_cols=63  Identities=6%  Similarity=-0.071  Sum_probs=33.1

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      +..||-|.--+...|+++.|.+.|+...+.+..-+-...| -.-++.-.|++..|.+=+.+.-+
T Consensus        99 ~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lN-Rgi~~YY~gR~~LAq~d~~~fYQ  161 (297)
T COG4785          99 PEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLN-RGIALYYGGRYKLAQDDLLAFYQ  161 (297)
T ss_pred             HHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhc-cceeeeecCchHhhHHHHHHHHh
Confidence            4566666666666777777777777666643321111111 11122334666666665555444

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.83  E-value=9.3  Score=29.54  Aligned_cols=154  Identities=12%  Similarity=0.166  Sum_probs=68.8

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHH---HHHHHHHHhhccCCHHHHHHHHHHHhhC---CC--CCchhhHHHHHHHHHhhCC
Q 023952           38 KWTEKAEELFERVKQSNLSFNAL---MYNEMMTLYMSVGQVEKVALVVEEIKRK---NV--VPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        38 g~~~~a~~~~~~m~~~~~~~~~~---~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~--~p~~~~~~~ll~~~~~~~~  109 (275)
                      ..+++|+.-|+...+.......+   ....+|..+.+.|++++....|.+|..-   .+  .-+....+++++..+.+.+
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            45666666666655432111122   2344566666666666666666665421   01  1122344555554444444


Q ss_pred             HHHHHHHHHHHhh----cCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc-----------hhhHHHHHH
Q 023952          110 IDQVKKFLDEMSC----DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ-----------WITYDFLII  174 (275)
Q Consensus       110 ~~~a~~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----------~~~~~~l~~  174 (275)
                      .+....+|+.-..    ..+-..=..|-+.|-..|...|.+.+..+ +++++..+....+           ...|..-|+
T Consensus       121 m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~K-IlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  121 MDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQK-ILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHH-HHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            4444433332111    10000001122244455555555555555 5555544332211           134444455


Q ss_pred             HHHccCCHHHHHHHHHHH
Q 023952          175 LYAGLGNKDKIDQIWKSL  192 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m  192 (275)
                      .|....+-.+...++++.
T Consensus       200 mYT~qKnNKkLK~lYeqa  217 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQA  217 (440)
T ss_pred             hhhhhcccHHHHHHHHHH
Confidence            555555555555555543

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.82  E-value=4.3  Score=30.21  Aligned_cols=75  Identities=12%  Similarity=-0.007  Sum_probs=43.0

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC--CCCCchhhHHHHHHH
Q 023952           28 TALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK--NVVPDIFTYNLWISS  103 (275)
Q Consensus        28 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--~~~p~~~~~~~ll~~  103 (275)
                      +..++.+.+.+.+.+|+...++-.+.. |.|..+-..++..++-.|++++|..-++-.-+.  ...+-..+|..+|.+
T Consensus         5 ~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           5 RDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            344556666677777777666655543 345555666667777777777776655554432  122334455555543

>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=88.57  E-value=1.7  Score=20.94  Aligned_cols=27  Identities=26%  Similarity=0.254  Sum_probs=19.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          239 ACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       239 ~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +|..+...|...|++++|...|++..+
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            456667777777777777777777654

...

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=88.23  E-value=4.3  Score=33.99  Aligned_cols=108  Identities=9%  Similarity=0.067  Sum_probs=64.6

Q ss_pred             HHHhhccccCC--CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           11 ERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        11 ~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      .++|+.+....  |+.....+  ..+...|+++.+.+.+...... +.....+..++++...+.|++++|...-.-|...
T Consensus       310 ~~~~~~lr~~~~~p~~i~l~~--~i~~~lg~ye~~~~~~s~~~~~-~~s~~~~~~~~~r~~~~l~r~~~a~s~a~~~l~~  386 (831)
T PRK15180        310 QQLFAALRNQQQDPVLIQLRS--VIFSHLGYYEQAYQDISDVEKI-IGTTDSTLRCRLRSLHGLARWREALSTAEMMLSN  386 (831)
T ss_pred             HHHHHHHHhCCCCchhhHHHH--HHHHHhhhHHHHHHHhhchhhh-hcCCchHHHHHHHhhhchhhHHHHHHHHHHHhcc
Confidence            34454444432  33333333  3344557777777777654432 2344567777788888888888888888777776


Q ss_pred             CCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           89 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        89 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      .++ |.........+.-..|-++++...|+++..
T Consensus       387 eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~  419 (831)
T PRK15180        387 EIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLL  419 (831)
T ss_pred             ccC-ChhheeeecccHHHHhHHHHHHHHHHHHhc
Confidence            665 444444444444455667777777777654

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=88.21  E-value=5.5  Score=29.68  Aligned_cols=78  Identities=5%  Similarity=0.011  Sum_probs=54.8

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc-CCCCCCHHHHHHHHHH
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD-SGGSDDWVKYVNLVNI  139 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~  139 (275)
                      |.+..++.+.+.+.+++++...++=++.+.. |..+-..++..+|-.|++++|..-++-.-.- ....+...+|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkakPt-da~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAKPT-DAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcCCc-cccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            3455677788889999999998887776432 5556667888899999999998777654431 1234445566666654

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=88.08  E-value=3.9  Score=27.41  Aligned_cols=59  Identities=7%  Similarity=0.020  Sum_probs=43.6

Q ss_pred             HHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 023952          184 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  244 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  244 (275)
                      +..+-++.+..-.+.|++.....-+.+|.+.+++..|.++|+-++.+.+.+  -..|..++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K~g~~--k~~Y~y~v  125 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDKCGAQ--KQVYPYYV  125 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHhcccH--HHHHHHHH
Confidence            445556666777788999999999999999999999999999888765332  22454444

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=87.65  E-value=25  Score=33.17  Aligned_cols=116  Identities=10%  Similarity=-0.003  Sum_probs=65.6

Q ss_pred             CCchhhHHHHHHHH----HhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcch
Q 023952           91 VPDIFTYNLWISSC----AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQW  166 (275)
Q Consensus        91 ~p~~~~~~~ll~~~----~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  166 (275)
                      +|+...+.....+|    .....+++|--.|+..-+.          ..-+.+|..+|++++|+. +-.++..   ..+.
T Consensus       932 ~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gkl----------ekAl~a~~~~~dWr~~l~-~a~ql~~---~~de  997 (1265)
T KOG1920|consen  932 KPDSEKQKVIYEAYADHLREELMSDEAALMYERCGKL----------EKALKAYKECGDWREALS-LAAQLSE---GKDE  997 (1265)
T ss_pred             ccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhccH----------HHHHHHHHHhccHHHHHH-HHHhhcC---CHHH
Confidence            45555544444333    3344555555555443321          133456667777777766 4433322   1122


Q ss_pred             --hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          167 --ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       167 --~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                        .+-..|+..+...+++-+|-++..+-..   .|     .-.+..|++...+++|.++-....
T Consensus       998 ~~~~a~~L~s~L~e~~kh~eAa~il~e~~s---d~-----~~av~ll~ka~~~~eAlrva~~~~ 1053 (1265)
T KOG1920|consen  998 LVILAEELVSRLVEQRKHYEAAKILLEYLS---DP-----EEAVALLCKAKEWEEALRVASKAK 1053 (1265)
T ss_pred             HHHHHHHHHHHHHHcccchhHHHHHHHHhc---CH-----HHHHHHHhhHhHHHHHHHHHHhcc
Confidence              2225667777788888888887766543   22     235566777788899988777643

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=87.49  E-value=8.3  Score=33.34  Aligned_cols=100  Identities=9%  Similarity=0.073  Sum_probs=71.3

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHH
Q 023952           33 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  112 (275)
                      ...+.|+++.|.++..+..      +..-|..|..+..+.|++..|.+.|.....         |..|+-.+...|+.+.
T Consensus       646 lal~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~  710 (794)
T KOG0276|consen  646 LALKLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEG  710 (794)
T ss_pred             hhhhcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhH
Confidence            3457789999988876542      468899999999999999999998876543         4566667777788776


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHH
Q 023952          113 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  155 (275)
Q Consensus       113 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  155 (275)
                      ...+-....+. | ..|...     .+|...|+++++.+ ++.
T Consensus       711 l~~la~~~~~~-g-~~N~AF-----~~~~l~g~~~~C~~-lLi  745 (794)
T KOG0276|consen  711 LAVLASLAKKQ-G-KNNLAF-----LAYFLSGDYEECLE-LLI  745 (794)
T ss_pred             HHHHHHHHHhh-c-ccchHH-----HHHHHcCCHHHHHH-HHH
Confidence            66665556554 3 344332     34567899999888 543

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=87.08  E-value=18  Score=30.71  Aligned_cols=104  Identities=13%  Similarity=0.043  Sum_probs=63.6

Q ss_pred             HHccCCcchhhH-HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHH--hcCCHHHHHHHHHHHHhcCCCC
Q 023952          158 EKSITQRQWITY-DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL--MLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       158 ~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~--~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      ......|+..++ +.++.-+-..+-.++|..++..+... .+|+...|..+|..=.  ..-++..+..+++.+....+  
T Consensus       451 ~~s~~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~l-pp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg--  527 (568)
T KOG2396|consen  451 LLSVIGADSVTLKSKYLDWAYESGGYKKARKVYKSLQEL-PPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFG--  527 (568)
T ss_pred             HHHhcCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhC-CCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhC--
Confidence            334444555554 45566666777778888888777665 2555555655554322  22236677777777777654  


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      .|+..|.-.+.-=...|..+.+-.++.+..
T Consensus       528 ~d~~lw~~y~~~e~~~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  528 ADSDLWMDYMKEELPLGRPENCGQIYWRAM  557 (568)
T ss_pred             CChHHHHHHHHhhccCCCcccccHHHHHHH
Confidence            456666666655557777777776665554

>PHA02875 ankyrin repeat protein; Provisional

Probab=86.96  E-value=11  Score=31.20  Aligned_cols=12  Identities=8%  Similarity=0.252  Sum_probs=5.1

Q ss_pred             HhhCCHHHHHHH
Q 023952          105 AATLNIDQVKKF  116 (275)
Q Consensus       105 ~~~~~~~~a~~~  116 (275)
                      +..|+.+.+..+
T Consensus        76 ~~~g~~~~v~~L   87 (413)
T PHA02875         76 VEEGDVKAVEEL   87 (413)
T ss_pred             HHCCCHHHHHHH
Confidence            344444443333

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=86.76  E-value=1.7  Score=23.03  Aligned_cols=19  Identities=11%  Similarity=0.345  Sum_probs=7.7

Q ss_pred             HHHccCCHHHHHHHHHHHH
Q 023952          175 LYAGLGNKDKIDQIWKSLR  193 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m~  193 (275)
                      +|...|+.+.|.++++++.
T Consensus         8 ayie~Gd~e~Ar~lL~evl   26 (44)
T TIGR03504         8 AYIEMGDLEGARELLEEVI   26 (44)
T ss_pred             HHHHcCChHHHHHHHHHHH
Confidence            3344444444444444333

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.

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=86.69  E-value=10  Score=27.70  Aligned_cols=22  Identities=18%  Similarity=0.152  Sum_probs=10.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 023952          209 SSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +.+...|+-++|..-|......
T Consensus       167 Dill~kg~k~~Ar~ay~kAl~~  188 (207)
T COG2976         167 DILLAKGDKQEARAAYEKALES  188 (207)
T ss_pred             hHHHHcCchHHHHHHHHHHHHc
Confidence            3444445555555555444443

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=86.64  E-value=12  Score=28.34  Aligned_cols=16  Identities=19%  Similarity=0.227  Sum_probs=7.7

Q ss_pred             cCCHHHHHHHHHHHHh
Q 023952          179 LGNKDKIDQIWKSLRM  194 (275)
Q Consensus       179 ~~~~~~a~~~~~~m~~  194 (275)
                      .+++.+|+++|+++..
T Consensus       167 leqY~~Ai~iyeqva~  182 (288)
T KOG1586|consen  167 LEQYSKAIDIYEQVAR  182 (288)
T ss_pred             HHHHHHHHHHHHHHHH
Confidence            4444555555554443

>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=86.28  E-value=3.5  Score=25.00  Aligned_cols=46  Identities=11%  Similarity=0.143  Sum_probs=21.1

Q ss_pred             ccCCHHHHHHHHHHHHhccCCCCh--hhHHHHHHHHHhcCCHHHHHHH
Q 023952          178 GLGNKDKIDQIWKSLRMTKQKMTS--RNYICILSSYLMLGHLKEVGEI  223 (275)
Q Consensus       178 ~~~~~~~a~~~~~~m~~~~~~p~~--~~~~~li~~~~~~g~~~~a~~~  223 (275)
                      ..++.++|+..|+...+.-..|..  .++..++.+|+.-|++.+++++
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            344455555555554443222221  2234455555555555554443

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

>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=86.27  E-value=43  Score=34.37  Aligned_cols=63  Identities=17%  Similarity=0.073  Sum_probs=48.2

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCC
Q 023952          202 RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNC  268 (275)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~  268 (275)
                      .+|....+....+|.++.|...+-...+.+  .|.+  +--..+...+.|+...|+.++++.++.+.
T Consensus      1671 e~wLqsAriaR~aG~~q~A~nall~A~e~r--~~~i--~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1671 ECWLQSARIARLAGHLQRAQNALLNAKESR--LPEI--VLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhhhhcc--cchH--HHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            446666677777999999988888777754  3444  45567888999999999999999886544

>PRK09687 putative lyase; Provisional

Probab=86.25  E-value=14  Score=28.90  Aligned_cols=218  Identities=8%  Similarity=-0.018  Sum_probs=133.8

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCH----HHHHHHHHHHhhCCCCCchhhH
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV----EKVALVVEEIKRKNVVPDIFTY   97 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~----~~a~~~~~~m~~~~~~p~~~~~   97 (275)
                      +|.......+..+...|. +++...+..+...   +|...=...+.++++.|+.    +++...+..+...  .|+..+-
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            677788888888888886 4444555555443   3566666677777777763    5678888777543  3555555


Q ss_pred             HHHHHHHHhhCCH-----HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHH
Q 023952           98 NLWISSCAATLNI-----DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFL  172 (275)
Q Consensus        98 ~~ll~~~~~~~~~-----~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  172 (275)
                      ...+.++...+..     ..+...+.....    .++..+-...+.++++.++. .+.. .+-.+..   .+|...-...
T Consensus       109 ~~A~~aLG~~~~~~~~~~~~a~~~l~~~~~----D~~~~VR~~a~~aLg~~~~~-~ai~-~L~~~L~---d~~~~VR~~A  179 (280)
T PRK09687        109 ASAINATGHRCKKNPLYSPKIVEQSQITAF----DKSTNVRFAVAFALSVINDE-AAIP-LLINLLK---DPNGDVRNWA  179 (280)
T ss_pred             HHHHHHHhcccccccccchHHHHHHHHHhh----CCCHHHHHHHHHHHhccCCH-HHHH-HHHHHhc---CCCHHHHHHH
Confidence            5666666555421     223333333333    35677777888888887764 4555 4444433   2343444444


Q ss_pred             HHHHHccC-CHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcC
Q 023952          173 IILYAGLG-NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG  251 (275)
Q Consensus       173 ~~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  251 (275)
                      +.++...+ +...+...+..+..   .++...-...+.++.+.|+. .|...+-...+.+    +.  ....+.++...|
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            44555443 23456666665553   45666777788888888884 5666666655532    22  345778888888


Q ss_pred             ChHHHHHHHHHHHh
Q 023952          252 LTEKANEFHMLLLQ  265 (275)
Q Consensus       252 ~~~~a~~~~~~m~~  265 (275)
                      .. +|...+..+.+
T Consensus       250 ~~-~a~p~L~~l~~  262 (280)
T PRK09687        250 DK-TLLPVLDTLLY  262 (280)
T ss_pred             CH-hHHHHHHHHHh
Confidence            85 68888888775

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=86.19  E-value=20  Score=30.55  Aligned_cols=183  Identities=12%  Similarity=0.061  Sum_probs=128.5

Q ss_pred             CCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHH
Q 023952           56 SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN  135 (275)
Q Consensus        56 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  135 (275)
                      +.|....-+++..+..+.++.-++.+-.+|..-|  -+...+..++..|... ..++-..+++++.+.  .-.+...-..
T Consensus        63 ~l~d~~l~~~~~~f~~n~k~~~veh~c~~~l~~~--e~kmal~el~q~y~en-~n~~l~~lWer~ve~--dfnDvv~~Re  137 (711)
T COG1747          63 LLDDSCLVTLLTIFGDNHKNQIVEHLCTRVLEYG--ESKMALLELLQCYKEN-GNEQLYSLWERLVEY--DFNDVVIGRE  137 (711)
T ss_pred             cccchHHHHHHHHhccchHHHHHHHHHHHHHHhc--chHHHHHHHHHHHHhc-CchhhHHHHHHHHHh--cchhHHHHHH
Confidence            4566777889999999999999999999999854  4678888999999888 568888999988874  2344444556


Q ss_pred             HHHHHHhcCchHHHHHHHHHHHHHccCCc--c---hhhHHHHHHHHHccCCHHHHHHHHHHHHhc-cCCCChhhHHHHHH
Q 023952          136 LVNIYITASHLVNAESSTLVEAEKSITQR--Q---WITYDFLIILYAGLGNKDKIDQIWKSLRMT-KQKMTSRNYICILS  209 (275)
Q Consensus       136 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~~li~  209 (275)
                      |+..|-+ ++.+.+.. .|..+.....+.  +   -..|..+...  -..+.+....+..++... |...-...+.-+-.
T Consensus       138 La~~yEk-ik~sk~a~-~f~Ka~yrfI~~~q~~~i~evWeKL~~~--i~dD~D~fl~l~~kiqt~lg~~~~~Vl~qdv~~  213 (711)
T COG1747         138 LADKYEK-IKKSKAAE-FFGKALYRFIPRRQNAAIKEVWEKLPEL--IGDDKDFFLRLQKKIQTKLGEGRGSVLMQDVYK  213 (711)
T ss_pred             HHHHHHH-hchhhHHH-HHHHHHHHhcchhhhhhHHHHHHHHHHh--ccccHHHHHHHHHHHHHhhccchHHHHHHHHHH
Confidence            6666655 77788877 777776655431  1   2356665532  245677777777766543 33333445556667


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 023952          210 SYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  249 (275)
Q Consensus       210 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  249 (275)
                      -|....++++|++++..+.+..  ..|+.+-..++..+..
T Consensus       214 ~Ys~~eN~~eai~Ilk~il~~d--~k~~~ar~~~i~~lRd  251 (711)
T COG1747         214 KYSENENWTEAIRILKHILEHD--EKDVWARKEIIENLRD  251 (711)
T ss_pred             HhccccCHHHHHHHHHHHhhhc--chhhhHHHHHHHHHHH
Confidence            8889999999999999888754  4566666666655543

>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=85.86  E-value=7.4  Score=25.25  Aligned_cols=79  Identities=9%  Similarity=-0.003  Sum_probs=37.2

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHH
Q 023952          109 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  188 (275)
Q Consensus       109 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  188 (275)
                      ..++|..+.+.+...++  -...+--.-+..+.+.|++++|+.     .......||...|-+|..  .+.|--+++...
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 CHQEANTIADWLEQEGE--MEEVVALIRLSSLMNRGDYQEALL-----LPQCHCYPDLEPWAALCA--WKLGLASALESR   91 (116)
T ss_dssp             -HHHHHHHHHHHHHTTT--THHHHHHHHHHHHHHTT-HHHHHH-----HHTTS--GGGHHHHHHHH--HHCT-HHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHHhhHHHHHHHH-----hcccCCCccHHHHHHHHH--HhhccHHHHHHH
Confidence            35666666666665411  122222233334556666666644     333445566666655433  455666666666


Q ss_pred             HHHHHhcc
Q 023952          189 WKSLRMTK  196 (275)
Q Consensus       189 ~~~m~~~~  196 (275)
                      +.++...|
T Consensus        92 l~rla~~g   99 (116)
T PF09477_consen   92 LTRLASSG   99 (116)
T ss_dssp             HHHHCT-S
T ss_pred             HHHHHhCC
Confidence            66554443

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.

>PF07163 Pex26: Pex26 protein; InterPro: IPR010797 This family consists of Pex26 and related mammalian proteins

Probab=85.81  E-value=15  Score=28.62  Aligned_cols=88  Identities=10%  Similarity=-0.025  Sum_probs=59.5

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHc-
Q 023952          100 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG-  178 (275)
Q Consensus       100 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  178 (275)
                      =|.+++..+++.++....-+--+. --+....+...-|-.|.+.++...+.+ +-..-.....+.+...|..++..|.. 
T Consensus        89 GIQALAEmnrWreVLsWvlqyYq~-pEklPpkIleLCILLysKv~Ep~amle-v~~~WL~~p~Nq~lp~y~~vaELyLl~  166 (309)
T PF07163_consen   89 GIQALAEMNRWREVLSWVLQYYQV-PEKLPPKILELCILLYSKVQEPAAMLE-VASAWLQDPSNQSLPEYGTVAELYLLH  166 (309)
T ss_pred             hHHHHHHHhhHHHHHHHHHHHhcC-cccCCHHHHHHHHHHHHHhcCHHHHHH-HHHHHHhCcccCCchhhHHHHHHHHHH
Confidence            367788889998888866554432 112233445566777889999988888 55555554444456668877776544 


Q ss_pred             ----cCCHHHHHHHH
Q 023952          179 ----LGNKDKIDQIW  189 (275)
Q Consensus       179 ----~~~~~~a~~~~  189 (275)
                          .|.+++|+++.
T Consensus       167 VLlPLG~~~eAeelv  181 (309)
T PF07163_consen  167 VLLPLGHFSEAEELV  181 (309)
T ss_pred             HHhccccHHHHHHHH
Confidence                68899998877

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

>PF06552 TOM20_plant: Plant specific mitochondrial import receptor subunit TOM20; InterPro: IPR010547 This family consists of several plant specific mitochondrial import receptor subunit TOM20 (translocase of outer membrane 20 kDa subunit) proteins

Probab=85.29  E-value=12  Score=27.03  Aligned_cols=29  Identities=3%  Similarity=0.171  Sum_probs=13.7

Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 023952          110 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI  141 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  141 (275)
                      +++|...|++....   .|+..+|+.-+....
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            34444444444432   466666666555543

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.

>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=85.27  E-value=3.3  Score=25.13  Aligned_cols=52  Identities=15%  Similarity=0.096  Sum_probs=39.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhcCCCCCC-HHHHHHHHHHHHhcCChHHHHHHH
Q 023952          208 LSSYLMLGHLKEVGEIIDQWKQSATSDFD-ISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       208 i~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                      +..| ...+.++|+..|....+....+++ ..+...++.+|+..|++.+++++-
T Consensus        14 lkLY-~~~~~~~Al~~W~~aL~k~~~~~~rf~~lG~l~qA~~e~Gkyr~~L~fA   66 (80)
T PF10579_consen   14 LKLY-HQNETQQALQKWRKALEKITDREDRFRVLGYLIQAHMEWGKYREMLAFA   66 (80)
T ss_pred             HHHh-ccchHHHHHHHHHHHHhhcCChHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            4444 677889999999999886543333 246778899999999999988764

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

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=85.06  E-value=19  Score=31.84  Aligned_cols=29  Identities=10%  Similarity=0.088  Sum_probs=15.3

Q ss_pred             HHHHHHHHHhhc---cCCHHHHHHHHHHHhhC
Q 023952           60 LMYNEMMTLYMS---VGQVEKVALVVEEIKRK   88 (275)
Q Consensus        60 ~~~~~li~~~~~---~g~~~~a~~~~~~m~~~   88 (275)
                      .-+..||..|.+   ..+..+|+++|--+...
T Consensus       325 ln~arLI~~Y~~~F~~td~~~Al~Y~~li~~~  356 (613)
T PF04097_consen  325 LNFARLIGQYTRSFEITDPREALQYLYLICLF  356 (613)
T ss_dssp             --HHHHHHHHHHTTTTT-HHHHHHHHHGGGGS
T ss_pred             cCHHHHHHHHHHHHhccCHHHHHHHHHHHHHc
Confidence            345556666644   34667777777555543

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.

>PF14689 SPOB_a: Sensor_kinase_SpoOB-type, alpha-helical domain; PDB: 1F51_C 2FTK_B 1IXM_B

Probab=85.00  E-value=3.7  Score=23.62  Aligned_cols=45  Identities=22%  Similarity=0.398  Sum_probs=23.5

Q ss_pred             HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      +...++++.++..  .-|-...-.+|.+|...|++++|.+++.++.+
T Consensus         7 ~~~~~~~~~lR~~--RHD~~NhLqvI~gllqlg~~~~a~eYi~~~~~   51 (62)
T PF14689_consen    7 EELEELIDSLRAQ--RHDFLNHLQVIYGLLQLGKYEEAKEYIKELSK   51 (62)
T ss_dssp             HHHHHHHHHHHHH--HHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--hHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3444444444332  22333344566777777777777777666644

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=84.76  E-value=3  Score=19.76  Aligned_cols=18  Identities=28%  Similarity=0.445  Sum_probs=7.3

Q ss_pred             HHccCCHHHHHHHHHHHH
Q 023952          176 YAGLGNKDKIDQIWKSLR  193 (275)
Q Consensus       176 ~~~~~~~~~a~~~~~~m~  193 (275)
                      +.+.|++++|.+.|+++.
T Consensus        10 ~~~~g~~~~A~~~~~~~~   27 (33)
T PF13174_consen   10 YYKLGDYDEAIEYFQRLI   27 (33)
T ss_dssp             HHHHCHHHHHHHHHHHHH
T ss_pred             HHHccCHHHHHHHHHHHH
Confidence            333344444444444433

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=84.68  E-value=13  Score=27.15  Aligned_cols=89  Identities=12%  Similarity=0.032  Sum_probs=66.2

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhccCCCChhhHHH-----HHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Q 023952          173 IILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYIC-----ILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  247 (275)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~-----li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  247 (275)
                      ...+...+++++|..-++....   .|....+..     |.......|.+|+|...++.....+   ........--+.+
T Consensus        96 Ak~~ve~~~~d~A~aqL~~~l~---~t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~---w~~~~~elrGDil  169 (207)
T COG2976          96 AKAEVEANNLDKAEAQLKQALA---QTKDENLKALAALRLARVQLQQKKADAALKTLDTIKEES---WAAIVAELRGDIL  169 (207)
T ss_pred             HHHHHhhccHHHHHHHHHHHHc---cchhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhcccccc---HHHHHHHHhhhHH
Confidence            3467889999999999987654   333344443     4566778999999999999866533   2333344456789


Q ss_pred             HhcCChHHHHHHHHHHHhcC
Q 023952          248 SDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       248 ~~~g~~~~a~~~~~~m~~~~  267 (275)
                      ...|+-++|+.-|.+.++.+
T Consensus       170 l~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         170 LAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHcCchHHHHHHHHHHHHcc
Confidence            99999999999999998876

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.44  E-value=18  Score=28.42  Aligned_cols=70  Identities=11%  Similarity=-0.046  Sum_probs=49.4

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHH-----hccCCCChhh
Q 023952          132 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLR-----MTKQKMTSRN  203 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~-----~~~~~p~~~~  203 (275)
                      +++.....|..+|.+.+|.+ +-+...... +.+...|-.|+..+...|+--.+..-++.+.     +.|+..+...
T Consensus       281 llgkva~~yle~g~~neAi~-l~qr~ltld-pL~e~~nk~lm~~la~~gD~is~~khyerya~vleaelgi~vddsi  355 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQ-LHQRALTLD-PLSEQDNKGLMASLATLGDEISAIKHYERYAEVLEAELGIDVDDSI  355 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHH-HHHHHhhcC-hhhhHHHHHHHHHHHHhccchhhhhHHHHHHHHHHHHhCCCcchhH
Confidence            34456677888999999999 666665544 4577788888899999998777776666653     3466655443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=84.26  E-value=33  Score=31.34  Aligned_cols=201  Identities=14%  Similarity=0.033  Sum_probs=107.0

Q ss_pred             HhhccCCHHHHHHHHHHHhhCCCCCch-------hhHHHHHHH-HHhhCCHHHHHHHHHHHhhc---CCCCCCHHHHHHH
Q 023952           68 LYMSVGQVEKVALVVEEIKRKNVVPDI-------FTYNLWISS-CAATLNIDQVKKFLDEMSCD---SGGSDDWVKYVNL  136 (275)
Q Consensus        68 ~~~~~g~~~~a~~~~~~m~~~~~~p~~-------~~~~~ll~~-~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~l  136 (275)
                      ......++.+|..++.++...-..|+.       ..|+.+-.. ....|+++.+.++-+.....   .-..+....+..+
T Consensus       424 ~~~s~~r~~ea~~li~~l~~~l~~~~~~~~~~l~ae~~aL~a~val~~~~~e~a~~lar~al~~L~~~~~~~r~~~~sv~  503 (894)
T COG2909         424 LLASQHRLAEAETLIARLEHFLKAPMHSRQGDLLAEFQALRAQVALNRGDPEEAEDLARLALVQLPEAAYRSRIVALSVL  503 (894)
T ss_pred             HHHHccChHHHHHHHHHHHHHhCcCcccchhhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhcccccchhhhhhhhhh
Confidence            345678899999998887764222222       234433322 33567889998887776552   1223444556677


Q ss_pred             HHHHHhcCchHHHHHHHHHHHHHccCCcchhhH---HHHHH--HHHccCC--HHHHHHHHHHHHhcc--CCC----Chhh
Q 023952          137 VNIYITASHLVNAESSTLVEAEKSITQRQWITY---DFLII--LYAGLGN--KDKIDQIWKSLRMTK--QKM----TSRN  203 (275)
Q Consensus       137 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~---~~l~~--~~~~~~~--~~~a~~~~~~m~~~~--~~p----~~~~  203 (275)
                      ..+..-.|+++.|.. +.....+....-++..+   ..+..  .+...|+  +++.+..|.......  -.|    -..+
T Consensus       504 ~~a~~~~G~~~~Al~-~~~~a~~~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~  582 (894)
T COG2909         504 GEAAHIRGELTQALA-LMQQAEQMARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRI  582 (894)
T ss_pred             hHHHHHhchHHHHHH-HHHHHHHHHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHH
Confidence            777778899999998 77766654333343333   33322  2444553  223333333332211  111    1233


Q ss_pred             HHHHHHHHHhcC-CHHHHHHHHHHHHhcCCCCCCHHHH--HHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 023952          204 YICILSSYLMLG-HLKEVGEIIDQWKQSATSDFDISAC--NRLLGAFSDVGLTEKANEFHMLLLQKNCAP  270 (275)
Q Consensus       204 ~~~li~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  270 (275)
                      ...+..++.+.. ...++..-+.--... .+.|-....  ..|+......|+.++|...++++......+
T Consensus       583 r~~ll~~~~r~~~~~~ear~~~~~~~~~-~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~  651 (894)
T COG2909         583 RAQLLRAWLRLDLAEAEARLGIEVGSVY-TPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNG  651 (894)
T ss_pred             HHHHHHHHHHHhhhhHHhhhcchhhhhc-ccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCC
Confidence            444555555521 112222222221111 122222222  257788888999999999998887654444

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=84.13  E-value=8.8  Score=24.63  Aligned_cols=78  Identities=9%  Similarity=0.018  Sum_probs=38.4

Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHH
Q 023952          110 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIW  189 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  189 (275)
                      .++|..+-+.+... +. ....+--.-+..+...|++++|.. +.    ...+.||...|-+|..  -+.|--+++..-+
T Consensus        21 HqEA~tIAdwL~~~-~~-~~E~v~lIRlsSLmNrG~Yq~Al~-l~----~~~~~pdlepw~ALce--~rlGl~s~l~~rl   91 (115)
T TIGR02508        21 HQEANTIADWLHLK-GE-SEEAVQLIRLSSLMNRGDYQSALQ-LG----NKLCYPDLEPWLALCE--WRLGLGSALESRL   91 (115)
T ss_pred             HHHHHHHHHHHhcC-Cc-hHHHHHHHHHHHHHccchHHHHHH-hc----CCCCCchHHHHHHHHH--HhhccHHHHHHHH
Confidence            45566665555543 11 122222222334556666666666 22    3335666666655543  3455555555555


Q ss_pred             HHHHhcc
Q 023952          190 KSLRMTK  196 (275)
Q Consensus       190 ~~m~~~~  196 (275)
                      ..|...|
T Consensus        92 ~rla~sg   98 (115)
T TIGR02508        92 NRLAASG   98 (115)
T ss_pred             HHHHhCC
Confidence            5555554

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.

>smart00638 LPD_N Lipoprotein N-terminal Domain

Probab=83.81  E-value=29  Score=30.41  Aligned_cols=200  Identities=12%  Similarity=0.111  Sum_probs=109.3

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      +....+..|++.+... +.+.-.++++++.. .  + ...+..++++....|......-+.+.+....+. +...-..+.
T Consensus       308 ~~~~~f~~lv~~lR~~-~~e~l~~l~~~~~~-~--~-~~~r~~~~Dal~~~GT~~a~~~i~~~i~~~~~~-~~ea~~~~~  381 (574)
T smart00638      308 PAAAKFLRLVRLLRTL-SEEQLEQLWRQLYE-K--K-KKARRIFLDAVAQAGTPPALKFIKQWIKNKKIT-PLEAAQLLA  381 (574)
T ss_pred             chHHHHHHHHHHHHhC-CHHHHHHHHHHHHh-C--C-HHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC-HHHHHHHHH
Confidence            4677788888888666 46888888888765 2  1 678899999999999877666666666665554 333333333


Q ss_pred             HHHH--hhCCHHHHHHHHHHHhhcCCCCCC-------HHHHHHHHHHHHhcCch------HHHHHHHHHH-HHHccCCcc
Q 023952          102 SSCA--ATLNIDQVKKFLDEMSCDSGGSDD-------WVKYVNLVNIYITASHL------VNAESSTLVE-AEKSITQRQ  165 (275)
Q Consensus       102 ~~~~--~~~~~~~a~~~~~~~~~~~~~~~~-------~~~~~~l~~~~~~~g~~------~~a~~~~~~~-~~~~~~~~~  165 (275)
                      .+..  ..-..+ ..+.+.++.+....++.       ...+.+++.-+|.....      ++... .+.. +.......|
T Consensus       382 ~~~~~~~~Pt~~-~l~~l~~l~~~~~~~~~~~l~~sa~l~~~~lv~~~c~~~~~~~~~~~~~~~~-~l~~~l~~~~~~~~  459 (574)
T smart00638      382 VLPHTARYPTEE-ILKALFELAESPEVQKQPYLRESALLAYGSLVRRYCVNTPSCPDFVLEELLK-YLHELLQQAVSKGD  459 (574)
T ss_pred             HHHHhhhcCCHH-HHHHHHHHhcCccccccHHHHHHHHHHHHHHHHHHhcCCCCCChhhHHHHHH-HHHHHHHHHHhcCC
Confidence            3322  333444 44444444443244444       35677888877765542      33333 2222 222111122


Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc--CCHHHHHHHHHHHHhc
Q 023952          166 WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML--GHLKEVGEIIDQWKQS  230 (275)
Q Consensus       166 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--g~~~~a~~~~~~~~~~  230 (275)
                      ..--...+.+....|....... +..........+...-...+.++.+.  ...+.+..++-.+-.+
T Consensus       460 ~~~~~~~LkaLGN~g~~~~i~~-l~~~l~~~~~~~~~iR~~Av~Alr~~a~~~p~~v~~~l~~i~~n  525 (574)
T smart00638      460 EEEIQLYLKALGNAGHPSSIKV-LEPYLEGAEPLSTFIRLAAILALRNLAKRDPRKVQEVLLPIYLN  525 (574)
T ss_pred             chheeeHHHhhhccCChhHHHH-HHHhcCCCCCCCHHHHHHHHHHHHHHHHhCchHHHHHHHHHHcC
Confidence            2223445677777777554433 33333322223333334455555533  3556666666555544

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=83.75  E-value=31  Score=30.59  Aligned_cols=195  Identities=14%  Similarity=0.071  Sum_probs=114.4

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHh-hCCCCCc--hhhHHHHHHHHH-hhCCHHHHHHHHHHHhhcCCCCCCHH-
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIK-RKNVVPD--IFTYNLWISSCA-ATLNIDQVKKFLDEMSCDSGGSDDWV-  131 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-~~~~~p~--~~~~~~ll~~~~-~~~~~~~a~~~~~~~~~~~~~~~~~~-  131 (275)
                      .+...|..||..         |++.++.+. +..+.|.  ..+.--+...+. ...+++.|+..+++.... .-.++.. 
T Consensus        28 ~~l~~Y~kLI~~---------ai~CL~~~~~~~~l~p~~ea~~~l~la~iL~~eT~n~~~Ae~~L~k~~~l-~~~~~~~d   97 (608)
T PF10345_consen   28 EQLKQYYKLIAT---------AIKCLEAVLKQFKLSPRQEARVRLRLASILLEETENLDLAETYLEKAILL-CERHRLTD   97 (608)
T ss_pred             hhHHHHHHHHHH---------HHHHHHHHhccCCCCHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-ccccchHH
Confidence            356777777764         566666666 3334443  345555666655 778899999999986553 1122222 


Q ss_pred             ----HHHHHHHHHHhcCchHHHHHHHHHHHHHccCC----cchhhHHHH-HHHHHccCCHHHHHHHHHHHHhcc---CCC
Q 023952          132 ----KYVNLVNIYITASHLVNAESSTLVEAEKSITQ----RQWITYDFL-IILYAGLGNKDKIDQIWKSLRMTK---QKM  199 (275)
Q Consensus       132 ----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----~~~~~~~~l-~~~~~~~~~~~~a~~~~~~m~~~~---~~p  199 (275)
                          ....++..+.+.+... |.. .+++.......    +-...+..+ +..+...++...|.+.++.+...-   ..|
T Consensus        98 ~k~~~~~ll~~i~~~~~~~~-a~~-~l~~~I~~~~~~~~~~w~~~frll~~~l~~~~~d~~~Al~~L~~~~~~a~~~~d~  175 (608)
T PF10345_consen   98 LKFRCQFLLARIYFKTNPKA-ALK-NLDKAIEDSETYGHSAWYYAFRLLKIQLALQHKDYNAALENLQSIAQLANQRGDP  175 (608)
T ss_pred             HHHHHHHHHHHHHHhcCHHH-HHH-HHHHHHHHHhccCchhHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhhhcCCH
Confidence                2335677777777766 888 66665443322    222233333 223333479999999998875532   233


Q ss_pred             ChhhHHHHHHHHH--hcCCHHHHHHHHHHHHhcCC--------CCCCHHHHHHHHHHHH--hcCChHHHHHHHHHH
Q 023952          200 TSRNYICILSSYL--MLGHLKEVGEIIDQWKQSAT--------SDFDISACNRLLGAFS--DVGLTEKANEFHMLL  263 (275)
Q Consensus       200 ~~~~~~~li~~~~--~~g~~~~a~~~~~~~~~~~~--------~~~~~~~~~~li~~~~--~~g~~~~a~~~~~~m  263 (275)
                      ....+..++.+..  +.+..+++.+.++++.....        ..|...+|..+++.++  ..|+++.+...++++
T Consensus       176 ~~~v~~~l~~~~l~l~~~~~~d~~~~l~~~~~~~~~~q~~~~~~~~qL~~~~lll~l~~~l~~~~~~~~~~~L~~l  251 (608)
T PF10345_consen  176 AVFVLASLSEALLHLRRGSPDDVLELLQRAIAQARSLQLDPSVHIPQLKALFLLLDLCCSLQQGDVKNSKQKLKQL  251 (608)
T ss_pred             HHHHHHHHHHHHHHhcCCCchhHHHHHHHHHHHHhhcccCCCCCcHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            3444455555543  55666777777776633211        2345667777776554  577777777666555

It is associated with the cohesin complex and is required in G1 for cohesin binding to chromosomes, but is dispensable in G2 when cohesion has been established. It is often referred to as Ssl3 in Schizosaccharomyces pombe (Fission yeast), and Scc4 in Saccharomyces cerevisiae (Baker's yeast). It complexes with Mis4 [].

>PF11846 DUF3366: Domain of unknown function (DUF3366); InterPro: IPR021797 This domain is functionally uncharacterised

Probab=83.56  E-value=7.4  Score=28.43  Aligned_cols=34  Identities=12%  Similarity=0.175  Sum_probs=25.0

Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          197 QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       197 ~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      ..|++..|..++..+...|+.++|.+...++..-
T Consensus       140 ~~P~~~~~~~~a~~l~~~G~~~eA~~~~~~~~~l  173 (193)
T PF11846_consen  140 RRPDPNVYQRYALALALLGDPEEARQWLARARRL  173 (193)
T ss_pred             hCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4677777777777777777777777777777663

This domain is found in bacteria. This presumed domain is about 200 amino acids in length.

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=83.47  E-value=20  Score=28.88  Aligned_cols=89  Identities=11%  Similarity=0.009  Sum_probs=50.2

Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  181 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  181 (275)
                      +-|.+.|.+++|+.+|......  .+-+.+++..-..+|.+..++..|+. -........ ..-+..|+.-+.+-...|.
T Consensus       105 N~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~-DC~~AiaLd-~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  105 NTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEE-DCEAAIALD-KLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHH-hHHHHHHhh-HHHHHHHHHHHHHHHHHhh
Confidence            3466777888888888776652  34477777777777887777776665 222222111 1112334444444444555


Q ss_pred             HHHHHHHHHHHHh
Q 023952          182 KDKIDQIWKSLRM  194 (275)
Q Consensus       182 ~~~a~~~~~~m~~  194 (275)
                      ..+|.+=++...+
T Consensus       181 ~~EAKkD~E~vL~  193 (536)
T KOG4648|consen  181 NMEAKKDCETVLA  193 (536)
T ss_pred             HHHHHHhHHHHHh
Confidence            5666555555544

>PF08311 Mad3_BUB1_I: Mad3/BUB1 homology region 1; InterPro: IPR013212 Proteins containing this domain are checkpoint proteins involved in cell division

Probab=83.02  E-value=12  Score=25.26  Aligned_cols=43  Identities=9%  Similarity=0.135  Sum_probs=27.6

Q ss_pred             HHHHHHHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHH
Q 023952           77 KVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDE  119 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~  119 (275)
                      .+.++|+.|..+|+--. +..|......+...|++++|.++|+.
T Consensus        81 ~~~~if~~l~~~~IG~~~A~fY~~wA~~le~~~~~~~A~~I~~~  124 (126)
T PF08311_consen   81 DPREIFKFLYSKGIGTKLALFYEEWAEFLEKRGNFKKADEIYQL  124 (126)
T ss_dssp             HHHHHHHHHHHHTTSTTBHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCccHHHHHHHHHHHHHHHHcCCHHHHHHHHHh
Confidence            67777777777655332 34566666667777777777777764

This region has been shown to be essential for the binding of BUB1 and MAD3 to CDC20p [].; PDB: 3ESL_B 4AEZ_I 4A1G_B 2LAH_A 2WVI_A 3SI5_B.

>KOG2659 consensus LisH motif-containing protein [Cytoskeleton]

Probab=82.94  E-value=18  Score=27.20  Aligned_cols=103  Identities=14%  Similarity=0.069  Sum_probs=51.7

Q ss_pred             hccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC---CHHHH--HHHHHHhhccCCHHHHHHHHHHHhhCC
Q 023952           15 EGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF---NALMY--NEMMTLYMSVGQVEKVALVVEEIKRKN   89 (275)
Q Consensus        15 ~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~---~~~~~--~~li~~~~~~g~~~~a~~~~~~m~~~~   89 (275)
                      +++....+.....|.|+--|.-...+.+|-..|..  +.|+.|   |..++  ..-|......|++++|++...++-..-
T Consensus        17 ~~~~~~~~~~~d~n~LVmnylv~eg~~EaA~~Fa~--e~~i~~~~~d~~~~~eR~~Ir~~I~~G~Ie~Aie~in~l~Pei   94 (228)
T KOG2659|consen   17 EQLMKVSVMREDLNRLVMNYLVHEGYVEAAEKFAK--ESGIKPPSIDLDSMDERLQIRRAIEEGQIEEAIEKVNQLNPEI   94 (228)
T ss_pred             HHHhccCcchhhHHHHHHHHHHhccHHHHHHHhcc--ccCCCCccCchhhHhHHHHHHHHHHhccHHHHHHHHHHhChHH
Confidence            33333334555556665555555555666666643  334333   33332  345556677777777777777665433


Q ss_pred             CCCchhhHHHHHHH----HHhhCCHHHHHHHHHH
Q 023952           90 VVPDIFTYNLWISS----CAATLNIDQVKKFLDE  119 (275)
Q Consensus        90 ~~p~~~~~~~ll~~----~~~~~~~~~a~~~~~~  119 (275)
                      +.-|...+-.|...    ..+.|..++|.++.+.
T Consensus        95 Ld~n~~l~F~Lq~q~lIEliR~~~~eeal~F~q~  128 (228)
T KOG2659|consen   95 LDTNRELFFHLQQLHLIELIREGKTEEALEFAQT  128 (228)
T ss_pred             HccchhHHHHHHHHHHHHHHHhhhHHHHHHHHHH
Confidence            33333222222111    3455555666655544

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=82.73  E-value=21  Score=28.02  Aligned_cols=59  Identities=12%  Similarity=0.053  Sum_probs=48.6

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          204 YICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      ++.....|..+|.+.+|.++.++...-.  +.+...|-.|+..+...|+--.|.+-++++.
T Consensus       282 lgkva~~yle~g~~neAi~l~qr~ltld--pL~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         282 LGKVARAYLEAGKPNEAIQLHQRALTLD--PLSEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHhhcC--hhhhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            4456678999999999999999998854  5688889999999999999777777666663

>cd08819 CARD_MDA5_2 Caspase activation and recruitment domain found in MDA5, second repeat

Probab=82.62  E-value=9.3  Score=23.76  Aligned_cols=65  Identities=8%  Similarity=0.095  Sum_probs=32.8

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHH
Q 023952           43 AEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQV  113 (275)
Q Consensus        43 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a  113 (275)
                      +.++++.+.++|+ .+......+..+-...|+.+.|.+++..+. +|.    ..|...+.++-..|.-+-|
T Consensus        21 ~~~v~d~ll~~~i-lT~~d~e~I~aa~~~~g~~~~ar~LL~~L~-rg~----~aF~~Fl~aLreT~~~~LA   85 (88)
T cd08819          21 TRDVCDKCLEQGL-LTEEDRNRIEAATENHGNESGARELLKRIV-QKE----GWFSKFLQALRETEHHELA   85 (88)
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHhccccCcHHHHHHHHHHhc-cCC----cHHHHHHHHHHHcCchhhh
Confidence            3445555555553 222333333332234566666666666666 432    2455666666665554444

Caspase activation and recruitment domain (CARD) found in MDA5 (melanoma-differentiation-associated gene 5), second repeat. MDA5, also known as IFIH1, contains two N-terminal CARD domains and a C-terminal RNA helicase domain. MDA5 is a cytoplasmic DEAD box RNA helicase that plays an important role in host antiviral response by sensing incoming viral RNA. Upon activation, the signal is transferred to downstream pathways via the adaptor molecule IPS-1 (MAVS, VISA, CARDIF), leading to the induction of type I interferons. Although very similar in sequence, MDA5 recognizes different sets of viruses compared to RIG-I, a related RNA helicase. MDA5 associates with IPS-1 through a CARD-CARD interaction. In general, CARDs are death domains (DDs) found associated with caspases. They are known to be important in the signaling pathways for apoptosis, inflammation, and host-defense mechanisms. DDs are protei

>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=82.37  E-value=5.9  Score=28.48  Aligned_cols=107  Identities=13%  Similarity=0.075  Sum_probs=56.6

Q ss_pred             hhhHHHHhhccccCCC-CHhH---HHHHHHHHHcCCCHHHHHHHHHH-------HHhCCCCCCH-HHHHHHHHHhhccC-
Q 023952            7 IHSGERYFEGLPLSAK-TSET---YTALLHLYAGAKWTEKAEELFER-------VKQSNLSFNA-LMYNEMMTLYMSVG-   73 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~-~~~~---~~~li~~~~~~g~~~~a~~~~~~-------m~~~~~~~~~-~~~~~li~~~~~~g-   73 (275)
                      |+.|.+..+.-...+| |...   |...+.-+++.....++..++++       ....  .|+- .++..+..+|...+ 
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            4455555555333344 4444   44444445555554455555444       4443  3553 46666655554432 


Q ss_pred             ---C-------HHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           74 ---Q-------VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        74 ---~-------~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                         +       +++|.+.|++...  .+|+..+|+.-+....      +|-+++.++.+.
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  5899999998888764      366777777664

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.

>KOG4077 consensus Cytochrome c oxidase, subunit Va/COX6 [Energy production and conversion]

Probab=82.08  E-value=13  Score=25.05  Aligned_cols=59  Identities=12%  Similarity=0.156  Sum_probs=41.4

Q ss_pred             HHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           77 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      +..+-++.+..-++.|++......+++|-+.+|+..|..+|+-++..  ..+...+|-.++
T Consensus        67 EvrkglN~l~~yDlVP~pkvIEaaLRA~RRvNDfa~aVRilE~iK~K--~g~~k~~Y~y~v  125 (149)
T KOG4077|consen   67 EVRKGLNNLFDYDLVPSPKVIEAALRACRRVNDFATAVRILEAIKDK--CGAQKQVYPYYV  125 (149)
T ss_pred             HHHHHHHhhhccccCCChHHHHHHHHHHHHhccHHHHHHHHHHHHHh--cccHHHHHHHHH
Confidence            45566666777778888888888888888888888888888887764  233333454443

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=81.89  E-value=8.1  Score=30.96  Aligned_cols=79  Identities=9%  Similarity=-0.066  Sum_probs=49.2

Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  217 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  217 (275)
                      +-|.+.|.+++|+. .+.......+. |.+++..-..+|.+...+..|+.=.......+        ...+.+|.|.+.-
T Consensus       105 N~yFKQgKy~EAID-CYs~~ia~~P~-NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd--------~~Y~KAYSRR~~A  174 (536)
T KOG4648|consen  105 NTYFKQGKYEEAID-CYSTAIAVYPH-NPVYHINRALAYLKQKSFAQAEEDCEAAIALD--------KLYVKAYSRRMQA  174 (536)
T ss_pred             hhhhhccchhHHHH-HhhhhhccCCC-CccchhhHHHHHHHHHHHHHHHHhHHHHHHhh--------HHHHHHHHHHHHH
Confidence            46888999999999 66654443322 77788788888888888887766555544321        1345566655444


Q ss_pred             HHHHHHHHH
Q 023952          218 KEVGEIIDQ  226 (275)
Q Consensus       218 ~~a~~~~~~  226 (275)
                      ..++....+
T Consensus       175 R~~Lg~~~E  183 (536)
T KOG4648|consen  175 RESLGNNME  183 (536)
T ss_pred             HHHHhhHHH
Confidence            443333333

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=81.48  E-value=19  Score=26.62  Aligned_cols=20  Identities=15%  Similarity=0.144  Sum_probs=10.8

Q ss_pred             hhccCCHHHHHHHHHHHhhC
Q 023952           69 YMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~~m~~~   88 (275)
                      +.+.|++++|..-|...+..
T Consensus       105 ~F~ngdyeeA~skY~~Ale~  124 (271)
T KOG4234|consen  105 LFKNGDYEEANSKYQEALES  124 (271)
T ss_pred             hhhcccHHHHHHHHHHHHHh
Confidence            44555555555555555543

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=81.36  E-value=32  Score=29.16  Aligned_cols=120  Identities=9%  Similarity=-0.044  Sum_probs=69.6

Q ss_pred             ccCCHHHHH-HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHH
Q 023952           71 SVGQVEKVA-LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  149 (275)
Q Consensus        71 ~~g~~~~a~-~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  149 (275)
                      ..|++-.|- +++..++...-.|+....  ....+...|+++++.+.+....+  .+.....+...+++...+.|+++.|
T Consensus       301 ~~gd~~aas~~~~~~lr~~~~~p~~i~l--~~~i~~~lg~ye~~~~~~s~~~~--~~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        301 ADGDIIAASQQLFAALRNQQQDPVLIQL--RSVIFSHLGYYEQAYQDISDVEK--IIGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             hccCHHHHHHHHHHHHHhCCCCchhhHH--HHHHHHHhhhHHHHHHHhhchhh--hhcCCchHHHHHHHhhhchhhHHHH
Confidence            445554443 344444443334444333  33345677888888887776665  2345556677788888888888888


Q ss_pred             HHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc
Q 023952          150 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~  196 (275)
                      .. .-..|...-.. +......-...-...|-++++...|+++...+
T Consensus       377 ~s-~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~  421 (831)
T PRK15180        377 LS-TAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLN  421 (831)
T ss_pred             HH-HHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccC
Confidence            88 55544443322 32222222223345677788888888776543

>PF13762 MNE1: Mitochondrial splicing apparatus component

Probab=81.21  E-value=16  Score=25.39  Aligned_cols=92  Identities=12%  Similarity=0.087  Sum_probs=51.6

Q ss_pred             HHhCCCCCCHH--HHHHHHHHhhccCCHHHHHHHHHHHhhCCC-----CCchhhHHHHHHHHHhhCC-HHHHHHHHHHHh
Q 023952           50 VKQSNLSFNAL--MYNEMMTLYMSVGQVEKVALVVEEIKRKNV-----VPDIFTYNLWISSCAATLN-IDQVKKFLDEMS  121 (275)
Q Consensus        50 m~~~~~~~~~~--~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-----~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~  121 (275)
                      |.+.+..++..  ..|.++.-....+++...+++++.+.....     .-+..+|.+++.+.++..- --.+..+|..++
T Consensus        28 ~~~~~~~~~~k~~fiN~iL~hl~~~~nf~~~v~~L~~l~~l~~~~~~~~~~~ssf~~if~SlsnSsSaK~~~~~Lf~~Lk  107 (145)
T PF13762_consen   28 MQEENASQSTKTIFINCILNHLASYQNFSGVVSILEHLHFLNTDNIIGWLDNSSFHIIFKSLSNSSSAKLTSLTLFNFLK  107 (145)
T ss_pred             hhhcccChhHHHHHHHHHHHHHHHccchHHHHHHHHHHHHhhHHHHhhhcccchHHHHHHHHccChHHHHHHHHHHHHHH
Confidence            34444444432  346666666666677777776666632100     1244566677776655544 334556666666


Q ss_pred             hcCCCCCCHHHHHHHHHHHHh
Q 023952          122 CDSGGSDDWVKYVNLVNIYIT  142 (275)
Q Consensus       122 ~~~~~~~~~~~~~~l~~~~~~  142 (275)
                      +. +.+++..-|..++.++.+
T Consensus       108 ~~-~~~~t~~dy~~li~~~l~  127 (145)
T PF13762_consen  108 KN-DIEFTPSDYSCLIKAALR  127 (145)
T ss_pred             Hc-CCCCCHHHHHHHHHHHHc
Confidence            63 556666667666666544

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=81.12  E-value=37  Score=29.70  Aligned_cols=178  Identities=10%  Similarity=-0.071  Sum_probs=98.1

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHH----H-hhccCCHHHHHHHHHHHhh-------CCCCCchhhHHHHHHHHHhh
Q 023952           40 TEKAEELFERVKQSNLSFNALMYNEMMT----L-YMSVGQVEKVALVVEEIKR-------KNVVPDIFTYNLWISSCAAT  107 (275)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~~~~~~~li~----~-~~~~g~~~~a~~~~~~m~~-------~~~~p~~~~~~~ll~~~~~~  107 (275)
                      ...|.++++...+.|   +...-..+..    + +....+.+.|+.+|+...+       .|   +......+..+|.+.
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            456888888877776   3333222222    2 3456788888888888876       44   333555666666664


Q ss_pred             C-----CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh-cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHH--Hcc
Q 023952          108 L-----NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT-ASHLVNAESSTLVEAEKSITQRQWITYDFLIILY--AGL  179 (275)
Q Consensus       108 ~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~  179 (275)
                      .     +.+.|..++.+.-.. | .|+....-..+..... ..+...|.+ .+...-+.|.. ....+.+++...  ...
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     567788888887765 3 3444432222222222 235678888 77777776754 222222222111  123


Q ss_pred             CCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          180 GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       180 ~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      .+.+.|..++.+..+.| .|...--...+..+.. ++.+.+.-.+..+.+
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            46788888888887776 3332222222333333 555555555444444

>PF11848 DUF3368: Domain of unknown function (DUF3368); InterPro: IPR021799 This domain is functionally uncharacterised

Probab=80.82  E-value=6.4  Score=21.25  Aligned_cols=14  Identities=7%  Similarity=0.347  Sum_probs=5.1

Q ss_pred             HHHHHHHHHhhCCC
Q 023952           77 KVALVVEEIKRKNV   90 (275)
Q Consensus        77 ~a~~~~~~m~~~~~   90 (275)
                      ++..++++|.+.|+
T Consensus        20 ~~~~~l~~l~~~g~   33 (48)
T PF11848_consen   20 EVKPLLDRLQQAGF   33 (48)
T ss_pred             hHHHHHHHHHHcCc
Confidence            33333333333333

This domain is found in bacteria and archaea. This presumed domain is about 50 amino acids in length.

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=80.39  E-value=25  Score=27.24  Aligned_cols=23  Identities=17%  Similarity=-0.042  Sum_probs=13.2

Q ss_pred             CHHHHHHHHHHHHhcCchHHHHH
Q 023952          129 DWVKYVNLVNIYITASHLVNAES  151 (275)
Q Consensus       129 ~~~~~~~l~~~~~~~g~~~~a~~  151 (275)
                      ++.....+...|.+.|++.+|+.
T Consensus        89 dp~LH~~~a~~~~~e~~~~~A~~  111 (260)
T PF04190_consen   89 DPELHHLLAEKLWKEGNYYEAER  111 (260)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHH
T ss_pred             CHHHHHHHHHHHHhhccHHHHHH
Confidence            44555566666666666666655

; PDB: 3LKU_E 2WPV_G.

>PF12862 Apc5: Anaphase-promoting complex subunit 5

Probab=80.22  E-value=12  Score=23.55  Aligned_cols=69  Identities=10%  Similarity=0.039  Sum_probs=39.3

Q ss_pred             HHccCCHHHHHHHHHHHH----hccCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 023952          176 YAGLGNKDKIDQIWKSLR----MTKQKMT----SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  244 (275)
Q Consensus       176 ~~~~~~~~~a~~~~~~m~----~~~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  244 (275)
                      ..+.|++.+|.+.+.+..    ..+..+.    ......+.......|+.++|...+++..+.-....|..+....+
T Consensus         8 ~~~~~dy~~A~d~L~~~fD~~~~~~~~~~~~~~~~all~lA~~~~~~G~~~~A~~~l~eAi~~Are~~D~~~l~~al   84 (94)
T PF12862_consen    8 ALRSGDYSEALDALHRYFDYAKQSNNSSSNSGLAYALLNLAELHRRFGHYEEALQALEEAIRLARENGDRRCLAYAL   84 (94)
T ss_pred             HHHcCCHHHHHHHHHHHHHHHhhcccchhhHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHCCHHHHHHHH
Confidence            356788888866555443    2222221    11122344556678888888888888877554444555444333

---

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	275
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-08
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	4e-07

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 52.1 bits (123), Expect = 8e-08
 Identities = 16/109 (14%), Positives = 35/109 (32%), Gaps = 4/109 (3%)

Query: 25  ETYTALLHLYAGAKWTEKAEELFERVKQ---SNLSFNALMYNEMMTLYMSVGQVEKVALV 81
           +   A             A  L                 MYN +M  +   G  +++  V
Sbjct: 128 QRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYV 187

Query: 82  VEEIKRKNVVPDIFTYNLWISSCA-ATLNIDQVKKFLDEMSCDSGGSDD 129
           +  +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 = 4e-07
 Identities = 24/211 (11%), Positives = 69/211 (32%), Gaps = 10/211 (4%)

Query: 25  ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL-VVE 83
           + Y A++  +A     ++   +   VK + L+ + L Y   +       Q        +E
Sbjct: 166 DMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLE 225

Query: 84  EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA 143
           ++ ++ +        + +S       +  V K     S              L ++Y   
Sbjct: 226 QMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKD 285

Query: 144 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN 203
             +   +    ++  + + ++Q         L+  L ++  +  + K    +K+   +R 
Sbjct: 286 GRVSYPKLHLPLKTLQCLFEKQ---------LHMELASRVCVVSVEKPTLPSKEVKHARK 336

Query: 204 YICILSSYLMLGHLKEVGEIIDQWKQSATSD 234
            +  L         + + E  ++ ++     
Sbjct: 337 TLKTLRDQWEKALCRALRETKNRLEREVYEG 367

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	275
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	99.94
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.93
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.92
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.91
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.9
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.89
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.89
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.88
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.87
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.87
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.86
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.86
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.86
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.85
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.84
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.84
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.83
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.82
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.81
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.8
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.79
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.79
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.79
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.79
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.78
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.78
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.77
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.76
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.75
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.75
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.72
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.72
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.72
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.72
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.72
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.71
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.71
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.7
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.7
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.69
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.68
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.68
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.66
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.64
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.63
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.63
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.61
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.61
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.6
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.59
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.59
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.59
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.58
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.58
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.57
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.56
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.55
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.52
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.52
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.52
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.52
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.51
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.51
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.51
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	99.47
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.44
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.42
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.41
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.41
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.39
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.38
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.38
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.37
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.36
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.35
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.35
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.33
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.32
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.31
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.31
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.31
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.31
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.31
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.29
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.29
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.26
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.25
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.25
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.24
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.24
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	99.24
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.24
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.24
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.23
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	99.23
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.22
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.22
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.17
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.14
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	99.12
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.11
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.1
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.09
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	99.09
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.09
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	99.07
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	99.06
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	99.05
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.05
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	99.04
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	99.03
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.03
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.03
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	99.01
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	99.01
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	99.01
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	99.0
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	99.0
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	99.0
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	99.0
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.99
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.98
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.97
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.96
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.96
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.94
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.93
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.92
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.92
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.92
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.91
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.9
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.9
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.89
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.87
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.85
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.84
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.83
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.82
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.81
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.79
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.78
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.78
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.77
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.76
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.75
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.75
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.75
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.74
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.74
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.73
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.72
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.71
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.69
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.66
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.65
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.64
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.64
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.59
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.59
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.57
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.55
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.55
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.55
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.55
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.55
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.54
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.53
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.5
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.49
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.48
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.43
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.41
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.41
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.38
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.36
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.32
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.29
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.26
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.26
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.23
2kat_A	115	Uncharacterized protein; NESG, structure, structur	98.22
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	98.19
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.19
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.15
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.12
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.1
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.08
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	98.06
1klx_A	138	Cysteine rich protein B; structural genomics, heli	98.03
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.02
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.91
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.83
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.74
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.69
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.52
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.49
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.49
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.44
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.44
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.37
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.35
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.31
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.11
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	97.09
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.04
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.01
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.98
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.95
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.9
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.84
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.81
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.63
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.56
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.46
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.45
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.35
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.23
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	96.17
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	96.13
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.05
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.91
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.77
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.58
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	95.52
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	95.5
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	94.69
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	94.62
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	94.61
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	94.59
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	94.52
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.26
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	93.51
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	93.15
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	93.04
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	93.03
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	92.35
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	92.12
2p58_C	116	Putative type III secretion protein YSCG; type III	91.44
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	91.18
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.11
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.1
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	90.79
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	90.11
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	89.97
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	89.86
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	89.59
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	88.89
2p58_C	116	Putative type III secretion protein YSCG; type III	88.55
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	88.18
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	87.78
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	87.63
3eiq_C	358	Programmed cell death protein 4; PDCD4, anti-oncog	87.11
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	86.01
1wdy_A	285	2-5A-dependent ribonuclease; hydrolase, RNA-bindin	85.9
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	85.71
2zu6_B	307	Programmed cell death protein 4; protein-protein c	85.15
4a1g_A	152	Mitotic checkpoint serine/threonine-protein kinas;	84.8
3hra_A	201	Ankyrin repeat family protein; structural protein;	84.37
4aez_C	223	MAD3, mitotic spindle checkpoint component MAD3; c	83.78
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	83.1
2wvi_A	164	Mitotic checkpoint serine/threonine-protein kinase	81.78
1k1a_A	241	B-cell lymphoma 3-encoded protein; BCL-3, NF-kappa	81.71
3kea_A	285	K1L; tropism, ANK repeat, viral protein; 2.30A {Va	81.53
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	80.89
4aez_C	223	MAD3, mitotic spindle checkpoint component MAD3; c	80.85

>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=1.5e-37  Score=256.93  Aligned_cols=205  Identities=12%  Similarity=0.075  Sum_probs=182.4

Q ss_pred             hhHHHHhhccccCC--CC-HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCC---------H
Q 023952            8 HSGERYFEGLPLSA--KT-SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ---------V   75 (275)
Q Consensus         8 ~~A~~~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~---------~   75 (275)
                      ..+..++.++....  +. ...++.+|.+|++.|++++|.++|++|.+.|++||..+||+||.+|++.+.         +
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            34555566666543  23 446889999999999999999999999999999999999999999987664         7


Q ss_pred             HHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHH
Q 023952           76 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLV  155 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  155 (275)
                      ++|.++|++|.+.|+.||..||+++|.+|++.|++++|.++|++|.+. |+.||..+|+++|.+|++.|++++|.+ +++
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            899999999999999999999999999999999999999999999997 899999999999999999999999999 999


Q ss_pred             HHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc
Q 023952          156 EAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML  214 (275)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  214 (275)
                      +|...+..||..+|++||.+|++.|+.++|.++|++|++.|..|+..||+.++..|+..
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            99999999999999999999999999999999999999999999999999999999864

>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=4.2e-37  Score=254.28  Aligned_cols=207  Identities=12%  Similarity=0.146  Sum_probs=181.6

Q ss_pred             HHHHHHHHHHHhCCCCCCHH-HHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC---------H
Q 023952           41 EKAEELFERVKQSNLSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN---------I  110 (275)
Q Consensus        41 ~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~---------~  110 (275)
                      ..+..+.+.+.++++.+.+. .++.+|.+|++.|++++|+++|++|.+.|++||..||++||.+|++.+.         +
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            45666777888887766554 6899999999999999999999999999999999999999999987664         6


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH
Q 023952          111 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  190 (275)
Q Consensus       111 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  190 (275)
                      +.|.++|++|... |+.||..+|++||.+|++.|++++|.+ ++++|...+..||..+|+.+|.+|++.|++++|.++|+
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            8899999999997 999999999999999999999999999 99999999999999999999999999999999999999


Q ss_pred             HHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhc
Q 023952          191 SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV  250 (275)
Q Consensus       191 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  250 (275)
                      +|.+.|+.||..||++||.+|++.|++++|.++|++|.+.+. .|+..||+.++..|...
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            999999999999999999999999999999999999999885 69999999999998864

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=3.5e-28  Score=206.81  Aligned_cols=257  Identities=9%  Similarity=-0.010  Sum_probs=179.8

Q ss_pred             ccccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC---------------------------
Q 023952            2 TKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN---------------------------   54 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~---------------------------   54 (275)
                      ++.|++++|+++|+++...+++..+|+.++..|.+.|++++|..+|+++.+.+                           
T Consensus       283 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  362 (597)
T 2xpi_A          283 SHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASLHESGEKNKLYLIS  362 (597)
T ss_dssp             TTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHHHHhCCHHHHHHHH
Confidence            45677777888887777655577777778888888888888877777776543                           


Q ss_pred             ------CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCC
Q 023952           55 ------LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD  128 (275)
Q Consensus        55 ------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~  128 (275)
                            .+.+..+|+.++..|.+.|++++|.++|+++.+.+. .+..+|+.++.+|.+.|++++|.++|+++.+.  .+.
T Consensus       363 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~  439 (597)
T 2xpi_A          363 NDLVDRHPEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMDP-QFGPAWIGFAHSFAIEGEHDQAISAYTTAARL--FQG  439 (597)
T ss_dssp             HHHHHHCTTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHT--TTT
T ss_pred             HHHHhhCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--Ccc
Confidence                  123566667777777777777777777777766422 24566777777777777777777777777653  345


Q ss_pred             CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc----cCCCC--hh
Q 023952          129 DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT----KQKMT--SR  202 (275)
Q Consensus       129 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----~~~p~--~~  202 (275)
                      +..+++.++.+|.+.|++++|.+ .++.+....+. +..+|+.++..|.+.|++++|.++|+++.+.    +..|+  ..
T Consensus       440 ~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~  517 (597)
T 2xpi_A          440 THLPYLFLGMQHMQLGNILLANE-YLQSSYALFQY-DPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAA  517 (597)
T ss_dssp             CSHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHH
T ss_pred             chHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHH
Confidence            66677777777777777777777 77766655433 5667777777777777777777777777655    44565  56


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          203 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +|..++.+|.+.|++++|.++|+++.+..  +.+..+|..+..+|.+.|++++|.+.|+++.+
T Consensus       518 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  578 (597)
T 2xpi_A          518 TWANLGHAYRKLKMYDAAIDALNQGLLLS--TNDANVHTAIALVYLHKKIPGLAITHLHESLA  578 (597)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS--SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHh
Confidence            67777777777777777777777776654  34667777777777777777777777777765

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=99.97  E-value=1.2e-27  Score=203.42  Aligned_cols=262  Identities=10%  Similarity=0.036  Sum_probs=215.2

Q ss_pred             ccccChhhHHHHhhccccCC-----------------CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC---------
Q 023952            2 TKVFGIHSGERYFEGLPLSA-----------------KTSETYTALLHLYAGAKWTEKAEELFERVKQSNL---------   55 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~-----------------~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---------   55 (275)
                      ++.|++++|+++|+++....                 .+..+|+.++.+|.+.|++++|.++|++|.+.+.         
T Consensus       161 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l  240 (597)
T 2xpi_A          161 VKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQL  240 (597)
T ss_dssp             HHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHH
T ss_pred             HHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHH
Confidence            46789999999998543321                 2578899999999999999999999998865431         


Q ss_pred             -------------------------------------------------------------CCCHHHHHHHHHHhhccCC
Q 023952           56 -------------------------------------------------------------SFNALMYNEMMTLYMSVGQ   74 (275)
Q Consensus        56 -------------------------------------------------------------~~~~~~~~~li~~~~~~g~   74 (275)
                                                                                   +++..+|+.++..|.+.|+
T Consensus       241 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  320 (597)
T 2xpi_A          241 VSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSR  320 (597)
T ss_dssp             HHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTC
T ss_pred             HHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcC
Confidence                                                                         2567777788888888888


Q ss_pred             HHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHH
Q 023952           75 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      +++|+++|+++.+.+.. +..++..++.++.+.|++++|..+++++.+.  .+.+..+++.++.+|.+.|++++|.+ ++
T Consensus       321 ~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~-~~  396 (597)
T 2xpi_A          321 FIDVLAITTKILEIDPY-NLDVYPLHLASLHESGEKNKLYLISNDLVDR--HPEKAVTWLAVGIYYLCVNKISEARR-YF  396 (597)
T ss_dssp             HHHHHHHHHHHHHHCTT-CCTTHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTSHHHHHHHHHHHHHTTCHHHHHH-HH
T ss_pred             HHHHHHHHHHHHHcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHhh--CcccHHHHHHHHHHHHHhccHHHHHH-HH
Confidence            88888888888776533 6677888888888888888888888888763  46678889999999999999999999 88


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          155 VEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      +++....+. +..+|+.++..|.+.|++++|.++|+++.+.+ +.+..++..++.+|.+.|++++|.++|+++.+..  +
T Consensus       397 ~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~  472 (597)
T 2xpi_A          397 SKSSTMDPQ-FGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF--Q  472 (597)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--C
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--C
Confidence            888775543 67899999999999999999999999988764 3477889999999999999999999999998864  4


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc----CCCCC
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFHMLLLQK----NCAPT  271 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~  271 (275)
                      .+..+|+.++..|.+.|++++|.++|+++.+.    +..|+
T Consensus       473 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~  513 (597)
T 2xpi_A          473 YDPLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEK  513 (597)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSG
T ss_pred             CChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchh
Confidence            57888999999999999999999999999876    55665

>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=8e-24  Score=170.88  Aligned_cols=256  Identities=11%  Similarity=-0.016  Sum_probs=157.7

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      |++++|++.|+++....| +...+..+...+...|++++|...|+++.+.. +.+..+|+.+...+.+.|++++|++.|+
T Consensus       115 g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~  193 (388)
T 1w3b_A          115 GDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFE  193 (388)
T ss_dssp             SCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            444444444444443333 23334444444444555555555555544432 2234555555555555555555555555


Q ss_pred             HHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952           84 EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus        84 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      ++.+.+.. +...+..+...+...|++++|...|++....  .+.+..++..+..+|.+.|++++|.+ .++.+....+.
T Consensus       194 ~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~-~~~~al~~~p~  269 (388)
T 1w3b_A          194 KAVTLDPN-FLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVYYEQGLIDLAID-TYRRAIELQPH  269 (388)
T ss_dssp             HHHHHCTT-CHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTCSS
T ss_pred             HHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CcCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhhCCC
Confidence            55553221 3445555555555666666666666655543  23456667777777777777777777 77776665443


Q ss_pred             cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 023952          164 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRL  243 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  243 (275)
                       +..+|..+...+.+.|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|...++++.+..  +.+..++..+
T Consensus       270 -~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~l  345 (388)
T 1w3b_A          270 -FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF--PEFAAAHSNL  345 (388)
T ss_dssp             -CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSC--TTCHHHHHHH
T ss_pred             -CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC--CCcHHHHHHH
Confidence             45667777777777788888888877776653 4456677777777888888888888888777643  3456777778


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 023952          244 LGAFSDVGLTEKANEFHMLLLQKNCAPT  271 (275)
Q Consensus       244 i~~~~~~g~~~~a~~~~~~m~~~~~~p~  271 (275)
                      ...|.+.|++++|...|+++.+  ..|+
T Consensus       346 ~~~~~~~g~~~~A~~~~~~a~~--~~p~  371 (388)
T 1w3b_A          346 ASVLQQQGKLQEALMHYKEAIR--ISPT  371 (388)
T ss_dssp             HHHHHTTTCCHHHHHHHHHHHT--TCTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHh--hCCC
Confidence            8888888888888888887765  3454

>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=99.93  E-value=1.6e-23  Score=169.16  Aligned_cols=253  Identities=13%  Similarity=0.028  Sum_probs=160.6

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|++.|+++....| +..+|..+..++.+.|++++|...|+++.+.+ |.+...+..+...+...|++++|++.|
T Consensus        80 ~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~  158 (388)
T 1w3b_A           80 RGQLQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACY  158 (388)
T ss_dssp             HTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHH
Confidence            3455555555555444333 34445555555555555555555555554432 223334445555555555555666555


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                      +++.+.... +..+|..+...+...|++++|...|+++.+.  .+.+...+..+...+...|++++|.. .+.+.....+
T Consensus       159 ~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~A~~-~~~~al~~~p  234 (388)
T 1w3b_A          159 LKAIETQPN-FAVAWSNLGCVFNAQGEIWLAIHHFEKAVTL--DPNFLDAYINLGNVLKEARIFDRAVA-AYLRALSLSP  234 (388)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCTTHHHH-HHHHHHHHCT
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhhCc
Confidence            555553221 3455555666666666666666666665553  23445556666666666666666666 5555555443


Q ss_pred             CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHH
Q 023952          163 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR  242 (275)
Q Consensus       163 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (275)
                      . +..++..+...|...|++++|.+.|+++.+.. +.+..++..+...+.+.|++++|...|+++.+..  +.+..++..
T Consensus       235 ~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~~  310 (388)
T 1w3b_A          235 N-HAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNN  310 (388)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHH
T ss_pred             C-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cccHHHHHH
Confidence            2 56677778888888888888888888887753 2245678888888888888888888888888754  467788888


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 023952          243 LLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       243 li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +...+...|++++|...++++.+
T Consensus       311 l~~~~~~~g~~~~A~~~~~~al~  333 (388)
T 1w3b_A          311 LANIKREQGNIEEAVRLYRKALE  333 (388)
T ss_dssp             HHHHHHTTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh
Confidence            88888888888888888888876

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=2.2e-22  Score=165.33  Aligned_cols=255  Identities=12%  Similarity=0.018  Sum_probs=167.6

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|+.+|+++....| +..+|..+..++...|++++|...|+++.+.+ +.+...+..+...|.+.|++++|++.
T Consensus        38 ~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  116 (450)
T 2y4t_A           38 AAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHLLLKQGKLDEAEDD  116 (450)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56888888888888776555 68888888888888888888888888887765 45677888888888888888888888


Q ss_pred             HHHHhhCCCCCch---hhHHHH------------HHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952           82 VEEIKRKNVVPDI---FTYNLW------------ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus        82 ~~~m~~~~~~p~~---~~~~~l------------l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      |+++.+.+.. +.   .++..+            ...+...|++++|...|+++.+.  .+.+..++..+..+|.+.|++
T Consensus       117 ~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~  193 (450)
T 2y4t_A          117 FKKVLKSNPS-ENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEV--CVWDAELRELRAECFIKEGEP  193 (450)
T ss_dssp             HHHHHTSCCC-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCG
T ss_pred             HHHHHhcCCC-ChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHCCCH
Confidence            8888875321 22   444444            33367777788888877777763  355666777777777777777


Q ss_pred             HHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh-hhHHHH------------HHHHHh
Q 023952          147 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYICI------------LSSYLM  213 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~~l------------i~~~~~  213 (275)
                      ++|.+ .+..+....+. +..+|..+...|...|++++|...|+++.+.  .|+. ..+..+            ...|.+
T Consensus       194 ~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~  269 (450)
T 2y4t_A          194 RKAIS-DLKAASKLKND-NTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIR  269 (450)
T ss_dssp             GGGHH-HHHHHHHHHCS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            77777 77766655433 5566666777777777777777777766543  2322 222222            455556


Q ss_pred             cCCHHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          214 LGHLKEVGEIIDQWKQSATSDFD--ISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       214 ~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      .|++++|...|+++.+.....+.  ...|..+...+.+.|++++|...++++.+
T Consensus       270 ~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~  323 (450)
T 2y4t_A          270 DGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQ  323 (450)
T ss_dssp             HTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            66666666666666553211010  22455555555566666666666655544

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.92  E-value=4e-22  Score=163.80  Aligned_cols=257  Identities=12%  Similarity=-0.017  Sum_probs=219.2

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH---HHHHHHH------------
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA---LMYNEMM------------   66 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~li------------   66 (275)
                      +.|++++|++.|+++....| +..+|..+..+|.+.|++++|...|+++.+.+ +.+.   ..+..++            
T Consensus        72 ~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a  150 (450)
T 2y4t_A           72 AMGKSKAALPDLTKVIQLKMDFTAARLQRGHLLLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQA  150 (450)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHH
Confidence            56899999999999887766 68899999999999999999999999999875 3334   5666554            


Q ss_pred             HHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952           67 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus        67 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      ..+.+.|++++|++.|+++.+... .+..++..+..++.+.|++++|..+|+++.+.  .+.+..++..+..+|.+.|++
T Consensus       151 ~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~  227 (450)
T 2y4t_A          151 LNAFGSGDYTAAIAFLDKILEVCV-WDAELRELRAECFIKEGEPRKAISDLKAASKL--KNDNTEAFYKISTLYYQLGDH  227 (450)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCGGGGHHHHHHHHHH--HCSCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCC-CChHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCH
Confidence            448899999999999999998643 36788999999999999999999999999874  367788999999999999999


Q ss_pred             HHHHHHHHHHHHHccCCcchhhHHHH------------HHHHHccCCHHHHHHHHHHHHhccCCCC-----hhhHHHHHH
Q 023952          147 VNAESSTLVEAEKSITQRQWITYDFL------------IILYAGLGNKDKIDQIWKSLRMTKQKMT-----SRNYICILS  209 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~~~~~~~~l------------~~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~  209 (275)
                      ++|.. .++.+....+. +...+..+            ...+...|++++|...|+++.+.  .|+     ...+..+..
T Consensus       228 ~~A~~-~~~~~~~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~--~p~~~~~~~~~~~~l~~  303 (450)
T 2y4t_A          228 ELSLS-EVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSIAEYTVRSKERICH  303 (450)
T ss_dssp             HHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHHhCCC-hHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCcchHHHHHHHHHHHH
Confidence            99999 99988876543 44455444            78899999999999999999875  454     346788899


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 023952          210 SYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  271 (275)
Q Consensus       210 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  271 (275)
                      .+.+.|++++|...++++.+..  +.+...|..+..+|...|++++|...++++.+  +.|+
T Consensus       304 ~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~  361 (450)
T 2y4t_A          304 CFSKDEKPVEAIRVCSEVLQME--PDNVNALKDRAEAYLIEEMYDEAIQDYETAQE--HNEN  361 (450)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHT--TSSS
T ss_pred             HHHHCCCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCcc
Confidence            9999999999999999998754  45788999999999999999999999999987  4554

>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=99.91  E-value=1.5e-21  Score=153.72  Aligned_cols=255  Identities=9%  Similarity=-0.078  Sum_probs=221.1

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC-CHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVAL   80 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~   80 (275)
                      ..|++++|+++|+++....| +...+..++..+...|++++|..+++++.+.. +.+...|..+...+...| ++++|++
T Consensus        34 ~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~~A~~  112 (330)
T 3hym_B           34 YNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCYYLMVGHKNEHARR  112 (330)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHHHHHSCSCHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHhhhhHHHHHH
Confidence            46899999999999887666 67788888999999999999999999998864 457888999999999999 9999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      .|++..+.... +...|..+...+...|++++|...++++.+.  .+.+...+..+...|...|++++|.. .++.....
T Consensus       113 ~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~al~~  188 (330)
T 3hym_B          113 YLSKATTLEKT-YGPAWIAYGHSFAVESEHDQAMAAYFTAAQL--MKGCHLPMLYIGLEYGLTNNSKLAER-FFSQALSI  188 (330)
T ss_dssp             HHHHHHTTCTT-CTHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCSHHHHHHHHHHHHTTCHHHHHH-HHHHHHTT
T ss_pred             HHHHHHHhCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--ccccHHHHHHHHHHHHHHhhHHHHHH-HHHHHHHh
Confidence            99999986432 5678899999999999999999999999885  35566778889999999999999999 89888876


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccC--------CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ--------KMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  232 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--------~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  232 (275)
                      .+. +...+..+...+...|++++|...+++..+...        ......+..+...|...|++++|...+++..+.. 
T Consensus       189 ~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-  266 (330)
T 3hym_B          189 APE-DPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-  266 (330)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-
T ss_pred             CCC-ChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-
Confidence            654 678889999999999999999999998876421        2335678899999999999999999999998865 


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          233 SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       233 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                       +.+...+..+...+...|++++|...+++..+
T Consensus       267 -~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  298 (330)
T 3hym_B          267 -PQNASTYSAIGYIHSLMGNFENAVDYFHTALG  298 (330)
T ss_dssp             -TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTT
T ss_pred             -ccchHHHHHHHHHHHHhccHHHHHHHHHHHHc
Confidence             45778899999999999999999999998875

>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=99.90  E-value=3.3e-21  Score=154.21  Aligned_cols=253  Identities=11%  Similarity=-0.012  Sum_probs=124.6

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|+..|+++....| +..+|..+..++.+.|++++|...|+++.+.+ +.+..++..+...+...|++++|++.|
T Consensus        77 ~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~  155 (368)
T 1fch_A           77 EGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEIL  155 (368)
T ss_dssp             TTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            3455555555555444433 44455555555555555555555555554443 234445555555555555555555555


Q ss_pred             HHHhhCCCCCchhhHHH---------------HHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchH
Q 023952           83 EEIKRKNVVPDIFTYNL---------------WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  147 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~---------------ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  147 (275)
                      +++.+.... +...+..               .+..+...|++++|...|+++.+.....++..++..+...|.+.|+++
T Consensus       156 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~  234 (368)
T 1fch_A          156 RDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYD  234 (368)
T ss_dssp             HHHHHTSTT-TGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHH
Confidence            555543221 1111110               122222455555555555555443111113455555555666666666


Q ss_pred             HHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023952          148 NAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQW  227 (275)
Q Consensus       148 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  227 (275)
                      +|.. .+.++....+. +..+|..+...+...|++++|...|+++.+.. +.+...+..+...|.+.|++++|...|++.
T Consensus       235 ~A~~-~~~~al~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a  311 (368)
T 1fch_A          235 KAVD-CFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEA  311 (368)
T ss_dssp             HHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHH-HHHHHHHhCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            6666 55555444322 34455555555566666666666665555432 223445555555566666666666666555


Q ss_pred             HhcCCCC---------CCHHHHHHHHHHHHhcCChHHHHHHHH
Q 023952          228 KQSATSD---------FDISACNRLLGAFSDVGLTEKANEFHM  261 (275)
Q Consensus       228 ~~~~~~~---------~~~~~~~~li~~~~~~g~~~~a~~~~~  261 (275)
                      .+.....         ....+|..+..+|...|++++|..+++
T Consensus       312 l~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  354 (368)
T 1fch_A          312 LNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYGAADA  354 (368)
T ss_dssp             HHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHHHHHT
T ss_pred             HHhCCCCCCccccccchhhHHHHHHHHHHHHhCChHhHHHhHH
Confidence            4432100         014455555666666666666555554

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=1.8e-21  Score=155.76  Aligned_cols=253  Identities=13%  Similarity=0.017  Sum_probs=135.9

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|+++|+++....| +..+|..+...|.+.|++++|...|+++.+.. +.+..+|..+...|...|++++|++.
T Consensus        77 ~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  155 (365)
T 4eqf_A           77 KEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYTNTSHQQDACEA  155 (365)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHccccHHHHHHH
Confidence            34566666666666554444 55566666666666666666666666655543 33455666666666666666666666


Q ss_pred             HHHHhhCCCCCch-----------hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHH
Q 023952           82 VEEIKRKNVVPDI-----------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAE  150 (275)
Q Consensus        82 ~~~m~~~~~~p~~-----------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~  150 (275)
                      |+++.+..  |+.           ..+..+...+...|++++|...|+++.+.....++..++..+...|.+.|++++|.
T Consensus       156 ~~~al~~~--p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~  233 (365)
T 4eqf_A          156 LKNWIKQN--PKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQNGDMIDPDLQTGLGVLFHLSGEFNRAI  233 (365)
T ss_dssp             HHHHHHHC--HHHHCC-------------------CCHHHHHHHHHHHHHHHHSCSSCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHhC--ccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhCcCccCHHHHHHHHHHHHHCCCHHHHH
Confidence            66665532  221           11122345555666666666666666553111114555666666666666666666


Q ss_pred             HHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          151 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      . .++++....+. +..+|..+...|...|++++|...|++..+.. +.+...+..+...|.+.|++++|...|++..+.
T Consensus       234 ~-~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          234 D-AFNAALTVRPE-DYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREAVSNFLTALSL  310 (365)
T ss_dssp             H-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHHHHHHHHHHHH
T ss_pred             H-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            6 56555554432 45556666666666666666666666655542 123455556666666666666666666665542


Q ss_pred             CCC----------CCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 023952          231 ATS----------DFDISACNRLLGAFSDVGLTEKANEFHM  261 (275)
Q Consensus       231 ~~~----------~~~~~~~~~li~~~~~~g~~~~a~~~~~  261 (275)
                      ...          ..+...|..+..++...|+.+.+..+.+
T Consensus       311 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  351 (365)
T 4eqf_A          311 QRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANL  351 (365)
T ss_dssp             HHCC------------CHHHHHHHHHHHHHTCHHHHHHHHT
T ss_pred             CcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHH
Confidence            200          0023455666666666666666555544

>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=99.89  E-value=4e-21  Score=151.07  Aligned_cols=254  Identities=9%  Similarity=-0.062  Sum_probs=211.5

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|+.+|+++....| +...|..+...+...|++++|...|+++.+.. +.+..++..+...+...|++++|++.
T Consensus        33 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~  111 (327)
T 3cv0_A           33 KLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSHTNEHNANAALAS  111 (327)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            56899999999999877666 78899999999999999999999999998874 55788999999999999999999999


Q ss_pred             HHHHhhCCCCCchhhHHHH--------------HH-HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952           82 VEEIKRKNVVPDIFTYNLW--------------IS-SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~l--------------l~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      ++++.+.... +...+..+              .. .+...|++++|...++++.+.  .+.+..++..+...|.+.|++
T Consensus       112 ~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~  188 (327)
T 3cv0_A          112 LRAWLLSQPQ-YEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEM--NPNDAQLHASLGVLYNLSNNY  188 (327)
T ss_dssp             HHHHHHTSTT-TTTC--------------------CCTTSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhCCc-cHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhccH
Confidence            9999986332 23333333              22 377889999999999999885  356788899999999999999


Q ss_pred             HHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023952          147 VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  226 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (275)
                      ++|.. .+..+....+. +..++..+...+...|++++|...+++..+.. +.+...+..+...|...|++++|.+.+++
T Consensus       189 ~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  265 (327)
T 3cv0_A          189 DSAAA-NLRRAVELRPD-DAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYDLAAKQLVR  265 (327)
T ss_dssp             HHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHH-HHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHHHHHHHHHH
Confidence            99999 88888776543 67788999999999999999999999988763 33567888999999999999999999999


Q ss_pred             HHhcCCCCC-----------CHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          227 WKQSATSDF-----------DISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       227 ~~~~~~~~~-----------~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      ..+... ..           +...|..+..++...|++++|..++++.+
T Consensus       266 a~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l  313 (327)
T 3cv0_A          266 AIYMQV-GGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNV  313 (327)
T ss_dssp             HHHHHT-TSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCS
T ss_pred             HHHhCC-ccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            987541 11           46788999999999999999999887543

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.89  E-value=1.1e-20  Score=151.27  Aligned_cols=236  Identities=8%  Similarity=-0.112  Sum_probs=197.4

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+...+.+.|++++|...|+++.+.. +.+..+|..+...+.+.|++++|++.|+++.+... .+..++..+..
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            56679999999999999999999999998875 56789999999999999999999999999998643 25788999999


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCH----------HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc-chhhHHH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDW----------VKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-QWITYDF  171 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~----------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~  171 (275)
                      .+...|++++|...|+++.+..  +.+.          ..+..+...+.+.|++++|.. .++++....+.. +..++..
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            9999999999999999988741  2222          223345888999999999999 999888876542 6788999


Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcC
Q 023952          172 LIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG  251 (275)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  251 (275)
                      +...|...|++++|...|++..+.. +.+..++..+...|...|++++|...|++..+..  +.+..+|..+..+|...|
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            9999999999999999999988763 3457789999999999999999999999998864  456888999999999999


Q ss_pred             ChHHHHHHHHHHHhc
Q 023952          252 LTEKANEFHMLLLQK  266 (275)
Q Consensus       252 ~~~~a~~~~~~m~~~  266 (275)
                      ++++|...|+++.+.
T Consensus       296 ~~~~A~~~~~~al~~  310 (365)
T 4eqf_A          296 AYREAVSNFLTALSL  310 (365)
T ss_dssp             CCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHh
Confidence            999999999998764

>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=99.88  E-value=5.5e-20  Score=147.11  Aligned_cols=255  Identities=9%  Similarity=-0.099  Sum_probs=207.3

Q ss_pred             ccChhhHHH-HhhccccCCC-----CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHH
Q 023952            4 VFGIHSGER-YFEGLPLSAK-----TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   77 (275)
Q Consensus         4 ~g~~~~A~~-~~~~~~~~~~-----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~   77 (275)
                      .|++++|++ .|++.....|     +...+..+...+.+.|++++|...|+++.+.. +.+..+|..+...+.+.|++++
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCcCHHH
Confidence            367888888 8876554433     45678899999999999999999999999875 5678899999999999999999


Q ss_pred             HHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHH---------------HHHHHHh
Q 023952           78 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVN---------------LVNIYIT  142 (275)
Q Consensus        78 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~---------------l~~~~~~  142 (275)
                      |++.|+++.+.+. .+..++..+...+...|++++|...++++...  .+.+...+..               .+..+..
T Consensus       117 A~~~~~~al~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  193 (368)
T 1fch_A          117 AISALRRCLELKP-DNQTALMALAVSFTNESLQRQACEILRDWLRY--TPAYAHLVTPAEEGAGGAGLGPSKRILGSLLS  193 (368)
T ss_dssp             HHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT--STTTGGGCC---------------CTTHHHHH
T ss_pred             HHHHHHHHHhcCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CcCcHHHHHHHHHHhhhhcccHHHHHHHHHhh
Confidence            9999999998653 36788999999999999999999999999874  2333333321               2334448


Q ss_pred             cCchHHHHHHHHHHHHHccCCc-chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHH
Q 023952          143 ASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVG  221 (275)
Q Consensus       143 ~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  221 (275)
                      .|++++|.. .+..+....+.. +..++..+...|...|++++|...++++.+.. +.+...+..+...+...|++++|.
T Consensus       194 ~~~~~~A~~-~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~  271 (368)
T 1fch_A          194 DSLFLEVKE-LFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAV  271 (368)
T ss_dssp             HHHHHHHHH-HHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             cccHHHHHH-HHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHcCCHHHHH
Confidence            999999999 898888766543 57888999999999999999999999988763 335678999999999999999999


Q ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          222 EIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ..++++.+..  +.+..++..+...|.+.|++++|...|+++.+.
T Consensus       272 ~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  314 (368)
T 1fch_A          272 AAYRRALELQ--PGYIRSRYNLGISCINLGAHREAVEHFLEALNM  314 (368)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh
Confidence            9999998864  457888999999999999999999999998764

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=2.6e-19  Score=142.37  Aligned_cols=253  Identities=11%  Similarity=-0.036  Sum_probs=137.3

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|++.|+++....| +...|..+...+...|++++|...|+.+.+.. +.+...|..+...+...|++++|+..|
T Consensus        16 ~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~   94 (359)
T 3ieg_A           16 AGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALK-MDFTAARLQRGHLLLKQGKLDEAEDDF   94 (359)
T ss_dssp             TTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCcchHHHHHHHHHHHcCChHHHHHHH
Confidence            4555555555555544433 45555555555555555555555555555432 223445555555555555555555555


Q ss_pred             HHHhhCCC------------------------------------------------CCchhhHHHHHHHHHhhCCHHHHH
Q 023952           83 EEIKRKNV------------------------------------------------VPDIFTYNLWISSCAATLNIDQVK  114 (275)
Q Consensus        83 ~~m~~~~~------------------------------------------------~p~~~~~~~ll~~~~~~~~~~~a~  114 (275)
                      ++..+...                                                +.+..++..+...+...|++++|.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~  174 (359)
T 3ieg_A           95 KKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVCVWDAELRELRAECFIKEGEPRKAI  174 (359)
T ss_dssp             HHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHCCCHHHHH
Confidence            55544321                                                113344444555555555555555


Q ss_pred             HHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHH------------HHHHHHHccCCH
Q 023952          115 KFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYD------------FLIILYAGLGNK  182 (275)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~~~~  182 (275)
                      ..++++.+.  .+.+..++..+...|...|++++|.. .++......+. +...+.            .+...+...|++
T Consensus       175 ~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~-~~~~a~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  250 (359)
T 3ieg_A          175 SDLKAASKL--KSDNTEAFYKISTLYYQLGDHELSLS-EVRECLKLDQD-HKRCFAHYKQVKKLNKLIESAEELIRDGRY  250 (359)
T ss_dssp             HHHHHHHTT--CSCCHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhhCcc-chHHHHHHHHHHHHHHHHHHHHHHHHcCCH
Confidence            555555542  23444555555555555555555555 55555443332 222221            113445566666


Q ss_pred             HHHHHHHHHHHhccCCCCh-----hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHH
Q 023952          183 DKIDQIWKSLRMTKQKMTS-----RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKAN  257 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~-----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~  257 (275)
                      ++|...+++..+..  |+.     ..+..+...+...|++++|...+++..+..  +.+..++..+...+...|++++|.
T Consensus       251 ~~A~~~~~~~~~~~--~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~  326 (359)
T 3ieg_A          251 TDATSKYESVMKTE--PSVAEYTVRSKERICHCFSKDEKPVEAIRICSEVLQME--PDNVNALKDRAEAYLIEEMYDEAI  326 (359)
T ss_dssp             HHHHHHHHHHHHHC--CSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhcC--CCchHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHcCCHHHHH
Confidence            66666666655532  222     123345566777777777777777776643  345667777777777777777777


Q ss_pred             HHHHHHHh
Q 023952          258 EFHMLLLQ  265 (275)
Q Consensus       258 ~~~~~m~~  265 (275)
                      ..|++..+
T Consensus       327 ~~~~~a~~  334 (359)
T 3ieg_A          327 QDYEAAQE  334 (359)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHh
Confidence            77777765

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.88  E-value=1.6e-19  Score=143.51  Aligned_cols=234  Identities=10%  Similarity=-0.021  Sum_probs=176.9

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...+..+...+...|++++|...|+.+.+.. +.+..++..+...+...|++++|+..|+++.+.... +...+..+..
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~   79 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGD-PDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMD-FTAARLQRGH   79 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-cchHHHHHHH
Confidence            45678889999999999999999999998875 567889999999999999999999999999986432 5678889999


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCC---CCHHHHHHH------------HHHHHhcCchHHHHHHHHHHHHHccCCcchh
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGS---DDWVKYVNL------------VNIYITASHLVNAESSTLVEAEKSITQRQWI  167 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~~l------------~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  167 (275)
                      .+...|++++|...|+++.+.  .+   .+...+..+            ...+...|++++|.+ .+..+....+. +..
T Consensus        80 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~  155 (359)
T 3ieg_A           80 LLLKQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAIT-FLDKILEVCVW-DAE  155 (359)
T ss_dssp             HHHHHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHH
T ss_pred             HHHHcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHH-HHHHHHHhCCC-chH
Confidence            999999999999999999874  23   344555444            577888888888888 78777766543 566


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHH------
Q 023952          168 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN------  241 (275)
Q Consensus       168 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~------  241 (275)
                      .+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+..  +.+...+.      
T Consensus       156 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~  232 (359)
T 3ieg_A          156 LRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLD--QDHKRCFAHYKQVK  232 (359)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC--ccchHHHHHHHHHH
Confidence            77777778888888888888888777653 3355666777777777777777777777776643  22333222      


Q ss_pred             ------HHHHHHHhcCChHHHHHHHHHHHh
Q 023952          242 ------RLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       242 ------~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                            .+...+.+.|++++|...++++.+
T Consensus       233 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~  262 (359)
T 3ieg_A          233 KLNKLIESAEELIRDGRYTDATSKYESVMK  262 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence                  124456666666666666666654

>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=1.7e-22  Score=173.39  Aligned_cols=125  Identities=16%  Similarity=0.150  Sum_probs=114.4

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQ---SNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  100 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~---~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  100 (275)
                      ..+||+||++|++.|++++|.++|++|.+   .|+.||+.|||+||.+|++.|++++|.++|++|.+.|+.||..||+++
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            56899999999999999999999988764   589999999999999999999999999999999999999999999999


Q ss_pred             HHHHHhhCCH-HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHH
Q 023952          101 ISSCAATLNI-DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  149 (275)
Q Consensus       101 l~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  149 (275)
                      |.++++.|+. ++|.++|++|... |+.||..+|++++....+.+-++..
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~k-G~~PD~vtY~~ll~~~eR~~vL~~V  255 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQE-GLKLQALFTAVLLSEEDRATVLKAV  255 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHH-TCCSHHHHHHSCCCHHHHHHHHHHH
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHc-CCCCChhhcccccChhhHHHHHHHH
Confidence            9999999984 7899999999998 9999999999999877666544433

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.87  E-value=2.4e-19  Score=138.93  Aligned_cols=247  Identities=11%  Similarity=-0.009  Sum_probs=202.5

Q ss_pred             ccChhhHHHHhhccccCCCC--HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKT--SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      .|+++.|+..++......|+  ......+.++|...|+++.|...++.   . -+|+..++..+...+...|+.++|++.
T Consensus        12 ~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~~A~~~   87 (291)
T 3mkr_A           12 IGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRDAIVAE   87 (291)
T ss_dssp             TTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHHHHHHH
T ss_pred             HHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHHHHHHH
Confidence            58999999999887766563  34667788999999999999987754   2 357788999999999999999999999


Q ss_pred             HHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           82 VEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        82 ~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      ++++...+..|+ ...+..+...+...|++++|++.+++       +.+...+..++..|.+.|++++|.+ .++.+...
T Consensus        88 l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~-------~~~~~~~~~l~~~~~~~g~~~~A~~-~l~~~~~~  159 (291)
T 3mkr_A           88 LDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ-------GDSLECMAMTVQILLKLDRLDLARK-ELKKMQDQ  159 (291)
T ss_dssp             HHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT-------CCSHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHH
T ss_pred             HHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC-------CCCHHHHHHHHHHHHHCCCHHHHHH-HHHHHHhh
Confidence            999998766565 45566677889999999999999876       4678889999999999999999999 99998877


Q ss_pred             cCCcch-hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHH
Q 023952          161 ITQRQW-ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISA  239 (275)
Q Consensus       161 ~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  239 (275)
                      .+.... ......+..+...|++++|..+|+++.+.. +.+...++.+..++.+.|++++|...|++..+..  +.+..+
T Consensus       160 ~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~-p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~--p~~~~~  236 (291)
T 3mkr_A          160 DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKC-SPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD--SGHPET  236 (291)
T ss_dssp             CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHS-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHH
T ss_pred             CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHH
Confidence            533111 111223344456699999999999998873 5577889999999999999999999999998865  457888


Q ss_pred             HHHHHHHHHhcCChHH-HHHHHHHHHh
Q 023952          240 CNRLLGAFSDVGLTEK-ANEFHMLLLQ  265 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~-a~~~~~~m~~  265 (275)
                      +..++..+...|+.++ +.++++++++
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~  263 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKD  263 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence            9999999999999976 5788888876

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.87  E-value=9.9e-20  Score=151.85  Aligned_cols=256  Identities=9%  Similarity=0.005  Sum_probs=154.2

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      +.|++++|+..|+++....|+...|..+..++.+.|++++|...|+++.+.+ +.+...|..+..++.+.|++++|+..|
T Consensus        18 ~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~   96 (514)
T 2gw1_A           18 RNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELK-PDYSKVLLRRASANEGLGKFADAMFDL   96 (514)
T ss_dssp             HTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccC-hHHHHHHHHHHHHHHHHhhHHHHHHHH
Confidence            5688888999998888777888888888888888999999999998888765 456778888888888888888888888


Q ss_pred             HHHhhCCCCCc---------------------------------------------------------------------
Q 023952           83 EEIKRKNVVPD---------------------------------------------------------------------   93 (275)
Q Consensus        83 ~~m~~~~~~p~---------------------------------------------------------------------   93 (275)
                      +++.+.+...+                                                                     
T Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  176 (514)
T 2gw1_A           97 SVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMASFFGIFKPELT  176 (514)
T ss_dssp             HHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHHHHTTSCCCCC
T ss_pred             HHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHHHHhhcCHHHH
Confidence            88766532100                                                                     


Q ss_pred             ---------hhhHHHHHHHHH---hhCCHHHHHHHHHHHhh-----cCCC-------CCCHHHHHHHHHHHHhcCchHHH
Q 023952           94 ---------IFTYNLWISSCA---ATLNIDQVKKFLDEMSC-----DSGG-------SDDWVKYVNLVNIYITASHLVNA  149 (275)
Q Consensus        94 ---------~~~~~~ll~~~~---~~~~~~~a~~~~~~~~~-----~~~~-------~~~~~~~~~l~~~~~~~g~~~~a  149 (275)
                               ...+......+.   +.|++++|..+|+++.+     ....       +.+..++..+...+...|++++|
T Consensus       177 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A  256 (514)
T 2gw1_A          177 FANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGA  256 (514)
T ss_dssp             CSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHH
T ss_pred             HHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHH
Confidence                     111122222222   25666666666666655     1011       12234455566666666666666


Q ss_pred             HHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          150 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      .. .+..+....+.  ...+..+...|...|++++|...++++.+.. +.+...+..+...|...|++++|...+++..+
T Consensus       257 ~~-~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  332 (514)
T 2gw1_A          257 HE-DIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGKDFDKAKE  332 (514)
T ss_dssp             HH-HHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHHHHHHHHH
T ss_pred             HH-HHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            66 56655554433  4455555555555555555555555554432 22334444555555555555555555555554


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          230 SATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       230 ~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..  +.+...+..+...+...|++++|..+++++.+
T Consensus       333 ~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  366 (514)
T 2gw1_A          333 LD--PENIFPYIQLACLAYRENKFDDCETLFSEAKR  366 (514)
T ss_dssp             TC--SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHH
T ss_pred             hC--hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            32  22344444455555555555555555555443

>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=99.86  E-value=2.8e-19  Score=140.66  Aligned_cols=244  Identities=9%  Similarity=-0.042  Sum_probs=207.6

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      +.|++++|+.+|+++....| +...|..+...+...| ++++|...|++..+.. +.+...|..+...+...|++++|++
T Consensus        68 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  146 (330)
T 3hym_B           68 ELNKANELFYLSHKLVDLYPSNPVSWFAVGCYYLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMA  146 (330)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTSTHHHHHHHHHHHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHH
Confidence            46899999999999887766 7889999999999999 9999999999998875 4567889999999999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      .|++..+.... +...+..+...+...|++++|...++++.+.  .+.+..++..+...+.+.|++++|.. .++.....
T Consensus       147 ~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~a~~~  222 (330)
T 3hym_B          147 AYFTAAQLMKG-CHLPMLYIGLEYGLTNNSKLAERFFSQALSI--APEDPFVMHEVGVVAFQNGEWKTAEK-WFLDALEK  222 (330)
T ss_dssp             HHHHHHHHTTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHH
T ss_pred             HHHHHHHhccc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHcccHHHHHH-HHHHHHHH
Confidence            99999986433 4567778999999999999999999999884  46778899999999999999999999 88887765


Q ss_pred             cC--------CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 023952          161 IT--------QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  232 (275)
Q Consensus       161 ~~--------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  232 (275)
                      .+        ..+..++..+...|...|++++|...+++..+.. +.+...+..+...|...|++++|.+.+++..+.. 
T Consensus       223 ~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-  300 (330)
T 3hym_B          223 IKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALDYHRQALVLI-PQNASTYSAIGYIHSLMGNFENAVDYFHTALGLR-  300 (330)
T ss_dssp             HTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTC-
T ss_pred             hhhccccccccHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhhC-ccchHHHHHHHHHHHHhccHHHHHHHHHHHHccC-
Confidence            42        2345788899999999999999999999988764 3356788899999999999999999999988753 


Q ss_pred             CCCCHHHHHHHHHHH-HhcCChH
Q 023952          233 SDFDISACNRLLGAF-SDVGLTE  254 (275)
Q Consensus       233 ~~~~~~~~~~li~~~-~~~g~~~  254 (275)
                       +.+...+..+..++ ...|+.+
T Consensus       301 -p~~~~~~~~l~~~~~~~~g~~~  322 (330)
T 3hym_B          301 -RDDTFSVTMLGHCIEMYIGDSE  322 (330)
T ss_dssp             -SCCHHHHHHHHHHHHTTTTC--
T ss_pred             -CCchHHHHHHHHHHHHHhCchh
Confidence             45777888888877 5566654

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.86  E-value=2.6e-22  Score=172.32  Aligned_cols=153  Identities=9%  Similarity=0.041  Sum_probs=114.3

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc--CCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHH
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCD--SGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDF  171 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  171 (275)
                      ..||+++|++||+.|++++|.++|++|.+.  .|+.||..|||+||++||+.|++++|.+ +|++|...|..||+.|||+
T Consensus       127 ~~TynaLIdglcK~G~leeA~~Lf~eM~~m~~kG~~PdvvTYNtLI~Glck~G~~~eA~~-Lf~eM~~~G~~PDvvTYnt  205 (1134)
T 3spa_A          127 QQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVY-VLFMVKDAGLTPDLLSYAA  205 (1134)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHSHHHHTTCCHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHTTCCCCHHHHHH
T ss_pred             HHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhhcCCCCCHhHHHHHHHHHHhCCCHHHHHH-HHHHHHHcCCCCcHHHHHH
Confidence            468888888888888888888888776531  2678888888888888888888888888 8888888888888888888


Q ss_pred             HHHHHHccCCH-HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC----CCCHHHHHHHHHH
Q 023952          172 LIILYAGLGNK-DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS----DFDISACNRLLGA  246 (275)
Q Consensus       172 l~~~~~~~~~~-~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~----~~~~~~~~~li~~  246 (275)
                      +|.++++.|+. ++|.++|++|.+.|+.||..+|++++.++.+.+-+    +.++++.....+    .|.+.+...|.+.
T Consensus       206 LI~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL----~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl  281 (1134)
T 3spa_A          206 ALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVL----KAVHKVKPTFSLPPQLPPPVNTSKLLRDV  281 (1134)
T ss_dssp             HHHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHH----HHHGGGCCCCCCCCCCCCCCCCCTTTHHH
T ss_pred             HHHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHH----HHHHHhCcccCCCCCCcccccchHHHHHH
Confidence            88888888874 67888888888888888888888888776665333    333333222211    1224455556666


Q ss_pred             HHhcC
Q 023952          247 FSDVG  251 (275)
Q Consensus       247 ~~~~g  251 (275)
                      |.+.+
T Consensus       282 ~s~d~  286 (1134)
T 3spa_A          282 YAKDG  286 (1134)
T ss_dssp             HCCCS
T ss_pred             HccCC
Confidence            76655

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.86  E-value=1.4e-19  Score=150.91  Aligned_cols=255  Identities=9%  Similarity=-0.031  Sum_probs=219.9

Q ss_pred             cccChhhHHHHhhcccc-----C--C-------C-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPL-----S--A-------K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMT   67 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~-----~--~-------~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~   67 (275)
                      +.|++++|+.+|+++..     .  .       | +..+|..+...+...|++++|...|+.+.+.+  |+...+..+..
T Consensus       201 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~~--~~~~~~~~l~~  278 (514)
T 2gw1_A          201 SPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIFKFLKNDPLGAHEDIKKAIELF--PRVNSYIYMAL  278 (514)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             hhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC--ccHHHHHHHHH
Confidence            47899999999998776     3  1       2 46788999999999999999999999998875  44888999999


Q ss_pred             HhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchH
Q 023952           68 LYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV  147 (275)
Q Consensus        68 ~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  147 (275)
                      .+...|++++|++.++++.+... .+..++..+...+...|++++|...++++.+.  .+.+..++..+...|.+.|+++
T Consensus       279 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~  355 (514)
T 2gw1_A          279 IMADRNDSTEYYNYFDKALKLDS-NNSSVYYHRGQMNFILQNYDQAGKDFDKAKEL--DPENIFPYIQLACLAYRENKFD  355 (514)
T ss_dssp             HHHTSSCCTTGGGHHHHHHTTCT-TCTHHHHHHHHHHHHTTCTTHHHHHHHHHHHT--CSSCSHHHHHHHHHTTTTTCHH
T ss_pred             HHHHCCCHHHHHHHHHHHhhcCc-CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHh--ChhhHHHHHHHHHHHHHcCCHH
Confidence            99999999999999999998643 36778889999999999999999999999874  3567788999999999999999


Q ss_pred             HHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-CC----hhhHHHHHHHHHh---cCCHHH
Q 023952          148 NAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT----SRNYICILSSYLM---LGHLKE  219 (275)
Q Consensus       148 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~---~g~~~~  219 (275)
                      +|.. .+..+....+. +...+..+...|...|++++|...++++.+.... ++    ...+..+...+..   .|++++
T Consensus       356 ~A~~-~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~  433 (514)
T 2gw1_A          356 DCET-LFSEAKRKFPE-APEVPNFFAEILTDKNDFDKALKQYDLAIELENKLDGIYVGIAPLVGKATLLTRNPTVENFIE  433 (514)
T ss_dssp             HHHH-HHHHHHHHSTT-CSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHH
T ss_pred             HHHH-HHHHHHHHccc-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHH
Confidence            9999 89888776543 6678889999999999999999999998765322 12    2378889999999   999999


Q ss_pred             HHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          220 VGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       220 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      |...++++.+..  +.+..++..+...|.+.|++++|...|++..+.
T Consensus       434 A~~~~~~a~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          434 ATNLLEKASKLD--PRSEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC--cccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            999999998864  457788899999999999999999999998764

>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=99.85  E-value=1.2e-18  Score=146.09  Aligned_cols=255  Identities=10%  Similarity=-0.023  Sum_probs=195.0

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|++.|+++....| +...|..+..+|.+.|++++|...|+++.+.+ +.+...+..+...+...|++++|++.
T Consensus        37 ~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~  115 (537)
T 3fp2_A           37 TAKNFNEAIKYYQYAIELDPNEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFD  115 (537)
T ss_dssp             HTTCCC-CHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HhccHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            57899999999999887766 78999999999999999999999999998875 55788899999999999999998887


Q ss_pred             HHHHhhC-------------------------------------------------------------------------
Q 023952           82 VEEIKRK-------------------------------------------------------------------------   88 (275)
Q Consensus        82 ~~~m~~~-------------------------------------------------------------------------   88 (275)
                      |+.+...                                                                         
T Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  195 (537)
T 3fp2_A          116 LSVLSLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYAL  195 (537)
T ss_dssp             HHHHC-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHH
T ss_pred             HHHHhcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHH
Confidence            7433110                                                                         


Q ss_pred             ----------------------------------CCCCc--------hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCC
Q 023952           89 ----------------------------------NVVPD--------IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGG  126 (275)
Q Consensus        89 ----------------------------------~~~p~--------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~  126 (275)
                                                        ...|+        ..++..+...+...|++++|...|+++.+.   
T Consensus       196 ~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~---  272 (537)
T 3fp2_A          196 LSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL---  272 (537)
T ss_dssp             HHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---
T ss_pred             HHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc---
Confidence                                              01121        123444555666777888888888887764   


Q ss_pred             CCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHH
Q 023952          127 SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYIC  206 (275)
Q Consensus       127 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  206 (275)
                      .|+..++..+...|...|++++|.. .+..+....+. +..+|..+...+...|++++|...+++..+.. +.+...+..
T Consensus       273 ~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~  349 (537)
T 3fp2_A          273 HPTPNSYIFLALTLADKENSQEFFK-FFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSLN-PENVYPYIQ  349 (537)
T ss_dssp             CCCHHHHHHHHHHTCCSSCCHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCSHHHHH
T ss_pred             CCCchHHHHHHHHHHHhcCHHHHHH-HHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCHHHHHH
Confidence            3457777788888888888888888 77777765543 56777888888888888888888888887753 224567778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          207 ILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      +...|...|++++|...++++.+..  +.+...+..+...+...|++++|...++++.+.
T Consensus       350 la~~~~~~g~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  407 (537)
T 3fp2_A          350 LACLLYKQGKFTESEAFFNETKLKF--PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRL  407 (537)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHc
Confidence            8888888888888888888888754  345667888888888888888888888887654

>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=99.84  E-value=2.8e-18  Score=143.92  Aligned_cols=253  Identities=8%  Similarity=-0.057  Sum_probs=212.8

Q ss_pred             cChhhHHHHhhccccCCCC--------HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHH
Q 023952            5 FGIHSGERYFEGLPLSAKT--------SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVE   76 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~--------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~   76 (275)
                      |++++|+.+|+++....|+        ..+|..+...+...|++++|...|+...+..  |+...|..+...+...|+++
T Consensus       216 ~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~  293 (537)
T 3fp2_A          216 DLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINLH--PTPNSYIFLALTLADKENSQ  293 (537)
T ss_dssp             HHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCH
T ss_pred             HHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHH
Confidence            5789999999998887664        3357778888999999999999999998865  66889999999999999999


Q ss_pred             HHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHH
Q 023952           77 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE  156 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  156 (275)
                      +|++.|+++.+.... +..++..+...+...|++++|...|+++.+.  .+.+...+..+...|.+.|++++|.. .+..
T Consensus       294 ~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~  369 (537)
T 3fp2_A          294 EFFKFFQKAVDLNPE-YPPTYYHRGQMYFILQDYKNAKEDFQKAQSL--NPENVYPYIQLACLLYKQGKFTESEA-FFNE  369 (537)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCSHHHHHHHHHHHHTTCHHHHHH-HHHH
T ss_pred             HHHHHHHHHhccCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHH
Confidence            999999999986433 6778999999999999999999999999885  35567889999999999999999999 8988


Q ss_pred             HHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-----hhhHHHHHHHHHhc----------CCHHHHH
Q 023952          157 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-----SRNYICILSSYLML----------GHLKEVG  221 (275)
Q Consensus       157 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-----~~~~~~li~~~~~~----------g~~~~a~  221 (275)
                      +....+. +...+..+...+...|++++|...|+++.+......     ...+......+.+.          |++++|.
T Consensus       370 ~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~  448 (537)
T 3fp2_A          370 TKLKFPT-LPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAI  448 (537)
T ss_dssp             HHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHH
T ss_pred             HHHhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHH
Confidence            8876644 667888999999999999999999999876532111     11133445677777          9999999


Q ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          222 EIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ..|++..+..  +.+...+..+...|...|++++|...|++..+.
T Consensus       449 ~~~~~a~~~~--p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  491 (537)
T 3fp2_A          449 KLLTKACELD--PRSEQAKIGLAQLKLQMEKIDEAIELFEDSAIL  491 (537)
T ss_dssp             HHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhC--CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHh
Confidence            9999999864  457788999999999999999999999998764

>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=99.84  E-value=2.5e-18  Score=135.09  Aligned_cols=235  Identities=9%  Similarity=-0.075  Sum_probs=198.1

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+...+...|++++|..+|+++.+.. +.+...+..+...+...|++++|.+.|+++.+... .+..++..+..
T Consensus        20 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~-~~~~~~~~la~   97 (327)
T 3cv0_A           20 YHENPMEEGLSMLKLANLAEAALAFEAVCQAA-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDP-KDIAVHAALAV   97 (327)
T ss_dssp             GSSCHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCc-CCHHHHHHHHH
Confidence            56678888999999999999999999998865 45788999999999999999999999999998643 36778889999


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH--------------HH-HHHhcCchHHHHHHHHHHHHHccCCcchh
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL--------------VN-IYITASHLVNAESSTLVEAEKSITQRQWI  167 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--------------~~-~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  167 (275)
                      .+...|++++|...++++.+.  .+.+...+..+              .. .+...|++++|.. .+..+....+. +..
T Consensus        98 ~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~  173 (327)
T 3cv0_A           98 SHTNEHNANAALASLRAWLLS--QPQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRT-LLHAALEMNPN-DAQ  173 (327)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHT--STTTTTC--------------------CCTTSHHHHHHHHH-HHHHHHHHSTT-CHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHH-HHHHHHhhCCC-CHH
Confidence            999999999999999999874  23333334333              23 3778899999999 89888876654 678


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHH
Q 023952          168 TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAF  247 (275)
Q Consensus       168 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~  247 (275)
                      .+..+...|...|++++|.+.++++.+.. +.+...+..+...+...|++++|...+++..+..  +.+..++..+...+
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            88999999999999999999999988763 3356788899999999999999999999998864  45788899999999


Q ss_pred             HhcCChHHHHHHHHHHHhc
Q 023952          248 SDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       248 ~~~g~~~~a~~~~~~m~~~  266 (275)
                      ...|++++|...+++..+.
T Consensus       251 ~~~g~~~~A~~~~~~a~~~  269 (327)
T 3cv0_A          251 SNMSQYDLAAKQLVRAIYM  269 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHh
Confidence            9999999999999998764

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.83  E-value=8.7e-18  Score=127.48  Aligned_cols=227  Identities=9%  Similarity=-0.038  Sum_probs=194.8

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC--Cc----hhh
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV--PD----IFT   96 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~--p~----~~~   96 (275)
                      ....|..+...+...|++++|...|++..+..  .+...|..+...+...|++++|++.+++..+....  |+    ..+
T Consensus         4 ~a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~   81 (258)
T 3uq3_A            4 MADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKS   81 (258)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHH
Confidence            35678899999999999999999999998877  78899999999999999999999999998874321  12    578


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILY  176 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  176 (275)
                      +..+...+...|++++|...|+++.+.   .|+.       ..+.+.|++++|.. .+..+....+. +...+..+...+
T Consensus        82 ~~~l~~~~~~~~~~~~A~~~~~~a~~~---~~~~-------~~~~~~~~~~~a~~-~~~~~~~~~~~-~~~~~~~~~~~~  149 (258)
T 3uq3_A           82 FARIGNAYHKLGDLKKTIEYYQKSLTE---HRTA-------DILTKLRNAEKELK-KAEAEAYVNPE-KAEEARLEGKEY  149 (258)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH---CCCH-------HHHHHHHHHHHHHH-HHHHHHHCCHH-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHhc---Cchh-------HHHHHHhHHHHHHH-HHHHHHHcCcc-hHHHHHHHHHHH
Confidence            889999999999999999999999875   3443       45677899999999 88887775543 667888899999


Q ss_pred             HccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHH
Q 023952          177 AGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKA  256 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  256 (275)
                      ...|++++|...+++..+.. +.+...+..+...|...|++++|...+++..+..  +.+...|..+...+...|++++|
T Consensus       150 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~--~~~~~~~~~l~~~~~~~g~~~~A  226 (258)
T 3uq3_A          150 FTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKD--PNFVRAYIRKATAQIAVKEYASA  226 (258)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHhcCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC--HHHHHHHHHHHHHHHHHhhHHHH
Confidence            99999999999999988764 3357788899999999999999999999998864  45688899999999999999999


Q ss_pred             HHHHHHHHhc
Q 023952          257 NEFHMLLLQK  266 (275)
Q Consensus       257 ~~~~~~m~~~  266 (275)
                      ...+++..+.
T Consensus       227 ~~~~~~a~~~  236 (258)
T 3uq3_A          227 LETLDAARTK  236 (258)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.82  E-value=8e-18  Score=124.86  Aligned_cols=199  Identities=17%  Similarity=0.070  Sum_probs=115.7

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      +++..+..+...+.+.|++++|+..|++..+.... +...+..+...+.+.|++++|...|++..+.  .|.+...+..+
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~l   79 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKENPQ-DPEALYWLARTQLKLGLVNPALENGKTLVAR--TPRYLGGYMVL   79 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHH
Confidence            34444555555555555555555555555543221 3444455555555555555555555555542  23344445555


Q ss_pred             HHHHHhc-----------CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHH
Q 023952          137 VNIYITA-----------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYI  205 (275)
Q Consensus       137 ~~~~~~~-----------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~  205 (275)
                      ..++.+.           |++++|+. .+++.....+. +...+..+...+...|++++|+..|++..+..  .+...+.
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           77788877 77777665543 56677777777778888888888888777765  5667777


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH
Q 023952          206 CILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~  264 (275)
                      .+...|...|++++|...|++..+..  +.+...+..+...+...|++++|...+++..
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  3466677777778888888888887776653

>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=99.81  E-value=6.3e-20  Score=146.35  Aligned_cols=222  Identities=10%  Similarity=0.065  Sum_probs=91.6

Q ss_pred             ccccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      -+.|++++|.++++++..  |  .+|..|+.++.+.|++++|++.|.+.      +|..+|..++..+...|++++|+.+
T Consensus        14 ~~~~~ld~A~~fae~~~~--~--~vWs~La~A~l~~g~~~eAIdsfika------~D~~~y~~V~~~ae~~g~~EeAi~y   83 (449)
T 1b89_A           14 EHIGNLDRAYEFAERCNE--P--AVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKY   83 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HHccCHHHHHHHHHhCCC--h--HHHHHHHHHHHHcCCHHHHHHHHHcC------CCHHHHHHHHHHHHhCCCHHHHHHH
Confidence            467899999999999954  3  59999999999999999999999652      5788999999999999999999998


Q ss_pred             HHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           82 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      ++..++.  .+++.+.+.++.+|.+.|+++++.++++        .|+..+|..+...|...|.+++|.. .|..+    
T Consensus        84 l~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f~~--------~pn~~a~~~IGd~~~~~g~yeeA~~-~Y~~a----  148 (449)
T 1b89_A           84 LQMARKK--ARESYVETELIFALAKTNRLAELEEFIN--------GPNNAHIQQVGDRCYDEKMYDAAKL-LYNNV----  148 (449)
T ss_dssp             ---------------------------CHHHHTTTTT--------CC----------------CTTTHHH-HHHHT----
T ss_pred             HHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHHHc--------CCcHHHHHHHHHHHHHcCCHHHHHH-HHHHh----
Confidence            8777764  4567889999999999999999888763        3677799999999999999999999 88754    


Q ss_pred             CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHH
Q 023952          162 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN  241 (275)
Q Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  241 (275)
                           ..|..++.++.+.|++++|.+.++++      .++.+|..++.+|...|+++.|......+.      .++.-..
T Consensus       149 -----~n~~~LA~~L~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~------~~ad~l~  211 (449)
T 1b89_A          149 -----SNFGRLASTLVHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV------VHADELE  211 (449)
T ss_dssp             -----TCHHHHHHHHHTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT------TCHHHHH
T ss_pred             -----hhHHHHHHHHHHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH------hCHhhHH
Confidence                 58899999999999999999999987      267899999999999999999966555422      2333345


Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHh
Q 023952          242 RLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       242 ~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      .++..|.+.|++++|..+++..+.
T Consensus       212 ~lv~~Yek~G~~eEai~lLe~aL~  235 (449)
T 1b89_A          212 ELINYYQDRGYFEELITMLEAALG  235 (449)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHhC
Confidence            688999999999999999988763

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=4.6e-17  Score=126.10  Aligned_cols=215  Identities=10%  Similarity=0.034  Sum_probs=178.2

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNL-SFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      ..|+++.|+..++..  ..|+..++..+...+...|+.++|.+.++++...+. |-++..+..+...+.+.|++++|++.
T Consensus        46 ~~g~~~~al~~~~~~--~~~~~~a~~~la~~~~~~~~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~  123 (291)
T 3mkr_A           46 AQRKYGVVLDEIKPS--SAPELQAVRMFAEYLASHSRRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRT  123 (291)
T ss_dssp             HTTCHHHHHHHSCTT--SCHHHHHHHHHHHHHHCSTTHHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HCCCHHHHHHHhccc--CChhHHHHHHHHHHHcCCCcHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            358899999888764  236888999999999999999999999999988764 44667778888999999999999999


Q ss_pred             HHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH-H--HHHHHHHHHhcCchHHHHHHHHHHHH
Q 023952           82 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV-K--YVNLVNIYITASHLVNAESSTLVEAE  158 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~--~~~l~~~~~~~g~~~~a~~~~~~~~~  158 (275)
                      +++      ..+...+..+...+.+.|++++|.+.|+++.+.   .|+.. .  ...++..+...|++++|.. +++++.
T Consensus       124 l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~-~~~~~l  193 (291)
T 3mkr_A          124 LHQ------GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYY-IFQEMA  193 (291)
T ss_dssp             HTT------CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHH-HHHHHH
T ss_pred             HhC------CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHH-HHHHHH
Confidence            987      357788999999999999999999999999885   24432 1  1234455556699999999 999998


Q ss_pred             HccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHH-HHHHHHHHHhcC
Q 023952          159 KSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE-VGEIIDQWKQSA  231 (275)
Q Consensus       159 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~  231 (275)
                      ...+ .+...++.+..++.+.|++++|...|++..+.. +-+..++..++..+...|+.++ +.++++++.+..
T Consensus       194 ~~~p-~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~-p~~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~  265 (291)
T 3mkr_A          194 DKCS-PTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD-SGHPETLINLVVLSQHLGKPPEVTNRYLSQLKDAH  265 (291)
T ss_dssp             HHSC-CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC
T ss_pred             HhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhC
Confidence            8754 478899999999999999999999999988764 3366788899999999999976 678999998754

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.80  E-value=1.1e-17  Score=128.34  Aligned_cols=245  Identities=9%  Similarity=-0.021  Sum_probs=191.7

Q ss_pred             cccChhhHHHHhhccccCC----C-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHH
Q 023952            3 KVFGIHSGERYFEGLPLSA----K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEK   77 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~----~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~   77 (275)
                      ..|++++|++.|+++....    | +..+|..+...+...|++++|...|++..+.+ +.+..+|..+...+...|++++
T Consensus        17 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~   95 (275)
T 1xnf_A           17 PTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDA   95 (275)
T ss_dssp             CCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHH
T ss_pred             ccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcC-CCcHHHHHHHHHHHHHccCHHH
Confidence            5688999999999887752    2 57889999999999999999999999998875 4578999999999999999999


Q ss_pred             HHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952           78 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus        78 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      |++.|++..+.... +..++..+...+...|++++|...|+++.+.   .|+.......+..+...|++++|.. .+...
T Consensus        96 A~~~~~~al~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~---~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~  170 (275)
T 1xnf_A           96 AYEAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQD---DPNDPFRSLWLYLAEQKLDEKQAKE-VLKQH  170 (275)
T ss_dssp             HHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CTTCHHHHHHHHHHHHHHCHHHHHH-HHHHH
T ss_pred             HHHHHHHHHhcCcc-ccHHHHHHHHHHHHhccHHHHHHHHHHHHHh---CCCChHHHHHHHHHHHhcCHHHHHH-HHHHH
Confidence            99999999986432 5778899999999999999999999999875   2444444455556677899999999 88777


Q ss_pred             HHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC
Q 023952          158 EKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM---TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD  234 (275)
Q Consensus       158 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~  234 (275)
                      ....+. +...+ .++..+...++.++|...+.+........   +...+..+...|.+.|++++|...|++..+..  +
T Consensus       171 ~~~~~~-~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--p  246 (275)
T 1xnf_A          171 FEKSDK-EQWGW-NIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN--V  246 (275)
T ss_dssp             HHHSCC-CSTHH-HHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC--C
T ss_pred             HhcCCc-chHHH-HHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--c
Confidence            665543 44444 36667788888999999998876542211   14678889999999999999999999998753  2


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                      .+..   ....++...|++++|.+.+
T Consensus       247 ~~~~---~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          247 HNFV---EHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             TTCH---HHHHHHHHHHHHHHC----
T ss_pred             hhHH---HHHHHHHHHHHHHhhHHHH
Confidence            2333   2355777888888888766

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.79  E-value=3.2e-17  Score=121.59  Aligned_cols=199  Identities=14%  Similarity=0.017  Sum_probs=161.8

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      ++...+..+...+.+.|++++|...|++..+.. |.++..+..+...+.+.|++++|+..|++..+.... +...+..+.
T Consensus         3 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg   80 (217)
T 2pl2_A            3 TAEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVARTPR-YLGGYMVLS   80 (217)
T ss_dssp             -CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHH
Confidence            477889999999999999999999999998875 567889999999999999999999999999986433 567888899


Q ss_pred             HHHHhh-----------CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHH
Q 023952          102 SSCAAT-----------LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYD  170 (275)
Q Consensus       102 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  170 (275)
                      ..+...           |++++|+..|++..+.  .|.+...+..+..+|.+.|++++|+. .+++.....  .+...+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~P~~~~~~~~lg~~~~~~g~~~~A~~-~~~~al~~~--~~~~~~~  155 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAERV--NPRYAPLHLQRGLVYALLGERDKAEA-SLKQALALE--DTPEIRS  155 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHC--CCHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHHh--CcccHHHHHHHHHHHHHcCChHHHHH-HHHHHHhcc--cchHHHH
Confidence            999999           9999999999999884  35677889999999999999999999 899888776  5788899


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                      .+...|...|++++|...|++..+.. +.+...+..+...+.+.|++++|...+++..
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            99999999999999999999988763 3356778889999999999999999998754

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.79  E-value=4e-16  Score=115.81  Aligned_cols=204  Identities=13%  Similarity=0.025  Sum_probs=161.9

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+...+...|++++|...|+.+.+.. +.+...+..+...+...|++++|.+.+++..+... .+..++..+..
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            57788888899999999999999999888764 45678888888899999999999999998887543 25677888888


Q ss_pred             HHHhh-CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC
Q 023952          103 SCAAT-LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  181 (275)
Q Consensus       103 ~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  181 (275)
                      .+... |++++|...++++.+....+.+...+..+..++.+.|++++|.. .+..+....+. +...+..+...+...|+
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            88888 99999999999888731223346678888888889999999998 88877765543 56777888888888899


Q ss_pred             HHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       182 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +++|...+++..+.....+...+..+...+...|+.+.|..+++.+.+.
T Consensus       163 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          163 LGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             HHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            9999998888877542145666777777788888888888888888764

>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=99.79  E-value=3.4e-16  Score=118.50  Aligned_cols=203  Identities=10%  Similarity=-0.046  Sum_probs=152.5

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ...|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|++.|+++.+... .+...+..+...
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            5677888888888888888888888877764 45677888888888888888888888888877543 256677778888


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  183 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  183 (275)
                      +...|++++|..+++++.+....+.+...+..+...|.+.|++++|.. .+.++....+. +...+..+...|...|+++
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            888888888888888877621123355667778888888888888888 77777665543 5667777778888888888


Q ss_pred             HHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          184 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      +|...++++.+.. ..+...+..+...+...|++++|.++++++.+..
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            8888888776643 3345566777777788888888888888887753

>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=7.2e-17  Score=123.60  Aligned_cols=235  Identities=9%  Similarity=-0.018  Sum_probs=146.3

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc--hhhHHHHHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD--IFTYNLWIS  102 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~--~~~~~~ll~  102 (275)
                      ..+......+...|++++|...|++..+.. +.+...+..+...+...|++++|++.+++..+.+..|+  ..+|..+..
T Consensus         4 ~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~   82 (272)
T 3u4t_A            4 DVEFRYADFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGK   82 (272)
T ss_dssp             -CHHHHHHHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHH
Confidence            345556666777777777777777776653 33445667777777777777777777777776321111  123666777


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  182 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  182 (275)
                      .+...|++++|...|++..+.  .+.+..++..+...|...|++++|.. .+++.....+ .+...|..+...+...+++
T Consensus        83 ~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~al~~~~-~~~~~~~~l~~~~~~~~~~  158 (272)
T 3u4t_A           83 ILMKKGQDSLAIQQYQAAVDR--DTTRLDMYGQIGSYFYNKGNFPLAIQ-YMEKQIRPTT-TDPKVFYELGQAYYYNKEY  158 (272)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--STTCTHHHHHHHHHHHHTTCHHHHHH-HHGGGCCSSC-CCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcccHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHccCHHHHHH-HHHHHhhcCC-CcHHHHHHHHHHHHHHHHH
Confidence            777777777777777777663  24455667777777777777777777 6665554432 2455555555223334477


Q ss_pred             HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCC------HHHHHHHHHHHHhcCCh
Q 023952          183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH---LKEVGEIIDQWKQSATSDFD------ISACNRLLGAFSDVGLT  253 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~  253 (275)
                      ++|.+.|++..+.. +.+...+..+...+...|+   +++|...+++..+.....|+      ..+|..+...|...|++
T Consensus       159 ~~A~~~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  237 (272)
T 3u4t_A          159 VKADSSFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDK  237 (272)
T ss_dssp             HHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCH
Confidence            77777777766642 2234555566666666666   66677777666553211222      24566667777777777


Q ss_pred             HHHHHHHHHHHh
Q 023952          254 EKANEFHMLLLQ  265 (275)
Q Consensus       254 ~~a~~~~~~m~~  265 (275)
                      ++|...+++..+
T Consensus       238 ~~A~~~~~~al~  249 (272)
T 3u4t_A          238 VKADAAWKNILA  249 (272)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            777777777765

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.78  E-value=6.5e-17  Score=121.65  Aligned_cols=213  Identities=13%  Similarity=0.024  Sum_probs=156.1

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      .....|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|++.|++..+... .+..++..+.
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la   98 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEEN-KEDAIPYINFANLLSSVNELERALAFYDKALELDS-SAATAYYGAG   98 (243)
T ss_dssp             ---------------------CCTTHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-cchHHHHHHH
Confidence            367788888889999999999999999988764 45788889999999999999999999999888643 2677888888


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  181 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  181 (275)
                      ..+...|++++|...++++.+.  .+.+...+..+...+.+.|++++|.. .++++....+. +...+..+...+...|+
T Consensus        99 ~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~l~~~~~~~~~  174 (243)
T 2q7f_A           99 NVYVVKEMYKEAKDMFEKALRA--GMENGDLFYMLGTVLVKLEQPKLALP-YLQRAVELNEN-DTEARFQFGMCLANEGM  174 (243)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--TCCSHHHHHHHHHHHHHTSCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhccHHHHHH-HHHHHHHhCCc-cHHHHHHHHHHHHHcCC
Confidence            8899999999999999998874  35677888889999999999999999 88887776543 66778888888999999


Q ss_pred             HHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 023952          182 KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRL  243 (275)
Q Consensus       182 ~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  243 (275)
                      +++|...+++..+.. +.+...+..+...|...|++++|...++++.+..  +.+...+..+
T Consensus       175 ~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~  233 (243)
T 2q7f_A          175 LDEALSQFAAVTEQD-PGHADAFYNAGVTYAYKENREKALEMLDKAIDIQ--PDHMLALHAK  233 (243)
T ss_dssp             CHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHC--TTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHHccC--cchHHHHHHH
Confidence            999999999887763 3356778888889999999999999999988754  3345444433

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.78  E-value=2e-16  Score=121.15  Aligned_cols=237  Identities=12%  Similarity=0.016  Sum_probs=189.3

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHhhccCCHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSF--NALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~--~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      +.|++++|++.|++.....| +...|..+...+...|++++|...|++..+....|  ....|..+...+...|++++|+
T Consensus        15 ~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~~~~A~   94 (272)
T 3u4t_A           15 KNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQDSLAI   94 (272)
T ss_dssp             TTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHcccHHHHH
Confidence            57899999999999887766 67799999999999999999999999998843112  2345899999999999999999


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      +.|++..+.... +..++..+...+...|++++|...|++..+.  .+.+..++..+...+...+++++|.+ .+..+..
T Consensus        95 ~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~--~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~a~~  170 (272)
T 3u4t_A           95 QQYQAAVDRDTT-RLDMYGQIGSYFYNKGNFPLAIQYMEKQIRP--TTTDPKVFYELGQAYYYNKEYVKADS-SFVKVLE  170 (272)
T ss_dssp             HHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHGGGCCS--SCCCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHH
T ss_pred             HHHHHHHhcCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHhhc--CCCcHHHHHHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            999999986433 5678999999999999999999999999874  46667778888834444569999999 8998887


Q ss_pred             ccCCcchhhHHHHHHHHHccCC---HHHHHHHHHHHHhcc-CCCCh------hhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          160 SITQRQWITYDFLIILYAGLGN---KDKIDQIWKSLRMTK-QKMTS------RNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~---~~~a~~~~~~m~~~~-~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      ..+. +...+..+...+...++   +++|...+++..+.. ..|+.      ..+..+...|...|++++|.+.|++..+
T Consensus       171 ~~p~-~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  249 (272)
T 3u4t_A          171 LKPN-IYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKNILA  249 (272)
T ss_dssp             HSTT-CHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hCcc-chHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            6654 56777778888888888   888999998876542 12332      4677788999999999999999999998


Q ss_pred             cCCCCCCHHHHHHHHHH
Q 023952          230 SATSDFDISACNRLLGA  246 (275)
Q Consensus       230 ~~~~~~~~~~~~~li~~  246 (275)
                      ..  +.+...+..+...
T Consensus       250 ~~--p~~~~a~~~l~~~  264 (272)
T 3u4t_A          250 LD--PTNKKAIDGLKMK  264 (272)
T ss_dssp             HC--TTCHHHHHHHC--
T ss_pred             cC--ccHHHHHHHhhhh
Confidence            64  3456555544433

>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=99.78  E-value=4e-15  Score=114.11  Aligned_cols=224  Identities=13%  Similarity=-0.015  Sum_probs=194.3

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc----cCCHHHHHHHHHHHhhCCCCCchhhHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYN   98 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~   98 (275)
                      +..++..+...+...|++++|...|++..+.+   +...+..+...|..    .+++++|++.|++..+.+   +...+.
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            67888999999999999999999999988854   67788889999999    999999999999999875   677888


Q ss_pred             HHHHHHHh----hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchHHHHHHHHHHHHHccCCcchhhHH
Q 023952           99 LWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYD  170 (275)
Q Consensus        99 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~  170 (275)
                      .+...|..    .+++++|...|++..+. +   +...+..+...|..    .+++++|.. .+++....+   +...+.
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    99999999999999885 3   67888899999999    999999999 888887765   456777


Q ss_pred             HHHHHHHc----cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCCHHHHHH
Q 023952          171 FLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKEVGEIIDQWKQSATSDFDISACNR  242 (275)
Q Consensus       171 ~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (275)
                      .+...|..    .+++++|...|++..+.+   +...+..+...|..    .+++++|...|++..+.+    +...+..
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            78888887    899999999999988764   45677888889999    999999999999998853    2566777


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHhcC
Q 023952          243 LLGAFSD----VGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       243 li~~~~~----~g~~~~a~~~~~~m~~~~  267 (275)
                      +...|.+    .+++++|...|++..+.|
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            8889998    999999999999988765

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.77  E-value=6.5e-17  Score=122.63  Aligned_cols=214  Identities=11%  Similarity=-0.020  Sum_probs=182.7

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC--CCCC----HHHHHHHHHHhhccCCHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSN--LSFN----ALMYNEMMTLYMSVGQVE   76 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~~~~----~~~~~~li~~~~~~g~~~   76 (275)
                      +.|++++|++.|++......+...|..+...+...|++++|...|+...+..  ..++    ..+|..+...+.+.|+++
T Consensus        17 ~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~   96 (258)
T 3uq3_A           17 KARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFARIGNAYHKLGDLK   96 (258)
T ss_dssp             HTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHHHHHHcccHH
Confidence            4689999999999876544778899999999999999999999999987653  1112    578999999999999999


Q ss_pred             HHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHH
Q 023952           77 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVE  156 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~  156 (275)
                      +|++.|++..+.  .|+.       ..+.+.|++++|...++++...  .+.+...+..+...+...|++++|.. .++.
T Consensus        97 ~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~  164 (258)
T 3uq3_A           97 KTIEYYQKSLTE--HRTA-------DILTKLRNAEKELKKAEAEAYV--NPEKAEEARLEGKEYFTKSDWPNAVK-AYTE  164 (258)
T ss_dssp             HHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHHHHHTTCHHHHHH-HHHH
T ss_pred             HHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHHHHHHHHHc--CcchHHHHHHHHHHHHHhcCHHHHHH-HHHH
Confidence            999999999984  4553       3466778899999999999874  35567788899999999999999999 8998


Q ss_pred             HHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          157 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       157 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      .....+. +...|..+...|...|++++|...+++..+.. +.+...+..+...+...|++++|...+++..+.
T Consensus       165 a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~  236 (258)
T 3uq3_A          165 MIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEKD-PNFVRAYIRKATAQIAVKEYASALETLDAARTK  236 (258)
T ss_dssp             HHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHhcCcc-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-HHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHh
Confidence            8876654 67889999999999999999999999988764 335678889999999999999999999998764

>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=8.3e-16  Score=116.37  Aligned_cols=201  Identities=7%  Similarity=-0.003  Sum_probs=173.6

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      +..|..+...+...|++++|++.|+++.+... .+..++..+...+...|++++|...++++.+.  .+.+..++..+..
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~  113 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDP-SSADAHAALAVVFQTEMEPKLADEEYRKALAS--DSRNARVLNNYGG  113 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCC-ChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHH
Confidence            56788889999999999999999999988643 36778889999999999999999999999875  3567888999999


Q ss_pred             HHHhcCchHHHHHHHHHHHHHccCCc-chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH
Q 023952          139 IYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  217 (275)
Q Consensus       139 ~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  217 (275)
                      .|...|++++|.+ .++.+......| +...+..+...+...|++++|...+++..+.. +.+...+..+...|...|++
T Consensus       114 ~~~~~g~~~~A~~-~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~g~~  191 (252)
T 2ho1_A          114 FLYEQKRYEEAYQ-RLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLN-RNQPSVALEMADLLYKEREY  191 (252)
T ss_dssp             HHHHTTCHHHHHH-HHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHhHHHHHHH-HHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHcCCH
Confidence            9999999999999 888887622223 56778888899999999999999999988764 33567888999999999999


Q ss_pred             HHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          218 KEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       218 ~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ++|...++++.+..  +.+...+..+...+...|++++|..+++++.+.
T Consensus       192 ~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~  238 (252)
T 2ho1_A          192 VPARQYYDLFAQGG--GQNARSLLLGIRLAKVFEDRDTAASYGLQLKRL  238 (252)
T ss_dssp             HHHHHHHHHHHTTS--CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhC--cCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            99999999998754  467778888999999999999999999999874

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.75  E-value=3.1e-16  Score=117.88  Aligned_cols=202  Identities=13%  Similarity=0.030  Sum_probs=158.5

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      ..+..|..+...+...|++++|+..|+++.+... .+..++..+...+...|++++|...++++.+.  .+.+..++..+
T Consensus        21 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l   97 (243)
T 2q7f_A           21 MASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENK-EDAIPYINFANLLSSVNELERALAFYDKALEL--DSSAATAYYGA   97 (243)
T ss_dssp             ---------------------CCTTHHHHHTTCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCcchHHHHHH
Confidence            3566788888899999999999999999998643 36788888999999999999999999999875  35678889999


Q ss_pred             HHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCC
Q 023952          137 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH  216 (275)
Q Consensus       137 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  216 (275)
                      ...|...|++++|.+ .++++....+. +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|+
T Consensus        98 a~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~  174 (243)
T 2q7f_A           98 GNVYVVKEMYKEAKD-MFEKALRAGME-NGDLFYMLGTVLVKLEQPKLALPYLQRAVELN-ENDTEARFQFGMCLANEGM  174 (243)
T ss_dssp             HHHHHHTTCHHHHHH-HHHHHHHHTCC-SHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHhccHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHcCC
Confidence            999999999999999 89888876654 67788889999999999999999999988763 3456788889999999999


Q ss_pred             HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          217 LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       217 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      +++|...+++..+..  +.+..++..+...|...|++++|...++++.+.
T Consensus       175 ~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~  222 (243)
T 2q7f_A          175 LDEALSQFAAVTEQD--PGHADAFYNAGVTYAYKENREKALEMLDKAIDI  222 (243)
T ss_dssp             CHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC--cccHHHHHHHHHHHHHccCHHHHHHHHHHHHcc
Confidence            999999999998864  456788999999999999999999999998764

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.75  E-value=1.8e-15  Score=112.17  Aligned_cols=203  Identities=9%  Similarity=0.021  Sum_probs=173.6

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      .++..|..+...+...|++++|++.|+++.+... .+...+..+...+...|++++|...++++.+.  .+.+..++..+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~l   82 (225)
T 2vq2_A            6 QVSNIKTQLAMEYMRGQDYRQATASIEDALKSDP-KNELAWLVRAEIYQYLKVNDKAQESFRQALSI--KPDSAEINNNY   82 (225)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhCc-cchHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCChHHHHHH
Confidence            3567889999999999999999999999998643 35778889999999999999999999999874  35678889999


Q ss_pred             HHHHHhc-CchHHHHHHHHHHHHHccCCc-chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc
Q 023952          137 VNIYITA-SHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML  214 (275)
Q Consensus       137 ~~~~~~~-g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  214 (275)
                      ...|... |++++|.. .++.+......| +...+..+...+...|++++|...++++.+.. +.+...+..+...+...
T Consensus        83 ~~~~~~~~~~~~~A~~-~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~  160 (225)
T 2vq2_A           83 GWFLCGRLNRPAESMA-YFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQ-PQFPPAFKELARTKMLA  160 (225)
T ss_dssp             HHHHHTTTCCHHHHHH-HHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcHHHHHH-HHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCchHHHHHHHHHHHc
Confidence            9999999 99999999 888887722222 36778888999999999999999999988763 33467788899999999


Q ss_pred             CCHHHHHHHHHHHHhcCCCC-CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          215 GHLKEVGEIIDQWKQSATSD-FDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       215 g~~~~a~~~~~~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      |++++|...++++.+..  + .+...+..+...+...|+.+.|..+++.+.+.
T Consensus       161 ~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  211 (225)
T 2vq2_A          161 GQLGDADYYFKKYQSRV--EVLQADDLLLGWKIAKALGNAQAAYEYEAQLQAN  211 (225)
T ss_dssp             TCHHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHh
Confidence            99999999999998865  3 56777888888899999999999999998753

>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=99.75  E-value=2.2e-16  Score=126.44  Aligned_cols=230  Identities=11%  Similarity=0.042  Sum_probs=165.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCC-HHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ-VEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      +...|+.+...+.+.|++++|+..|++..+.. +-+...|+.+...+...|+ +++|+..|++..+.+.+ +...|..+.
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            56677777778888888888888888877764 4457777888888888886 88888888888775443 566777777


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHc-cC
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG-LG  180 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~  180 (275)
                      .++...|++++|+..|+++.+.  .+.+...|..+..++.+.|++++|+. .++++....+. +...|+.+..++.. .|
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            8888888888888888887774  35667777788888888888888888 77777776654 66777777777777 55


Q ss_pred             CHHHH-----HHHHHHHHhccCCC-ChhhHHHHHHHHHhcC--CHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcC-
Q 023952          181 NKDKI-----DQIWKSLRMTKQKM-TSRNYICILSSYLMLG--HLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG-  251 (275)
Q Consensus       181 ~~~~a-----~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-  251 (275)
                      ..++|     +..+++....  .| +...|..+...+...|  ++++|.+.+.++ +.  .+.+...+..+...|.+.| 
T Consensus       250 ~~~eA~~~~el~~~~~Al~l--~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~--~p~~~~al~~La~~~~~~~~  324 (382)
T 2h6f_A          250 YNDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP--SHSSPYLIAFLVDIYEDMLE  324 (382)
T ss_dssp             SCSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT--TCCCHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-cc--CCCCHHHHHHHHHHHHHHhc
Confidence            54666     4677776664  33 3456666777777766  577788777776 32  2345667777777777763 


Q ss_pred             --------ChHHHHHHHHHH
Q 023952          252 --------LTEKANEFHMLL  263 (275)
Q Consensus       252 --------~~~~a~~~~~~m  263 (275)
                              .+++|.++++++
T Consensus       325 ~~~~~~~~~~~~A~~~~~~l  344 (382)
T 2h6f_A          325 NQCDNKEDILNKALELCEIL  344 (382)
T ss_dssp             TTCSSHHHHHHHHHHHHHHH
T ss_pred             ccccchHHHHHHHHHHHHHH
Confidence                    247788888776

>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=99.75  E-value=1e-15  Score=122.62  Aligned_cols=217  Identities=7%  Similarity=-0.015  Sum_probs=181.8

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKW-TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      +.|++++|++.|+++....| +..+|+.+..++...|+ +++|+..|++..+.+ +-+...|+.+..++...|++++|+.
T Consensus       109 ~~g~~~~Al~~~~~al~l~P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~~~~~g~~~eAl~  187 (382)
T 2h6f_A          109 RDERSERAFKLTRDAIELNAANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLVEWLRDPSQELE  187 (382)
T ss_dssp             HTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHH
T ss_pred             HCCChHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHccCHHHHHH
Confidence            45889999999999888777 78999999999999997 999999999999875 4578899999999999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh-cCchHHH-----HHHHH
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT-ASHLVNA-----ESSTL  154 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~a-----~~~~~  154 (275)
                      .|+++.+.+.. +...|..+..++.+.|++++|+..|+++.+.  .+.+...|+.+..++.+ .|..++|     +. .+
T Consensus       188 ~~~kal~ldP~-~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l--~P~~~~a~~~lg~~l~~l~~~~~eA~~~~el~-~~  263 (382)
T 2h6f_A          188 FIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKE--DVRNNSVWNQRYFVISNTTGYNDRAVLEREVQ-YT  263 (382)
T ss_dssp             HHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCSCSHHHHHHHHH-HH
T ss_pred             HHHHHHHhCcc-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcCcchHHHHHHHHH-HH
Confidence            99999996544 6788999999999999999999999999985  46778899999999999 6665777     46 67


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHccC--CHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcC---------CHHHHHHH
Q 023952          155 VEAEKSITQRQWITYDFLIILYAGLG--NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLG---------HLKEVGEI  223 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g---------~~~~a~~~  223 (275)
                      .......+. +...|+.+...+...|  ++++|.+.+.++ +. ...+...+..+...|.+.|         .+++|.++
T Consensus       264 ~~Al~l~P~-~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~-~p~~~~al~~La~~~~~~~~~~~~~~~~~~~~A~~~  340 (382)
T 2h6f_A          264 LEMIKLVPH-NESAWNYLKGILQDRGLSKYPNLLNQLLDL-QP-SHSSPYLIAFLVDIYEDMLENQCDNKEDILNKALEL  340 (382)
T ss_dssp             HHHHHHSTT-CHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TT-TCCCHHHHHHHHHHHHHHHHTTCSSHHHHHHHHHHH
T ss_pred             HHHHHHCCC-CHHHHHHHHHHHHccCccchHHHHHHHHHh-cc-CCCCHHHHHHHHHHHHHHhcccccchHHHHHHHHHH
Confidence            777766554 6788888888888888  689999999887 32 2334567788888888874         25788888


Q ss_pred             HHHH
Q 023952          224 IDQW  227 (275)
Q Consensus       224 ~~~~  227 (275)
                      ++++
T Consensus       341 ~~~l  344 (382)
T 2h6f_A          341 CEIL  344 (382)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8876

>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=99.72  E-value=8.7e-17  Score=128.43  Aligned_cols=222  Identities=8%  Similarity=0.033  Sum_probs=112.2

Q ss_pred             ccccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      .+.|++++|++.|.+.    +|..+|..++..+...|++++|...++...+.  .+++.+.+.++.+|.+.|+++++.++
T Consensus        43 l~~g~~~eAIdsfika----~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~--~~~~~i~~~Li~~Y~Klg~l~e~e~f  116 (449)
T 1b89_A           43 LQKGMVKEAIDSYIKA----DDPSSYMEVVQAANTSGNWEELVKYLQMARKK--ARESYVETELIFALAKTNRLAELEEF  116 (449)
T ss_dssp             ------------------------------------------------------------------------CHHHHTTT
T ss_pred             HHcCCHHHHHHHHHcC----CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh--CccchhHHHHHHHHHHhCCHHHHHHH
Confidence            3578999999999763    57779999999999999999999977766664  46688899999999999999999988


Q ss_pred             HHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952           82 VEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      ++       .|+..+|..+...|...|.+++|..+|..+          ..|..++.++.+.|++++|.+ .+.++    
T Consensus       117 ~~-------~pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a----------~n~~~LA~~L~~Lg~yq~AVe-a~~KA----  174 (449)
T 1b89_A          117 IN-------GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV----------SNFGRLASTLVHLGEYQAAVD-GARKA----  174 (449)
T ss_dssp             TT-------CC----------------CTTTHHHHHHHT----------TCHHHHHHHHHTTTCHHHHHH-HHHHH----
T ss_pred             Hc-------CCcHHHHHHHHHHHHHcCCHHHHHHHHHHh----------hhHHHHHHHHHHhccHHHHHH-HHHHc----
Confidence            84       377789999999999999999999999976          358899999999999999999 77766    


Q ss_pred             CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHH
Q 023952          162 TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN  241 (275)
Q Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  241 (275)
                        .++.+|..++.+|...|+++.|......     +...+.....++..|.+.|++++|..+++......  +.....|+
T Consensus       175 --~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai~lLe~aL~le--~ah~~~ft  245 (449)
T 1b89_A          175 --NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELITMLEAALGLE--RAHMGMFT  245 (449)
T ss_dssp             --TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST--TCCHHHHH
T ss_pred             --CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHHHHHHHHhCCc--HHHHHHHH
Confidence              3789999999999999999999665543     22334445579999999999999999999988644  46777888


Q ss_pred             HHHHHHHhcC--ChHHHHHHH
Q 023952          242 RLLGAFSDVG--LTEKANEFH  260 (275)
Q Consensus       242 ~li~~~~~~g--~~~~a~~~~  260 (275)
                      -|..+|++-+  +..+.++.|
T Consensus       246 el~il~~ky~p~k~~ehl~~~  266 (449)
T 1b89_A          246 ELAILYSKFKPQKMREHLELF  266 (449)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHH
Confidence            8888888753  344444433

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.72  E-value=1.3e-16  Score=124.40  Aligned_cols=256  Identities=14%  Similarity=0.038  Sum_probs=181.6

Q ss_pred             hhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHhhccCCHHHH
Q 023952            7 IHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS-------NLSFNALMYNEMMTLYMSVGQVEKV   78 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-------~~~~~~~~~~~li~~~~~~g~~~~a   78 (275)
                      .+.+...++......| +..++..+...+...|++++|..+|+++.+.       ..+....++..+...|...|++++|
T Consensus         9 ~~~~~~~~q~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A   88 (311)
T 3nf1_A            9 SGRENLYFQGGGYEIPARLRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDA   88 (311)
T ss_dssp             GGGGGGSCSSSCTTSCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cccccccccCCCCcchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHH
Confidence            4444455555544445 6888999999999999999999999998763       2334567889999999999999999


Q ss_pred             HHHHHHHhhC------CCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhc------CCCCCCHHHHHHHHHHHHhcCc
Q 023952           79 ALVVEEIKRK------NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD------SGGSDDWVKYVNLVNIYITASH  145 (275)
Q Consensus        79 ~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~~~l~~~~~~~g~  145 (275)
                      +..+++..+.      +-.| ...++..+...+...|++++|...++++.+.      ...+....++..+...|...|+
T Consensus        89 ~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~  168 (311)
T 3nf1_A           89 ANLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGK  168 (311)
T ss_dssp             HHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTC
T ss_pred             HHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCC
Confidence            9999998764      2222 3567888899999999999999999998764      1123345668889999999999


Q ss_pred             hHHHHHHHHHHHHHc------cCCc-chhhHHHHHHHHHccCCHHHHHHHHHHHHhc-------cCCCChhh-------H
Q 023952          146 LVNAESSTLVEAEKS------ITQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMT-------KQKMTSRN-------Y  204 (275)
Q Consensus       146 ~~~a~~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~~-------~  204 (275)
                      +++|.+ .++++...      ...| ...++..+...|...|++++|.+.++++.+.       ...+....       +
T Consensus       169 ~~~A~~-~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~  247 (311)
T 3nf1_A          169 YEEVEY-YYQRALEIYQTKLGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIWMHAEER  247 (311)
T ss_dssp             HHHHHH-HHHHHHHHHHHTSCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHHHHHHHH
T ss_pred             HHHHHH-HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHHHHHHHH
Confidence            999999 88887664      1122 3567788889999999999999999988753       11222222       2


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          205 ICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..+...+...+.+.++...+.......  +.+..++..+..+|.+.|++++|..++++..+
T Consensus       248 ~~~~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  306 (311)
T 3nf1_A          248 EECKGKQKDGTSFGEYGGWYKACKVDS--PTVTTTLKNLGALYRRQGKFEAAETLEEAAMR  306 (311)
T ss_dssp             HHC-------CCSCCCC---------C--HHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHhcCchhhHHHHHHHHHHHhhcCCCC--chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            223334445566666667777766532  34567888999999999999999999998875

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.72  E-value=2.2e-15  Score=115.39  Aligned_cols=225  Identities=12%  Similarity=-0.050  Sum_probs=180.5

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCC---CCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCH
Q 023952           34 YAGAKWTEKAEELFERVKQSNL---SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  110 (275)
Q Consensus        34 ~~~~g~~~~a~~~~~~m~~~~~---~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  110 (275)
                      ....|++++|...|+++.+...   +.+..+|..+...+...|++++|++.|++..+.... +..++..+...+...|++
T Consensus        15 ~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~la~~~~~~~~~   93 (275)
T 1xnf_A           15 LQPTLQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNF   93 (275)
T ss_dssp             CCCCHHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCH
T ss_pred             cCccchHHHHHHHHHHHHhcccccCchhHHHHHHHHHHHHHcccHHHHHHHHHHHHHcCCC-cHHHHHHHHHHHHHccCH
Confidence            3456889999999999988632   124678899999999999999999999999986433 678899999999999999


Q ss_pred             HHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH
Q 023952          111 DQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  190 (275)
Q Consensus       111 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  190 (275)
                      ++|...|+++.+.  .+.+..++..+..+|.+.|++++|.. .++.+....+.  .......+..+...|++++|...++
T Consensus        94 ~~A~~~~~~al~~--~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~a~~~~~~--~~~~~~~~~~~~~~~~~~~A~~~~~  168 (275)
T 1xnf_A           94 DAAYEAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQD-DLLAFYQDDPN--DPFRSLWLYLAEQKLDEKQAKEVLK  168 (275)
T ss_dssp             HHHHHHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT--CHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc--CccccHHHHHHHHHHHHhccHHHHHH-HHHHHHHhCCC--ChHHHHHHHHHHHhcCHHHHHHHHH
Confidence            9999999999984  35678889999999999999999999 89888876543  2233334445567799999999998


Q ss_pred             HHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC--CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          191 SLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS--DFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       191 ~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      +..... +++... ..++..+...++.++|...+....+....  +.+..++..+...|...|++++|...|++..+.
T Consensus       169 ~~~~~~-~~~~~~-~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  244 (275)
T 1xnf_A          169 QHFEKS-DKEQWG-WNIVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVAN  244 (275)
T ss_dssp             HHHHHS-CCCSTH-HHHHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHhcC-CcchHH-HHHHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhC
Confidence            877653 334333 45777888889999999999988653210  012577888999999999999999999999874

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.72  E-value=2e-16  Score=128.38  Aligned_cols=262  Identities=15%  Similarity=0.039  Sum_probs=200.8

Q ss_pred             cccChhhHHHHhhccccCCC-CH----hHHHHHHHHHHcCCCHHHHHHHHHHHHhC----C-CCCCHHHHHHHHHHhhcc
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TS----ETYTALLHLYAGAKWTEKAEELFERVKQS----N-LSFNALMYNEMMTLYMSV   72 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~~~~~~~~li~~~~~~   72 (275)
                      +.|++++|+..|+++....| +.    ..|..+...|...|++++|...|++..+.    + .+....++..+...|...
T Consensus        60 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~  139 (411)
T 4a1s_A           60 NAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNLGNTLKVM  139 (411)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHC
Confidence            56899999999999877655 33    57889999999999999999999987653    1 123456788899999999


Q ss_pred             CCHHHHHHHHHHHhhC----CCCC-chhhHHHHHHHHHhhCC-----------------HHHHHHHHHHHhhcC---C-C
Q 023952           73 GQVEKVALVVEEIKRK----NVVP-DIFTYNLWISSCAATLN-----------------IDQVKKFLDEMSCDS---G-G  126 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~-----------------~~~a~~~~~~~~~~~---~-~  126 (275)
                      |++++|+..+++..+.    +-.| ...++..+...+...|+                 +++|...+++..+..   + .
T Consensus       140 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~  219 (411)
T 4a1s_A          140 GRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDR  219 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCH
T ss_pred             CCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCH
Confidence            9999999999987763    1111 34577888888999999                 999999988865420   1 1


Q ss_pred             CCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC-cc----hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-C-
Q 023952          127 SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQ----WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-M-  199 (275)
Q Consensus       127 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p-  199 (275)
                      +....++..+...|...|++++|.. .+.+....... ++    ...+..+...|...|++++|...+++..+.... . 
T Consensus       220 ~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~  298 (411)
T 4a1s_A          220 GAQGRACGNLGNTYYLLGDFQAAIE-HHQERLRIAREFGDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGE  298 (411)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHcCChHHHHH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCC
Confidence            1223477888999999999999999 88877654322 11    237788889999999999999999987654211 1 


Q ss_pred             ---ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          200 ---TSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT----SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       200 ---~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                         ...++..+...|...|++++|...+++..+...    ......++..+...|...|++++|...+++..+
T Consensus       299 ~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  371 (411)
T 4a1s_A          299 REVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQ  371 (411)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence               135677888999999999999999998875321    111245788889999999999999999998764

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.72  E-value=1.3e-14  Score=113.42  Aligned_cols=218  Identities=11%  Similarity=0.027  Sum_probs=178.0

Q ss_pred             hhHHHHhhccccCCC-CHhHHHHHHHHHHc-------CCCH-------HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcc
Q 023952            8 HSGERYFEGLPLSAK-TSETYTALLHLYAG-------AKWT-------EKAEELFERVKQSNLSFNALMYNEMMTLYMSV   72 (275)
Q Consensus         8 ~~A~~~~~~~~~~~~-~~~~~~~li~~~~~-------~g~~-------~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   72 (275)
                      ++|+.+|++.....| +...|..++..+..       .|++       ++|..+|++..+.--+-+...|..++..+.+.
T Consensus        33 ~~a~~~~~~al~~~p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~~  112 (308)
T 2ond_A           33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhc
Confidence            678889998877656 78899999888763       5886       89999999998831234677999999999999


Q ss_pred             CCHHHHHHHHHHHhhCCCCCc-hh-hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH-hcCchHHH
Q 023952           73 GQVEKVALVVEEIKRKNVVPD-IF-TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYI-TASHLVNA  149 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~~~~p~-~~-~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~a  149 (275)
                      |++++|.++|++..+.  .|+ .. +|..++..+.+.|++++|..+|++..+.  .+++...|........ ..|++++|
T Consensus       113 ~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~a~~~~~~~~~~~~A  188 (308)
T 2ond_A          113 MKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVA  188 (308)
T ss_dssp             TCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHH
T ss_pred             CCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999984  454 33 7999999999999999999999999874  3455566655444432 36999999


Q ss_pred             HHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc-CCC--ChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023952          150 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK-QKM--TSRNYICILSSYLMLGHLKEVGEIIDQ  226 (275)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p--~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (275)
                      .. +++...+..+. +...|..++..+.+.|++++|..+|++..... ..|  ....|..++....+.|+.+.|..++++
T Consensus       189 ~~-~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~  266 (308)
T 2ond_A          189 FK-IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKR  266 (308)
T ss_dssp             HH-HHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHH
T ss_pred             HH-HHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            99 89988877654 67888999999999999999999999998863 354  345788888899999999999999999


Q ss_pred             HHhcC
Q 023952          227 WKQSA  231 (275)
Q Consensus       227 ~~~~~  231 (275)
                      +.+..
T Consensus       267 a~~~~  271 (308)
T 2ond_A          267 RFTAF  271 (308)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            98764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.71  E-value=4.3e-16  Score=125.94  Aligned_cols=262  Identities=15%  Similarity=0.086  Sum_probs=200.1

Q ss_pred             cccChhhHHHHhhccccCCC-C----HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHhhcc
Q 023952            3 KVFGIHSGERYFEGLPLSAK-T----SETYTALLHLYAGAKWTEKAEELFERVKQS----NLSF-NALMYNEMMTLYMSV   72 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~   72 (275)
                      +.|++++|+..|++.....| +    ...|..+...+...|++++|...|++....    +-.| ...++..+...+...
T Consensus        21 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~  100 (406)
T 3sf4_A           21 KSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVL  100 (406)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHT
T ss_pred             HhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHc
Confidence            56899999999999877655 3    467889999999999999999999986542    2122 255788899999999


Q ss_pred             CCHHHHHHHHHHHhhCCCC-Cc----hhhHHHHHHHHHhhCC--------------------HHHHHHHHHHHhhc---C
Q 023952           73 GQVEKVALVVEEIKRKNVV-PD----IFTYNLWISSCAATLN--------------------IDQVKKFLDEMSCD---S  124 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~~---~  124 (275)
                      |++++|+..+++..+.... ++    ..++..+...+...|+                    +++|...+++....   .
T Consensus       101 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~  180 (406)
T 3sf4_A          101 GNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAVDFYEENLSLVTAL  180 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHHhc
Confidence            9999999999988763110 11    4478888888999999                    99999998886542   1


Q ss_pred             C-CCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC-cc----hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC
Q 023952          125 G-GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQ----WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK  198 (275)
Q Consensus       125 ~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  198 (275)
                      + .+....++..+...|...|++++|.. .+.+.....+. ++    ..++..+...|...|++++|...+++..+....
T Consensus       181 ~~~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  259 (406)
T 3sf4_A          181 GDRAAQGRAFGNLGNTHYLLGNFRDAVI-AHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQ  259 (406)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTBHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             cCcHHHHHHHHHHHHHHHHccCHHHHHH-HHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            1 11223467888999999999999999 88777653322 11    347788888999999999999999987643211


Q ss_pred             -CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          199 -MT----SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       199 -p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                       ++    ..++..+...|...|++++|...+++..+......+    ..++..+...|...|++++|...+++..+
T Consensus       260 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  335 (406)
T 3sf4_A          260 LKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  335 (406)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             CcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence             11    456778889999999999999999988763211122    55788889999999999999999988754

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.71  E-value=4.1e-16  Score=122.55  Aligned_cols=263  Identities=14%  Similarity=0.074  Sum_probs=199.9

Q ss_pred             cccChhhHHHHhhccccCCC-C----HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC----CCC-CCHHHHHHHHHHhhcc
Q 023952            3 KVFGIHSGERYFEGLPLSAK-T----SETYTALLHLYAGAKWTEKAEELFERVKQS----NLS-FNALMYNEMMTLYMSV   72 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~-~~~~~~~~li~~~~~~   72 (275)
                      +.|++++|+..|+++....| +    ...|..+...+...|++++|...+++..+.    +-. ....++..+...+...
T Consensus        17 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~   96 (338)
T 3ro2_A           17 KSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEAKASGNLGNTLKVL   96 (338)
T ss_dssp             HTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHT
T ss_pred             HhccHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhcccccHHHHHHHHHHHHHHHHc
Confidence            56999999999999876655 3    467889999999999999999999886543    211 2356788899999999


Q ss_pred             CCHHHHHHHHHHHhhCCC-CCc----hhhHHHHHHHHHhhCC--------------------HHHHHHHHHHHhhcC---
Q 023952           73 GQVEKVALVVEEIKRKNV-VPD----IFTYNLWISSCAATLN--------------------IDQVKKFLDEMSCDS---  124 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~~~-~p~----~~~~~~ll~~~~~~~~--------------------~~~a~~~~~~~~~~~---  124 (275)
                      |++++|+..+++..+... .++    ..++..+...+...|+                    +++|...+++.....   
T Consensus        97 g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~A~~~~~~a~~~~~~~  176 (338)
T 3ro2_A           97 GNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDTGEFPEDVRNALQAAVDLYEENLSLVTAL  176 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSSSSSCC----CCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHcCcccccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHHhc
Confidence            999999999999765311 112    3477888888999999                    999999988865420   


Q ss_pred             C-CCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC---c--chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC
Q 023952          125 G-GSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ---R--QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK  198 (275)
Q Consensus       125 ~-~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  198 (275)
                      + .+....++..+...|...|++++|.. .+.+.......   +  ...++..+...+...|++++|...+++..+....
T Consensus       177 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~-~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~  255 (338)
T 3ro2_A          177 GDRAAQGRAFGNLGNTHYLLGNFRDAVI-AHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQ  255 (338)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh
Confidence            1 11223467888899999999999999 88776653221   1  1347778888999999999999999987643211


Q ss_pred             -CC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC----CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          199 -MT----SRNYICILSSYLMLGHLKEVGEIIDQWKQSAT----SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       199 -p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~----~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                       ++    ..++..+...|...|++++|...+++..+...    ......++..+...|...|++++|...+++..+.
T Consensus       256 ~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  332 (338)
T 3ro2_A          256 LKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEI  332 (338)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC
T ss_pred             hcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHH
Confidence             11    44677788999999999999999998865321    1112457788999999999999999999998763

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.70  E-value=1.1e-15  Score=126.36  Aligned_cols=212  Identities=10%  Similarity=-0.062  Sum_probs=117.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCH-HHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHH
Q 023952           40 TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQV-EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLD  118 (275)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~  118 (275)
                      ++++...+++..... +.+...+..+...+...|++ ++|++.|++..+.... +..+|..+...|...|++++|...|+
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPE-LVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            455555555544432 23555566666666666666 6666666666554221 34555566666666666666666666


Q ss_pred             HHhhcCCCCCCHHHHHHHHHHHHhc---------CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc--------CC
Q 023952          119 EMSCDSGGSDDWVKYVNLVNIYITA---------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL--------GN  181 (275)
Q Consensus       119 ~~~~~~~~~~~~~~~~~l~~~~~~~---------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------~~  181 (275)
                      +..+.   .|+...+..+...|...         |++++|+. .+++.....+. +...|..+..+|...        |+
T Consensus       162 ~al~~---~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~~~~g~  236 (474)
T 4abn_A          162 GALTH---CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVR-QAKLAVQMDVL-DGRSWYILGNAYLSLYFNTGQNPKI  236 (474)
T ss_dssp             HHHTT---CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHTTCCHHH
T ss_pred             HHHhh---CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHHHHhhccccch
Confidence            65543   24455555566666665         66666666 55555554433 455555555555555        56


Q ss_pred             HHHHHHHHHHHHhccCC--CChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHH
Q 023952          182 KDKIDQIWKSLRMTKQK--MTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEF  259 (275)
Q Consensus       182 ~~~a~~~~~~m~~~~~~--p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~  259 (275)
                      +++|...|++..+....  -+...+..+...|...|++++|.+.|++..+..  +.+...+..+..++...|++++|...
T Consensus       237 ~~~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~--p~~~~a~~~l~~~~~~lg~~~eAi~~  314 (474)
T 4abn_A          237 SQQALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD--PAWPEPQQREQQLLEFLSRLTSLLES  314 (474)
T ss_dssp             HHHHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666665553210  244555556666666666666666666665543  23444555555666666666665543


Q ss_pred             H
Q 023952          260 H  260 (275)
Q Consensus       260 ~  260 (275)
                      +
T Consensus       315 ~  315 (474)
T 4abn_A          315 K  315 (474)
T ss_dssp             T
T ss_pred             h
Confidence            3

>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=99.70  E-value=4e-14  Score=108.56  Aligned_cols=211  Identities=13%  Similarity=-0.023  Sum_probs=184.0

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc----cCC
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQ   74 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~   74 (275)
                      +.|++++|++.|++... ..+..++..+...|..    .+++++|...|++..+.+   ++..+..+...|..    .++
T Consensus        18 ~~~~~~~A~~~~~~a~~-~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~   93 (273)
T 1ouv_A           18 KEKDFTQAKKYFEKACD-LKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQN   93 (273)
T ss_dssp             HTTCHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             hCCCHHHHHHHHHHHHH-CCCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHhCCCCcccC
Confidence            45899999999998877 2367888999999999    999999999999999886   78899999999999    999


Q ss_pred             HHHHHHHHHHHhhCCCCCchhhHHHHHHHHHh----hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCch
Q 023952           75 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHL  146 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  146 (275)
                      +++|++.|++..+.+   +...+..+...|..    .+++++|...|++..+. +   +...+..+...|..    .+++
T Consensus        94 ~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~-~---~~~a~~~lg~~~~~~~~~~~~~  166 (273)
T 1ouv_A           94 TNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL-N---DGDGCTILGSLYDAGRGTPKDL  166 (273)
T ss_dssp             HHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             HHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhc-C---cHHHHHHHHHHHHcCCCCCCCH
Confidence            999999999999875   67788889999998    99999999999999885 3   56777888888988    9999


Q ss_pred             HHHHHHHHHHHHHccCCcchhhHHHHHHHHHc----cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHH
Q 023952          147 VNAESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLK  218 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~  218 (275)
                      ++|.. .++.....+   +...+..+...|..    .+++++|...|++..+.+   +...+..+...|..    .++++
T Consensus       167 ~~A~~-~~~~a~~~~---~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~l~~~~~~g~~~~~~~~  239 (273)
T 1ouv_A          167 KKALA-SYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEK  239 (273)
T ss_dssp             HHHHH-HHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCST
T ss_pred             HHHHH-HHHHHHHCC---CHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCcccCHH
Confidence            99999 888877664   45677888888999    999999999999988764   26677788888988    99999


Q ss_pred             HHHHHHHHHHhcC
Q 023952          219 EVGEIIDQWKQSA  231 (275)
Q Consensus       219 ~a~~~~~~~~~~~  231 (275)
                      +|.+.|++..+.+
T Consensus       240 ~A~~~~~~a~~~~  252 (273)
T 1ouv_A          240 QAIENFKKGCKLG  252 (273)
T ss_dssp             THHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcC
Confidence            9999999998865

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.69  E-value=1.8e-13  Score=106.90  Aligned_cols=237  Identities=8%  Similarity=0.060  Sum_probs=186.9

Q ss_pred             CHhHHHHHHHHHHcC----CCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc-------cCCH-------HHHHH
Q 023952           23 TSETYTALLHLYAGA----KWT----EKAEELFERVKQSNLSFNALMYNEMMTLYMS-------VGQV-------EKVAL   80 (275)
Q Consensus        23 ~~~~~~~li~~~~~~----g~~----~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-------~g~~-------~~a~~   80 (275)
                      +...|...+....+.    ++.    ++|..+|++..... +-++..|..+...+..       .|++       ++|..
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            455677777766554    233    78889999988764 5678889888887763       5875       99999


Q ss_pred             HHHHHhhCCCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH-HHHHHHHHHHhcCchHHHHHHHHHHHH
Q 023952           81 VVEEIKRKNVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV-KYVNLVNIYITASHLVNAESSTLVEAE  158 (275)
Q Consensus        81 ~~~~m~~~~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~  158 (275)
                      +|++..+. +.| +...|..++..+.+.|++++|..+|+++.+.  .+.+.. +|..+...+.+.|++++|.. ++++..
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            99999984 234 4568999999999999999999999999974  233344 79999999999999999999 999888


Q ss_pred             HccCCcchhhHHHHHHHH-HccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--
Q 023952          159 KSITQRQWITYDFLIILY-AGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--  235 (275)
Q Consensus       159 ~~~~~~~~~~~~~l~~~~-~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--  235 (275)
                      ...+. +...|....... ...|++++|..+|++..+.. +-+...|..++..+.+.|++++|..+|++.......+|  
T Consensus       162 ~~~p~-~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~  239 (308)
T 2ond_A          162 EDART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEK  239 (308)
T ss_dssp             TSTTC-CTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGG
T ss_pred             hcCCC-CHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHH
Confidence            76543 455554443332 23799999999999987753 23567788899999999999999999999998632233  


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          236 DISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       236 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                      ....|..++....+.|+.+.|..+++++.+.
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            5678999999999999999999999998864

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.68  E-value=1.9e-14  Score=103.58  Aligned_cols=166  Identities=13%  Similarity=0.054  Sum_probs=91.7

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+...|.+.|++++|+..|++..+.. |-++.+|..+...|.+.|++++|+..+......... +...+..+..
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~   81 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLDTT-SAEAYYILGS   81 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCch-hHHHHHHHHH
Confidence            45556666666666666666666666655543 334555666666666666666666666655554322 3444445555


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK  182 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  182 (275)
                      .+...++++.+...+.+....  .+.+...+..+..+|.+.|++++|++ .+++..+..+. +..+|..+...|...|++
T Consensus        82 ~~~~~~~~~~a~~~~~~a~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~-~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           82 ANFMIDEKQAAIDALQRAIAL--NTVYADAYYKLGLVYDSMGEHDKAIE-AYEKTISIKPG-FIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHHHHHhCCchhHHH-HHHHHHHhcch-hhhHHHHHHHHHHHCCCH
Confidence            555556666666666555542  23445555555555555666666655 55555444332 445555555555555555


Q ss_pred             HHHHHHHHHHHh
Q 023952          183 DKIDQIWKSLRM  194 (275)
Q Consensus       183 ~~a~~~~~~m~~  194 (275)
                      ++|.+.|++..+
T Consensus       158 ~~A~~~~~~al~  169 (184)
T 3vtx_A          158 DEAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            555555555544

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.68  E-value=9e-15  Score=120.95  Aligned_cols=214  Identities=11%  Similarity=-0.065  Sum_probs=184.4

Q ss_pred             ChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            6 GIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWT-EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         6 ~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      ++++|++.+++.....| +...|..+...+...|++ ++|...|++..+.. +.+...|..+...|.+.|++++|++.|+
T Consensus        83 ~~~~al~~l~~~~~~~~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  161 (474)
T 4abn_A           83 EMEKTLQQMEEVLGSAQVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFS  161 (474)
T ss_dssp             HHHHHHHHHHHHHTTCCCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccCchhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            36677778877666555 789999999999999999 99999999998875 4568899999999999999999999999


Q ss_pred             HHhhCCCCCchhhHHHHHHHHHhh---------CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc--------Cch
Q 023952           84 EIKRKNVVPDIFTYNLWISSCAAT---------LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA--------SHL  146 (275)
Q Consensus        84 ~m~~~~~~p~~~~~~~ll~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~  146 (275)
                      +..+.  .|+..++..+...+...         |++++|...|++..+.  .+.+...+..+..+|...        |++
T Consensus       162 ~al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~lg~~~~~~~~~~~~~~g~~  237 (474)
T 4abn_A          162 GALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQM--DVLDGRSWYILGNAYLSLYFNTGQNPKIS  237 (474)
T ss_dssp             HHHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHTTCCHHHH
T ss_pred             HHHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHhhccccchH
Confidence            99985  47778899999999999         9999999999999885  466788999999999999        999


Q ss_pred             HHHHHHHHHHHHHccCC--cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHH
Q 023952          147 VNAESSTLVEAEKSITQ--RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEII  224 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~  224 (275)
                      ++|+. .+++.....+.  .+...|..+...|...|++++|.+.|++..+.. +-+...+..+...+...|++++|.+.+
T Consensus       238 ~~A~~-~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          238 QQALS-AYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALD-PAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             HHHHH-HHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHH-HHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999 99988876541  377889999999999999999999999988763 224566888889999999999988765


Q ss_pred             HH
Q 023952          225 DQ  226 (275)
Q Consensus       225 ~~  226 (275)
                      .+
T Consensus       316 ~~  317 (474)
T 4abn_A          316 GK  317 (474)
T ss_dssp             TT
T ss_pred             cc
Confidence            54

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.66  E-value=1.1e-13  Score=99.52  Aligned_cols=166  Identities=14%  Similarity=0.041  Sum_probs=103.1

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      ++.+|..+...|.+.|++++|++.|++..+.... +..++..+..++.+.|++++|...+......  .+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPN-NVETLLKLGKTYMDIGLPNDAIESLKKFVVL--DTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CchhHHHHHHHH
Confidence            4566666667777777777777777776664332 4556666666666677777777766666653  244455556666


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  217 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  217 (275)
                      ..+...++++.|.. .+.......+. +...+..+...|...|++++|++.|++..+.. +.+...+..+...|.+.|++
T Consensus        81 ~~~~~~~~~~~a~~-~~~~a~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~lg~~~~~~g~~  157 (184)
T 3vtx_A           81 SANFMIDEKQAAID-ALQRAIALNTV-YADAYYKLGLVYDSMGEHDKAIEAYEKTISIK-PGFIRAYQSIGLAYEGKGLR  157 (184)
T ss_dssp             HHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHH-HHHHHHHhCcc-chHHHHHHHHHHHHhCCchhHHHHHHHHHHhc-chhhhHHHHHHHHHHHCCCH
Confidence            66666666666666 56555554433 45556666666666666666666666665542 22345566666666666666


Q ss_pred             HHHHHHHHHHHh
Q 023952          218 KEVGEIIDQWKQ  229 (275)
Q Consensus       218 ~~a~~~~~~~~~  229 (275)
                      ++|.+.|++..+
T Consensus       158 ~~A~~~~~~al~  169 (184)
T 3vtx_A          158 DEAVKYFKKALE  169 (184)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            666666666655

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.64  E-value=3.5e-14  Score=117.28  Aligned_cols=265  Identities=11%  Similarity=-0.063  Sum_probs=171.4

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHH---HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhh----ccCCHH
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHL---YAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM----SVGQVE   76 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~---~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~----~~g~~~   76 (275)
                      +++++|++.|++.....| +...+..+..+   +...++.++|++.+++..+.+ +.+..++..+...+.    ..|+++
T Consensus       152 ~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~-p~~~~~~~~l~~~~~~~~~~~~~~~  230 (472)
T 4g1t_A          152 NQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLN-PDNQYLKVLLALKLHKMREEGEEEG  230 (472)
T ss_dssp             THHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHC-SSCHHHHHHHHHHHHHCC------C
T ss_pred             ccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcC-CcchHHHHHHHHHHHHHHhhhhHHH
Confidence            468899999998877666 56666666554   345677788888888877764 445666665554443    446788


Q ss_pred             HHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc-------------
Q 023952           77 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA-------------  143 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-------------  143 (275)
                      +|.+++++..+... .+..++..+...+...|++++|...++++.+.  .|.+..++..+..+|...             
T Consensus       231 ~a~~~~~~al~~~~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~~y~~~~~~~~~~~~~~~~  307 (472)
T 4g1t_A          231 EGEKLVEEALEKAP-GVTDVLRSAAKFYRRKDEPDKAIELLKKALEY--IPNNAYLHCQIGCCYRAKVFQVMNLRENGMY  307 (472)
T ss_dssp             HHHHHHHHHHHHCS-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHC------
T ss_pred             HHHHHHHHHHHhCc-cHHHHHHHHHHHHHHcCchHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHHHHhhhHHHHHHH
Confidence            99999998887643 35677888999999999999999999998874  356667777777666432             


Q ss_pred             ------CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChh--hHHHHHH-HHHhc
Q 023952          144 ------SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR--NYICILS-SYLML  214 (275)
Q Consensus       144 ------g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~--~~~~li~-~~~~~  214 (275)
                            +..+.|.. .+.......+. +..++..+...|...|++++|.+.|++..+....|...  .+..+.. .....
T Consensus       308 ~~~~~~~~~~~A~~-~~~~a~~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~  385 (472)
T 4g1t_A          308 GKRKLLELIGHAVA-HLKKADEANDN-LFRVCSILASLHALADQYEEAEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQM  385 (472)
T ss_dssp             CHHHHHHHHHHHHH-HHHHHHHHCTT-TCCCHHHHHHHHHHTTCHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTS
T ss_pred             HHHHHHhhHHHHHH-HHHHHhhcCCc-hhhhhhhHHHHHHHhccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHC
Confidence                  23456666 66666554443 56778889999999999999999999988754333221  1222222 23478


Q ss_pred             CCHHHHHHHHHHHHhcCC----------------------CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc-CCCCC
Q 023952          215 GHLKEVGEIIDQWKQSAT----------------------SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK-NCAPT  271 (275)
Q Consensus       215 g~~~~a~~~~~~~~~~~~----------------------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~  271 (275)
                      |+.++|+..|.+..+-..                      .+.+..+|..+...|...|++++|.+.|++.++. ...|+
T Consensus       386 ~~~~~Ai~~y~kal~i~~~~~~~~~~~~~l~~~~~~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~  465 (472)
T 4g1t_A          386 KCEDKAIHHFIEGVKINQKSREKEKMKDKLQKIAKMRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPS  465 (472)
T ss_dssp             SCHHHHHHHHHHHHHSCCCCHHHHHHHHHHHHHHHHHHHHCC-CTTHHHHHHHHHHHHHHCC------------------
T ss_pred             CCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCc
Confidence            899999998887764321                      1345678899999999999999999999999875 34566


Q ss_pred             CCCC
Q 023952          272 NASG  275 (275)
Q Consensus       272 ~~ty  275 (275)
                      ..+|
T Consensus       466 a~~~  469 (472)
T 4g1t_A          466 ASSW  469 (472)
T ss_dssp             ----
T ss_pred             Hhhc
Confidence            6554

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.63  E-value=3.3e-12  Score=106.14  Aligned_cols=241  Identities=7%  Similarity=-0.073  Sum_probs=151.8

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc----cCCH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQV   75 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~   75 (275)
                      .+++++|++.|++..+. .+...+..|...|..    .+++++|...|++..+.|   ++..+..|...|..    .+++
T Consensus        56 ~~~~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~  131 (490)
T 2xm6_A           56 TKDLTQAMDWFRRAAEQ-GYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKG---LPQAQQNLGVMYHEGNGVKVDK  131 (490)
T ss_dssp             CCCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CcCHHHHHHHHHHHHHC-CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCH
Confidence            46677777777766543 356667777777776    777777777777777665   55666666666666    6677


Q ss_pred             HHHHHHHHHHhhCCCCCchhhHHHHHHHHHh----hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchH
Q 023952           76 EKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLV  147 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~  147 (275)
                      ++|++.|++..+.|   +...+..+...|..    .+++++|...|++..+.    .+...+..+...|..    .++.+
T Consensus       132 ~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~g~g~~~~~~  204 (490)
T 2xm6_A          132 AESVKWFRLAAEQG---RDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQ----GNVWSCNQLGYMYSRGLGVERNDA  204 (490)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHC----CCHHHHHHHHHHHhcCCCCCcCHH
Confidence            77777777777654   34555666666665    56777777777776664    245566666666666    67777


Q ss_pred             HHHHHHHHHHHHccCCcchhhHHHHHHHHHc----cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHHH
Q 023952          148 NAESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKE  219 (275)
Q Consensus       148 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~  219 (275)
                      +|.+ .+.+....+   +...+..+...|..    .+++++|..+|++..+.+   +...+..+...|..    .++.++
T Consensus       205 ~A~~-~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~  277 (490)
T 2xm6_A          205 ISAQ-WYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLK  277 (490)
T ss_dssp             HHHH-HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHH
T ss_pred             HHHH-HHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHH
Confidence            7777 666655543   33455555555554    566777777776665543   33444455555555    666666


Q ss_pred             HHHHHHHHHhcCCCCCCHHHHHHHHHHHHhc-----CChHHHHHHHHHHHhc
Q 023952          220 VGEIIDQWKQSATSDFDISACNRLLGAFSDV-----GLTEKANEFHMLLLQK  266 (275)
Q Consensus       220 a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~  266 (275)
                      |..+|++..+.+    +...+..+...|...     +++++|..++++..+.
T Consensus       278 A~~~~~~a~~~~----~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~  325 (490)
T 2xm6_A          278 ALEWYRKSAEQG----NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQ  325 (490)
T ss_dssp             HHHHHHHHHTTT----CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcC----CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhc
Confidence            666666665432    233444555555555     6666666666665544

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.63  E-value=2.8e-12  Score=106.58  Aligned_cols=241  Identities=7%  Similarity=-0.007  Sum_probs=143.0

Q ss_pred             cChhhHHHHhhccccCCCCHhHHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc----cCCHH
Q 023952            5 FGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQVE   76 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~   76 (275)
                      +++++|++.|++..+. .+...+..|...|..    .+++++|...|+...+.|   ++..+..+...|..    .++++
T Consensus       165 ~d~~~A~~~~~~a~~~-~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~  240 (490)
T 2xm6_A          165 RDYVMAREWYSKAAEQ-GNVWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYT  240 (490)
T ss_dssp             CCHHHHHHHHHHHHHT-TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHH
T ss_pred             CCHHHHHHHHHHHHHC-CCHHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHH
Confidence            4455555555554432 245555555555554    555566666665555544   34455555555543    55666


Q ss_pred             HHHHHHHHHhhCCCCCchhhHHHHHHHHHh----hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc-----CchH
Q 023952           77 KVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA-----SHLV  147 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----g~~~  147 (275)
                      +|.++|++..+.|   +...+..+...+..    .++.++|...|++..+.    .+...+..+...|...     ++++
T Consensus       241 ~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~----~~~~a~~~Lg~~y~~~~~g~~~~~~  313 (490)
T 2xm6_A          241 QSRVLFSQSAEQG---NSIAQFRLGYILEQGLAGAKEPLKALEWYRKSAEQ----GNSDGQYYLAHLYDKGAEGVAKNRE  313 (490)
T ss_dssp             HHHHHHHHHHTTT---CHHHHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTT----TCHHHHHHHHHHHHHCBTTBCCCHH
T ss_pred             HHHHHHHHHHHCC---CHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHc----CCHHHHHHHHHHHHcCCCCCcCCHH
Confidence            6666666655543   23344445555554    56666666666666553    2334555566666655     6667


Q ss_pred             HHHHHHHHHHHHccCCcchhhHHHHHHHHHccC---CHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHHHH
Q 023952          148 NAESSTLVEAEKSITQRQWITYDFLIILYAGLG---NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKEV  220 (275)
Q Consensus       148 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a  220 (275)
                      +|.. .+....+.+   +...+..+...|...|   ++++|.+.|++..+.|   +...+..+...|..    .+++++|
T Consensus       314 ~A~~-~~~~a~~~~---~~~a~~~lg~~y~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~g~g~~~~~~~A  386 (490)
T 2xm6_A          314 QAIS-WYTKSAEQG---DATAQANLGAIYFRLGSEEEHKKAVEWFRKAAAKG---EKAAQFNLGNALLQGKGVKKDEQQA  386 (490)
T ss_dssp             HHHH-HHHHHHHTT---CHHHHHHHHHHHHHSCCHHHHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHH
T ss_pred             HHHH-HHHHHHhcC---CHHHHHHHHHHHHhCCCcccHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHH
Confidence            7766 666655543   3345555555555544   6677777777766653   45566667777776    6778888


Q ss_pred             HHHHHHHHhcCCCCCCHHHHHHHHHHHHh----cCChHHHHHHHHHHHhcC
Q 023952          221 GEIIDQWKQSATSDFDISACNRLLGAFSD----VGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~  267 (275)
                      ...|++..+.+    +...+..|...|..    .++.++|...|++..+.+
T Consensus       387 ~~~~~~A~~~~----~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~  433 (490)
T 2xm6_A          387 AIWMRKAAEQG----LSAAQVQLGEIYYYGLGVERDYVQAWAWFDTASTND  433 (490)
T ss_dssp             HHHHHHHHHTT----CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCC----CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC
Confidence            88888777643    35556667777776    678888888887777655

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.61  E-value=8.7e-14  Score=111.97  Aligned_cols=232  Identities=10%  Similarity=-0.022  Sum_probs=175.4

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCC--C---CC-chhhHH
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQS----NLSF-NALMYNEMMTLYMSVGQVEKVALVVEEIKRKN--V---VP-DIFTYN   98 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--~---~p-~~~~~~   98 (275)
                      ....+...|++++|...|++..+.    +-++ ...++..+...|...|++++|+..+++..+.-  .   .| ...++.
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            667788999999999999998764    2111 34678999999999999999999999987631  1   11 235788


Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHhcCchHHHHHHHHHHHHHc----cC-CcchhhH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYITASHLVNAESSTLVEAEKS----IT-QRQWITY  169 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~-~~~~~~~  169 (275)
                      .+...|...|++++|...|++..+...-.++    ..++..+..+|...|++++|.. .+.+....    +. +....++
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~  267 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIP-YFKRAIAVFEESNILPSLPQAY  267 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHTTCGGGHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHH-HHHHHHHHHHhhccchhHHHHH
Confidence            8889999999999999999987653110111    2478889999999999999999 88877762    22 3346778


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhccC---CCC-hhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCCHHHHHH
Q 023952          170 DFLIILYAGLGNKDKIDQIWKSLRMTKQ---KMT-SRNYICILSSYLMLGH---LKEVGEIIDQWKQSATSDFDISACNR  242 (275)
Q Consensus       170 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~---~p~-~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (275)
                      ..+...|...|++++|...+++..+...   .|. ...+..+...|...|+   +++|..++++.   +..+.....+..
T Consensus       268 ~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~  344 (383)
T 3ulq_A          268 FLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAID  344 (383)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHH
Confidence            8899999999999999999998755321   111 2235667788888998   77777777765   222233456778


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHh
Q 023952          243 LLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       243 li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +...|...|++++|...+++..+
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            89999999999999999999865

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.61  E-value=6e-14  Score=113.74  Aligned_cols=240  Identities=15%  Similarity=0.067  Sum_probs=183.5

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHhhccCCHHHHHHHHHHHhhC----CC-CCch
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA----LMYNEMMTLYMSVGQVEKVALVVEEIKRK----NV-VPDI   94 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~-~p~~   94 (275)
                      ...+..+...+...|++++|...|++..+.+ +.+.    ..|..+...|...|++++|+..|++..+.    +- ....
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            4445567788899999999999999998864 2333    57889999999999999999999988753    11 1234


Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcC---C-CCCCHHHHHHHHHHHHhcCc-----------------hHHHHHHH
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDS---G-GSDDWVKYVNLVNIYITASH-----------------LVNAESST  153 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~-~~~~~~~~~~l~~~~~~~g~-----------------~~~a~~~~  153 (275)
                      .++..+...+...|++++|...++++.+..   + .+....++..+...|...|+                 +++|.+ .
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            678888889999999999999999876531   1 12334578889999999999                 999998 7


Q ss_pred             HHHHHHccC-----CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-CC----hhhHHHHHHHHHhcCCHHHHHHH
Q 023952          154 LVEAEKSIT-----QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT----SRNYICILSSYLMLGHLKEVGEI  223 (275)
Q Consensus       154 ~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~  223 (275)
                      +.+......     .....++..+...|...|++++|...+++..+.... ++    ...+..+...|...|++++|...
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            776554221     112457778888999999999999999987654211 11    12677889999999999999999


Q ss_pred             HHHHHhcCCCC----CCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          224 IDQWKQSATSD----FDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       224 ~~~~~~~~~~~----~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +++..+.....    ....++..+...|...|++++|...+++..+
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            99887632111    1256788899999999999999999998764

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.60  E-value=1.4e-13  Score=111.09  Aligned_cols=242  Identities=16%  Similarity=0.056  Sum_probs=185.4

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHhhccCCHHHHHHHHHHHhhC----CCCC-
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVP-   92 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-   92 (275)
                      .....+......+...|++++|...|++..+.+ +.+    ..+|..+...+...|++++|+..+++..+.    +-.| 
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            356778888999999999999999999988864 233    357888999999999999999999987543    2222 


Q ss_pred             chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHhcCc--------------------hHH
Q 023952           93 DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYITASH--------------------LVN  148 (275)
Q Consensus        93 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~--------------------~~~  148 (275)
                      ...++..+...+...|++++|...+++..+.....++    ..++..+...|...|+                    +++
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            2457778888899999999999999987653110111    4478889999999999                    999


Q ss_pred             HHHHHHHHHHHccC-----CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccC-CCC----hhhHHHHHHHHHhcCCHH
Q 023952          149 AESSTLVEAEKSIT-----QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KMT----SRNYICILSSYLMLGHLK  218 (275)
Q Consensus       149 a~~~~~~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~~g~~~  218 (275)
                      |.. .+.+......     .....++..+...|...|++++|...+++..+... .++    ...+..+...|...|+++
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 7776554211     11245677888899999999999999998765321 112    236778889999999999


Q ss_pred             HHHHHHHHHHhcCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          219 EVGEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       219 ~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +|...+++..+.....++    ..++..+...|...|++++|...+++..+
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            999999988753211111    55788899999999999999999998765

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.59  E-value=1.3e-14  Score=113.04  Aligned_cols=226  Identities=10%  Similarity=0.023  Sum_probs=160.3

Q ss_pred             cccChhhHHHHhhcccc--------CCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC------C-CCCCHHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPL--------SAK-TSETYTALLHLYAGAKWTEKAEELFERVKQS------N-LSFNALMYNEMM   66 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~--------~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~-~~~~~~~~~~li   66 (275)
                      ..|++++|+.+|+++..        ..| ...++..+...|...|++++|...+++..+.      + .+....++..+.
T Consensus        39 ~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~  118 (311)
T 3nf1_A           39 SQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKDHPAVAATLNNLA  118 (311)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCCChHHHHHHHHHH
Confidence            46899999999998766        233 5778999999999999999999999987754      2 233466889999


Q ss_pred             HHhhccCCHHHHHHHHHHHhhC------CCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhc------CCCCCCHHHH
Q 023952           67 TLYMSVGQVEKVALVVEEIKRK------NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD------SGGSDDWVKY  133 (275)
Q Consensus        67 ~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~  133 (275)
                      ..+...|++++|++.|++..+.      +-.| ...++..+...+...|++++|..+++++...      ...+....++
T Consensus       119 ~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  198 (311)
T 3nf1_A          119 VLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTKLGPDDPNVAKTK  198 (311)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTSCTTCHHHHHHH
T ss_pred             HHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            9999999999999999998864      2222 3456788889999999999999999997763      1123344578


Q ss_pred             HHHHHHHHhcCchHHHHHHHHHHHHHccCC-------c-ch------hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC
Q 023952          134 VNLVNIYITASHLVNAESSTLVEAEKSITQ-------R-QW------ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM  199 (275)
Q Consensus       134 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-------~-~~------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p  199 (275)
                      ..+..+|...|++++|.. .++++....+.       + ..      ..+..+...+...+.+.++...+....... ..
T Consensus       199 ~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~-~~  276 (311)
T 3nf1_A          199 NNLASCYLKQGKFKQAET-LYKEILTRAHEREFGSVDDENKPIWMHAEEREECKGKQKDGTSFGEYGGWYKACKVDS-PT  276 (311)
T ss_dssp             HHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHHHC------CCHHHHHHHHHHC-------CCSCCCC---------C-HH
T ss_pred             HHHHHHHHHcCCHHHHHH-HHHHHHHHHHHhcCCCCCcchHHHHHHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCC-ch
Confidence            889999999999999999 88877753211       1 11      122222333445556666666776655432 23


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          200 TSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      ...++..+...|.+.|++++|.++|++..+.
T Consensus       277 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          277 VTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            4566888999999999999999999988763

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.59  E-value=8.9e-13  Score=108.84  Aligned_cols=188  Identities=11%  Similarity=-0.093  Sum_probs=120.6

Q ss_pred             cccChhhHHHHhhccccC---------CC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC-----C--CCCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLS---------AK-TSETYTALLHLYAGAKWTEKAEELFERVKQS-----N--LSFNALMYNEM   65 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~---------~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~--~~~~~~~~~~l   65 (275)
                      +.|+.++|++.|++..+.         .| ...+|+.+..+|...|++++|...+++..+.     +  -...+.++..+
T Consensus        63 ~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~~~~~~~~~~~~~  142 (472)
T 4g1t_A           63 LKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSPYRIESPELDCEE  142 (472)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCSSCCCCHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccccchhhHHHHHHH
Confidence            458899999998765321         23 5778999999999999999999999886542     1  11235566665


Q ss_pred             HHHhhc--cCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH---HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 023952           66 MTLYMS--VGQVEKVALVVEEIKRKNVVPDIFTYNLWISS---CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  140 (275)
Q Consensus        66 i~~~~~--~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~---~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  140 (275)
                      ..++..  .+++++|++.|++..+.... +...+..+..+   +...++.++|++.+++..+.  .+.+..++..+...+
T Consensus       143 g~~~~~~~~~~y~~A~~~~~kal~~~p~-~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l--~p~~~~~~~~l~~~~  219 (472)
T 4g1t_A          143 GWTRLKCGGNQNERAKVCFEKALEKKPK-NPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRL--NPDNQYLKVLLALKL  219 (472)
T ss_dssp             HHHHHHHCTTHHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHH--CSSCHHHHHHHHHHH
T ss_pred             HHHHHHHccccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhc--CCcchHHHHHHHHHH
Confidence            555544  45799999999998875322 33444444444   33446667777777776663  244455555554444


Q ss_pred             Hh----cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          141 IT----ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       141 ~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      ..    .|++++|.+ .+++.....+. +...+..+...|...|++++|...+++..+.
T Consensus       220 ~~~~~~~~~~~~a~~-~~~~al~~~~~-~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~  276 (472)
T 4g1t_A          220 HKMREEGEEEGEGEK-LVEEALEKAPG-VTDVLRSAAKFYRRKDEPDKAIELLKKALEY  276 (472)
T ss_dssp             HHCC------CHHHH-HHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhhHHHHHHH-HHHHHHHhCcc-HHHHHHHHHHHHHHcCchHHHHHHHHHHHHh
Confidence            33    456667777 66666554443 5566667777777777777777777766554

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.59  E-value=1.9e-13  Score=107.23  Aligned_cols=240  Identities=15%  Similarity=0.061  Sum_probs=181.5

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHhhccCCHHHHHHHHHHHhhC----CCCC-ch
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVP-DI   94 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~   94 (275)
                      ...+......+...|++++|...|+++.+.. +.+    ...+..+...+...|++++|++.+++..+.    +..| ..
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            3456667788999999999999999988864 233    467889999999999999999999987653    2122 24


Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHhcCc--------------------hHHHH
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYITASH--------------------LVNAE  150 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~--------------------~~~a~  150 (275)
                      .++..+...+...|++++|...+++..+.....++    ..++..+...|...|+                    +++|.
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            57788888899999999999999987653111122    3477888999999999                    99999


Q ss_pred             HHHHHHHHHcc----CC-cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-CC----hhhHHHHHHHHHhcCCHHHH
Q 023952          151 SSTLVEAEKSI----TQ-RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT----SRNYICILSSYLMLGHLKEV  220 (275)
Q Consensus       151 ~~~~~~~~~~~----~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a  220 (275)
                      . .+.+.....    .. .....+..+...+...|++++|...+++..+.... ++    ...+..+...+...|++++|
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 776654421    11 12456778888999999999999999987643111 11    23677888999999999999


Q ss_pred             HHHHHHHHhcCCCCCC----HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          221 GEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       221 ~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ...+++..+......+    ..++..+...+...|++++|...+++..+
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            9999988753211111    55778889999999999999999988764

>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=99.58  E-value=4.7e-13  Score=95.92  Aligned_cols=163  Identities=12%  Similarity=0.048  Sum_probs=79.8

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  104 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  104 (275)
                      ..|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++|.+.++++.+... .+...+..+...+
T Consensus         9 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~   86 (186)
T 3as5_A            9 VYYRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLADAP-DNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHH
Confidence            344445555555555555555555554432 23445555555555555555555555555554321 1344444455555


Q ss_pred             HhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHH
Q 023952          105 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK  184 (275)
Q Consensus       105 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  184 (275)
                      ...|++++|...++++.+.  .+.+...+..+...+...|++++|.. .+.......+. +...+..+...+...|++++
T Consensus        87 ~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~  162 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAEA--NPINFNVRFRLGVALDNLGRFDEAID-SFKIALGLRPN-EGKVHRAIAFSYEQMGRHEE  162 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHhcCHHHHHHHHHHHHhc--CcHhHHHHHHHHHHHHHcCcHHHHHH-HHHHHHhcCcc-chHHHHHHHHHHHHcCCHHH
Confidence            5555555555555555442  23344444455555555555555555 44444433321 33444444444444555555


Q ss_pred             HHHHHHHHH
Q 023952          185 IDQIWKSLR  193 (275)
Q Consensus       185 a~~~~~~m~  193 (275)
                      |...+++..
T Consensus       163 A~~~~~~~~  171 (186)
T 3as5_A          163 ALPHFKKAN  171 (186)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            555444443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.58  E-value=8.6e-12  Score=104.67  Aligned_cols=234  Identities=9%  Similarity=0.072  Sum_probs=179.8

Q ss_pred             hHHHHHHHHHHcC----CCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc-------cCCHH-------HHHHHH
Q 023952           25 ETYTALLHLYAGA----KWT----EKAEELFERVKQSNLSFNALMYNEMMTLYMS-------VGQVE-------KVALVV   82 (275)
Q Consensus        25 ~~~~~li~~~~~~----g~~----~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-------~g~~~-------~a~~~~   82 (275)
                      ..|...+......    ++.    ++|..+|++..... +-++..|..+...+.+       .|+++       +|.++|
T Consensus       231 ~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~  309 (530)
T 2ooe_A          231 DMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIY  309 (530)
T ss_dssp             HHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHH
Confidence            5666666544332    232    47788999888763 5578899988888875       79987       999999


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC-H-HHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD-W-VKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      ++..+.-.+-+...|..++..+.+.|++++|..+|+++.+.   +|+ . .+|..++..+.+.|++++|.+ ++....+.
T Consensus       310 ~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~Al~~  385 (530)
T 2ooe_A          310 ERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI---EDIDPTLVYIQYMKFARRAEGIKSGRM-IFKKARED  385 (530)
T ss_dssp             HHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS---SSSCHHHHHHHHHHHHHHHHHHHHHHH-HHHHHHTC
T ss_pred             HHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc---cccCchHHHHHHHHHHHHhcCHHHHHH-HHHHHHhc
Confidence            99987312235778999999999999999999999999974   343 3 478899999999999999999 89888775


Q ss_pred             cCCcchhhHHHHHHH-HHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC--H
Q 023952          161 ITQRQWITYDFLIIL-YAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD--I  237 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~-~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~  237 (275)
                      .+. +...|...... +...|++++|..+|+...+.. +-+...|..++..+.+.|+.++|..+|++........|+  .
T Consensus       386 ~~~-~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~-p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~  463 (530)
T 2ooe_A          386 ART-RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKY-GDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSG  463 (530)
T ss_dssp             TTC-CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCH
T ss_pred             cCC-chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHH
Confidence            432 33333322222 346899999999999887753 235678889999999999999999999999886433332  4


Q ss_pred             HHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          238 SACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       238 ~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..|...+......|+.+.+..+++++.+
T Consensus       464 ~lw~~~~~~e~~~G~~~~~~~~~~r~~~  491 (530)
T 2ooe_A          464 EIWARFLAFESNIGDLASILKVEKRRFT  491 (530)
T ss_dssp             HHHHHHHHHHHHSSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4788888888899999999999998865

>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=99.57  E-value=1.3e-12  Score=93.65  Aligned_cols=160  Identities=11%  Similarity=-0.026  Sum_probs=70.5

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHc
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG  178 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  178 (275)
                      .+...+...|++++|...++++.+.  .+.+..++..+...+...|++++|.. .++.+....+. +...+..+...+..
T Consensus        13 ~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~~a~~~~~   88 (186)
T 3as5_A           13 DKGISHAKAGRYSQAVMLLEQVYDA--DAFDVDVALHLGIAYVKTGAVDRGTE-LLERSLADAPD-NVKVATVLGLTYVQ   88 (186)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTTTCCT--TSCCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHh--CccChHHHHHHHHHHHHcCCHHHHHH-HHHHHHhcCCC-CHHHHHHHHHHHHH
Confidence            3333444444444444444444331  12333444444444444444444444 44443333221 33344444444444


Q ss_pred             cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHH
Q 023952          179 LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANE  258 (275)
Q Consensus       179 ~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~  258 (275)
                      .|++++|.+.++++.+.. +.+...+..+...+...|++++|...+++..+..  +.+...+..+...+...|++++|..
T Consensus        89 ~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~  165 (186)
T 3as5_A           89 VQKYDLAVPLLIKVAEAN-PINFNVRFRLGVALDNLGRFDEAIDSFKIALGLR--PNEGKVHRAIAFSYEQMGRHEEALP  165 (186)
T ss_dssp             HTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             hcCHHHHHHHHHHHHhcC-cHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHcCCHHHHHH
Confidence            444444444444444331 2233344444444555555555555555544432  2334444445555555555555555


Q ss_pred             HHHHHHh
Q 023952          259 FHMLLLQ  265 (275)
Q Consensus       259 ~~~~m~~  265 (275)
                      .+++..+
T Consensus       166 ~~~~~~~  172 (186)
T 3as5_A          166 HFKKANE  172 (186)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555443

>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=99.56  E-value=3.7e-13  Score=116.02  Aligned_cols=167  Identities=12%  Similarity=0.006  Sum_probs=147.8

Q ss_pred             C-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHH
Q 023952           22 K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLW  100 (275)
Q Consensus        22 ~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~l  100 (275)
                      | +..+|+.|...|.+.|++++|+..|++..+.. +-+...|+.+...|.+.|++++|++.|++..+.+.. +..+|..+
T Consensus         6 P~~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~P~-~~~a~~nL   83 (723)
T 4gyw_A            6 PTHADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT-FADAYSNM   83 (723)
T ss_dssp             CHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHH
Confidence            5 68899999999999999999999999998875 446889999999999999999999999999985433 57789999


Q ss_pred             HHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccC
Q 023952          101 ISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG  180 (275)
Q Consensus       101 l~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  180 (275)
                      ..++...|++++|++.|++..+.  .+.+...++.+..+|.+.|++++|++ .+++..+..+. +...+..+...+...|
T Consensus        84 g~~l~~~g~~~~A~~~~~kAl~l--~P~~~~a~~~Lg~~~~~~g~~~eAi~-~~~~Al~l~P~-~~~a~~~L~~~l~~~g  159 (723)
T 4gyw_A           84 GNTLKEMQDVQGALQCYTRAIQI--NPAFADAHSNLASIHKDSGNIPEAIA-SYRTALKLKPD-FPDAYCNLAHCLQIVC  159 (723)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCSC-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-ChHHHhhhhhHHHhcc
Confidence            99999999999999999999884  35678889999999999999999999 99988887654 6788999999999999


Q ss_pred             CHHHHHHHHHHHHh
Q 023952          181 NKDKIDQIWKSLRM  194 (275)
Q Consensus       181 ~~~~a~~~~~~m~~  194 (275)
                      ++++|.+.+++..+
T Consensus       160 ~~~~A~~~~~kal~  173 (723)
T 4gyw_A          160 DWTDYDERMKKLVS  173 (723)
T ss_dssp             CCTTHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHH
Confidence            99999998887654

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.55  E-value=3.7e-12  Score=106.85  Aligned_cols=216  Identities=12%  Similarity=0.049  Sum_probs=173.3

Q ss_pred             hHHHHhhccccCCC-CHhHHHHHHHHHHc-------CCCHH-------HHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC
Q 023952            9 SGERYFEGLPLSAK-TSETYTALLHLYAG-------AKWTE-------KAEELFERVKQSNLSFNALMYNEMMTLYMSVG   73 (275)
Q Consensus         9 ~A~~~~~~~~~~~~-~~~~~~~li~~~~~-------~g~~~-------~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g   73 (275)
                      .|+.+|++.....| +...|..++..+.+       .|+++       +|..+|++..+.-.+.+...|..++..+.+.|
T Consensus       256 ~a~~~y~~al~~~p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g  335 (530)
T 2ooe_A          256 RVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRM  335 (530)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcC
Confidence            56678887776556 78899999998876       79987       89999999886323456889999999999999


Q ss_pred             CHHHHHHHHHHHhhCCCCCch--hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH-HHhcCchHHHH
Q 023952           74 QVEKVALVVEEIKRKNVVPDI--FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI-YITASHLVNAE  150 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~--~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~  150 (275)
                      ++++|.++|+++.+.  .|+.  ..|..++..+.+.|++++|.++|++..+.  .+.+...+...+.. +...|+.++|.
T Consensus       336 ~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~~~~~~~~~a~~~~~~~~~~~~A~  411 (530)
T 2ooe_A          336 KYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAF  411 (530)
T ss_dssp             CHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTCCTHHHHHHHHHHHHHTCCHHHHH
T ss_pred             CHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCCchHHHHHHHHHHHHHcCChhHHH
Confidence            999999999999985  4542  47888999899999999999999999874  23334444433322 34689999999


Q ss_pred             HHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccC-CCC--hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023952          151 SSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KMT--SRNYICILSSYLMLGHLKEVGEIIDQW  227 (275)
Q Consensus       151 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~  227 (275)
                      . +++...+..+. +...|..++..+.+.|+.++|..+|++....+. .|+  ...|...+......|+.+.+..++.++
T Consensus       412 ~-~~e~al~~~p~-~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~  489 (530)
T 2ooe_A          412 K-IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  489 (530)
T ss_dssp             H-HHHHHHHHHTT-CHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHH
T ss_pred             H-HHHHHHHHCCC-CHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            9 99988876653 678899999999999999999999999887632 222  336777788888999999999999998


Q ss_pred             Hhc
Q 023952          228 KQS  230 (275)
Q Consensus       228 ~~~  230 (275)
                      .+.
T Consensus       490 ~~~  492 (530)
T 2ooe_A          490 FTA  492 (530)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            774

>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=99.52  E-value=7.1e-12  Score=93.28  Aligned_cols=198  Identities=11%  Similarity=-0.021  Sum_probs=144.3

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      .|+..|......+...|++++|...|+...+...+++...+..+..++...|++++|++.|++..+.... +..++..+.
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            3678888889999999999999999999888763377788877888999999999999999999886433 566788888


Q ss_pred             HHHHhhCCHHHHHHHHHHHhhcCCCCCCH-------HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc-chhhHHHHH
Q 023952          102 SSCAATLNIDQVKKFLDEMSCDSGGSDDW-------VKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-QWITYDFLI  173 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~  173 (275)
                      ..+...|++++|...+++..+.  .+.+.       .+|..+...+.+.|++++|++ .+.+.....+.. +...|..+.
T Consensus        84 ~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~-~~~~al~~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           84 AAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEE-NYKHATDVTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHTTSSCHHHHHHHHHHHH
T ss_pred             HHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHH-HHHHHHhcCCCcccHHHHHHHH
Confidence            8899999999999999998874  24445       457777888888899999999 887776653210 345666676


Q ss_pred             HHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          174 ILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      ..|...|     ..+++++...+ ..+...+....  ....+.+++|...+++..+..
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            6665443     34445544432 22333333332  334566888999998888754

>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=2.1e-12  Score=111.39  Aligned_cols=165  Identities=10%  Similarity=-0.026  Sum_probs=107.4

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      ++..|+.|...|.+.|++++|++.|++..+.... +..++..+..+|.+.|++++|+..|++..+.  .+.+...|..+.
T Consensus         8 ~a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~-~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l--~P~~~~a~~nLg   84 (723)
T 4gyw_A            8 HADSLNNLANIKREQGNIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRI--SPTFADAYSNMG   84 (723)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHH
Confidence            3556777777777777777777777777664322 3556666777777777777777777776663  244566667777


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCC
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGH  216 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~  216 (275)
                      .+|.+.|++++|++ .+++..+..+. +...|+.+...|...|++++|++.|++..+.  .| +...+..+...+...|+
T Consensus        85 ~~l~~~g~~~~A~~-~~~kAl~l~P~-~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l--~P~~~~a~~~L~~~l~~~g~  160 (723)
T 4gyw_A           85 NTLKEMQDVQGALQ-CYTRAIQINPA-FADAHSNLASIHKDSGNIPEAIASYRTALKL--KPDFPDAYCNLAHCLQIVCD  160 (723)
T ss_dssp             HHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCChHHHhhhhhHHHhccc
Confidence            77777777777777 66666655443 5566666666677777777777777666654  33 34556666666667777


Q ss_pred             HHHHHHHHHHHHh
Q 023952          217 LKEVGEIIDQWKQ  229 (275)
Q Consensus       217 ~~~a~~~~~~~~~  229 (275)
                      +++|.+.+++..+
T Consensus       161 ~~~A~~~~~kal~  173 (723)
T 4gyw_A          161 WTDYDERMKKLVS  173 (723)
T ss_dssp             CTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            7777666666554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.52  E-value=6.9e-12  Score=100.42  Aligned_cols=262  Identities=11%  Similarity=0.037  Sum_probs=185.9

Q ss_pred             cccChhhHHHHhhccccCCC--CH----hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHhhc
Q 023952            3 KVFGIHSGERYFEGLPLSAK--TS----ETYTALLHLYAGAKWTEKAEELFERVKQSNL-SFN----ALMYNEMMTLYMS   71 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~--~~----~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~~----~~~~~~li~~~~~   71 (275)
                      ..|++++|...+++.....|  +.    ..++.+...+...|++++|...+++.....- .++    ..++..+...+..
T Consensus        26 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  105 (373)
T 1hz4_A           26 NDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFA  105 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHH
Confidence            46899999999887654433  22    2567777888999999999999998764210 012    2346777888999


Q ss_pred             cCCHHHHHHHHHHHhhC----CCC--Cc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC---CCCCCHHHHHHHHHHHH
Q 023952           72 VGQVEKVALVVEEIKRK----NVV--PD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDS---GGSDDWVKYVNLVNIYI  141 (275)
Q Consensus        72 ~g~~~~a~~~~~~m~~~----~~~--p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~  141 (275)
                      .|++++|+..+++..+.    +..  |. ..++..+...+...|++++|...+++.....   +.+....++..+...+.
T Consensus       106 ~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  185 (373)
T 1hz4_A          106 QGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSL  185 (373)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHHHHHHHHHHH
Confidence            99999999999988753    221  32 3456667788999999999999999876531   11112356778888999


Q ss_pred             hcCchHHHHHHHHHHHHHccCCcch-hhHH-----HHHHHHHccCCHHHHHHHHHHHHhccCCCC---hhhHHHHHHHHH
Q 023952          142 TASHLVNAESSTLVEAEKSITQRQW-ITYD-----FLIILYAGLGNKDKIDQIWKSLRMTKQKMT---SRNYICILSSYL  212 (275)
Q Consensus       142 ~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~-----~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~  212 (275)
                      ..|++++|.. .+++.......++. ..+.     ..+..+...|++++|...+++.......+.   ...+..+...+.
T Consensus       186 ~~g~~~~A~~-~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~la~~~~  264 (373)
T 1hz4_A          186 ARGDLDNARS-QLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  264 (373)
T ss_dssp             HHTCHHHHHH-HHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             HcCCHHHHHH-HHHHHHHHHhccCcchhHHHHHHHHHHHHHHHCCCHHHHHHHHHhCCCCCCCcchhhHHHHHHHHHHHH
Confidence            9999999999 88887654333221 1222     233447789999999999988765432211   124567788899


Q ss_pred             hcCCHHHHHHHHHHHHhcCC---CCCCH-HHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          213 MLGHLKEVGEIIDQWKQSAT---SDFDI-SACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~~~---~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..|++++|...+++......   ..++. ..+..+..++...|+.++|...+++...
T Consensus       265 ~~g~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~al~  321 (373)
T 1hz4_A          265 LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  321 (373)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHHhCcchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            99999999999998865321   11122 3566678889999999999999988754

>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=1.1e-12  Score=100.43  Aligned_cols=228  Identities=13%  Similarity=0.011  Sum_probs=158.8

Q ss_pred             HcCCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC------CCCC-chhhHHHH
Q 023952           35 AGAKWTEKAEELFERVKQ-------SNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK------NVVP-DIFTYNLW  100 (275)
Q Consensus        35 ~~~g~~~~a~~~~~~m~~-------~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~l  100 (275)
                      ...|++++|...|++..+       .+.+....++..+...+...|++++|+..+++..+.      +-.| ...++..+
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            456777777777776554       222335678899999999999999999999998864      2222 35678889


Q ss_pred             HHHHHhhCCHHHHHHHHHHHhhcC------CCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc------cCCc-chh
Q 023952          101 ISSCAATLNIDQVKKFLDEMSCDS------GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS------ITQR-QWI  167 (275)
Q Consensus       101 l~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~------~~~~-~~~  167 (275)
                      ...+...|++++|...++++....      ..+....++..+...|...|++++|.. .+++....      ...| ...
T Consensus        92 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~  170 (283)
T 3edt_B           92 AVLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEY-YYRRALEIYATRLGPDDPNVAK  170 (283)
T ss_dssp             HHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHH-HHHHHHHHHHHHSCTTCHHHHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHHHhcCCCCHHHHH
Confidence            999999999999999999988741      123446678899999999999999999 88887765      1122 456


Q ss_pred             hHHHHHHHHHccCCHHHHHHHHHHHHhc-------cCCCChhh-HHHHHHHHHhcCCH------HHHHHHHHHHHhcCCC
Q 023952          168 TYDFLIILYAGLGNKDKIDQIWKSLRMT-------KQKMTSRN-YICILSSYLMLGHL------KEVGEIIDQWKQSATS  233 (275)
Q Consensus       168 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~-------~~~p~~~~-~~~li~~~~~~g~~------~~a~~~~~~~~~~~~~  233 (275)
                      ++..+...|...|++++|...+++..+.       ...+.... +..+...+...+..      ..+...+.....  ..
T Consensus       171 ~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~  248 (283)
T 3edt_B          171 TKNNLASCYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV--DS  248 (283)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC--CC
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC--CC
Confidence            7888899999999999999999988654       12233333 33333333333322      222222222111  11


Q ss_pred             CCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          234 DFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       234 ~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +....++..+...|...|++++|..++++.++
T Consensus       249 ~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          249 PTVNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            22345788899999999999999999998875

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.51  E-value=6.1e-13  Score=107.03  Aligned_cols=223  Identities=10%  Similarity=-0.026  Sum_probs=169.6

Q ss_pred             cccChhhHHHHhhccccC---CC----CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC----C--CCCCHHHHHHHHHHh
Q 023952            3 KVFGIHSGERYFEGLPLS---AK----TSETYTALLHLYAGAKWTEKAEELFERVKQS----N--LSFNALMYNEMMTLY   69 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~---~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~--~~~~~~~~~~li~~~   69 (275)
                      ..|++++|++.|++....   .+    ...+|..+...|...|++++|...+++..+.    +  .+....+++.+...|
T Consensus       115 ~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~  194 (383)
T 3ulq_A          115 DQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAYNIRLLQCHSLFATNF  194 (383)
T ss_dssp             HTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTTHHHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccchHHHHHHHHHHHHHH
Confidence            468999999999887553   12    4678999999999999999999999987643    1  111245788999999


Q ss_pred             hccCCHHHHHHHHHHHhhCCCC-Cc----hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc---CCC-CCCHHHHHHHHHHH
Q 023952           70 MSVGQVEKVALVVEEIKRKNVV-PD----IFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGG-SDDWVKYVNLVNIY  140 (275)
Q Consensus        70 ~~~g~~~~a~~~~~~m~~~~~~-p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~~~l~~~~  140 (275)
                      ...|++++|++.|++..+.... ++    ..++..+...|...|++++|...+++..+.   .+. +....++..+...|
T Consensus       195 ~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~  274 (383)
T 3ulq_A          195 LDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYFLITQIH  274 (383)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHHHHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHHHHHHHH
Confidence            9999999999999998753111 11    247888999999999999999999987761   122 34466788999999


Q ss_pred             HhcCchHHHHHHHHHHHHHccC---Cc-chhhHHHHHHHHHccCC---HHHHHHHHHHHHhccCCCC-hhhHHHHHHHHH
Q 023952          141 ITASHLVNAESSTLVEAEKSIT---QR-QWITYDFLIILYAGLGN---KDKIDQIWKSLRMTKQKMT-SRNYICILSSYL  212 (275)
Q Consensus       141 ~~~g~~~~a~~~~~~~~~~~~~---~~-~~~~~~~l~~~~~~~~~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~  212 (275)
                      .+.|++++|.. .+++......   .| ....+..+...|...|+   .++|..++++.   +..|+ ...+..+...|.
T Consensus       275 ~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~  350 (383)
T 3ulq_A          275 YKLGKIDKAHE-YHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESK---MLYADLEDFAIDVAKYYH  350 (383)
T ss_dssp             HHTTCHHHHHH-HHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHC---cCHHHHHHHHHHHHHHHH
Confidence            99999999999 8877665322   12 22335677788888999   77777777655   22332 345677899999


Q ss_pred             hcCCHHHHHHHHHHHHh
Q 023952          213 MLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~  229 (275)
                      ..|++++|...+++..+
T Consensus       351 ~~g~~~~A~~~~~~al~  367 (383)
T 3ulq_A          351 ERKNFQKASAYFLKVEQ  367 (383)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHH
Confidence            99999999999998865

>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=99.51  E-value=7.3e-13  Score=101.44  Aligned_cols=225  Identities=11%  Similarity=0.054  Sum_probs=158.7

Q ss_pred             cccChhhHHHHhhccccC--------CC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC------C-CCCCHHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLS--------AK-TSETYTALLHLYAGAKWTEKAEELFERVKQS------N-LSFNALMYNEMM   66 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~--------~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~------~-~~~~~~~~~~li   66 (275)
                      ..|++++|+.+|++....        .| ...++..+...|...|++++|...|++..+.      + .+....++..+.
T Consensus        13 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~   92 (283)
T 3edt_B           13 GLVPRGSAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLA   92 (283)
T ss_dssp             CCSCSSSHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHH
Confidence            356777777777765441        23 5778999999999999999999999998754      2 123466889999


Q ss_pred             HHhhccCCHHHHHHHHHHHhhC------CCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhc------CCCCCCHHHH
Q 023952           67 TLYMSVGQVEKVALVVEEIKRK------NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD------SGGSDDWVKY  133 (275)
Q Consensus        67 ~~~~~~g~~~~a~~~~~~m~~~------~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~------~~~~~~~~~~  133 (275)
                      ..|...|++++|++.|++..+.      .-.| ...++..+...+...|++++|...++++.+.      ...+....++
T Consensus        93 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  172 (283)
T 3edt_B           93 VLYGKRGKYKEAEPLCKRALEIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTK  172 (283)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHH
T ss_pred             HHHHHhccHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHH
Confidence            9999999999999999998864      1122 3567888999999999999999999998764      1123345678


Q ss_pred             HHHHHHHHhcCchHHHHHHHHHHHHHccC-------Cc-chhhHHHHHHHHHccCCHHHHHH------HHHHHHhccCCC
Q 023952          134 VNLVNIYITASHLVNAESSTLVEAEKSIT-------QR-QWITYDFLIILYAGLGNKDKIDQ------IWKSLRMTKQKM  199 (275)
Q Consensus       134 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-------~~-~~~~~~~l~~~~~~~~~~~~a~~------~~~~m~~~~~~p  199 (275)
                      ..+..+|...|++++|.. .+.+.....+       .+ ....|..+...+...+....+..      .++.... ....
T Consensus       173 ~~la~~~~~~g~~~~A~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~  250 (283)
T 3edt_B          173 NNLASCYLKQGKYQDAET-LYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKV-DSPT  250 (283)
T ss_dssp             HHHHHHHHHHTCHHHHHH-HHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCC-CCHH
T ss_pred             HHHHHHHHHcCCHHHHHH-HHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCC-CCHH
Confidence            899999999999999999 8888776321       11 23344444444443333332222      2221110 0011


Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 023952          200 TSRNYICILSSYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       200 ~~~~~~~li~~~~~~g~~~~a~~~~~~~~~  229 (275)
                      ....+..+...|...|++++|..++++..+
T Consensus       251 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          251 VNTTLRSLGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            234577889999999999999999998765

>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=99.51  E-value=1.7e-11  Score=109.54  Aligned_cols=218  Identities=10%  Similarity=0.056  Sum_probs=127.3

Q ss_pred             cChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEE   84 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~   84 (275)
                      +++++|.++.++..    +..+|..+..++...|++++|.+.|...      -|...|..++..+.+.|++++|+++|..
T Consensus      1090 ~nldrAiE~Aervn----~p~vWsqLAKAql~~G~~kEAIdsYiKA------dD~say~eVa~~~~~lGkyEEAIeyL~m 1159 (1630)
T 1xi4_A         1090 GNLDRAYEFAERCN----EPAVWSQLAKAQLQKGMVKEAIDSYIKA------DDPSSYMEVVQAANTSGNWEELVKYLQM 1159 (1630)
T ss_pred             hhHHHHHHHHHhcC----CHHHHHHHHHHHHhCCCHHHHHHHHHhc------CChHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            45555555555442    3566777777777777777777777442      2566667777777777777777777766


Q ss_pred             HhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc
Q 023952           85 IKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR  164 (275)
Q Consensus        85 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  164 (275)
                      .++..  +++...+.++.+|++.+++++...+    .+    .++...+..+...|...|++++|.. +|...       
T Consensus      1160 Ark~~--~e~~Idt~LafaYAKl~rleele~f----I~----~~n~ad~~~iGd~le~eg~YeeA~~-~Y~kA------- 1221 (1630)
T 1xi4_A         1160 ARKKA--RESYVETELIFALAKTNRLAELEEF----IN----GPNNAHIQQVGDRCYDEKMYDAAKL-LYNNV------- 1221 (1630)
T ss_pred             HHhhc--ccccccHHHHHHHHhhcCHHHHHHH----Hh----CCCHHHHHHHHHHHHhcCCHHHHHH-HHHhh-------
Confidence            55543  2333333466667777666643333    22    2344555566677777777777777 55543       


Q ss_pred             chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 023952          165 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  244 (275)
Q Consensus       165 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  244 (275)
                        ..|..+...|.+.|++++|.+.+++..      +..+|..+-.+|...|++..|......+      ..+...+..++
T Consensus      1222 --~ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cgl~I------iv~~deLeeli 1287 (1630)
T 1xi4_A         1222 --SNFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCGLHI------VVHADELEELI 1287 (1630)
T ss_pred             --hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHHHhh------hcCHHHHHHHH
Confidence              366667777777777777777766542      2344444444444444444444433321      12333345566


Q ss_pred             HHHHhcCChHHHHHHHHHHH
Q 023952          245 GAFSDVGLTEKANEFHMLLL  264 (275)
Q Consensus       245 ~~~~~~g~~~~a~~~~~~m~  264 (275)
                      ..|.+.|.+++|..+++..+
T Consensus      1288 ~yYe~~G~feEAI~LlE~aL 1307 (1630)
T 1xi4_A         1288 NYYQDRGYFEELITMLEAAL 1307 (1630)
T ss_pred             HHHHHcCCHHHHHHHHHHHh
Confidence            66666666666666665543

>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=1.1e-11  Score=99.42  Aligned_cols=234  Identities=10%  Similarity=-0.045  Sum_probs=173.9

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CC----CHHHHHHHHHHhhccCCHHHHHHHHHHHhhC----C-CCC-chh
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQSNL-SF----NALMYNEMMTLYMSVGQVEKVALVVEEIKRK----N-VVP-DIF   95 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~p-~~~   95 (275)
                      |......+...|++++|...|++..+... .+    ...++..+...|...|+++.|+..+++..+.    + ..+ ...
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            34455667889999999999999875411 12    3457888999999999999999999987753    1 111 245


Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHhhcC---CCC-CCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH-----ccCCcch
Q 023952           96 TYNLWISSCAATLNIDQVKKFLDEMSCDS---GGS-DDWVKYVNLVNIYITASHLVNAESSTLVEAEK-----SITQRQW  166 (275)
Q Consensus        96 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~  166 (275)
                      +++.+...|...|++++|...|++..+..   +.+ ....++..+..+|...|++++|.+ .+.+...     ..+. ..
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            77888899999999999999999876521   111 123467889999999999999999 8888776     4433 36


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHhccCC---CC-hhhHHHHHHHHHhcCC---HHHHHHHHHHHHhcCCCCCCHHH
Q 023952          167 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK---MT-SRNYICILSSYLMLGH---LKEVGEIIDQWKQSATSDFDISA  239 (275)
Q Consensus       167 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~---p~-~~~~~~li~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~  239 (275)
                      .++..+...|...|++++|...+++..+....   |. ...+..+...|...++   +++|...+++.   +..+.....
T Consensus       262 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~  338 (378)
T 3q15_A          262 KVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEAC  338 (378)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHH
Confidence            77888899999999999999999988764322   11 2335556666777888   77777777762   221223346


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +..+...|...|++++|...|++..+
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            67889999999999999999988754

>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=4.2e-12  Score=98.32  Aligned_cols=209  Identities=12%  Similarity=-0.064  Sum_probs=119.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC----CCCCc-hhhHHHHHHHHHhhCCHHHH
Q 023952           39 WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVPD-IFTYNLWISSCAATLNIDQV  113 (275)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p~-~~~~~~ll~~~~~~~~~~~a  113 (275)
                      ++++|...|++.               ...|...|++++|++.|.+..+.    |-.++ ..+|+.+...|.+.|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            366666666654               23455667777777777666542    21111 34666777777777777777


Q ss_pred             HHHHHHHhhcC---CCCC-CHHHHHHHHHHHHhc-CchHHHHHHHHHHHHHccCCc-c----hhhHHHHHHHHHccCCHH
Q 023952          114 KKFLDEMSCDS---GGSD-DWVKYVNLVNIYITA-SHLVNAESSTLVEAEKSITQR-Q----WITYDFLIILYAGLGNKD  183 (275)
Q Consensus       114 ~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~  183 (275)
                      +..|++..+..   |... ...+++.+...|... |++++|+. .+++.....+.. +    ..++..+...+...|+++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~-~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~  175 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAID-CYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYI  175 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHH-HHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHH
Confidence            77777655421   1000 124566677777775 77777777 666665533211 1    245666677777777777


Q ss_pred             HHHHHHHHHHhccCCCChh------hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHH--hcCC
Q 023952          184 KIDQIWKSLRMTKQKMTSR------NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD---ISACNRLLGAFS--DVGL  252 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~------~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~--~~g~  252 (275)
                      +|...|++..+........      .+..+..++...|++++|...|++..+.....++   ...+..++.++.  ..++
T Consensus       176 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~  255 (292)
T 1qqe_A          176 EASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQ  255 (292)
T ss_dssp             HHHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHH
Confidence            7777777766643222111      3455666677777777777777776652210011   112334445553  3456


Q ss_pred             hHHHHHHHHHH
Q 023952          253 TEKANEFHMLL  263 (275)
Q Consensus       253 ~~~a~~~~~~m  263 (275)
                      +++|...|+++
T Consensus       256 ~~~A~~~~~~~  266 (292)
T 1qqe_A          256 LSEHCKEFDNF  266 (292)
T ss_dssp             HHHHHHHHTTS
T ss_pred             HHHHHHHhccC
Confidence            66666666554

>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=99.47  E-value=1.5e-11  Score=91.49  Aligned_cols=185  Identities=10%  Similarity=-0.078  Sum_probs=140.3

Q ss_pred             cccChhhHHHHhhccccCC--CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSA--KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      +.|++++|++.|++.....  ++...+..+..++...|++++|...|++..+.. +.+...|..+...+...|++++|++
T Consensus        19 ~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~   97 (228)
T 4i17_A           19 NAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGKSAAYRDMKNNQEYIA   97 (228)
T ss_dssp             HTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHHHHHHHHcccHHHHHH
Confidence            4689999999999887764  578888889999999999999999999998865 3467789999999999999999999


Q ss_pred             HHHHHhhCCCCCch-------hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCC--CHHHHHHHHHHHHhcCchHHHHH
Q 023952           81 VVEEIKRKNVVPDI-------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD--DWVKYVNLVNIYITASHLVNAES  151 (275)
Q Consensus        81 ~~~~m~~~~~~p~~-------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~  151 (275)
                      .|++..+.... +.       ..|..+...+...|++++|+..|+++.+.  .+.  +...+..+..+|...|+.     
T Consensus        98 ~~~~al~~~p~-~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~l~~~~~~~~~~-----  169 (228)
T 4i17_A           98 TLTEGIKAVPG-NATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDV--TSKKWKTDALYSLGVLFYNNGAD-----  169 (228)
T ss_dssp             HHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--SCHHHHHHHHHHHHHHHHHHHHH-----
T ss_pred             HHHHHHHHCCC-cHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhc--CCCcccHHHHHHHHHHHHHHHHH-----
Confidence            99999985332 34       45777888889999999999999999874  244  467788888888776654     


Q ss_pred             HHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChh
Q 023952          152 STLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR  202 (275)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~  202 (275)
                       .++.+.... ..+...|....  ....+.+++|...|++..+.  .|+..
T Consensus       170 -~~~~a~~~~-~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l--~p~~~  214 (228)
T 4i17_A          170 -VLRKATPLA-SSNKEKYASEK--AKADAAFKKAVDYLGEAVTL--SPNRT  214 (228)
T ss_dssp             -HHHHHGGGT-TTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHH--CTTCH
T ss_pred             -HHHHHHhcc-cCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhc--CCCCH
Confidence             223332222 22334443333  23456789999999988875  45543

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.44  E-value=1.3e-10  Score=92.92  Aligned_cols=239  Identities=9%  Similarity=-0.049  Sum_probs=170.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHH----HHHHHHHHhhccCCHHHHHHHHHHHhhCCC-CCc----hhh
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNAL----MYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPD----IFT   96 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~----~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~----~~~   96 (275)
                      .+......+...|++++|...+++.....-..+..    +++.+...+...|++++|.+.+++..+... .++    ..+
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            44555667778999999999999987754222222    567777888899999999999999875311 112    233


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcC---CCC--C-CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc----ch
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDS---GGS--D-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR----QW  166 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~--~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~  166 (275)
                      +..+...+...|++++|...+++.....   +.+  | ....+..+...+...|++++|.. .+.+........    ..
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            5667778899999999999999876531   211  2 23456778889999999999999 888776644321    23


Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh-hhHH-----HHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--CHH
Q 023952          167 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-RNYI-----CILSSYLMLGHLKEVGEIIDQWKQSATSDF--DIS  238 (275)
Q Consensus       167 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-~~~~-----~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~  238 (275)
                      .++..+...+...|++++|...+++.......++. ..+.     ..+..+...|++++|...+++........+  ...
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            46777888899999999999999988654222221 1121     233447799999999999998875331111  123


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          239 ACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       239 ~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      .+..+...+...|++++|...+++...
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            466778899999999999999988754

>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=99.42  E-value=7.5e-11  Score=105.52  Aligned_cols=215  Identities=11%  Similarity=0.050  Sum_probs=171.1

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      ..|.+++|..+|++...   .....+.++.   ..|++++|.++.++.      -++.+|..+..++.+.|++++|++.|
T Consensus      1061 ~lglyEEAf~IYkKa~~---~~~A~~VLie---~i~nldrAiE~Aerv------n~p~vWsqLAKAql~~G~~kEAIdsY 1128 (1630)
T 1xi4_A         1061 SNELFEEAFAIFRKFDV---NTSAVQVLIE---HIGNLDRAYEFAERC------NEPAVWSQLAKAQLQKGMVKEAIDSY 1128 (1630)
T ss_pred             hCCCHHHHHHHHHHcCC---HHHHHHHHHH---HHhhHHHHHHHHHhc------CCHHHHHHHHHHHHhCCCHHHHHHHH
Confidence            45788999999998742   3333344433   667899999988865      24789999999999999999999999


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                      .+.      -|...|..++.++.+.|++++|.+.|...++. .  ++....+.++.+|++.+++++... ++       .
T Consensus      1129 iKA------dD~say~eVa~~~~~lGkyEEAIeyL~mArk~-~--~e~~Idt~LafaYAKl~rleele~-fI-------~ 1191 (1630)
T 1xi4_A         1129 IKA------DDPSSYMEVVQAANTSGNWEELVKYLQMARKK-A--RESYVETELIFALAKTNRLAELEE-FI-------N 1191 (1630)
T ss_pred             Hhc------CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhh-c--ccccccHHHHHHHHhhcCHHHHHH-HH-------h
Confidence            553      36778889999999999999999999988774 2  444444469999999999886555 32       2


Q ss_pred             CcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHH
Q 023952          163 QRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNR  242 (275)
Q Consensus       163 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (275)
                      .++...|..+...|...|++++|..+|...         ..|..+...|.+.|++++|.+.+++.       .+..+|..
T Consensus      1192 ~~n~ad~~~iGd~le~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA-------~n~~aWke 1255 (1630)
T 1xi4_A         1192 GPNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKA-------NSTRTWKE 1255 (1630)
T ss_pred             CCCHHHHHHHHHHHHhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHh-------CCHHHHHH
Confidence            345567778889999999999999999874         48899999999999999999999974       45688998


Q ss_pred             HHHHHHhcCChHHHHHHHHH
Q 023952          243 LLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       243 li~~~~~~g~~~~a~~~~~~  262 (275)
                      +..+|...|++..|......
T Consensus      1256 v~~acve~~Ef~LA~~cgl~ 1275 (1630)
T 1xi4_A         1256 VCFACVDGKEFRLAQMCGLH 1275 (1630)
T ss_pred             HHHHHhhhhHHHHHHHHHHh
Confidence            99999999998888876643

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.41  E-value=2.3e-11  Score=97.65  Aligned_cols=223  Identities=9%  Similarity=-0.062  Sum_probs=168.0

Q ss_pred             cccChhhHHHHhhccccCC---C----CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC----C-CCC-CHHHHHHHHHHh
Q 023952            3 KVFGIHSGERYFEGLPLSA---K----TSETYTALLHLYAGAKWTEKAEELFERVKQS----N-LSF-NALMYNEMMTLY   69 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~---~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~-~~~-~~~~~~~li~~~   69 (275)
                      ..|++++|+..|++.....   +    ...++..+...|...|+++.|...+++..+.    + ..+ ...+++.+...|
T Consensus       113 ~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y  192 (378)
T 3q15_A          113 DQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNY  192 (378)
T ss_dssp             HTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHH
Confidence            4689999999998865431   2    3678899999999999999999999986642    1 111 256788999999


Q ss_pred             hccCCHHHHHHHHHHHhhC----CCCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhc---CCCCCCHHHHHHHHHHHH
Q 023952           70 MSVGQVEKVALVVEEIKRK----NVVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGGSDDWVKYVNLVNIYI  141 (275)
Q Consensus        70 ~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~l~~~~~  141 (275)
                      ...|++++|++.|++..+.    +-.+ ...++..+...|...|++++|...+++....   .+.+....++..+...|.
T Consensus       193 ~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~  272 (378)
T 3q15_A          193 DDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLC  272 (378)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHH
Confidence            9999999999999988763    1111 2356788889999999999999999997761   012334677889999999


Q ss_pred             hcCchHHHHHHHHHHHHHccCC---c-chhhHHHHHHHHHccCC---HHHHHHHHHHHHhccCCCC-hhhHHHHHHHHHh
Q 023952          142 TASHLVNAESSTLVEAEKSITQ---R-QWITYDFLIILYAGLGN---KDKIDQIWKSLRMTKQKMT-SRNYICILSSYLM  213 (275)
Q Consensus       142 ~~g~~~~a~~~~~~~~~~~~~~---~-~~~~~~~l~~~~~~~~~---~~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~  213 (275)
                      +.|++++|.. .+++.......   + ....+..+...|...++   +.+|..++++.   +..|+ ...+..+...|..
T Consensus       273 ~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~---~~~~~~~~~~~~la~~y~~  348 (378)
T 3q15_A          273 KAGQTQKAFQ-FIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKK---NLHAYIEACARSAAAVFES  348 (378)
T ss_dssp             HTTCHHHHHH-HHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhC---CChhHHHHHHHHHHHHHHH
Confidence            9999999999 88887764332   1 23345666667778888   77777777652   22222 3456678899999


Q ss_pred             cCCHHHHHHHHHHHHh
Q 023952          214 LGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       214 ~g~~~~a~~~~~~~~~  229 (275)
                      .|++++|...|++..+
T Consensus       349 ~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          349 SCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999998764

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.41  E-value=2.4e-10  Score=87.64  Aligned_cols=240  Identities=8%  Similarity=-0.030  Sum_probs=146.8

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      .|.+..++.-...+....++ ..-.-+.++|...|+++..         ..-.|....+..+...+ ..+    |+..|+
T Consensus        26 ~G~yq~~i~e~~~~~~~~~~-~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~~l~   90 (310)
T 3mv2_B           26 TGNFVQCLQEIEKFSKVTDN-TLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIEELE   90 (310)
T ss_dssp             TTCHHHHTHHHHTSSCCCCH-HHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCHHHH
T ss_pred             hhHHHHHHHHHHhcCccchH-HHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHHHHH
Confidence            36666666655554433232 2333345777777776542         11234444444444443 222    677787


Q ss_pred             HHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCC-CCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           84 EIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGG-SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        84 ~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                      ++.+.+ .++..++..+..++...|++++|++++.+.... +. ..+...+..++..+.+.|+.+.|.+ .++.|.+..+
T Consensus        91 ~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~-~~~~~~lea~~l~vqi~L~~~r~d~A~k-~l~~~~~~~~  167 (310)
T 3mv2_B           91 NLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDN-DEAEGTTELLLLAIEVALLNNNVSTAST-IFDNYTNAIE  167 (310)
T ss_dssp             HTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTS-SCSTTHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHSC
T ss_pred             HHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhcc-CCCcCcHHHHHHHHHHHHHCCCHHHHHH-HHHHHHhcCc
Confidence            777654 445566667777788888888888888887654 21 2456677788888888888888888 8887766542


Q ss_pred             ---CcchhhHHHHHHH--HHccC--CHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC----
Q 023952          163 ---QRQWITYDFLIIL--YAGLG--NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA----  231 (275)
Q Consensus       163 ---~~~~~~~~~l~~~--~~~~~--~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----  231 (275)
                         ..+..+...+..+  ....|  ++.+|..+|+++.+.  .|+..+-..++.++.+.|++++|.+.++.+.+..    
T Consensus       168 d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~--~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~p~~~  245 (310)
T 3mv2_B          168 DTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT--FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDYYSVE  245 (310)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT--SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHHHHTT
T ss_pred             cccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh--CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhccccc
Confidence               0123344444444  22233  788888888887654  3442333444457888888888888888765431    


Q ss_pred             -C---CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          232 -T---SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       232 -~---~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                       .   .+.+..+...+|......|+  +|.++++++.+
T Consensus       246 ~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~  281 (310)
T 3mv2_B          246 QKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVK  281 (310)
T ss_dssp             TCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHH
T ss_pred             ccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHH
Confidence             0   12356666455555555665  67788887765

>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=99.39  E-value=4.2e-11  Score=80.82  Aligned_cols=128  Identities=11%  Similarity=0.057  Sum_probs=63.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      .|..+...+...|++++|..+|+++.+.+ +.+...+..+...+...|++++|..+++++.+.+. .+...+..+...+.
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            34455555555555555555555554432 23444555555555555555555555555554321 13344444455555


Q ss_pred             hhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHH
Q 023952          106 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAE  158 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  158 (275)
                      ..|++++|...++++.+.  .+.+..++..+...+.+.|++++|.. .+..+.
T Consensus        81 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~-~~~~~~  130 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIE-YYQKAL  130 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHH-HHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHccHHHHHH-HHHHHH
Confidence            555555555555554442  12334444444555555555555555 444433

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.38  E-value=6.8e-11  Score=86.77  Aligned_cols=116  Identities=13%  Similarity=0.065  Sum_probs=61.4

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHH----------------HHHHhhccCCHHHHHHHHHHHhh
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNE----------------MMTLYMSVGQVEKVALVVEEIKR   87 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~----------------li~~~~~~g~~~~a~~~~~~m~~   87 (275)
                      ...+......+.+.|++++|...|++..+.. |-+...|..                +...+.+.|++++|+..|++..+
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALN-IDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-HHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3344455566778888888888888877754 223334444                44455555555555555555554


Q ss_pred             CCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 023952           88 KNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  143 (275)
Q Consensus        88 ~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  143 (275)
                      .... +...+..+...+...|++++|...|+++.+.  .|.+..++..+..+|...
T Consensus        83 ~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~lg~~~~~~  135 (208)
T 3urz_A           83 KAPN-NVDCLEACAEMQVCRGQEKDALRMYEKILQL--EADNLAANIFLGNYYYLT  135 (208)
T ss_dssp             HCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHH
T ss_pred             HCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHH
Confidence            3221 3444445555555555555555555555442  233444444444444433

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.38  E-value=6.8e-11  Score=89.86  Aligned_cols=213  Identities=8%  Similarity=-0.082  Sum_probs=135.8

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC-CC-chhh
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VP-DIFT   96 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p-~~~~   96 (275)
                      .+...+..+...+.+.|++++|...|+.+.+.. +.+   ...+..+..+|.+.|++++|+..|++..+... .| ....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYG-RTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGC-SCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            367778888888889999999999999888764 223   66788888888899999999999999887532 11 2345


Q ss_pred             HHHHHHHHHh--------hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhh
Q 023952           97 YNLWISSCAA--------TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWIT  168 (275)
Q Consensus        97 ~~~ll~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  168 (275)
                      +..+..++..        .|++++|...|+++.+.  .|.+.....++....       ....        .    ....
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~-------~~~~--------~----~~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIR-------ELRA--------K----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHH-------HHHH--------H----HHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHH-------HHHH--------H----HHHH
Confidence            6667777777        88889999999888874  233333322221110       0000        0    0112


Q ss_pred             HHHHHHHHHccCCHHHHHHHHHHHHhccCCC--ChhhHHHHHHHHHhc----------CCHHHHHHHHHHHHhcCCCCCC
Q 023952          169 YDFLIILYAGLGNKDKIDQIWKSLRMTKQKM--TSRNYICILSSYLML----------GHLKEVGEIIDQWKQSATSDFD  236 (275)
Q Consensus       169 ~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~  236 (275)
                      +..+...|...|++++|...|+++.+.....  ....+..+..+|...          |++++|...|+++.+.....+.
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~~~  230 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDSPL  230 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCChH
Confidence            4456667788888888888888877653211  123456666677655          7788888888888775421111


Q ss_pred             -HHHHHHHHHHHHhcCChHHH
Q 023952          237 -ISACNRLLGAFSDVGLTEKA  256 (275)
Q Consensus       237 -~~~~~~li~~~~~~g~~~~a  256 (275)
                       ......+-..+...++++.+
T Consensus       231 ~~~a~~~l~~~~~~~~~~~~~  251 (261)
T 3qky_A          231 LRTAEELYTRARQRLTELEGD  251 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHhhhh
Confidence             23344455555555555443

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.37  E-value=1.1e-10  Score=90.41  Aligned_cols=201  Identities=7%  Similarity=-0.072  Sum_probs=147.5

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC---CC--ch
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQS----NLSFN-ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV---VP--DI   94 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~---~p--~~   94 (275)
                      ..|......|...|++++|...|++..+.    |-+++ ..+|+.+...|.+.|++++|+..|++..+...   .+  -.
T Consensus        38 ~~~~~a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a  117 (292)
T 1qqe_A           38 DLCVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGA  117 (292)
T ss_dssp             HHHHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            35777788899999999999999987553    32222 56899999999999999999999999876311   11  13


Q ss_pred             hhHHHHHHHHHhh-CCHHHHHHHHHHHhhcCCCCCC----HHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchh--
Q 023952           95 FTYNLWISSCAAT-LNIDQVKKFLDEMSCDSGGSDD----WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWI--  167 (275)
Q Consensus        95 ~~~~~ll~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~--  167 (275)
                      .++..+...|... |++++|+..|++..+...-..+    ..++..+...|.+.|++++|+. .+++.....+.....  
T Consensus       118 ~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~  196 (292)
T 1qqe_A          118 NFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASD-IYSKLIKSSMGNRLSQW  196 (292)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTTSSCTTTGG
T ss_pred             HHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHHHHhcCCcccH
Confidence            5788888999996 9999999999998763100011    3568889999999999999999 999888766543321  


Q ss_pred             ----hHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChh------hHHHHHHHHH--hcCCHHHHHHHHHHHH
Q 023952          168 ----TYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSR------NYICILSSYL--MLGHLKEVGEIIDQWK  228 (275)
Q Consensus       168 ----~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~------~~~~li~~~~--~~g~~~~a~~~~~~~~  228 (275)
                          .|..+..++...|++++|...|++..+.  .|+..      .+..++..|.  ..+++++|...|+.+.
T Consensus       197 ~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l--~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~  267 (292)
T 1qqe_A          197 SLKDYFLKKGLCQLAATDAVAAARTLQEGQSE--DPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFM  267 (292)
T ss_dssp             GHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC-----------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh--CCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCC
Confidence                5677788899999999999999987653  34321      2344556554  4567888888876654

>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=1.8e-10  Score=77.60  Aligned_cols=128  Identities=16%  Similarity=0.094  Sum_probs=71.6

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHH
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYL  212 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~  212 (275)
                      +..+...+...|++++|.. .+..+....+. +...+..+...+...|++++|...++++...+ +.+...+..+...+.
T Consensus         4 ~~~l~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~   80 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIE-YYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYY   80 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcHHHHHH-HHHHHHHcCCc-chhHHHHHHHHHHHhcCHHHHHHHHHHHHHHC-CCchHHHHHHHHHHH
Confidence            4445555555555555555 55555443322 34445555555555566666666665555432 223444555566666


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          213 MLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..|++++|.+.++++.+..  +.+...+..+...+...|++++|...++++.+
T Consensus        81 ~~~~~~~A~~~~~~~~~~~--~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~  131 (136)
T 2fo7_A           81 KQGDYDEAIEYYQKALELD--PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE  131 (136)
T ss_dssp             TTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHHhC--CCChHHHHHHHHHHHHHccHHHHHHHHHHHHc
Confidence            6666666666666665543  23455566666666666666666666666654

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.35  E-value=1.3e-11  Score=101.45  Aligned_cols=237  Identities=11%  Similarity=0.084  Sum_probs=118.3

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCH---HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC-----CH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWT---EKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-----QV   75 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~---~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-----~~   75 (275)
                      .|++++|+++|++..+.+ +...+..|...|...|+.   ++|...|+...+.    ++..+..|...+...+     ++
T Consensus        16 ~g~~~~A~~~~~~aa~~g-~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~~~~~   90 (452)
T 3e4b_A           16 RGDTVTAQQNYQQLAELG-YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGATEAEH   90 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHT-CCTGGGTCC--------------------------------CHHHHHHHHHTC--CCHHHH
T ss_pred             CCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCCCcCH
Confidence            466777777777664432 344455555555666666   6777777666543    3444455554333333     56


Q ss_pred             HHHHHHHHHHhhCCCCCchhhHHHHHHHHH-----------------------------------hhCCHH----HHHHH
Q 023952           76 EKVALVVEEIKRKNVVPDIFTYNLWISSCA-----------------------------------ATLNID----QVKKF  116 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~-----------------------------------~~~~~~----~a~~~  116 (275)
                      ++|+..|++..+.|.. +  .+..|...|.                                   ..+.++    .+..+
T Consensus        91 ~~A~~~~~~Aa~~g~~-~--A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~  167 (452)
T 3e4b_A           91 HEAESLLKKAFANGEG-N--TLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVERI  167 (452)
T ss_dssp             HHHHHHHHHHHHTTCS-S--CHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCH-H--HHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHHHH
Confidence            6777777776665432 1  3333433333                                   333222    22222


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHhcC---chHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc----CCHHHHHHHH
Q 023952          117 LDEMSCDSGGSDDWVKYVNLVNIYITAS---HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL----GNKDKIDQIW  189 (275)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~----~~~~~a~~~~  189 (275)
                      ++....     .+...+..|...|.+.|   +.++|.+ .++.....++. +...+..+...|...    +++++|.+.|
T Consensus       168 ~~~a~~-----~~~~a~~~Lg~~~~~~g~~~~~~~A~~-~~~~aa~~g~~-~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~  240 (452)
T 3e4b_A          168 CKAALN-----TTDICYVELATVYQKKQQPEQQAELLK-QMEAGVSRGTV-TAQRVDSVARVLGDATLGTPDEKTAQALL  240 (452)
T ss_dssp             HHHHTT-----TCTTHHHHHHHHHHHTTCHHHHHHHHH-HHHHHHHTTCS-CHHHHHHHHHHHTCGGGSSCCHHHHHHHH
T ss_pred             HHHHHc-----CCHHHHHHHHHHHHHcCCcccHHHHHH-HHHHHHHCCCH-HHHHHHHHHHHHhCCCCCCCCHHHHHHHH
Confidence            222222     22236666777777777   7777777 67666666543 444445555555444    5777777777


Q ss_pred             HHHHhccCCCChhhHHHHHHH-H--HhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcC-----ChHHHHHHHH
Q 023952          190 KSLRMTKQKMTSRNYICILSS-Y--LMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG-----LTEKANEFHM  261 (275)
Q Consensus       190 ~~m~~~~~~p~~~~~~~li~~-~--~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g-----~~~~a~~~~~  261 (275)
                      ++.. .|   +...+..+... +  ...+++++|.++|++..+.+    +...+..|...|. .|     ++++|..+|+
T Consensus       241 ~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g----~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~  311 (452)
T 3e4b_A          241 EKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD----QPRAELLLGKLYY-EGKWVPADAKAAEAHFE  311 (452)
T ss_dssp             HHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT----CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHH
T ss_pred             HHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC----CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHH
Confidence            7765 32   33444445544 3  45777777877777776643    4455555666665 44     7777777777


Q ss_pred             HHH
Q 023952          262 LLL  264 (275)
Q Consensus       262 ~m~  264 (275)
                      +..
T Consensus       312 ~Aa  314 (452)
T 3e4b_A          312 KAV  314 (452)
T ss_dssp             TTT
T ss_pred             HHh
Confidence            655

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.35  E-value=6.6e-10  Score=84.37  Aligned_cols=189  Identities=8%  Similarity=-0.098  Sum_probs=128.9

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc---hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCC-CCCCHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD---IFTYNLWISSCAATLNIDQVKKFLDEMSCDSG-GSDDWVK  132 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~  132 (275)
                      .++..+..+...+.+.|++++|+..|+++.+.... +   ...+..+..++.+.|++++|...|+++.+... .+.....
T Consensus        13 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           13 SSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRT-HEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             SSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSC-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            35667777777888888888888888888875322 2   45677777888888888888888888877421 1122445


Q ss_pred             HHHHHHHHHh--------cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhH
Q 023952          133 YVNLVNIYIT--------ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNY  204 (275)
Q Consensus       133 ~~~l~~~~~~--------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~  204 (275)
                      +..+..++.+        .|++++|.. .++++....+. +......+..              +..+...    ....+
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~-~~~~~l~~~p~-~~~~~~a~~~--------------~~~~~~~----~~~~~  151 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIE-AFQLFIDRYPN-HELVDDATQK--------------IRELRAK----LARKQ  151 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHH-HHHHHHHHCTT-CTTHHHHHHH--------------HHHHHHH----HHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHH-HHHHHHHHCcC-chhHHHHHHH--------------HHHHHHH----HHHHH
Confidence            6677777777        888888888 77777765543 2222222111              1111000    01124


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHHHhc----------CChHHHHHHHHHHHhc
Q 023952          205 ICILSSYLMLGHLKEVGEIIDQWKQSATSDF-DISACNRLLGAFSDV----------GLTEKANEFHMLLLQK  266 (275)
Q Consensus       205 ~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~----------g~~~~a~~~~~~m~~~  266 (275)
                      ..+...|.+.|++++|...|+++.+.....+ ....+..+..+|...          |++++|...++++++.
T Consensus       152 ~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~  224 (261)
T 3qky_A          152 YEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQI  224 (261)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHH
Confidence            5678889999999999999999988642212 245677788888866          8999999999999874

>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=99.33  E-value=2.1e-11  Score=84.60  Aligned_cols=137  Identities=11%  Similarity=-0.080  Sum_probs=79.9

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|+..|+......| +...+..+...|.+.|++++|...|++..+.. |-++.+|..+..+|.+.|++++|+..|
T Consensus        10 ~~~~e~ai~~~~~a~~~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~   88 (150)
T 4ga2_A           10 KADVERYIASVQGSTPSPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQ-ERDPKAHRFLGLLYELEENTDKAVECY   88 (150)
T ss_dssp             HHHHHHHHHHHHHHSCSHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cChHHHHHHHHHHhcccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCchHHHHHHH
Confidence            4566666666666555444 45555566666666666666666666666553 345666666666666666666666666


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHH-HHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF-LDEMSCDSGGSDDWVKYVNLVNIYITAS  144 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~-~~~~~~~~~~~~~~~~~~~l~~~~~~~g  144 (275)
                      ++..+.+.. +..++..+...+.+.|+++++... +++..+.  .|.+..+|......+...|
T Consensus        89 ~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l--~P~~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           89 RRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKL--FPGSPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHH--STTCHHHHHHHHHHHHTCC
T ss_pred             HHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHh--CcCCHHHHHHHHHHHHHhC
Confidence            666664322 345566666666666666554443 3555542  2444555555555554444

>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=99.32  E-value=1.2e-11  Score=106.78  Aligned_cols=168  Identities=9%  Similarity=-0.045  Sum_probs=87.8

Q ss_pred             ccChhhHHHHhhccc--------cCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCC
Q 023952            4 VFGIHSGERYFEGLP--------LSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ   74 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~--------~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~   74 (275)
                      .|++++|++.|++..        ...| +...|..+...+.+.|++++|...|++..+.+ +.+...|..+...+...|+
T Consensus       404 ~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~  482 (681)
T 2pzi_A          404 LSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLTGD  482 (681)
T ss_dssp             TCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHHTC
T ss_pred             ccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHcCC
Confidence            355555665555554        3223 44555555556666666666666666555443 2345555555555666666


Q ss_pred             HHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHH
Q 023952           75 VEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      +++|++.|++..+.... +...+..+..++.+.|++++ +..|+++.+.  .+.+...+..+..+|.+.|++++|.+ .+
T Consensus       483 ~~~A~~~~~~al~l~P~-~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~--~P~~~~a~~~lg~~~~~~g~~~~A~~-~~  557 (681)
T 2pzi_A          483 YDSATKHFTEVLDTFPG-ELAPKLALAATAELAGNTDE-HKFYQTVWST--NDGVISAAFGLARARSAEGDRVGAVR-TL  557 (681)
T ss_dssp             HHHHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCCCT-TCHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HH
T ss_pred             HHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHcCChHH-HHHHHHHHHh--CCchHHHHHHHHHHHHHcCCHHHHHH-HH
Confidence            66666666665553221 34455555555556666666 5566555542  23444555555566666666666655 55


Q ss_pred             HHHHHccCCcchhhHHHHHHHHHc
Q 023952          155 VEAEKSITQRQWITYDFLIILYAG  178 (275)
Q Consensus       155 ~~~~~~~~~~~~~~~~~l~~~~~~  178 (275)
                      ++.....+. +...+..+..++..
T Consensus       558 ~~al~l~P~-~~~a~~~~~~~~~~  580 (681)
T 2pzi_A          558 DEVPPTSRH-FTTARLTSAVTLLS  580 (681)
T ss_dssp             HTSCTTSTT-HHHHHHHHHHHTC-
T ss_pred             HhhcccCcc-cHHHHHHHHHHHHc
Confidence            444333322 33444444444433

>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=99.31  E-value=1.6e-10  Score=99.78  Aligned_cols=173  Identities=8%  Similarity=-0.080  Sum_probs=141.0

Q ss_pred             HcCCCHHHHHHHHHHHH--------hCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHh
Q 023952           35 AGAKWTEKAEELFERVK--------QSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  106 (275)
Q Consensus        35 ~~~g~~~~a~~~~~~m~--------~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  106 (275)
                      ...|++++|.+.+++..        +.. +.+...+..+...+.+.|++++|++.|++..+.+.. +...|..+..++..
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~  479 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGW-RWRLVWYRAVAELL  479 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCC-CHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcc-hHHHHHHHHHHHHH
Confidence            78899999999999987        432 456788999999999999999999999999986433 66788889999999


Q ss_pred             hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHH
Q 023952          107 TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKID  186 (275)
Q Consensus       107 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  186 (275)
                      .|++++|...|+++.+.  .+.+...+..+..+|.+.|++++ ++ .+++..+..+. +...|..+..++...|++++|.
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            99999999999998884  35677888999999999999999 88 88888876654 6778889999999999999999


Q ss_pred             HHHHHHHhccCCCC-hhhHHHHHHHHHhcCC
Q 023952          187 QIWKSLRMTKQKMT-SRNYICILSSYLMLGH  216 (275)
Q Consensus       187 ~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~  216 (275)
                      +.|++..+.  .|+ ...+..+..++...++
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            999987664  555 4556666666655444

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.31  E-value=6e-10  Score=82.73  Aligned_cols=186  Identities=6%  Similarity=-0.056  Sum_probs=126.4

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CC-CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCch--hhHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNL-SF-NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI--FTYN   98 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~--~~~~   98 (275)
                      +...+..+...+.+.|++++|...|+++.+... .| ....+..+..++.+.|++++|+..|+++.+.......  ..+.
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            456677778888999999999999999887531 11 1357888889999999999999999999885332111  1344


Q ss_pred             HHHHHHHh------------------hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHc
Q 023952           99 LWISSCAA------------------TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus        99 ~ll~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      .+..++..                  .|++++|...|+++.+.  .|.+.....+....    +.......         
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l----~~~~~~~~---------  147 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRL----VFLKDRLA---------  147 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHH----HHHHHHHH---------
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHH----HHHHHHHH---------
Confidence            44444443                  46788888888888763  33343333222111    00000000         


Q ss_pred             cCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh----hhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          161 ITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS----RNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       161 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~----~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                            .....+...|...|++++|...|+++.+.  .|+.    ..+..+..+|.+.|+.++|.+.++.+...+
T Consensus       148 ------~~~~~~a~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~  214 (225)
T 2yhc_A          148 ------KYEYSVAEYYTERGAWVAVVNRVEGMLRD--YPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANS  214 (225)
T ss_dssp             ------HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCC
T ss_pred             ------HHHHHHHHHHHHcCcHHHHHHHHHHHHHH--CcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhC
Confidence                  11124566788899999999999998875  3432    457788899999999999999999888754

>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=99.31  E-value=9.6e-11  Score=99.15  Aligned_cols=155  Identities=6%  Similarity=-0.146  Sum_probs=120.5

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .|++++|++.|++.....| +...|..+...+.+.|++++|...|++..+.. +.+...|..+...|...|++++|++.|
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            5789999999999887766 68899999999999999999999999998875 456889999999999999999999999


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc---CchHHHHHHHHHHHHH
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA---SHLVNAESSTLVEAEK  159 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~  159 (275)
                      ++..+.... +...+..+...+.+.|++++|.+.|++..+.  .+.+...+..+..++...   |+.++|.+ .+++...
T Consensus        81 ~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~g~~~~A~~-~~~~al~  156 (568)
T 2vsy_A           81 QQASDAAPE-HPGIALWLGHALEDAGQAEAAAAAYTRAHQL--LPEEPYITAQLLNWRRRLCDWRALDVLSA-QVRAAVA  156 (568)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCTTHHHHHH-HHHHHHH
T ss_pred             HHHHhcCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhhccccHHHHHH-HHHHHHh
Confidence            999986432 5778899999999999999999999999885  356678899999999999   99999999 8888887


Q ss_pred             ccCC
Q 023952          160 SITQ  163 (275)
Q Consensus       160 ~~~~  163 (275)
                      ..+.
T Consensus       157 ~~p~  160 (568)
T 2vsy_A          157 QGVG  160 (568)
T ss_dssp             HTCC
T ss_pred             cCCc
Confidence            6654

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.31  E-value=4.2e-10  Score=86.31  Aligned_cols=180  Identities=14%  Similarity=0.054  Sum_probs=133.6

Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC-CchhhHHHHHHHHHhhCCHHHHHHHHHHHh
Q 023952           43 AEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PDIFTYNLWISSCAATLNIDQVKKFLDEMS  121 (275)
Q Consensus        43 a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  121 (275)
                      |...|++..+.+ +++..++..+..++...|++++|++++.+.+..|.. -+...+..++..+.+.|+.+.|.+.+++|.
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            788888887765 566777778889999999999999999998776542 256677888899999999999999999998


Q ss_pred             hcCCCCC-----CHHHHHHHHHH--HHhcC--chHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023952          122 CDSGGSD-----DWVKYVNLVNI--YITAS--HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSL  192 (275)
Q Consensus       122 ~~~~~~~-----~~~~~~~l~~~--~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  192 (275)
                      +.   .|     +..+...++.+  ....|  ++.+|.. +|+++....+  +..+-..++.++.+.|++++|.+.++.+
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            74   45     35555566655  33334  8999999 9999876654  3222233444788999999999999976


Q ss_pred             Hhcc---------CCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          193 RMTK---------QKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       193 ~~~~---------~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .+..         -.-++.+...+|......|+  +|.+++.++.+..
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            6531         02255666566666666776  7899999999854

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.31  E-value=2.9e-09  Score=87.51  Aligned_cols=237  Identities=11%  Similarity=0.030  Sum_probs=160.2

Q ss_pred             hhhHHHHhhccccCCCCHhHHHHHHHHHHcCC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcc----CCHHHHH
Q 023952            7 IHSGERYFEGLPLSAKTSETYTALLHLYAGAK---WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV----GQVEKVA   79 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g---~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~----g~~~~a~   79 (275)
                      .+.|..++.......|+  .+..|...|.+.|   +.++|...|+...+.| +++...+..|...|...    +++++|+
T Consensus       161 ~~~a~~~~~~a~~~~~~--a~~~Lg~~~~~~g~~~~~~~A~~~~~~aa~~g-~~~a~~~~~Lg~~y~~g~~~~~d~~~A~  237 (452)
T 3e4b_A          161 LDDVERICKAALNTTDI--CYVELATVYQKKQQPEQQAELLKQMEAGVSRG-TVTAQRVDSVARVLGDATLGTPDEKTAQ  237 (452)
T ss_dssp             HHHHHHHHHHHTTTCTT--HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTT-CSCHHHHHHHHHHHTCGGGSSCCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHH--HHHHHHHHHHHcCCcccHHHHHHHHHHHHHCC-CHHHHHHHHHHHHHhCCCCCCCCHHHHH
Confidence            44455555555543333  7788888888888   8888888888888877 46666666677777655    6888899


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHH-H--HhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC-----chHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISS-C--AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS-----HLVNAES  151 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~-~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~a~~  151 (275)
                      +.|++.. .|   +...+..+... +  ...+++++|...|++..+. |   +...+..|...|. .|     ++++|..
T Consensus       238 ~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~-g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~  308 (452)
T 3e4b_A          238 ALLEKIA-PG---YPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAA-D---QPRAELLLGKLYY-EGKWVPADAKAAEA  308 (452)
T ss_dssp             HHHHHHG-GG---STHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHH-HCSSSCCCHHHHHH
T ss_pred             HHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHC-C---CHHHHHHHHHHHH-cCCCCCCCHHHHHH
Confidence            9888887 33   44555666665 3  4578888999998888775 3   5666777777776 45     8888888


Q ss_pred             HHHHHHHHccCCcchhhHHHHHHHHHc----cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHHHHHHH
Q 023952          152 STLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKEVGEI  223 (275)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~  223 (275)
                       .++...    ..+...+..|...|..    ..++++|...|++..+.|   +......|...|..    ..+.++|..+
T Consensus       309 -~~~~Aa----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~~G~g~~~d~~~A~~~  380 (452)
T 3e4b_A          309 -HFEKAV----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNG---QNSADFAIAQLFSQGKGTKPDPLNAYVF  380 (452)
T ss_dssp             -HHHTTT----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTT---CTTHHHHHHHHHHSCTTBCCCHHHHHHH
T ss_pred             -HHHHHh----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhC---hHHHHHHHHHHHHhCCCCCCCHHHHHHH
Confidence             666554    3355666677766665    348888999988887765   23345556666653    4588888888


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          224 IDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      |....+.|  .++.......+......++..+|..+.++..+
T Consensus       381 ~~~A~~~g--~~~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~  420 (452)
T 3e4b_A          381 SQLAKAQD--TPEANDLATQLEAPLTPAQRAEGQRLVQQELA  420 (452)
T ss_dssp             HHHHHTTC--CHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHCC--CHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHH
Confidence            88887765  23443333333333444567777777766544

>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=99.29  E-value=1.1e-10  Score=90.96  Aligned_cols=200  Identities=9%  Similarity=-0.026  Sum_probs=99.4

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      .|++++|.+++++.....+..        .+...++++.|...|+..               ...|...|++++|...|.
T Consensus         4 ~~~~~eA~~~~~~a~k~~~~~--------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~   60 (307)
T 2ifu_A            4 AQKISEAHEHIAKAEKYLKTS--------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAKDAYL   60 (307)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCC--------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHHHHHH
T ss_pred             cchHHHHHHHHHHHHHHcccc--------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHH
Confidence            577888888887655421210        011134555555555443               234445566666666655


Q ss_pred             HHhhCCC---CC--chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC---CCCC-CHHHHHHHHHHHHhcCchHHHHHHHH
Q 023952           84 EIKRKNV---VP--DIFTYNLWISSCAATLNIDQVKKFLDEMSCDS---GGSD-DWVKYVNLVNIYITASHLVNAESSTL  154 (275)
Q Consensus        84 ~m~~~~~---~p--~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~  154 (275)
                      +..+...   .+  -..+|..+...|...|++++|...|++..+..   +.+. ...++..+...|.+ |++++|+. .+
T Consensus        61 ~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~-~~  138 (307)
T 2ifu_A           61 QEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVH-LY  138 (307)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHH-HH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHH-HH
Confidence            5443210   00  12345555555666666666666666543310   1111 12345555555655 66666666 55


Q ss_pred             HHHHHccCCc-----chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-CC----hhhHHHHHHHHHhcCCHHHHHHHH
Q 023952          155 VEAEKSITQR-----QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT----SRNYICILSSYLMLGHLKEVGEII  224 (275)
Q Consensus       155 ~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~~~~~~li~~~~~~g~~~~a~~~~  224 (275)
                      ++.....+..     ...++..+...|...|++++|...|++..+.... ++    ...+..+...+...|++++|...|
T Consensus       139 ~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~  218 (307)
T 2ifu_A          139 QQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCV  218 (307)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            5544322211     1244555566666666666666666655432110 00    113444445555556666666666


Q ss_pred             HHHH
Q 023952          225 DQWK  228 (275)
Q Consensus       225 ~~~~  228 (275)
                      ++..
T Consensus       219 ~~al  222 (307)
T 2ifu_A          219 RESY  222 (307)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            6665

>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=3.5e-10  Score=82.92  Aligned_cols=173  Identities=11%  Similarity=-0.011  Sum_probs=125.2

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHH----------------HHHHHHhhCCHHHHHHHHHHHhh
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNL----------------WISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~----------------ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      +..+......+.+.|++++|+..|++..+.... +...|..                +..++.+.|++++|...|++..+
T Consensus         4 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~   82 (208)
T 3urz_A            4 VDEMLQKVSAAIEAGQNGQAVSYFRQTIALNID-RTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQ   82 (208)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHH-HHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-ChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            334444556678899999999999999885322 3455666                88889999999999999999888


Q ss_pred             cCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC--HHHHHHHHHHHHhccCCCC
Q 023952          123 DSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN--KDKIDQIWKSLRMTKQKMT  200 (275)
Q Consensus       123 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~m~~~~~~p~  200 (275)
                      .  .|.+...+..+..+|...|++++|.. .+++.....+. +..+|..+...|...|+  .+.+...+.....  ..|.
T Consensus        83 ~--~p~~~~~~~~lg~~~~~~g~~~~A~~-~~~~al~~~P~-~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~--~~~~  156 (208)
T 3urz_A           83 K--APNNVDCLEACAEMQVCRGQEKDALR-MYEKILQLEAD-NLAANIFLGNYYYLTAEQEKKKLETDYKKLSS--PTKM  156 (208)
T ss_dssp             H--CTTCHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHC---C--CCHH
T ss_pred             H--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHcCCC-CHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhC--CCch
Confidence            4  36678889999999999999999999 89888887654 67788888877765543  3455555555432  2222


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHH
Q 023952          201 SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACN  241 (275)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  241 (275)
                      ...+.....++...|++++|...|++..+.   .|+.....
T Consensus       157 ~~a~~~~g~~~~~~~~~~~A~~~~~~al~l---~P~~~~~~  194 (208)
T 3urz_A          157 QYARYRDGLSKLFTTRYEKARNSLQKVILR---FPSTEAQK  194 (208)
T ss_dssp             HHHHHHHHHHHHHHHTHHHHHHHHHHHTTT---SCCHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHHh---CCCHHHHH
Confidence            233444566677789999999999999874   46654443

>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=99.26  E-value=1.4e-10  Score=82.67  Aligned_cols=161  Identities=11%  Similarity=-0.012  Sum_probs=82.4

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH-H
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS-C  104 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~-~  104 (275)
                      .+..+...+.+.|++++|...|++..+.. |.+...+..+...+.+.|++++|+..|++..+..  |+...+..+... +
T Consensus         8 ~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~   84 (176)
T 2r5s_A            8 QLLKQVSELLQQGEHAQALNVIQTLSDEL-QSRGDVKLAKADCLLETKQFELAQELLATIPLEY--QDNSYKSLIAKLEL   84 (176)
T ss_dssp             THHHHHHHHHHTTCHHHHHHHHHTSCHHH-HTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGGG--CCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhcc--CChHHHHHHHHHHH
Confidence            34455556666666666666666655432 3345566666666666666666666666665532  233222211111 1


Q ss_pred             HhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc-chhhHHHHHHHHHccCCHH
Q 023952          105 AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-QWITYDFLIILYAGLGNKD  183 (275)
Q Consensus       105 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  183 (275)
                      ...++...+...+++..+.  .|.+...+..+...+.+.|++++|.. .+..+....+.+ +...+..+...+...|+.+
T Consensus        85 ~~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~-~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~  161 (176)
T 2r5s_A           85 HQQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALE-LLWNILKVNLGAQDGEVKKTFMDILSALGQGN  161 (176)
T ss_dssp             HHHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSC
T ss_pred             HhhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHH-HHHHHHHhCcccChHHHHHHHHHHHHHhCCCC
Confidence            1112223345555555542  23344555555555555555555555 555555444332 2334555555555555555


Q ss_pred             HHHHHHHHH
Q 023952          184 KIDQIWKSL  192 (275)
Q Consensus       184 ~a~~~~~~m  192 (275)
                      +|...|++.
T Consensus       162 ~A~~~y~~a  170 (176)
T 2r5s_A          162 AIASKYRRQ  170 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             cHHHHHHHH
Confidence            555555543

>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=99.25  E-value=3.1e-09  Score=78.09  Aligned_cols=176  Identities=10%  Similarity=0.020  Sum_probs=112.1

Q ss_pred             hHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC----CHHHHHHHHHH
Q 023952            9 SGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG----QVEKVALVVEE   84 (275)
Q Consensus         9 ~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g----~~~~a~~~~~~   84 (275)
                      +|++.|++..+. -+..++..|...|...+++++|...|+...+.|   ++..+..|...|.. +    ++++|+++|++
T Consensus         4 eA~~~~~~aa~~-g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~   78 (212)
T 3rjv_A            4 EPGSQYQQQAEA-GDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEK   78 (212)
T ss_dssp             CTTHHHHHHHHT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHC-CCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHH
Confidence            466666665542 466777777777777777777777777777765   56667777777766 5    77777777777


Q ss_pred             HhhCCCCCchhhHHHHHHHHHh----hCCHHHHHHHHHHHhhcCCCC-CCHHHHHHHHHHHHh----cCchHHHHHHHHH
Q 023952           85 IKRKNVVPDIFTYNLWISSCAA----TLNIDQVKKFLDEMSCDSGGS-DDWVKYVNLVNIYIT----ASHLVNAESSTLV  155 (275)
Q Consensus        85 m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~g~~~~a~~~~~~  155 (275)
                      ..+.|   +...+..|...|..    .+++++|...|++..+. +.. .+...+..|...|..    .+++++|.. .++
T Consensus        79 A~~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~-~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~-~~~  153 (212)
T 3rjv_A           79 AVEAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARD-SESDAAVDAQMLLGLIYASGVHGPEDDVKASE-YFK  153 (212)
T ss_dssp             HHHTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSS-TTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH-HHH
T ss_pred             HHHCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHc-CCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH-HHH
Confidence            76654   44566666666665    66777777777777664 211 125566666666666    666777777 666


Q ss_pred             HHHHccCCcchhhHHHHHHHHHcc-C-----CHHHHHHHHHHHHhcc
Q 023952          156 EAEKSITQRQWITYDFLIILYAGL-G-----NKDKIDQIWKSLRMTK  196 (275)
Q Consensus       156 ~~~~~~~~~~~~~~~~l~~~~~~~-~-----~~~~a~~~~~~m~~~~  196 (275)
                      ......  .+...+..|...|... |     ++++|...|++..+.|
T Consensus       154 ~A~~~~--~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g  198 (212)
T 3rjv_A          154 GSSSLS--RTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCLEG  198 (212)
T ss_dssp             HHHHTS--CTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHT
T ss_pred             HHHHcC--CCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcC
Confidence            665541  2333455555555432 2     6677777776666554

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.25  E-value=6.8e-10  Score=85.64  Aligned_cols=166  Identities=6%  Similarity=-0.086  Sum_probs=97.5

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHH-H
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYV-N  135 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-~  135 (275)
                      .+...+..+...+.+.|++++|+..|++..+.... +...+..+...+...|++++|...++++...   .|+..... .
T Consensus       115 ~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p~~~~~~~~  190 (287)
T 3qou_A          115 REEELXAQQAMQLMQESNYTDALPLLXDAWQLSNQ-NGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQDTRYQGLV  190 (287)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTS-CHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GCSHHHHHHH
T ss_pred             CchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhCCc-chhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hcchHHHHHH
Confidence            34455566666666667777777777766664322 4455666666666777777777777666553   23333222 2


Q ss_pred             HHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhc
Q 023952          136 LVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLML  214 (275)
Q Consensus       136 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~  214 (275)
                      ....+.+.++.+.|.. .+++.....+. +...+..+...+...|++++|...|.++.+..... +...+..++..+...
T Consensus       191 ~~~~l~~~~~~~~a~~-~l~~al~~~P~-~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          191 AQIELLXQAADTPEIQ-QLQQQVAENPE-DAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHHTSCHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccCccHH-HHHHHHhcCCc-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence            2223445566666666 56655555443 55566666666777777777777776666543211 134566666777777


Q ss_pred             CCHHHHHHHHHHHH
Q 023952          215 GHLKEVGEIIDQWK  228 (275)
Q Consensus       215 g~~~~a~~~~~~~~  228 (275)
                      |+.++|...+++..
T Consensus       269 g~~~~a~~~~r~al  282 (287)
T 3qou_A          269 GTGDALASXYRRQL  282 (287)
T ss_dssp             CTTCHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHH
Confidence            77777666666543

>4ga2_A E3 SUMO-protein ligase ranbp2; TPR motif, nuclear pore complex component nucleocytoplasmic transport, transport protein; 0.95A {Pan troglodytes} PDB: 4ga0_A 4ga1_A*

Probab=99.24  E-value=6.7e-11  Score=82.09  Aligned_cols=143  Identities=8%  Similarity=-0.071  Sum_probs=70.0

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHH
Q 023952           33 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  112 (275)
                      .+...|++++|+..++...... +-+...+..+...|.+.|++++|++.|++..+.... +..+|..+..++...|++++
T Consensus         6 ~~~~~~~~e~ai~~~~~a~~~~-p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~~~~~~   83 (150)
T 4ga2_A            6 MRRSKADVERYIASVQGSTPSP-RQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQER-DPKAHRFLGLLYELEENTDK   83 (150)
T ss_dssp             -CCCHHHHHHHHHHHHHHSCSH-HHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHcChHHHHHHHHHHhcccC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCchHH
Confidence            3344455555555555544331 112334445555555666666666666655554322 34555555555556666666


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccC
Q 023952          113 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG  180 (275)
Q Consensus       113 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  180 (275)
                      |...|++..+.  .|.+..++..+...|.+.|+.++|.+..++...+..|. +..+|......+...|
T Consensus        84 A~~~~~~al~~--~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G  148 (150)
T 4ga2_A           84 AVECYRRSVEL--NPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEG  148 (150)
T ss_dssp             HHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCC
T ss_pred             HHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhC
Confidence            66666655552  23345555555555555555554443123444443322 3444444444443333

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.24  E-value=5.5e-10  Score=86.14  Aligned_cols=170  Identities=9%  Similarity=-0.084  Sum_probs=135.4

Q ss_pred             CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHH
Q 023952           91 VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYD  170 (275)
Q Consensus        91 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  170 (275)
                      +.+...+..+...+...|++++|...|+++.+.  .|.+...+..+...+.+.|++++|.. .++.+....+.+ .....
T Consensus       114 p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~-~l~~~~~~~p~~-~~~~~  189 (287)
T 3qou_A          114 PREEELXAQQAMQLMQESNYTDALPLLXDAWQL--SNQNGEIGLLLAETLIALNRSEDAEA-VLXTIPLQDQDT-RYQGL  189 (287)
T ss_dssp             CCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TTSCHHHHHHHHHHHHHTTCHHHHHH-HHTTSCGGGCSH-HHHHH
T ss_pred             CCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHh--CCcchhHHHHHHHHHHHCCCHHHHHH-HHHhCchhhcch-HHHHH
Confidence            335566777888899999999999999999884  46678889999999999999999999 888776655432 22222


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhc
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV  250 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  250 (275)
                      .....+...++.++|...+++..... +.+...+..+...+...|++++|...|.++.+......+...+..+...+...
T Consensus       190 ~~~~~l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~  268 (287)
T 3qou_A          190 VAQIELLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAAL  268 (287)
T ss_dssp             HHHHHHHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHc
Confidence            33334667788888999999887763 33567788999999999999999999999998652222367899999999999


Q ss_pred             CChHHHHHHHHHHHh
Q 023952          251 GLTEKANEFHMLLLQ  265 (275)
Q Consensus       251 g~~~~a~~~~~~m~~  265 (275)
                      |+.++|...+++.+.
T Consensus       269 g~~~~a~~~~r~al~  283 (287)
T 3qou_A          269 GTGDALASXYRRQLY  283 (287)
T ss_dssp             CTTCHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHH
Confidence            999999999887654

>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=99.24  E-value=9.5e-10  Score=85.66  Aligned_cols=201  Identities=8%  Similarity=-0.051  Sum_probs=146.3

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc-cCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHH
Q 023952           36 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS-VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVK  114 (275)
Q Consensus        36 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~-~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  114 (275)
                      ..|++++|.+++++..+.. +..          +.+ .+++++|...|.+.               ...|...|++++|.
T Consensus         3 ~~~~~~eA~~~~~~a~k~~-~~~----------~~~~~~~~~~A~~~~~~a---------------~~~~~~~g~~~~A~   56 (307)
T 2ifu_A            3 AAQKISEAHEHIAKAEKYL-KTS----------FMKWKPDYDSAASEYAKA---------------AVAFKNAKQLEQAK   56 (307)
T ss_dssp             CHHHHHHHHHHHHHHHHHH-CCC----------SSSCSCCHHHHHHHHHHH---------------HHHHHHTTCHHHHH
T ss_pred             ccchHHHHHHHHHHHHHHc-ccc----------ccCCCCCHHHHHHHHHHH---------------HHHHHHcCCHHHHH
Confidence            3577888999888776542 111          222 57888888888765               45677889999999


Q ss_pred             HHHHHHhhcC---CCC-CCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC---Cc--chhhHHHHHHHHHccCCHHHH
Q 023952          115 KFLDEMSCDS---GGS-DDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT---QR--QWITYDFLIILYAGLGNKDKI  185 (275)
Q Consensus       115 ~~~~~~~~~~---~~~-~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a  185 (275)
                      ..|.+.....   +.+ .-..+|+.+..+|.+.|++++|+. .+++......   .+  ...++..+...|.. |++++|
T Consensus        57 ~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~-~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A  134 (307)
T 2ifu_A           57 DAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQ-YIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKA  134 (307)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHH-HHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHH-HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHH
Confidence            9998866531   111 113478889999999999999999 8877655322   12  24577788888988 999999


Q ss_pred             HHHHHHHHhccCCC-----ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC----HHHHHHHHHHHHhcCChHHH
Q 023952          186 DQIWKSLRMTKQKM-----TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD----ISACNRLLGAFSDVGLTEKA  256 (275)
Q Consensus       186 ~~~~~~m~~~~~~p-----~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~li~~~~~~g~~~~a  256 (275)
                      +..|++..+.....     ...++..+...|.+.|++++|+..|++..+.....++    ...+..+..++...|++++|
T Consensus       135 ~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A  214 (307)
T 2ifu_A          135 VHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAA  214 (307)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHH
Confidence            99999876532111     1356778899999999999999999998763211111    23566777788888999999


Q ss_pred             HHHHHHHH
Q 023952          257 NEFHMLLL  264 (275)
Q Consensus       257 ~~~~~~m~  264 (275)
                      ...|++..
T Consensus       215 ~~~~~~al  222 (307)
T 2ifu_A          215 QKCVRESY  222 (307)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHHh
Confidence            99999987

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.24  E-value=2.8e-09  Score=79.05  Aligned_cols=188  Identities=9%  Similarity=-0.007  Sum_probs=123.9

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC-C-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH---H
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-P-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV---K  132 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~---~  132 (275)
                      ++..+..+...+.+.|++++|+..|+++.+.... | ....+..+..++.+.|++++|+..|+++.+..  |.+..   .
T Consensus         3 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~--P~~~~~~~a   80 (225)
T 2yhc_A            3 PPNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN--PTHPNIDYV   80 (225)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCTTHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHC--cCCCcHHHH
Confidence            4556667777888999999999999999885332 1 13567778889999999999999999988752  22222   3


Q ss_pred             HHHHHHHHHh------------------cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          133 YVNLVNIYIT------------------ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       133 ~~~l~~~~~~------------------~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      +..+..++.+                  .|++++|.. .++.+....|. +...+......          ..+...+. 
T Consensus        81 ~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~l~~~P~-~~~a~~a~~~l----------~~~~~~~~-  147 (225)
T 2yhc_A           81 MYMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFS-DFSKLVRGYPN-SQYTTDATKRL----------VFLKDRLA-  147 (225)
T ss_dssp             HHHHHHHHHHHHC--------------CCHHHHHHHH-HHHHHHTTCTT-CTTHHHHHHHH----------HHHHHHHH-
T ss_pred             HHHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHH-HHHHHHHHCcC-ChhHHHHHHHH----------HHHHHHHH-
Confidence            4444444443                  456666666 56555554433 22222211100          00001100 


Q ss_pred             ccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC-CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          195 TKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF-DISACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       195 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                             .....+...|.+.|++++|...|+++.+.....| ....+..+..+|.+.|+.++|.+.++.+...+
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                   0113467788999999999999999998642111 12568889999999999999999999887753

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.24  E-value=3e-08  Score=76.61  Aligned_cols=226  Identities=10%  Similarity=-0.018  Sum_probs=167.1

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC--CHHHHHHHHHHHhhCCCCCchhhHHHHHHHH----Hh
Q 023952           33 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG--QVEKVALVVEEIKRKNVVPDIFTYNLWISSC----AA  106 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~----~~  106 (275)
                      ...+....++|+.+++.+...+ |-+...|+.--..+...|  ++++++++++.+...+.+ +..+|+.--..+    ..
T Consensus        42 ~~~~~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk-~y~aW~~R~~iL~~~~~~  119 (306)
T 3dra_A           42 LMKAEEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEK-NYQIWNYRQLIIGQIMEL  119 (306)
T ss_dssp             HHHTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTT-CCHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHHHHHHh
Confidence            3344445578999999988875 445667888777777888  899999999999886554 556666655555    44


Q ss_pred             h---CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchH--HHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC
Q 023952          107 T---LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV--NAESSTLVEAEKSITQRQWITYDFLIILYAGLGN  181 (275)
Q Consensus       107 ~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  181 (275)
                      .   ++++++..+++++.+.  .+-+..+|+.-.-++.+.|.++  ++++ .+..+....+. |-..|+.........+.
T Consensus       120 l~~~~~~~~EL~~~~~~l~~--~pkny~aW~~R~~vl~~l~~~~~~~EL~-~~~~~i~~d~~-N~sAW~~R~~ll~~l~~  195 (306)
T 3dra_A          120 NNNDFDPYREFDILEAMLSS--DPKNHHVWSYRKWLVDTFDLHNDAKELS-FVDKVIDTDLK-NNSAWSHRFFLLFSKKH  195 (306)
T ss_dssp             TTTCCCTHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCTTCHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHSSGG
T ss_pred             ccccCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhcccChHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHhccc
Confidence            4   7888999999998874  4677788877777777788887  8888 88888876655 77788777666667666


Q ss_pred             ------HHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHH-HHHHHHHHHhcC-CCCCCHHHHHHHHHHHHhcCCh
Q 023952          182 ------KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKE-VGEIIDQWKQSA-TSDFDISACNRLLGAFSDVGLT  253 (275)
Q Consensus       182 ------~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~-a~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~  253 (275)
                            ++++++.++++.... .-|...|+.+-..+.+.|+... +..+..++.+.+ ....+...+..+...|.+.|+.
T Consensus       196 ~~~~~~~~eEl~~~~~aI~~~-p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~  274 (306)
T 3dra_A          196 LATDNTIDEELNYVKDKIVKC-PQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKY  274 (306)
T ss_dssp             GCCHHHHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCH
T ss_pred             cchhhhHHHHHHHHHHHHHhC-CCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCH
Confidence                  888888888887764 3366677777777777777444 555666655432 1134677888888999999999


Q ss_pred             HHHHHHHHHHHh
Q 023952          254 EKANEFHMLLLQ  265 (275)
Q Consensus       254 ~~a~~~~~~m~~  265 (275)
                      ++|.++++.+.+
T Consensus       275 ~~A~~~~~~l~~  286 (306)
T 3dra_A          275 NESRTVYDLLKS  286 (306)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998864

>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=99.23  E-value=7.6e-10  Score=93.66  Aligned_cols=154  Identities=7%  Similarity=-0.076  Sum_probs=100.4

Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHH
Q 023952           37 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF  116 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  116 (275)
                      .|++++|...|++..+.. +.+...|..+...+.+.|++++|++.|++..+.... +..++..+...+...|++++|.+.
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~   79 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPG-HPEAVARLGRVRWTQQRHAEAAVL   79 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHH
Confidence            467788888888776653 345677888888888888888888888888775332 466777777778888888888888


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc---CCHHHHHHHHHHHH
Q 023952          117 LDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL---GNKDKIDQIWKSLR  193 (275)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---~~~~~a~~~~~~m~  193 (275)
                      +++..+.  .+.+...+..+..+|.+.|++++|.+ .+++..+..+. +...+..+...+...   |+.++|.+.+++..
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            8887764  35566777788888888888888888 77777665543 556677777777777   88888888888776


Q ss_pred             hcc
Q 023952          194 MTK  196 (275)
Q Consensus       194 ~~~  196 (275)
                      +.+
T Consensus       156 ~~~  158 (568)
T 2vsy_A          156 AQG  158 (568)
T ss_dssp             HHT
T ss_pred             hcC
Confidence            653

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=99.23  E-value=7.1e-09  Score=80.12  Aligned_cols=231  Identities=8%  Similarity=-0.015  Sum_probs=179.4

Q ss_pred             hhhHHHHhhccccCCC-CHhHHHHHHHHHHcCC--CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHh----hcc---CCHH
Q 023952            7 IHSGERYFEGLPLSAK-TSETYTALLHLYAGAK--WTEKAEELFERVKQSNLSFNALMYNEMMTLY----MSV---GQVE   76 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~----~~~---g~~~   76 (275)
                      -++|+++++.+....| +..+|+.--..+...|  ++++++..++.+...+ +-+..+|+.--..+    ...   ++++
T Consensus        49 s~~aL~~t~~~L~~nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~~~  127 (306)
T 3dra_A           49 SERALHITELGINELASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFDPY  127 (306)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCCTH
T ss_pred             CHHHHHHHHHHHHHCcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCCHH
Confidence            3689999999888777 6888999988998888  9999999999998875 45566676544444    444   7899


Q ss_pred             HHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHH--HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc------hHH
Q 023952           77 KVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID--QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH------LVN  148 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------~~~  148 (275)
                      +++++++.+.+...+ +..+|+.-.-.+.+.|.++  ++.+.++++.+.  .+-|...|+.-...+.+.+.      +++
T Consensus       128 ~EL~~~~~~l~~~pk-ny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~--d~~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          128 REFDILEAMLSSDPK-NHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDT--DLKNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             HHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhcccChHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccchhhhHHH
Confidence            999999999997655 7888988888888888888  999999999985  46777888877777777776      888


Q ss_pred             HHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHH-HHHHHHHHHHhcc--CCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 023952          149 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD-KIDQIWKSLRMTK--QKMTSRNYICILSSYLMLGHLKEVGEIID  225 (275)
Q Consensus       149 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-~a~~~~~~m~~~~--~~p~~~~~~~li~~~~~~g~~~~a~~~~~  225 (275)
                      +++ .+..+....+. |...|+-+...+.+.|+.. .+..+..++.+.+  -..++..+..+...|.+.|+.++|.++++
T Consensus       205 El~-~~~~aI~~~p~-n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          205 ELN-YVKDKIVKCPQ-NPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHH-HHHHHHHHCSS-CHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHH-HHHHHHHhCCC-CccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            888 78877777665 8888988888888888744 4556666655432  13356778889999999999999999999


Q ss_pred             HHHhcCCCCCCHHHHHHHH
Q 023952          226 QWKQSATSDFDISACNRLL  244 (275)
Q Consensus       226 ~~~~~~~~~~~~~~~~~li  244 (275)
                      .+.+.- .+.....|+...
T Consensus       283 ~l~~~~-Dpir~~yW~~~~  300 (306)
T 3dra_A          283 LLKSKY-NPIRSNFWDYQI  300 (306)
T ss_dssp             HHHHTT-CGGGHHHHHHHH
T ss_pred             HHHhcc-ChHHHHHHHHHH
Confidence            998642 134555565443

>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=99.22  E-value=3.3e-10  Score=80.77  Aligned_cols=160  Identities=9%  Similarity=-0.053  Sum_probs=79.2

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHH-HH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIIL-YA  177 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~  177 (275)
                      .+...+...|++++|...|++..+.  .|.+...+..+...+.+.|++++|.. .++......+  +...+..+... +.
T Consensus        11 ~~a~~~~~~g~~~~A~~~~~~al~~--~P~~~~a~~~la~~~~~~g~~~~A~~-~~~~a~~~~p--~~~~~~~~~~~~~~   85 (176)
T 2r5s_A           11 KQVSELLQQGEHAQALNVIQTLSDE--LQSRGDVKLAKADCLLETKQFELAQE-LLATIPLEYQ--DNSYKSLIAKLELH   85 (176)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHTSCHH--HHTSHHHHHHHHHHHHHTTCHHHHHH-HHTTCCGGGC--CHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHCCCHHHHHH-HHHHhhhccC--ChHHHHHHHHHHHH
Confidence            3444455555555555555554442  23344445555555555555555555 4444333322  22211111111 11


Q ss_pred             ccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHH
Q 023952          178 GLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKA  256 (275)
Q Consensus       178 ~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  256 (275)
                      ..++..++...+++..+.  .| +...+..+...+...|++++|...|+++.+......+...+..+...+...|+.++|
T Consensus        86 ~~~~~~~a~~~~~~al~~--~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A  163 (176)
T 2r5s_A           86 QQAAESPELKRLEQELAA--NPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAI  163 (176)
T ss_dssp             HHHTSCHHHHHHHHHHHH--STTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHH
T ss_pred             hhcccchHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcH
Confidence            111222345555555543  23 345556666666666666666666666665431112344566666666666766666


Q ss_pred             HHHHHHHHh
Q 023952          257 NEFHMLLLQ  265 (275)
Q Consensus       257 ~~~~~~m~~  265 (275)
                      ...|++.+.
T Consensus       164 ~~~y~~al~  172 (176)
T 2r5s_A          164 ASKYRRQLY  172 (176)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            666665543

>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=99.22  E-value=4.2e-09  Score=77.42  Aligned_cols=177  Identities=10%  Similarity=0.049  Sum_probs=127.2

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhC----CHHHHHHH
Q 023952           41 EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL----NIDQVKKF  116 (275)
Q Consensus        41 ~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~----~~~~a~~~  116 (275)
                      .+|.+.|+...+.|   ++..+..|...|...+++++|++.|++..+.|   +...+..|...|.. +    ++++|...
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            45677788877776   67788888888888888888888888888765   45667777777776 6    78888888


Q ss_pred             HHHHhhcCCCCCCHHHHHHHHHHHHh----cCchHHHHHHHHHHHHHccCC-cchhhHHHHHHHHHc----cCCHHHHHH
Q 023952          117 LDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQ-RQWITYDFLIILYAG----LGNKDKIDQ  187 (275)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~  187 (275)
                      |++..+.    .+...+..|...|..    .+++++|.. .+++....++. .+...+..|...|..    .+++++|..
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----GSKSGEIVLARVLVNRQAGATDVAHAIT-LLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASE  150 (212)
T ss_dssp             HHHHHHT----TCHHHHHHHHHHHTCGGGSSCCHHHHHH-HHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHH
T ss_pred             HHHHHHC----CCHHHHHHHHHHHHcCCCCccCHHHHHH-HHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHH
Confidence            8888664    355667777777776    778888888 77776665542 125667777777777    778888888


Q ss_pred             HHHHHHhccCCCChhhHHHHHHHHHhc-C-----CHHHHHHHHHHHHhcC
Q 023952          188 IWKSLRMTKQKMTSRNYICILSSYLML-G-----HLKEVGEIIDQWKQSA  231 (275)
Q Consensus       188 ~~~~m~~~~~~p~~~~~~~li~~~~~~-g-----~~~~a~~~~~~~~~~~  231 (275)
                      .|++..+.  ..+...+..|...|... |     ++++|..+|+...+.+
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  22444556666666543 2     7888888888877765

>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=99.17  E-value=2.6e-08  Score=76.91  Aligned_cols=166  Identities=4%  Similarity=-0.120  Sum_probs=117.8

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH----HHHHHHHHHHhcCchHHHHHHHHHHHHHccCC-cc----hhhH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV----KYVNLVNIYITASHLVNAESSTLVEAEKSITQ-RQ----WITY  169 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~----~~~~  169 (275)
                      ..+..+...|++++|..++++..+.....|+..    .+..+...+...|++++|+. .+.++...... ++    ..++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~-~~~~al~~~~~~~~~~~~~~~~  158 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCIL-ELKKLLNQQLTGIDVYQNLYIE  158 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHH-HHHHHHHTCCCCSCTTHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHH-HHHHHHHHhcccccHHHHHHHH
Confidence            346678888999999999998877422233321    33356667777889999999 88887763322 22    2367


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhc-----cCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCCCCHHH
Q 023952          170 DFLIILYAGLGNKDKIDQIWKSLRMT-----KQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSA----TSDFDISA  239 (275)
Q Consensus       170 ~~l~~~~~~~~~~~~a~~~~~~m~~~-----~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~  239 (275)
                      +.+...|...|++++|...|++..+.     +..+. ..++..+...|.+.|++++|...+++..+..    ....-..+
T Consensus       159 ~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~  238 (293)
T 3u3w_A          159 NAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQL  238 (293)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHH
Confidence            88888899999999999999887631     11111 2357788889999999999999998876521    11112567


Q ss_pred             HHHHHHHHHhcCC-hHHHHHHHHHHHh
Q 023952          240 CNRLLGAFSDVGL-TEKANEFHMLLLQ  265 (275)
Q Consensus       240 ~~~li~~~~~~g~-~~~a~~~~~~m~~  265 (275)
                      |..+..+|.+.|+ +++|...+++...
T Consensus       239 ~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          239 YYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            8888899999995 5899988887753

>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=99.14  E-value=8.8e-09  Score=75.43  Aligned_cols=131  Identities=15%  Similarity=0.013  Sum_probs=96.5

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSC  104 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  104 (275)
                      ..+..+...+...|++++|...|++..    .|+...|..+...+.+.|++++|++.|++..+... .+...+..+..++
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~-~~~~~~~~lg~~~   81 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDK-HLAVAYFQRGMLY   81 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCc-cchHHHHHHHHHH
Confidence            345666777778888888888887653    45778888888888888888888888888877542 2566777788888


Q ss_pred             HhhCCHHHHHHHHHHHhhcCCCCCCH----------------HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952          105 AATLNIDQVKKFLDEMSCDSGGSDDW----------------VKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus       105 ~~~~~~~~a~~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      ...|++++|...|++..+.  .+.+.                ..+..+..+|.+.|++++|.. .++......+.
T Consensus        82 ~~~~~~~~A~~~~~~al~~--~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~al~~~p~  153 (213)
T 1hh8_A           82 YQTEKYDLAIKDLKEALIQ--LRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEE-QLALATSMKSE  153 (213)
T ss_dssp             HHTTCHHHHHHHHHHHHHT--TTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHTTCCS
T ss_pred             HHcccHHHHHHHHHHHHHh--CCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHH-HHHHHHHcCcc
Confidence            8888888888888887763  22222                567777777888888888888 77777665544

>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=99.12  E-value=7.6e-10  Score=87.34  Aligned_cols=151  Identities=5%  Similarity=-0.089  Sum_probs=112.9

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC---------------HHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---------------ALMYNEMMTL   68 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---------------~~~~~~li~~   68 (275)
                      +++++|++.|+......| +...|..+...+.+.|++++|...|++..+.. +.+               ...|..+..+
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            456677777766654444 57788889999999999999999999888764 222               4778888888


Q ss_pred             hhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHH
Q 023952           69 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  148 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  148 (275)
                      |.+.|++++|+..|++..+.... +...|..+..++...|++++|...|+++.+.  .+.+...+..+..++.+.|+.++
T Consensus       206 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~  282 (336)
T 1p5q_A          206 HLKLQAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQL--YPNNKAAKTQLAVCQQRIRRQLA  282 (336)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHHHH
Confidence            88888888888888888875432 5677778888888888888888888888774  35566777788888888888887


Q ss_pred             HHHHHHHHHHH
Q 023952          149 AESSTLVEAEK  159 (275)
Q Consensus       149 a~~~~~~~~~~  159 (275)
                      |....+..|..
T Consensus       283 a~~~~~~~~~~  293 (336)
T 1p5q_A          283 REKKLYANMFE  293 (336)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            74424555443

>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=99.11  E-value=5.6e-08  Score=83.24  Aligned_cols=239  Identities=7%  Similarity=-0.031  Sum_probs=174.7

Q ss_pred             hHHHHHHHHHHcCC-------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHH-HHHHHHhhCCCCCchhh
Q 023952           25 ETYTALLHLYAGAK-------WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA-LVVEEIKRKNVVPDIFT   96 (275)
Q Consensus        25 ~~~~~li~~~~~~g-------~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~~~~p~~~~   96 (275)
                      ..|...+..--..+       ..+++..+|++.... .+-+...|-..+..+.+.|+.++|. ++|+..... ++.+...
T Consensus       303 ~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~-~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~L  380 (679)
T 4e6h_A          303 LIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQH-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHH
Confidence            55777776655443       134566788887765 3567888988888888889999997 999999875 3345666


Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcC---------CCCC-----------CHHHHHHHHHHHHhcCchHHHHHHHHHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDS---------GGSD-----------DWVKYVNLVNIYITASHLVNAESSTLVE  156 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~---------~~~~-----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~  156 (275)
                      |...+...-+.|+++.|.++|+++....         ..+.           ...+|...+....+.|..+.|.. +|..
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~-vf~~  459 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRK-IFGK  459 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHH-HHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHH-HHHH
Confidence            7778888889999999999999987630         1111           13367788888888899999999 8988


Q ss_pred             HHHccCCcchhhHHHHHHHHHcc-CCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCC-C
Q 023952          157 AEKSITQRQWITYDFLIILYAGL-GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATS-D  234 (275)
Q Consensus       157 ~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~-~  234 (275)
                      ..+..+......|...+..-.+. ++.+.|..+|+...+. ..-+...+...+......|+.+.|..+|++....... .
T Consensus       460 A~~~~~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~-~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~  538 (679)
T 4e6h_A          460 CRRLKKLVTPDIYLENAYIEYHISKDTKTACKVLELGLKY-FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSH  538 (679)
T ss_dssp             HHHTGGGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTT
T ss_pred             HHHhcCCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHH
Confidence            87763222333443333333333 5589999999988776 3335556677888888899999999999999875421 1


Q ss_pred             CCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcC
Q 023952          235 FDISACNRLLGAFSDVGLTEKANEFHMLLLQKN  267 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~  267 (275)
                      .....|...+..-.+.|+.+.+.++.+++.+.-
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            234678888888889999999999999998753

>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=99.10  E-value=3.5e-09  Score=81.39  Aligned_cols=98  Identities=10%  Similarity=0.020  Sum_probs=53.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...+..+...+.+.|++++|...|+...+.. +.+...|..+...|.+.|++++|++.+++..+.... +...+..+..
T Consensus         3 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~   80 (281)
T 2c2l_A            3 SAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQ   80 (281)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            34455555555666666666666666555542 234555555555556666666666666555553221 3444555555


Q ss_pred             HHHhhCCHHHHHHHHHHHhh
Q 023952          103 SCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~  122 (275)
                      ++...|++++|...|++..+
T Consensus        81 ~~~~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           81 CQLEMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHH
Confidence            55555566666555555444

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.09  E-value=8.4e-10  Score=76.38  Aligned_cols=108  Identities=9%  Similarity=-0.045  Sum_probs=61.7

Q ss_pred             hhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCC
Q 023952           14 FEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVP   92 (275)
Q Consensus        14 ~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p   92 (275)
                      |+++....| +...+..+...+.+.|++++|...|+.....+ |.++..|..+..+|...|++++|+..|++..+.... 
T Consensus        25 l~~al~l~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~-P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-  102 (151)
T 3gyz_A           25 LKDINAIPDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCIYD-FYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-  102 (151)
T ss_dssp             TGGGCCSCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-
T ss_pred             HHHHhCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-
Confidence            333333334 45555666666666666666666666665543 345556666666666666666666666666654322 


Q ss_pred             chhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           93 DIFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        93 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      +...|..+..++...|++++|...|++..+.
T Consensus       103 ~~~~~~~lg~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          103 DYTPVFHTGQCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            3455555666666666666666666665553

>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=1.5e-08  Score=74.12  Aligned_cols=129  Identities=11%  Similarity=-0.037  Sum_probs=108.5

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  139 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  139 (275)
                      ..+..+...+...|++++|++.|++..    .|+..++..+...+...|++++|...|++..+.  .+.+...+..+..+
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~~~~~~~~~~lg~~   80 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CccchHHHHHHHHH
Confidence            345566778889999999999998774    567889999999999999999999999998875  36677889999999


Q ss_pred             HHhcCchHHHHHHHHHHHHHccCCc---------------chhhHHHHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          140 YITASHLVNAESSTLVEAEKSITQR---------------QWITYDFLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       140 ~~~~g~~~~a~~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      |.+.|++++|.. .++......+..               ....+..+...|...|++++|...|++..+.
T Consensus        81 ~~~~~~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~  150 (213)
T 1hh8_A           81 YYQTEKYDLAIK-DLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSM  150 (213)
T ss_dssp             HHHTTCHHHHHH-HHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHcccHHHHHH-HHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHc
Confidence            999999999999 888887754431               2367788888999999999999999998875

>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=99.09  E-value=1.5e-08  Score=86.73  Aligned_cols=219  Identities=7%  Similarity=0.024  Sum_probs=169.1

Q ss_pred             hHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHH-HHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHh
Q 023952            9 SGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAE-ELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIK   86 (275)
Q Consensus         9 ~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~   86 (275)
                      .+..+|++.....| +...|...+..+.+.|+.++|. .+|++.... .|.+...|-..+...-+.|++++|.++|+.+.
T Consensus       327 Rv~~~Ye~aL~~~p~~~~lW~~ya~~~~~~~~~~~a~r~il~rAi~~-~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l  405 (679)
T 4e6h_A          327 RMTYVYMQAAQHVCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQC-IPNSAVLAFSLSEQYELNTKIPEIETTILSCI  405 (679)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHH-CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            34566777665545 7889999999999999999997 999998875 46677788889999999999999999999998


Q ss_pred             hCCC---------CCc------------hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc-C
Q 023952           87 RKNV---------VPD------------IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA-S  144 (275)
Q Consensus        87 ~~~~---------~p~------------~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g  144 (275)
                      +...         .|+            ..+|...+....+.|..+.|.++|..+.+. .......+|...+..-.+. +
T Consensus       406 ~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A~~~-~~~~~~~lyi~~A~lE~~~~~  484 (679)
T 4e6h_A          406 DRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKCRRL-KKLVTPDIYLENAYIEYHISK  484 (679)
T ss_dssp             HHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHT-GGGSCTHHHHHHHHHHHTTTS
T ss_pred             HHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh-cCCCChHHHHHHHHHHHHhCC
Confidence            6410         132            246888888888899999999999999874 1123345555444444454 4


Q ss_pred             chHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC--ChhhHHHHHHHHHhcCCHHHHHH
Q 023952          145 HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM--TSRNYICILSSYLMLGHLKEVGE  222 (275)
Q Consensus       145 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~~a~~  222 (275)
                      +.+.|.. +|+...+..+. +...|...+......|+.+.|..+|+........+  ....|...+..-.+.|+.+.+.+
T Consensus       485 d~e~Ar~-ife~~Lk~~p~-~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~  562 (679)
T 4e6h_A          485 DTKTACK-VLELGLKYFAT-DGEYINKYLDFLIYVNEESQVKSLFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRT  562 (679)
T ss_dssp             CCHHHHH-HHHHHHHHHTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHH
T ss_pred             CHHHHHH-HHHHHHHHCCC-chHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            5899999 89988887654 56677788888888999999999999987753322  23567778888889999999999


Q ss_pred             HHHHHHhcC
Q 023952          223 IIDQWKQSA  231 (275)
Q Consensus       223 ~~~~~~~~~  231 (275)
                      +.+++.+..
T Consensus       563 v~~R~~~~~  571 (679)
T 4e6h_A          563 LEKRFFEKF  571 (679)
T ss_dssp             HHHHHHHHS
T ss_pred             HHHHHHHhC
Confidence            999999864

>2vgx_A Chaperone SYCD; alternative dimer assembly, tetratricopeptide repeat, type III secretion; HET: MLY; 1.95A {Yersinia enterocolitica} SCOP: k.38.1.1 PDB: 2vgx_B* 2vgy_A*

Probab=99.07  E-value=2.7e-09  Score=73.74  Aligned_cols=111  Identities=9%  Similarity=-0.086  Sum_probs=85.9

Q ss_pred             HHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCC
Q 023952           11 ERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKN   89 (275)
Q Consensus        11 ~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   89 (275)
                      ...|+++....| +...+..+...+.+.|++++|...|+.....+ +.+...|..+..++...|++++|++.|++..+.+
T Consensus         7 ~~~~~~al~~~p~~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~   85 (148)
T 2vgx_A            7 GGTIAMLNEISSDTLEQLYSLAFNQYQSGXYEDAHXVFQALCVLD-HYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD   85 (148)
T ss_dssp             CCSHHHHTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             hhhHHHHHcCCHhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            345555555445 67777888888888889999988888887764 4577888888888888888888888888888754


Q ss_pred             CCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           90 VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        90 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      .. +...+..+..++...|++++|...|++..+.
T Consensus        86 p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           86 IX-EPRFPFHAAECLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             TT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CC-CchHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            32 5667777888888888888888888887764

>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=99.06  E-value=3.6e-09  Score=75.27  Aligned_cols=120  Identities=13%  Similarity=0.081  Sum_probs=85.2

Q ss_pred             ccccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-hhccCCH--HH
Q 023952            2 TKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTL-YMSVGQV--EK   77 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~-~~~~g~~--~~   77 (275)
                      ...|++++|+..|+......| +...|..+...|...|++++|...|++..+.. +.+...+..+... +...|++  ++
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            346777888888877665555 67778888888888888888888888877654 3466677777777 6677887  88


Q ss_pred             HHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           78 VALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        78 a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      |+..|++..+.... +...+..+...+...|++++|...|+++.+.
T Consensus       100 A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  144 (177)
T 2e2e_A          100 TRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDL  144 (177)
T ss_dssp             HHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhh
Confidence            88888887775332 4566777777788888888888888887764

>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=99.05  E-value=7.1e-08  Score=74.46  Aligned_cols=167  Identities=8%  Similarity=-0.075  Sum_probs=123.0

Q ss_pred             HHHHHHHhhccCCHHHHHHHHHHHhhCCC-CCchh----hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC----HHH
Q 023952           62 YNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPDIF----TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD----WVK  132 (275)
Q Consensus        62 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  132 (275)
                      +...+..+...|++++|.+++++..+... .|+..    .+..+...+...+++++|...|+++.......++    ..+
T Consensus        78 l~~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~  157 (293)
T 3u3w_A           78 FKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYI  157 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHH
Confidence            33446778899999999999999887532 23321    2334666677788999999999998873122233    236


Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHcc-----CCc-chhhHHHHHHHHHccCCHHHHHHHHHHHHhcc----CCCC-h
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSI-----TQR-QWITYDFLIILYAGLGNKDKIDQIWKSLRMTK----QKMT-S  201 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-----~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~----~~p~-~  201 (275)
                      ++.+...|...|++++|.. .++++....     ..+ ...++..+...|...|++++|...+++..+..    ..+. .
T Consensus       158 ~~~lg~~y~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~  236 (293)
T 3u3w_A          158 ENAIANIYAENGYLKKGID-LFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHH
T ss_pred             HHHHHHHHHHcCCHHHHHH-HHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHH
Confidence            8899999999999999999 888877421     111 23477888999999999999999998875432    1222 4


Q ss_pred             hhHHHHHHHHHhcCC-HHHHHHHHHHHHh
Q 023952          202 RNYICILSSYLMLGH-LKEVGEIIDQWKQ  229 (275)
Q Consensus       202 ~~~~~li~~~~~~g~-~~~a~~~~~~~~~  229 (275)
                      ..|..+...|.+.|+ +++|.+.+++...
T Consensus       237 ~~~~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            568888999999995 6999999988764

>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=99.05  E-value=5.7e-07  Score=70.40  Aligned_cols=233  Identities=11%  Similarity=-0.008  Sum_probs=166.0

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC-CHHHHHHHHHHHhhCCCCCchhhHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKRKNVVPDIFTYNLWISSC  104 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~  104 (275)
                      .++.+-....+.+..++|+++++.+...+ +-+..+|+.--..+...| .+++++++++.+.+.+.+ +..+|+.-...+
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            34444455556666788999999998876 456777887777777778 599999999999987665 677888877777


Q ss_pred             Hhh-C-CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchH--------HHHHHHHHHHHHccCCcchhhHHHHHH
Q 023952          105 AAT-L-NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLV--------NAESSTLVEAEKSITQRQWITYDFLII  174 (275)
Q Consensus       105 ~~~-~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~  174 (275)
                      .+. + ++++++++++++.+.  .+-+..+|+--.-++.+.|.++        ++++ .+.++....+. |...|+....
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            776 6 889999999999874  4677777776666666666666        7888 77777776654 7788888877


Q ss_pred             HHHccCC-------HHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH--------------------HHHHHHHHHH
Q 023952          175 LYAGLGN-------KDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL--------------------KEVGEIIDQW  227 (275)
Q Consensus       175 ~~~~~~~-------~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~--------------------~~a~~~~~~~  227 (275)
                      .+.+.+.       ++++++.+++..... .-|...|+.+-..+.+.|+.                    .....+..++
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       678888888877653 23555666666666655543                    3333433333


Q ss_pred             HhcC----CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          228 KQSA----TSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       228 ~~~~----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ....    ...++...+..|+..|...|+.++|.++++.+.+
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    1135777888899999999999999999998753

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=99.04  E-value=1.6e-08  Score=66.93  Aligned_cols=115  Identities=11%  Similarity=0.063  Sum_probs=80.1

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ...|..+...+...|++++|...|+++.+.. +.+..++..+...+.+.|++++|+.+|+++.+... .+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP-NNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCC-ccHHHHHHHHHH
Confidence            5667777778888888888888888777653 34567777777778888888888888887776532 255667777777


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  142 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  142 (275)
                      +...|++++|...++++.+.  .+.+...+..+...+.+
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            77788888888888777664  23444555555444433

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=99.03  E-value=8.2e-09  Score=69.15  Aligned_cols=110  Identities=8%  Similarity=-0.017  Sum_probs=79.5

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      ....|......|.+.|++++|+..|++..+.+ +.+...|..+..+|.+.|++++|++.|++..+.+.. +...|..+..
T Consensus        12 ~a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~   89 (126)
T 4gco_A           12 LAQEEKNKGNEYFKKGDYPTAMRHYNEAVKRD-PENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAA   89 (126)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHH
Confidence            45667777788888888888888888877664 456777888888888888888888888887775332 4567777777


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      ++...|++++|...|++..+.  .|.+...+..|
T Consensus        90 ~~~~~~~~~~A~~~~~~al~l--~P~~~~a~~~l  121 (126)
T 4gco_A           90 CLVAMREWSKAQRAYEDALQV--DPSNEEAREGV  121 (126)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHH--CcCCHHHHHHH
Confidence            788888888888888887763  24444444444

>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=2.1e-08  Score=70.18  Aligned_cols=129  Identities=14%  Similarity=0.001  Sum_probs=87.6

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ...|..+...+...|++++|...|+...+.. +.+...+..+...+...|++++|++.+++..+... .+..++..+...
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            4567777777778888888888888777653 34577777777777788888888888877776532 245667777777


Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHH--HHHHHHHHhcCchHHHHHHHHHHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKY--VNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      +...|++++|...|+++.+.  .+.+...+  ..++..+.+.|++++|.. .+...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~~  143 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIA-GDEHK  143 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHHHHH-HHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHHH-cccch
Confidence            77778888888888777764  23344444  233333666677777777 55543

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.03  E-value=1.1e-07  Score=73.36  Aligned_cols=171  Identities=6%  Similarity=-0.131  Sum_probs=122.3

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc-h----hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCC--CCCC-
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-I----FTYNLWISSCAATLNIDQVKKFLDEMSCDSG--GSDD-  129 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~----~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~--~~~~-  129 (275)
                      ....+...+..+...|++++|++.+.+..+...... .    ..+..+...+...|++++|...+++..+...  ..+. 
T Consensus        74 ~~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           74 RKKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHH
Confidence            356677788888899999999999988776532211 1    2234455667788899999999988765311  1111 


Q ss_pred             -HHHHHHHHHHHHhcCchHHHHHHHHHHHHH---ccCC-c--chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC----
Q 023952          130 -WVKYVNLVNIYITASHLVNAESSTLVEAEK---SITQ-R--QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK----  198 (275)
Q Consensus       130 -~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~-~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~----  198 (275)
                       ..+++.+...|...|++++|.. .+++...   ..+. +  ...++..+...|...|++++|...+++..+....    
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~-~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~  232 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGID-LFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSM  232 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBC
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcH
Confidence             3478889999999999999999 8887763   2221 1  2257888888999999999999999886543211    


Q ss_pred             C-ChhhHHHHHHHHHhcCCHHHH-HHHHHHHHh
Q 023952          199 M-TSRNYICILSSYLMLGHLKEV-GEIIDQWKQ  229 (275)
Q Consensus       199 p-~~~~~~~li~~~~~~g~~~~a-~~~~~~~~~  229 (275)
                      . -..+|..+...|.+.|++++| ...+++...
T Consensus       233 ~~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          233 ALIGQLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             SSHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            1 145678888899999999999 777777653

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=99.01  E-value=1.4e-08  Score=73.62  Aligned_cols=160  Identities=8%  Similarity=-0.051  Sum_probs=107.6

Q ss_pred             hhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc---CCC-CCCHHHHHHHHHHHHhcC
Q 023952           69 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGG-SDDWVKYVNLVNIYITAS  144 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~-~~~~~~~~~l~~~~~~~g  144 (275)
                      ....|++++|.++++.+... ......++..+...+...|++++|...+++....   .+. +....++..+...|...|
T Consensus         2 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLAH-PATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             -----CHHHHHHHHHHHHTS-TTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccccHHHHHHHHHHhcCC-hHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            34678999999966555442 2335677888888888999999999998886652   111 123456777888888899


Q ss_pred             chHHHHHHHHHHHHHc---cC-Cc--chhhHHHHHHHHHccCCHHHHHHHHHHHHhccC-CCC----hhhHHHHHHHHHh
Q 023952          145 HLVNAESSTLVEAEKS---IT-QR--QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ-KMT----SRNYICILSSYLM  213 (275)
Q Consensus       145 ~~~~a~~~~~~~~~~~---~~-~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~-~p~----~~~~~~li~~~~~  213 (275)
                      ++++|.. .+.+....   .. .+  ....+..+...+...|++++|...+++...... ..+    ..++..+...+..
T Consensus        81 ~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  159 (203)
T 3gw4_A           81 NWDAARR-CFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQ  159 (203)
T ss_dssp             CHHHHHH-HHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHH-HHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence            9999988 77766553   21 21  234567777788888999999888887654211 111    1234667778888


Q ss_pred             cCCHHHHHHHHHHHHhc
Q 023952          214 LGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       214 ~g~~~~a~~~~~~~~~~  230 (275)
                      .|++++|.+.+++..+.
T Consensus       160 ~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          160 EKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             TTCHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHH
Confidence            88999888888887653

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=99.01  E-value=1.4e-08  Score=70.18  Aligned_cols=99  Identities=9%  Similarity=-0.141  Sum_probs=62.8

Q ss_pred             CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHH
Q 023952          129 DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICIL  208 (275)
Q Consensus       129 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li  208 (275)
                      +...+..+...+.+.|++++|.. .++.+....|. +...|..+..+|...|++++|...|++..+.. +-++..+..+.
T Consensus        35 ~~~~~~~lg~~~~~~g~~~eA~~-~~~~al~~~P~-~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~-P~~~~~~~~lg  111 (151)
T 3gyz_A           35 MMDDIYSYAYDFYNKGRIEEAEV-FFRFLCIYDFY-NVDYIMGLAAIYQIKEQFQQAADLYAVAFALG-KNDYTPVFHTG  111 (151)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-SSCCHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHHccHHHHHHHHHHHHhhC-CCCcHHHHHHH
Confidence            34455666666666777777777 66666655443 55666666666677777777777776666543 22345566666


Q ss_pred             HHHHhcCCHHHHHHHHHHHHhc
Q 023952          209 SSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      .+|...|++++|...|++..+.
T Consensus       112 ~~~~~lg~~~eA~~~~~~al~l  133 (151)
T 3gyz_A          112 QCQLRLKAPLKAKECFELVIQH  133 (151)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHh
Confidence            6667777777777777766664

>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=99.01  E-value=3.6e-09  Score=81.31  Aligned_cols=197  Identities=10%  Similarity=-0.060  Sum_probs=129.4

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      .+...+..+...+.+.|++++|+..|++..+.... +...|..+...+.+.|++++|...+++..+.  .+.+...+..+
T Consensus         2 ~~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l   78 (281)
T 2c2l_A            2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (281)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCCHHHHHHH
Confidence            35677888888899999999999999999885332 6778888888999999999999999998874  46677888899


Q ss_pred             HHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCC
Q 023952          137 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH  216 (275)
Q Consensus       137 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~  216 (275)
                      ..+|...|++++|.. .+.......+. +...+...+....+   ..+.. -+..........+......+ ..+ ..|+
T Consensus        79 g~~~~~~g~~~~A~~-~~~~al~l~p~-~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~~~~~~~i~~~l-~~l-~~~~  150 (281)
T 2c2l_A           79 GQCQLEMESYDEAIA-NLQRAYSLAKE-QRLNFGDDIPSALR---IAKKK-RWNSIEERRIHQESELHSYL-TRL-IAAE  150 (281)
T ss_dssp             HHHHHHTTCHHHHHH-HHHHHHHHHHH-TTCCCCSHHHHHHH---HHHHH-HHHHHHHTCCCCCCHHHHHH-HHH-HHHH
T ss_pred             HHHHHHcCCHHHHHH-HHHHHHHhCcc-chhhHHHHHHHHHH---HHHHH-HHHHHHHHHHhhhHHHHHHH-HHH-HHHH
Confidence            999999999999999 88777665432 11111111211111   11111 12222233233333333333 332 3688


Q ss_pred             HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhc-CChHHHHHHHHHHHhc
Q 023952          217 LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV-GLTEKANEFHMLLLQK  266 (275)
Q Consensus       217 ~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~  266 (275)
                      .++|.+.++...+..  +.+......+...+.+. +.+++|..+|.+..+.
T Consensus       151 ~~~A~~~~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          151 RERELEECQRNHEGH--EDDGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             HHHHHTTTSGGGTTT--SCHHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHHHHHHHHhhhccc--cchhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            888888888777642  23344444454455554 6688888888877653

>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=99.00  E-value=1.2e-07  Score=74.29  Aligned_cols=234  Identities=6%  Similarity=-0.012  Sum_probs=171.3

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcc-C-CHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK-WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV-G-QVEKVAL   80 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~-g-~~~~a~~   80 (275)
                      +.-++|+++++.+....| +..+|+.--..+...| .+++++.+++.+.... +-+..+|+.-...+.+. + +++++++
T Consensus        68 e~se~AL~lt~~~L~~nP~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~~EL~  146 (349)
T 3q7a_A           68 EKSERALELTEIIVRMNPAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPVSEIE  146 (349)
T ss_dssp             CCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCHHHHH
T ss_pred             CCCHHHHHHHHHHHHhCchhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChHHHHH
Confidence            345689999999888777 7888999888888888 5999999999999876 56788888877777666 6 8899999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHHHHhhCCHH--------HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc-------
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISSCAATLNID--------QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH-------  145 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-------  145 (275)
                      +++.+.+...+ |..+|+.-.-.+.+.+.++        ++.+.++++.+.  .+-|...|+.....+.+.+.       
T Consensus       147 ~~~k~L~~dpk-Ny~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~--dp~N~SAW~~R~~lL~~l~~~~~~~~~  223 (349)
T 3q7a_A          147 YIHGSLLPDPK-NYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRV--DGRNNSAWGWRWYLRVSRPGAETSSRS  223 (349)
T ss_dssp             HHHHHTSSCTT-CHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHTTSTTCCCCHHH
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHhccccccchHH
Confidence            99999987655 7788887777666666666        899999998885  46788888888777777775       


Q ss_pred             hHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCH--------------------HHHHHHHHHHHhcc-----CCCC
Q 023952          146 LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNK--------------------DKIDQIWKSLRMTK-----QKMT  200 (275)
Q Consensus       146 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~--------------------~~a~~~~~~m~~~~-----~~p~  200 (275)
                      ++++++ .+.+.....+. |...|+-+-..+.+.|..                    ....+...++...+     -.++
T Consensus       224 ~~eELe-~~~~aI~~~P~-n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  301 (349)
T 3q7a_A          224 LQDELI-YILKSIHLIPH-NVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPV  301 (349)
T ss_dssp             HHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCC
T ss_pred             HHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCc
Confidence            678888 77777766654 778887776666666553                    23333333332221     1356


Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023952          201 SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  245 (275)
Q Consensus       201 ~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  245 (275)
                      +.....++..|...|+.++|.++++.+.+... +.....|+..+.
T Consensus       302 ~~al~~l~d~~~~~~~~~~a~~~~~~l~~~~d-pir~~yw~~~~~  345 (349)
T 3q7a_A          302 PLALEYLADSFIEQNRVDDAAKVFEKLSSEYD-QMRAGYWEFRRR  345 (349)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC-GGGHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHhhhC-hHHHHHHHHHHH
Confidence            66788899999999999999999999976432 234445554443

>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=99.00  E-value=3.3e-08  Score=69.10  Aligned_cols=124  Identities=15%  Similarity=-0.033  Sum_probs=53.4

Q ss_pred             HHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc
Q 023952          135 NLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML  214 (275)
Q Consensus       135 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~  214 (275)
                      .+...+...|++++|.. .+.......+. +...+..+...+...|++++|...+++..+.. +.+...+..+...+...
T Consensus        18 ~~a~~~~~~~~~~~A~~-~~~~al~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~   94 (166)
T 1a17_A           18 TQANDYFKAKDYENAIK-FYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMAL   94 (166)
T ss_dssp             HHHHHHHHTTCHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHccCHHHHHH-HHHHHHHhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHh
Confidence            33444444444444444 44444333222 33344444444444455555555444444332 12233444444455555


Q ss_pred             CCHHHHHHHHHHHHhcCCCCCCHHHH--HHHHHHHHhcCChHHHHHHHHHH
Q 023952          215 GHLKEVGEIIDQWKQSATSDFDISAC--NRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       215 g~~~~a~~~~~~~~~~~~~~~~~~~~--~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      |++++|...+++..+..  +.+...+  ..+...+...|++++|...+...
T Consensus        95 ~~~~~A~~~~~~a~~~~--p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~  143 (166)
T 1a17_A           95 GKFRAALRDYETVVKVK--PHDKDAKMKYQECNKIVKQKAFERAIAGDEHK  143 (166)
T ss_dssp             TCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHHHHHHHHHHHcccch
Confidence            55555555555554432  1222222  22222244445555555555443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=99.00  E-value=2.4e-08  Score=66.97  Aligned_cols=118  Identities=9%  Similarity=-0.070  Sum_probs=89.0

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+...+.+.|++++|...|++..+.. +.+...+..+...+...|++++|++.+++..+... .+...+..+..
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            57778888888888888888888888887764 44677888888888888888888888888887533 25667777888


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  144 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  144 (275)
                      .+...|++++|...|++..+.  .+.+...+..+..++.+.|
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            888888888888888887764  2344455666666665544

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=99.00  E-value=4.8e-08  Score=75.45  Aligned_cols=170  Identities=4%  Similarity=-0.111  Sum_probs=125.8

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH----HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC---cc-
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW----VKYVNLVNIYITASHLVNAESSTLVEAEKSITQ---RQ-  165 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~-  165 (275)
                      ...+...+..+...|++++|.+.+.+..+.....++.    ..+..+...+...|++++|.. .+.+.......   +. 
T Consensus        75 ~~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~-~~~~al~~~~~~~~~~~  153 (293)
T 2qfc_A           75 KKQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCIL-ELKKLLNQQLTGIDVYQ  153 (293)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHH-HHHHHHTTCCCSSCTTH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHH-HHHHHHHHHhcCCchHH
Confidence            3456667888899999999999999877642211111    234567777888999999999 88887753322   11 


Q ss_pred             -hhhHHHHHHHHHccCCHHHHHHHHHHHHhc-cCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCC
Q 023952          166 -WITYDFLIILYAGLGNKDKIDQIWKSLRMT-KQKMT-----SRNYICILSSYLMLGHLKEVGEIIDQWKQSA----TSD  234 (275)
Q Consensus       166 -~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~  234 (275)
                       ..+|+.+...|...|++++|...|++..+. ...|+     ..++..+...|...|++++|...+++..+..    ...
T Consensus       154 ~~~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~  233 (293)
T 2qfc_A          154 NLYIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMA  233 (293)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCS
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHH
Confidence             457889999999999999999999987632 11222     2578889999999999999999999886532    111


Q ss_pred             CCHHHHHHHHHHHHhcCChHHH-HHHHHHHH
Q 023952          235 FDISACNRLLGAFSDVGLTEKA-NEFHMLLL  264 (275)
Q Consensus       235 ~~~~~~~~li~~~~~~g~~~~a-~~~~~~m~  264 (275)
                      .-..+|..+...|.+.|++++| ...+++..
T Consensus       234 ~~~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al  264 (293)
T 2qfc_A          234 LIGQLYYQRGECLRKLEYEEAEIEDAYKKAS  264 (293)
T ss_dssp             SHHHHHHHHHHHHHHTTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcCCcHHHHHHHHHHHH
Confidence            1256788899999999999999 77777754

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.99  E-value=2.2e-08  Score=66.87  Aligned_cols=120  Identities=11%  Similarity=-0.009  Sum_probs=85.5

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+...+...|++++|...|++..... +.+...+..+...+...|++++|++.+++..+... .+...+..+..
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            56677777778888888888888888777653 34667777777788888888888888887776532 24566777777


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      .+...|++++|...|++..+.  .+.+...+..+..++.+.|++
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            777888888888888877764  244556666666666666553

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.98  E-value=3.8e-08  Score=71.30  Aligned_cols=159  Identities=9%  Similarity=-0.060  Sum_probs=112.6

Q ss_pred             HHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC----CCCC-chhhHHHHHHHHHhhC
Q 023952           34 YAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVP-DIFTYNLWISSCAATL  108 (275)
Q Consensus        34 ~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~  108 (275)
                      ....|++++|.+.++.+.. .......++..+...+...|++++|+..+++..+.    +..| ...++..+...+...|
T Consensus         2 ~~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g   80 (203)
T 3gw4_A            2 AFEAHDYALAERQAQALLA-HPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAG   80 (203)
T ss_dssp             -----CHHHHHHHHHHHHT-STTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTT
T ss_pred             ccccccHHHHHHHHHHhcC-ChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcC
Confidence            3467899999996655543 22245678889999999999999999999988762    2222 3456777888899999


Q ss_pred             CHHHHHHHHHHHhhc---CCCCC--CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC---Ccc--hhhHHHHHHHHHc
Q 023952          109 NIDQVKKFLDEMSCD---SGGSD--DWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT---QRQ--WITYDFLIILYAG  178 (275)
Q Consensus       109 ~~~~a~~~~~~~~~~---~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~  178 (275)
                      ++++|...+++....   .+..+  ....+..+...+...|++++|.. .+.+......   .+.  ..++..+...+..
T Consensus        81 ~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~la~~~~~  159 (203)
T 3gw4_A           81 NWDAARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQ-EYEKSLVYAQQADDQVAIACAFRGLGDLAQQ  159 (203)
T ss_dssp             CHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHH-HHHHHHHHHHhccchHHHHHHHHHHHHHHHH
Confidence            999999999987663   12111  23457788888999999999999 7777664321   111  2345677788899


Q ss_pred             cCCHHHHHHHHHHHHh
Q 023952          179 LGNKDKIDQIWKSLRM  194 (275)
Q Consensus       179 ~~~~~~a~~~~~~m~~  194 (275)
                      .|++++|.+.+++..+
T Consensus       160 ~g~~~~A~~~~~~al~  175 (203)
T 3gw4_A          160 EKNLLEAQQHWLRARD  175 (203)
T ss_dssp             TTCHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHH
Confidence            9999999998887654

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.97  E-value=1.3e-08  Score=69.70  Aligned_cols=110  Identities=12%  Similarity=-0.056  Sum_probs=85.7

Q ss_pred             HHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC
Q 023952           12 RYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV   90 (275)
Q Consensus        12 ~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   90 (275)
                      ..|++.....| +...+..+...+.+.|++++|...|+.....+ +.+...|..+..++.+.|++++|+..|++..+.+.
T Consensus         5 ~~l~~al~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p   83 (142)
T 2xcb_A            5 GTLAMLRGLSEDTLEQLYALGFNQYQAGKWDDAQKIFQALCMLD-HYDARYFLGLGACRQSLGLYEQALQSYSYGALMDI   83 (142)
T ss_dssp             ----CCTTCCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             hhHHHHHcCCHHHHHHHHHHHHHHHHHccHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCC
Confidence            35556555555 56777788888889999999999999888765 45778888888889999999999999999888643


Q ss_pred             CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           91 VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        91 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      . +...+..+..++...|++++|...|++..+.
T Consensus        84 ~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~  115 (142)
T 2xcb_A           84 N-EPRFPFHAAECHLQLGDLDGAESGFYSARAL  115 (142)
T ss_dssp             T-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             C-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            2 5667778888888999999999999887764

>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=98.96  E-value=1.4e-08  Score=72.21  Aligned_cols=118  Identities=11%  Similarity=0.016  Sum_probs=49.7

Q ss_pred             cCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH-HHhcCch--HH
Q 023952           72 VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI-YITASHL--VN  148 (275)
Q Consensus        72 ~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--~~  148 (275)
                      .|++++|+..+++..+... .+...|..+...+...|++++|...|+++.+.  .+.+...+..+..+ +...|++  ++
T Consensus        23 ~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~~~   99 (177)
T 2e2e_A           23 QQNPEAQLQALQDKIRANP-QNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMTAQ   99 (177)
T ss_dssp             ----CCCCHHHHHHHHHCC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCCHH
T ss_pred             ccCHHHHHHHHHHHHHhCC-CcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcchHH
Confidence            3444444444444443321 13344444444444444444454444444432  12333344444444 4444444  44


Q ss_pred             HHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          149 AESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       149 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      |.. .+.......+. +...+..+...|...|++++|...|++..+
T Consensus       100 A~~-~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~  143 (177)
T 2e2e_A          100 TRA-MIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMD  143 (177)
T ss_dssp             HHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHH-HHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHh
Confidence            444 44444433322 333444444444445555555555544443

>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=98.96  E-value=5.8e-09  Score=75.69  Aligned_cols=143  Identities=4%  Similarity=-0.118  Sum_probs=87.4

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----------------ALMYNEMM   66 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----------------~~~~~~li   66 (275)
                      .|++++|.+.++.-....+ ....+..+...+.+.|++++|...|++..+.. +.+                ...|..+.
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~~~la   95 (198)
T 2fbn_A           17 LYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFF-IHTEEWDDQILLDKKKNIEISCNLNLA   95 (198)
T ss_dssp             -----CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-TTCTTCCCHHHHHHHHHHHHHHHHHHH
T ss_pred             hhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH-hcccccchhhHHHHHHHHHHHHHHHHH
Confidence            3566666666665443222 45667777777888888888888888777642 111                25666666


Q ss_pred             HHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952           67 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus        67 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      .+|.+.|++++|+..+++..+... .+...+..+..++...|++++|...|++..+.  .+.+..++..+..++...++.
T Consensus        96 ~~~~~~~~~~~A~~~~~~al~~~p-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~~  172 (198)
T 2fbn_A           96 TCYNKNKDYPKAIDHASKVLKIDK-NNVKALYKLGVANMYFGFLEEAKENLYKAASL--NPNNLDIRNSYELCVNKLKEA  172 (198)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhCc-ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHHHH
Confidence            777777777777777777766432 24556666667777777777777777776653  244555666666666666666


Q ss_pred             HHHH
Q 023952          147 VNAE  150 (275)
Q Consensus       147 ~~a~  150 (275)
                      +++.
T Consensus       173 ~~~~  176 (198)
T 2fbn_A          173 RKKD  176 (198)
T ss_dssp             HC--
T ss_pred             HHHH
Confidence            5555

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.94  E-value=4.8e-08  Score=65.51  Aligned_cols=115  Identities=13%  Similarity=-0.048  Sum_probs=66.6

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      +...|..+...+.+.|++++|+..|++..+... .+..++..+...+...|++++|...++++.+.  .+.+...+..+.
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~-~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la   91 (133)
T 2lni_A           15 LALMVKNKGNECFQKGDYPQAMKHYTEAIKRNP-KDAKLYSNRAACYTKLLEFQLALKDCEECIQL--EPTFIKGYTRKA   91 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCT-TCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC-CcHHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCchHHHHHHH
Confidence            455566666666666666666666666665432 14555666666666666666666666666653  234555666666


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHH
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYA  177 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  177 (275)
                      .+|.+.|++++|.+ .+.+.....+. +...+..+...+.
T Consensus        92 ~~~~~~~~~~~A~~-~~~~~~~~~p~-~~~~~~~l~~~~~  129 (133)
T 2lni_A           92 AALEAMKDYTKAMD-VYQKALDLDSS-CKEAADGYQRCMM  129 (133)
T ss_dssp             HHHHHTTCHHHHHH-HHHHHHHHCGG-GTHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHH-HHHHHHHhCCC-chHHHHHHHHHHH
Confidence            66666666666666 55555544332 3334444444443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.93  E-value=1.4e-07  Score=62.29  Aligned_cols=97  Identities=14%  Similarity=0.066  Sum_probs=50.8

Q ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHH
Q 023952          131 VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSS  210 (275)
Q Consensus       131 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  210 (275)
                      ..+..+...+...|++++|.+ .+.++....+. +..++..+...+...|++++|...++++.+.. +.+...+..+...
T Consensus        10 ~~~~~~~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~   86 (125)
T 1na0_A           10 EAWYNLGNAYYKQGDYDEAIE-YYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHH-HHHHHHHHCcC-cHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHH
Confidence            344455555555555555555 55554443321 34445555555555555555555555554432 2234445555555


Q ss_pred             HHhcCCHHHHHHHHHHHHhc
Q 023952          211 YLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       211 ~~~~g~~~~a~~~~~~~~~~  230 (275)
                      |...|++++|...++++.+.
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~  106 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALEL  106 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHHh
Confidence            66666666666666665553

>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=98.92  E-value=6.6e-09  Score=85.47  Aligned_cols=151  Identities=5%  Similarity=-0.051  Sum_probs=111.8

Q ss_pred             cChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC---------------HHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN---------------ALMYNEMMTL   68 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~---------------~~~~~~li~~   68 (275)
                      +++++|++.|+......| ....|..+...+.+.|++++|...|++..+.. +.+               ...|..+..+
T Consensus       248 ~~~~~A~~~~~~~~~~~~~~a~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~-p~~~~~~~~~~~~~~~~~~~~~~nla~~  326 (457)
T 1kt0_A          248 KSFEKAKESWEMDTKEKLEQAAIVKEKGTVYFKGGKYMQAVIQYGKIVSWL-EMEYGLSEKESKASESFLLAAFLNLAMC  326 (457)
T ss_dssp             EEEECCCCGGGSCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH-TTCCSCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hhcccCcchhhcCHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHh-cccccCChHHHHHHHHHHHHHHHHHHHH
Confidence            455667777766554334 57788899999999999999999999987753 122               5788888888


Q ss_pred             hhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHH
Q 023952           69 YMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  148 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  148 (275)
                      |.+.|++++|+..+++..+.... +...|..+..+|...|++++|...|+++.+.  .+.+...+..+..++.+.++.++
T Consensus       327 ~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~  403 (457)
T 1kt0_A          327 YLKLREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNE  403 (457)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHH
T ss_pred             HHHhcCHHHHHHHHHHHHhcCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHH
Confidence            88999999999999888886432 5677888888888899999999999888873  35566778888888888888887


Q ss_pred             HHHHHHHHHHH
Q 023952          149 AESSTLVEAEK  159 (275)
Q Consensus       149 a~~~~~~~~~~  159 (275)
                      +.+..+..|..
T Consensus       404 a~~~~~~~~f~  414 (457)
T 1kt0_A          404 RDRRIYANMFK  414 (457)
T ss_dssp             HHHHHHHHC--
T ss_pred             HHHHHHHHHHh
Confidence            77634444443

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.92  E-value=5.8e-08  Score=64.93  Aligned_cols=94  Identities=6%  Similarity=-0.073  Sum_probs=43.5

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILY  176 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  176 (275)
                      +......+.+.|++++|+..|++..+.  .|.+..+|..+..+|.+.|++++|+. .++......+. +...|..+..+|
T Consensus        16 ~~~~G~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~A~~-~~~~al~~~p~-~~~a~~~lg~~~   91 (126)
T 4gco_A           16 EKNKGNEYFKKGDYPTAMRHYNEAVKR--DPENAILYSNRAACLTKLMEFQRALD-DCDTCIRLDSK-FIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHhhHHHhhccHHHHHH-HHHHHHHhhhh-hhHHHHHHHHHH
Confidence            344444444445555555555444442  23344444444444555555555554 44444433322 344444444445


Q ss_pred             HccCCHHHHHHHHHHHHh
Q 023952          177 AGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~  194 (275)
                      ...|++++|.+.|++..+
T Consensus        92 ~~~~~~~~A~~~~~~al~  109 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQ  109 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHH
Confidence            555555555555554444

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.92  E-value=4.2e-08  Score=74.33  Aligned_cols=127  Identities=9%  Similarity=-0.053  Sum_probs=62.4

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc--hhhHHHHHHHH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ--WITYDFLIILY  176 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~  176 (275)
                      .+...+...|++++|.++|+.+...   .|+......+...+.+.+++++|+. .+....... .|.  ...+..+..++
T Consensus       107 ayA~~L~~~g~y~eA~~~l~~~~~~---~p~~~~~~~~a~l~~~~~r~~dA~~-~l~~a~~~~-d~~~~~~a~~~LG~al  181 (282)
T 4f3v_A          107 GFAACEAAQGNYADAMEALEAAPVA---GSEHLVAWMKAVVYGAAERWTDVID-QVKSAGKWP-DKFLAGAAGVAHGVAA  181 (282)
T ss_dssp             HHHHHHHHHTCHHHHHHHHTSSCCT---TCHHHHHHHHHHHHHHTTCHHHHHH-HHTTGGGCS-CHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhc---CCchHHHHHHHHHHHHcCCHHHHHH-HHHHhhccC-CcccHHHHHHHHHHHH
Confidence            3444455556666666665555442   1322244444455555666666665 444222211 111  12444555556


Q ss_pred             HccCCHHHHHHHHHHHHhccCCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          177 AGLGNKDKIDQIWKSLRMTKQKMT--SRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      ...|++++|+..|++.......|.  .........++.+.|+.++|..+|+++...
T Consensus       182 ~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~  237 (282)
T 4f3v_A          182 ANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTT  237 (282)
T ss_dssp             HHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc
Confidence            666666666666665543221132  123344555555666666666666666554

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.91  E-value=7.2e-08  Score=64.26  Aligned_cols=117  Identities=12%  Similarity=-0.093  Sum_probs=61.5

Q ss_pred             HHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHH
Q 023952          131 VKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSS  210 (275)
Q Consensus       131 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~  210 (275)
                      ..+..+...+...|++++|.. .+.......+. +...+..+...+...|++++|.+.+++..+.. +.+...+..+...
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~-~~~~~~~~~~~-~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~   89 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVH-FYGKAIELNPA-NAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHH-HHHHHHHcCCC-CHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHH
Confidence            344455555555555555555 55554443322 34455555555555666666666665555432 2234445555556


Q ss_pred             HHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCC
Q 023952          211 YLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGL  252 (275)
Q Consensus       211 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~  252 (275)
                      +...|++++|...|++..+..  +.+...+..+..++...|+
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELD--PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCHHHHHHHHHHHHhcC--ccchHHHHHHHHHHHHHhc
Confidence            666666666666666665543  2344455555555555544

>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=2.1e-07  Score=70.58  Aligned_cols=126  Identities=11%  Similarity=-0.038  Sum_probs=51.4

Q ss_pred             HHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC--hhhHHHHHHHHH
Q 023952          135 NLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT--SRNYICILSSYL  212 (275)
Q Consensus       135 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~--~~~~~~li~~~~  212 (275)
                      .+...+...|++++|.+ ++..+...+  |+......+...+.+.+++++|+..|+...... .|.  ...+..+..++.
T Consensus       107 ayA~~L~~~g~y~eA~~-~l~~~~~~~--p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~  182 (282)
T 4f3v_A          107 GFAACEAAQGNYADAME-ALEAAPVAG--SEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAA  182 (282)
T ss_dssp             HHHHHHHHHTCHHHHHH-HHTSSCCTT--CHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHH-HHHHHHhcC--CchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHH
Confidence            34444445555555555 443333222  111133333334445555555555554222110 000  113334444455


Q ss_pred             hcCCHHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          213 MLGHLKEVGEIIDQWKQSATSDFD--ISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +.|++++|+..|++..... ..|.  .........++.+.|+.++|..+|+++..
T Consensus       183 ~LG~~~eAl~~l~~a~~g~-~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a  236 (282)
T 4f3v_A          183 NLALFTEAERRLTEANDSP-AGEACARAIAWYLAMARRSQGNESAAVALLEWLQT  236 (282)
T ss_dssp             HTTCHHHHHHHHHHHHTST-TTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHhcCC-CCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            5555555555555544211 1021  12333344444555555555555555443

>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=98.90  E-value=3.9e-08  Score=67.81  Aligned_cols=98  Identities=10%  Similarity=-0.090  Sum_probs=52.4

Q ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHH
Q 023952          130 WVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILS  209 (275)
Q Consensus       130 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~  209 (275)
                      ...+..+...+.+.|++++|.. .+.......+. +...|..+..+|...|++++|...|++..... +.+...+..+..
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~   97 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHX-VFQALCVLDHY-DSRFFLGLGACRQAMGQYDLAIHSYSYGAVMD-IXEPRFPFHAAE   97 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHH-HHHHHHHcCcc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCchHHHHHHH
Confidence            3444455555555566666655 55555444332 44555555555555666666666665555432 123344555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHhc
Q 023952          210 SYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       210 ~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +|...|++++|...|++..+.
T Consensus        98 ~~~~~g~~~~A~~~~~~al~~  118 (148)
T 2vgx_A           98 CLLQXGELAEAESGLFLAQEL  118 (148)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHH
Confidence            566666666666666655543

>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=98.89  E-value=9.6e-08  Score=75.28  Aligned_cols=94  Identities=6%  Similarity=-0.133  Sum_probs=53.7

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH
Q 023952          167 ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  246 (275)
Q Consensus       167 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  246 (275)
                      ..|..+..+|.+.|++++|+..+++..+.. +.+...+..+..+|...|++++|...|++..+..  +.+...+..+..+
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            455556666666666666666666655542 2244555566666666666666666666665543  2345555566666


Q ss_pred             HHhcCChHHH-HHHHHHH
Q 023952          247 FSDVGLTEKA-NEFHMLL  263 (275)
Q Consensus       247 ~~~~g~~~~a-~~~~~~m  263 (275)
                      +...|+.++| ...++.|
T Consensus       274 ~~~~~~~~~a~~~~~~~~  291 (336)
T 1p5q_A          274 QQRIRRQLAREKKLYANM  291 (336)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHH
Confidence            6666666655 3344444

>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=98.87  E-value=3.2e-06  Score=65.80  Aligned_cols=180  Identities=7%  Similarity=-0.051  Sum_probs=92.8

Q ss_pred             hHHHHhhccccCCC-CHhHHHHHHHHHHcCCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC--CH
Q 023952            9 SGERYFEGLPLSAK-TSETYTALLHLYAGAKW----------TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG--QV   75 (275)
Q Consensus         9 ~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--~~   75 (275)
                      +|+++++.+....| +..+|+.--..+...++          +++++.+++.+.... |-+..+|+.-...+.+.|  .+
T Consensus        48 eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL~~l~~~~~  126 (331)
T 3dss_A           48 SVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPNW  126 (331)
T ss_dssp             HHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHCSSCCH
T ss_pred             HHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHhccCcccH
Confidence            56666666665555 44445544333332222          455666666665543 345556655555555555  35


Q ss_pred             HHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC-HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc-----------
Q 023952           76 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN-IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA-----------  143 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------  143 (275)
                      ++++++++.+.+...+ |..+|+.-.-.+...|. ++++.+.++++.+.  .+-|...|+.....+.+.           
T Consensus       127 ~~EL~~~~k~l~~dpr-Ny~AW~~R~~vl~~l~~~~~eel~~~~~~I~~--~p~N~SAW~~R~~ll~~l~~~~~~~~~~~  203 (331)
T 3dss_A          127 ARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQGR  203 (331)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHHSCCC------C
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhhhccccccccc
Confidence            6666666666665433 55556555555555555 35666666666653  244555555444444333           


Q ss_pred             ---CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc-----------CCHHHHHHHHHHHHh
Q 023952          144 ---SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL-----------GNKDKIDQIWKSLRM  194 (275)
Q Consensus       144 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----------~~~~~a~~~~~~m~~  194 (275)
                         +.++++++ .+.......|. |...|+-+-..+.+.           +.++++++.++++.+
T Consensus       204 ~~~~~~~eEle-~~~~ai~~~P~-d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el~~~~elle  266 (331)
T 3dss_A          204 LPENVLLKELE-LVQNAFFTDPN-DQSAWFYHRWLLGAGSGRCELSVEKSTVLQSELESCKELQE  266 (331)
T ss_dssp             CCHHHHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHHHHHHHHHH
T ss_pred             cchHHHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHhccCccccchHHHHHHHHHHHHHHHHHh
Confidence               34555555 55555444433 455554333333332           234555555555554

>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=98.85  E-value=2.2e-07  Score=60.62  Aligned_cols=97  Identities=9%  Similarity=-0.020  Sum_probs=67.2

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ...|..+...+...|++++|...|+...... +.+...+..+...+...|++++|...+++..+... .+...+..+..+
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~   81 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKP-DWGKGYSRKAAA   81 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCc-ccHHHHHHHHHH
Confidence            4556667777777777777777777776653 34566777777777777777777777777766532 245566667777


Q ss_pred             HHhhCCHHHHHHHHHHHhh
Q 023952          104 CAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~  122 (275)
                      +...|++++|...+++..+
T Consensus        82 ~~~~~~~~~A~~~~~~~~~  100 (118)
T 1elw_A           82 LEFLNRFEEAKRTYEEGLK  100 (118)
T ss_dssp             HHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHhhHHHHHHHHHHHHH
Confidence            7777777777777777665

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.84  E-value=1.2e-07  Score=66.45  Aligned_cols=99  Identities=14%  Similarity=0.012  Sum_probs=85.9

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      +...|..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|+..|++..+.... +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPK-YSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHH
Confidence            57788889999999999999999999988765 457888999999999999999999999999886433 5778888999


Q ss_pred             HHHhhCCHHHHHHHHHHHhhc
Q 023952          103 SCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      ++...|++++|...|++..+.
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHh
Confidence            999999999999999998875

>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=98.83  E-value=1.2e-07  Score=63.17  Aligned_cols=97  Identities=10%  Similarity=-0.034  Sum_probs=63.0

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISS  103 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~  103 (275)
                      ...|..+...+.+.|++++|...|++..+.. +.+...|..+..++.+.|++++|+..|++..+.+.. +...|..+..+
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~   81 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRA-PEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATA   81 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHH
Confidence            3456666666777777777777777666653 345666666777777777777777777776664322 35566666666


Q ss_pred             HHhhCCHHHHHHHHHHHhh
Q 023952          104 CAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~  122 (275)
                      +...|++++|...|++..+
T Consensus        82 ~~~~~~~~~A~~~~~~al~  100 (126)
T 3upv_A           82 QIAVKEYASALETLDAART  100 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhCHHHHHHHHHHHHH
Confidence            6677777777777666655

>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=98.82  E-value=1.2e-07  Score=63.51  Aligned_cols=105  Identities=11%  Similarity=0.042  Sum_probs=70.9

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC--CCc----hhhH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV--VPD----IFTY   97 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~----~~~~   97 (275)
                      ...+..+...+.+.|++++|+..|++..+.. |-++..|+.+..+|.+.|++++|++.+++..+.+.  .++    ..+|
T Consensus         8 A~a~~~lG~~~~~~~~~~~A~~~y~~Al~~~-p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A            8 AIAEKDLGNAAYKQKDFEKAHVHYDKAIELD-PSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHH
Confidence            4566777777888888888888888777654 44567777778888888888888888877765321  111    1345


Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHH
Q 023952           98 NLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK  132 (275)
Q Consensus        98 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  132 (275)
                      ..+..++...|++++|++.|++....   .|+..+
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~~---~~~~~~  118 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLSE---FRDPEL  118 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---SCCHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHhh---CcCHHH
Confidence            56666677777777777777776653   345443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.81  E-value=5.6e-07  Score=73.18  Aligned_cols=196  Identities=10%  Similarity=-0.055  Sum_probs=106.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCC----------------HHHHHHHHHHhhccCCHHHHHHHHHHHhhC-CCCCc
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFN----------------ALMYNEMMTLYMSVGQVEKVALVVEEIKRK-NVVPD   93 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~----------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~p~   93 (275)
                      ...+.+.|++++|.+.|..+.+......                ...+..+...|...|++++|.+++.++.+. +-.++
T Consensus        11 a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~   90 (434)
T 4b4t_Q           11 ARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAK   90 (434)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccc
Confidence            4556677888888888887776532111                123566677777777777777777766542 11112


Q ss_pred             hh----hHHHHHHHHHhhCCHHHHHHHHHHHhhc---CCCCC-CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc-
Q 023952           94 IF----TYNLWISSCAATLNIDQVKKFLDEMSCD---SGGSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR-  164 (275)
Q Consensus        94 ~~----~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-  164 (275)
                      ..    +.+.+-..+...|+.+.+..+++.....   .+..+ -..++..+...|...|++++|.. .+..+....... 
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~-~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLA-LINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHTTSS
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHH-HHHHHHHHHHhcc
Confidence            11    2222223334456677777777765431   11112 23455666677777777777777 666554432221 


Q ss_pred             ----chhhHHHHHHHHHccCCHHHHHHHHHHHHhcc--CC-CC---hhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023952          165 ----QWITYDFLIILYAGLGNKDKIDQIWKSLRMTK--QK-MT---SRNYICILSSYLMLGHLKEVGEIIDQW  227 (275)
Q Consensus       165 ----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--~~-p~---~~~~~~li~~~~~~g~~~~a~~~~~~~  227 (275)
                          ....+..++..|...|++++|..++++.....  +. |.   ...+..+...+...|++++|...|.+.
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence                13455566666677777777777666554321  11 11   122344445555666666666666554

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.79  E-value=5.8e-06  Score=68.55  Aligned_cols=250  Identities=9%  Similarity=-0.072  Sum_probs=142.6

Q ss_pred             cChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCC-HHHHHHHHHHHHhC-CC-CCCHHHHHHHHHHhhc----cCCHHH
Q 023952            5 FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKW-TEKAEELFERVKQS-NL-SFNALMYNEMMTLYMS----VGQVEK   77 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~-~~-~~~~~~~~~li~~~~~----~g~~~~   77 (275)
                      |+++.|..+|++.....|+...|...+....+.+. .+....+|+..... |. +++...|...+..+..    .++++.
T Consensus        28 ~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~  107 (493)
T 2uy1_A           28 KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEK  107 (493)
T ss_dssp             TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHH
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHH
Confidence            67889999999988777899999999988877764 46677888876653 42 3467888888886543    467888


Q ss_pred             HHHHHHHHhhCCCCCchhhHH------------------------------------------------HHHHHHHhh--
Q 023952           78 VALVVEEIKRKNVVPDIFTYN------------------------------------------------LWISSCAAT--  107 (275)
Q Consensus        78 a~~~~~~m~~~~~~p~~~~~~------------------------------------------------~ll~~~~~~--  107 (275)
                      +.++|+..++.....-...|.                                                ..+.--...  
T Consensus       108 vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~  187 (493)
T 2uy1_A          108 IRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDTLPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGM  187 (493)
T ss_dssp             HHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTT
T ss_pred             HHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHHhHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCc
Confidence            888988887732110011111                                                111110000  


Q ss_pred             CC-----HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhH-------------
Q 023952          108 LN-----IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITY-------------  169 (275)
Q Consensus       108 ~~-----~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~-------------  169 (275)
                      +-     .+.+..+|+++...  .+.+...|...+..+.+.|+.+.|.. ++...... |. +...|             
T Consensus       188 ~~~~~~~~~Rv~~~ye~al~~--~p~~~~lW~~ya~~~~~~~~~~~ar~-i~erAi~~-P~-~~~l~~~y~~~~e~~~~~  262 (493)
T 2uy1_A          188 KLGGRPHESRMHFIHNYILDS--FYYAEEVYFFYSEYLIGIGQKEKAKK-VVERGIEM-SD-GMFLSLYYGLVMDEEAVY  262 (493)
T ss_dssp             CCCHHHHHHHHHHHHHHHHHH--TTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHH-CC-SSHHHHHHHHHTTCTHHH
T ss_pred             cCcchhhHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHhC-CC-cHHHHHHHHhhcchhHHH
Confidence            00     23355677776663  35556777777777888889999988 88877766 32 22222             


Q ss_pred             ---------------------------HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh-cCCHHHHH
Q 023952          170 ---------------------------DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM-LGHLKEVG  221 (275)
Q Consensus       170 ---------------------------~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~-~g~~~~a~  221 (275)
                                                 ...+....+.++.+.|..+|++. ... ..+...|......-.. .++.+.|.
T Consensus       263 ~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~-~~~~~v~i~~A~lE~~~~~d~~~ar  340 (493)
T 2uy1_A          263 GDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLFIEL-GNE-GVGPHVFIYCAFIEYYATGSRATPY  340 (493)
T ss_dssp             HHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS-CCCHHHHHHHHHHHHHHHCCSHHHH
T ss_pred             HHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC-CCChHHHHHHHHHHHHHCCChHHHH
Confidence                                       11112222345566666777666 211 1222233222211112 22567777


Q ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 023952          222 EIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      .+|+...+...  .+...|...++...+.|+.+.|+.+|+++
T Consensus       341 ~ife~al~~~~--~~~~~~~~yid~e~~~~~~~~aR~l~er~  380 (493)
T 2uy1_A          341 NIFSSGLLKHP--DSTLLKEEFFLFLLRIGDEENARALFKRL  380 (493)
T ss_dssp             HHHHHHHHHCT--TCHHHHHHHHHHHHHHTCHHHHHHHHHHS
T ss_pred             HHHHHHHHHCC--CCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77776666431  22333444455555556666666555553

>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=98.78  E-value=3e-07  Score=61.23  Aligned_cols=99  Identities=12%  Similarity=0.018  Sum_probs=57.3

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      ...|..+...+.+.|++++|+..|++..+.... +...|..+..++.+.|++++|...+++..+.  .+.+...+..+..
T Consensus         4 a~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~lg~   80 (126)
T 3upv_A            4 AEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPE-DARGYSNRAAALAKLMSFPEAIADCNKAIEK--DPNFVRAYIRKAT   80 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCcHHHHHHHHH
Confidence            344555555666666666666666666654321 4455666666666666666666666666553  2344555666666


Q ss_pred             HHHhcCchHHHHHHHHHHHHHcc
Q 023952          139 IYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus       139 ~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      ++...|++++|.. .+++.....
T Consensus        81 ~~~~~~~~~~A~~-~~~~al~~~  102 (126)
T 3upv_A           81 AQIAVKEYASALE-TLDAARTKD  102 (126)
T ss_dssp             HHHHTTCHHHHHH-HHHHHHHHH
T ss_pred             HHHHHhCHHHHHH-HHHHHHHhC
Confidence            6666666666666 555554433

>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=98.78  E-value=1.7e-07  Score=62.49  Aligned_cols=112  Identities=12%  Similarity=0.025  Sum_probs=78.1

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC--CCc----hhhH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV--VPD----IFTY   97 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~----~~~~   97 (275)
                      ...|..+...+...|++++|...|+...... +.+...+..+...+...|++++|...+++..+...  .++    ..++
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~   82 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAY   82 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHH
Confidence            4567777778888888888888888877654 45677777788888888888888888887776422  112    5566


Q ss_pred             HHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH
Q 023952           98 NLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI  139 (275)
Q Consensus        98 ~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  139 (275)
                      ..+..++...|++++|...|+++.+.   .|+......+..+
T Consensus        83 ~~la~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~~~l~~~  121 (131)
T 1elr_A           83 ARIGNSYFKEEKYKDAIHFYNKSLAE---HRTPDVLKKCQQA  121 (131)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH---CCCHHHHHHHHHH
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHh---CCCHHHHHHHHHH
Confidence            77777777888888888888877764   2455544444443

>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=98.77  E-value=2.1e-08  Score=72.65  Aligned_cols=176  Identities=9%  Similarity=-0.044  Sum_probs=80.8

Q ss_pred             HHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc
Q 023952           64 EMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA  143 (275)
Q Consensus        64 ~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  143 (275)
                      ..+......|+++++.+.++.-.+... .....+..+...+...|++++|...|++........++....          
T Consensus         9 ~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~----------   77 (198)
T 2fbn_A            9 HHSSGRENLYFQGAKKSIYDYTDEEKV-QSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQ----------   77 (198)
T ss_dssp             -------------CCCSGGGCCHHHHH-HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCH----------
T ss_pred             chhhhhhhhhhccccCchhhCCHHHHH-HHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchh----------
Confidence            344444455556666555543222111 123445555666666677777777776666531111110000          


Q ss_pred             CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHH
Q 023952          144 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEI  223 (275)
Q Consensus       144 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~  223 (275)
                       ....-..           ......|..+..+|...|++++|...+++..+.. +.+...+..+..+|...|++++|...
T Consensus        78 -~~~~~~~-----------~~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~  144 (198)
T 2fbn_A           78 -ILLDKKK-----------NIEISCNLNLATCYNKNKDYPKAIDHASKVLKID-KNNVKALYKLGVANMYFGFLEEAKEN  144 (198)
T ss_dssp             -HHHHHHH-----------HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             -hHHHHHH-----------HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcccHHHHHHH
Confidence             0000000           0012455566666667777777777777666542 22445566666777777777777777


Q ss_pred             HHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHH-HHHHHHHh
Q 023952          224 IDQWKQSATSDFDISACNRLLGAFSDVGLTEKAN-EFHMLLLQ  265 (275)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~-~~~~~m~~  265 (275)
                      |++..+..  +.+...+..+..++...++.+++. ..+..|..
T Consensus       145 ~~~al~~~--p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          145 LYKAASLN--PNNLDIRNSYELCVNKLKEARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHHHHHHS--TTCHHHHHHHHHHHHHHHHHHC-----------
T ss_pred             HHHHHHHC--CCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            77776643  235556666666666666655555 44444433

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.76  E-value=4.3e-07  Score=58.64  Aligned_cols=99  Identities=10%  Similarity=-0.010  Sum_probs=73.5

Q ss_pred             chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC--CHHHHHH
Q 023952          165 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF--DISACNR  242 (275)
Q Consensus       165 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~~  242 (275)
                      +...+..+...+...|++++|...+++..+.. ..+...+..+...+...|++++|...+++..+..  +.  +...+..
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            34556667777778888888888888776653 2345667777788888888888888888887753  33  5677778


Q ss_pred             HHHHHHhc-CChHHHHHHHHHHHhc
Q 023952          243 LLGAFSDV-GLTEKANEFHMLLLQK  266 (275)
Q Consensus       243 li~~~~~~-g~~~~a~~~~~~m~~~  266 (275)
                      +...+... |++++|.+.+++....
T Consensus        82 l~~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           82 KADALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHhhc
Confidence            88888888 8888888888887764

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.75  E-value=7.7e-07  Score=60.69  Aligned_cols=111  Identities=11%  Similarity=-0.054  Sum_probs=84.0

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC----HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYN   98 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~   98 (275)
                      +...+..+...+...|++++|...|++..+..  |+    ...|..+...+...|++++|+..+++..+.... +...+.
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  103 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLD--ATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALY  103 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSC--CCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHc--ccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHH
Confidence            67788888888889999999999999888764  55    677888888888888888888888888775322 566777


Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      .+..++...|++++|...|++..+.  .+.+...+..+..
T Consensus       104 ~~a~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~l~~  141 (148)
T 2dba_A          104 RRSQALEKLGRLDQAVLDLQRCVSL--EPKNKVFQEALRN  141 (148)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHH--CSSCHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHH
Confidence            7888888888888888888888764  2334444444333

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.75  E-value=2.6e-07  Score=62.37  Aligned_cols=99  Identities=10%  Similarity=0.018  Sum_probs=76.6

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      .+...|..+...+...|++++|...|+...... +.+...|..+..++...|++++|+..+++..+.+.. +...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHhhC-cCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHH
Confidence            367778888888888888888888888877764 446777888888888888888888888888775432 566777778


Q ss_pred             HHHHhhCCHHHHHHHHHHHhh
Q 023952          102 SSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      .++...|++++|...|++..+
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~  105 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYS  105 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHH
Confidence            888888888888888887665

>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=98.75  E-value=6.3e-07  Score=58.38  Aligned_cols=98  Identities=13%  Similarity=-0.016  Sum_probs=52.6

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      +..+..+...+...|++++|...|++..+... .+...+..+...+...|++++|...+++..+.  .+.+...+..+..
T Consensus         4 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~-~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~   80 (118)
T 1elw_A            4 VNELKEKGNKALSVGNIDDALQCYSEAIKLDP-HNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDL--KPDWGKGYSRKAA   80 (118)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHCC-CcHHHHHHHHHHHHhhccHHHHHHHHHHHHHh--CcccHHHHHHHHH
Confidence            34455555555566666666666666555321 13445555555555566666666666555543  2334455555555


Q ss_pred             HHHhcCchHHHHHHHHHHHHHc
Q 023952          139 IYITASHLVNAESSTLVEAEKS  160 (275)
Q Consensus       139 ~~~~~g~~~~a~~~~~~~~~~~  160 (275)
                      ++...|++++|.. .+......
T Consensus        81 ~~~~~~~~~~A~~-~~~~~~~~  101 (118)
T 1elw_A           81 ALEFLNRFEEAKR-TYEEGLKH  101 (118)
T ss_dssp             HHHHTTCHHHHHH-HHHHHHTT
T ss_pred             HHHHHhhHHHHHH-HHHHHHHc
Confidence            5555555555555 55554443

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.74  E-value=1.5e-06  Score=70.70  Aligned_cols=191  Identities=10%  Similarity=-0.034  Sum_probs=139.1

Q ss_pred             ccccChhhHHHHhhccccCCCC------------------HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC-CCCCH---
Q 023952            2 TKVFGIHSGERYFEGLPLSAKT------------------SETYTALLHLYAGAKWTEKAEELFERVKQSN-LSFNA---   59 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~~------------------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-~~~~~---   59 (275)
                      .+.|++++|++.|..+....|+                  ..++..+...|...|++++|.+.+..+...- -.++.   
T Consensus        15 ~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~~~~~~   94 (434)
T 4b4t_Q           15 VNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFAKSKTV   94 (434)
T ss_dssp             HHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSCHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccchHHH
Confidence            3578999999999887665331                  1247889999999999999999999866431 11222   


Q ss_pred             -HHHHHHHHHhhccCCHHHHHHHHHHHhh----CCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC-CCCC---C
Q 023952           60 -LMYNEMMTLYMSVGQVEKVALVVEEIKR----KNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDS-GGSD---D  129 (275)
Q Consensus        60 -~~~~~li~~~~~~g~~~~a~~~~~~m~~----~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~---~  129 (275)
                       .+.+.+-..+...|+++.|.+++++...    .+..+. ..++..+...+...|++++|..+++++.... +..+   .
T Consensus        95 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~~~~~  174 (434)
T 4b4t_Q           95 KVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDDKPSL  174 (434)
T ss_dssp             HHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSCSTHH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcccchhH
Confidence             2344455566678999999999998764    232332 4577788999999999999999999977631 1111   2


Q ss_pred             HHHHHHHHHHHHhcCchHHHHHHHHHHHHHc---cCCc-c--hhhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023952          130 WVKYVNLVNIYITASHLVNAESSTLVEAEKS---ITQR-Q--WITYDFLIILYAGLGNKDKIDQIWKSLR  193 (275)
Q Consensus       130 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~-~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~  193 (275)
                      ..++..++..|...|++++|.. .+......   ...| .  ...+..+...+...+++++|...|.+..
T Consensus       175 ~~~~~~~~~~~~~~~~~~~A~~-~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a~  243 (434)
T 4b4t_Q          175 VDVHLLESKVYHKLRNLAKSKA-SLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFESF  243 (434)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHH-HHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHH
Confidence            3568889999999999999999 88776542   2222 1  3456667777888999999999887764

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.74  E-value=2.6e-07  Score=63.08  Aligned_cols=95  Identities=13%  Similarity=-0.082  Sum_probs=47.6

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHH
Q 023952          132 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  211 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  211 (275)
                      .+..+...+.+.|++++|.. .+.......+. +...|..+..+|...|++++|...|++..... +.+...+..+..+|
T Consensus        20 ~~~~~a~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           20 QLYALGFNQYQAGKWDDAQK-IFQALCMLDHY-DARYFLGLGACRQSLGLYEQALQSYSYGALMD-INEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccHHHHHH-HHHHHHHhCCc-cHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC-CCCcHHHHHHHHHH
Confidence            34444445555555555555 55544443332 44445555555555555555555555554432 12333444555555


Q ss_pred             HhcCCHHHHHHHHHHHHh
Q 023952          212 LMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       212 ~~~g~~~~a~~~~~~~~~  229 (275)
                      ...|++++|...|+...+
T Consensus        97 ~~~g~~~~A~~~~~~al~  114 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARA  114 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH
Confidence            555555555555555544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.73  E-value=5.2e-07  Score=63.14  Aligned_cols=98  Identities=6%  Similarity=-0.083  Sum_probs=57.9

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                      ...+..+...+.+.|++++|+..|++..+.  .+.+...+..+..+|.+.|++++|+. .++......+. +...|..+.
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            445555666666666666666666666553  23455556666666666666666666 55555554433 455555666


Q ss_pred             HHHHccCCHHHHHHHHHHHHhc
Q 023952          174 ILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      ..|...|++++|...|++..+.
T Consensus        87 ~~~~~~g~~~~A~~~~~~al~~  108 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKGIEA  108 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHHHHh
Confidence            6666666666666666655543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.72  E-value=2e-07  Score=60.28  Aligned_cols=100  Identities=9%  Similarity=-0.089  Sum_probs=61.8

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC-CchhhHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PDIFTYNLWI  101 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~~~~~~~ll  101 (275)
                      +...|..+...+.+.|++++|...|++..+.. +.+...|..+...+...|++++|++.|++..+.... .+...+..+.
T Consensus         5 ~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~   83 (112)
T 2kck_A            5 NPEEYYLEGVLQYDAGNYTESIDLFEKAIQLD-PEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKA   83 (112)
T ss_dssp             STTGGGGHHHHHHSSCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHH
Confidence            44556666666667777777777776666543 335566666666666666666666666666654211 0345566666


Q ss_pred             HHHHhh-CCHHHHHHHHHHHhhc
Q 023952          102 SSCAAT-LNIDQVKKFLDEMSCD  123 (275)
Q Consensus       102 ~~~~~~-~~~~~a~~~~~~~~~~  123 (275)
                      ..+... |++++|.+.++.....
T Consensus        84 ~~~~~~~~~~~~A~~~~~~~~~~  106 (112)
T 2kck_A           84 DALRYIEGKEVEAEIAEARAKLE  106 (112)
T ss_dssp             HHHTTCSSCSHHHHHHHHHHGGG
T ss_pred             HHHHHHhCCHHHHHHHHHHHhhc
Confidence            666666 6666666666666653

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.71  E-value=1.3e-06  Score=59.48  Aligned_cols=100  Identities=6%  Similarity=-0.129  Sum_probs=69.5

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc----hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD----IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVK  132 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  132 (275)
                      .+...+..+...+...|++++|++.|++..+.  .|+    ...+..+...+...|++++|...+++..+.  .+.+...
T Consensus        26 ~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~  101 (148)
T 2dba_A           26 SSVEQLRKEGNELFKCGDYGGALAAYTQALGL--DATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEK--DGGDVKA  101 (148)
T ss_dssp             CCHHHHHHHHHHHHTTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--TSCCHHH
T ss_pred             HHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHH--cccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhh--CccCHHH
Confidence            35667777777777788888888888777764  344    456666777777777777777777776663  2445666


Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHcc
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      +..+..+|...|++++|.. .+++.....
T Consensus       102 ~~~~a~~~~~~~~~~~A~~-~~~~al~~~  129 (148)
T 2dba_A          102 LYRRSQALEKLGRLDQAVL-DLQRCVSLE  129 (148)
T ss_dssp             HHHHHHHHHHHTCHHHHHH-HHHHHHHHC
T ss_pred             HHHHHHHHHHcCCHHHHHH-HHHHHHHcC
Confidence            6677777777777777777 666665544

>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=98.69  E-value=9.1e-07  Score=59.10  Aligned_cols=96  Identities=6%  Similarity=-0.058  Sum_probs=46.2

Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc--c----hhhH
Q 023952           96 TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR--Q----WITY  169 (275)
Q Consensus        96 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~----~~~~  169 (275)
                      ++..+...+.+.|++++|+..|++..+.  .|.+...|..+..+|.+.|++++|++ .+.......+..  +    ..+|
T Consensus        10 a~~~lG~~~~~~~~~~~A~~~y~~Al~~--~p~~~~~~~nlg~~~~~~~~~~~A~~-~~~~al~~~~~~~~~~~~~a~~~   86 (127)
T 4gcn_A           10 AEKDLGNAAYKQKDFEKAHVHYDKAIEL--DPSNITFYNNKAAVYFEEKKFAECVQ-FCEKAVEVGRETRADYKLIAKAM   86 (127)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHTTCCHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHhHHHHHHHhhhHHHHHH-HHHHHHHhCcccchhhHHHHHHH
Confidence            3444555555555555555555555542  23444455555555555555555555 444443322110  0    1233


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          170 DFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       170 ~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      ..+...+...|++++|++.|++...
T Consensus        87 ~~lg~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           87 SRAGNAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            4444445555555555555554443

>3q49_B STIP1 homology and U box-containing protein 1; E3 ubiquitin ligase, ligase-chaperone complex; 1.54A {Mus musculus} PDB: 3q47_B 3q4a_B*

Probab=98.66  E-value=1.5e-06  Score=58.53  Aligned_cols=101  Identities=8%  Similarity=-0.058  Sum_probs=79.3

Q ss_pred             CCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHH
Q 023952          127 SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYIC  206 (275)
Q Consensus       127 ~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~  206 (275)
                      +.+...+..+...+...|++++|.. .+.......+. +...|..+...+...|++++|...+++..+.. +.+...+..
T Consensus         6 ~~~~~~~~~~g~~~~~~~~~~~A~~-~~~~al~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~   82 (137)
T 3q49_B            6 SPSAQELKEQGNRLFVGRKYPEAAA-CYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFF   82 (137)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHH
T ss_pred             cccHHHHHHHHHHHHHhCcHHHHHH-HHHHHHhhCcC-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-chhHHHHHH
Confidence            4566778888888888888888888 78877766544 56778888888888888888888888887753 224567778


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          207 ILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +..+|...|++++|...|++..+.
T Consensus        83 l~~~~~~~~~~~~A~~~~~~a~~~  106 (137)
T 3q49_B           83 LGQCQLEMESYDEAIANLQRAYSL  106 (137)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHHH
Confidence            888888888888888888887764

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.65  E-value=8.7e-07  Score=61.22  Aligned_cols=133  Identities=17%  Similarity=0.132  Sum_probs=72.3

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc-c----hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-CC----h
Q 023952          132 KYVNLVNIYITASHLVNAESSTLVEAEKSITQR-Q----WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT----S  201 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~----~  201 (275)
                      ++..+...|...|++++|.. .+.+........ +    ..++..+...+...|++++|.+.+++..+.... ++    .
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            34445555555555555555 444443322110 1    134455555666666666666666654432110 11    2


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHHHhcC----CCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          202 RNYICILSSYLMLGHLKEVGEIIDQWKQSA----TSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       202 ~~~~~li~~~~~~g~~~~a~~~~~~~~~~~----~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..+..+...+...|++++|...+++..+..    .......++..+...+...|++++|...+++..+
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            345556666777777777777777665421    0011234566677777778888888887777654

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.64  E-value=4.5e-07  Score=60.04  Aligned_cols=96  Identities=10%  Similarity=-0.079  Sum_probs=72.5

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      .+..+...+.+.|++++|...|+...+.. +.+...|..+..++...|++++|+..|++..+.... +...+..+..++.
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~   96 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHT   96 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            45666777778888888888888877764 446777888888888888888888888888775432 4567777777888


Q ss_pred             hhCCHHHHHHHHHHHhhc
Q 023952          106 ATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~  123 (275)
                      ..|++++|...+++..+.
T Consensus        97 ~~g~~~~A~~~~~~al~~  114 (121)
T 1hxi_A           97 NEHNANAALASLRAWLLS  114 (121)
T ss_dssp             HHHHHHHHHHHHHHHHC-
T ss_pred             HcCCHHHHHHHHHHHHHh
Confidence            888888888888887753

>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=98.64  E-value=8e-07  Score=59.09  Aligned_cols=95  Identities=8%  Similarity=-0.022  Sum_probs=41.4

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC--cc----hhhHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ--RQ----WITYD  170 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~----~~~~~  170 (275)
                      +..+...+...|++++|...|++..+.  .+.+...+..+...|...|++++|.. .+.......+.  ++    ..++.
T Consensus         7 ~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~~~~~~~la~~~~~~~~~~~A~~-~~~~~~~~~~~~~~~~~~~~~~~~   83 (131)
T 1elr_A            7 EKELGNDAYKKKDFDTALKHYDKAKEL--DPTNMTYITNQAAVYFEKGDYNKCRE-LCEKAIEVGRENREDYRQIAKAYA   83 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHhccHHHHHH-HHHHHHhhccccchhHHHHHHHHH
Confidence            334444444444555555555444442  13334444444444445555555544 44444332221  01    23334


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHh
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      .+...+...|++++|.+.|++..+
T Consensus        84 ~la~~~~~~~~~~~A~~~~~~~~~  107 (131)
T 1elr_A           84 RIGNSYFKEEKYKDAIHFYNKSLA  107 (131)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccHHHHHHHHHHHHH
Confidence            444444444444444444444443

>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=98.59  E-value=1.3e-07  Score=78.10  Aligned_cols=115  Identities=9%  Similarity=-0.049  Sum_probs=87.2

Q ss_pred             ccccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVAL   80 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~   80 (275)
                      .+.|++++|++.|++..+..| +..+|..+..+|.+.|++++|...+++..+.. +.+...|..+..+|.+.|++++|++
T Consensus        17 ~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~eA~~   95 (477)
T 1wao_1           17 FKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFRAALR   95 (477)
T ss_dssp             TTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            356889999999988777666 68888999999999999999999999888774 4567888888889999999999999


Q ss_pred             HHHHHhhCCCCCchhhHHHHHHH--HHhhCCHHHHHHHHH
Q 023952           81 VVEEIKRKNVVPDIFTYNLWISS--CAATLNIDQVKKFLD  118 (275)
Q Consensus        81 ~~~~m~~~~~~p~~~~~~~ll~~--~~~~~~~~~a~~~~~  118 (275)
                      .|++..+.... +...+..+..+  +.+.|++++|.+.++
T Consensus        96 ~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           96 DYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            99988875322 33445555555  777888899998888

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.59  E-value=2.4e-06  Score=56.87  Aligned_cols=95  Identities=6%  Similarity=-0.096  Sum_probs=62.4

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH---HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc---hhhHHHH
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNA---LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD---IFTYNLW  100 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~---~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~---~~~~~~l  100 (275)
                      +..+...+.+.|++++|...|+...+.. +.+.   ..+..+..++.+.|++++|+..|++..+.... +   ..++..+
T Consensus         5 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~-p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~l   82 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQLFLSFLELY-PNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKL   82 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHC-CCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHH
Confidence            3445566677777777777777776643 2222   46666677777777777777777777764322 2   4456666


Q ss_pred             HHHHHhhCCHHHHHHHHHHHhhc
Q 023952          101 ISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus       101 l~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      ..++...|++++|...|+++.+.
T Consensus        83 a~~~~~~g~~~~A~~~~~~~~~~  105 (129)
T 2xev_A           83 GLSQYGEGKNTEAQQTLQQVATQ  105 (129)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHH
Confidence            66777777777777777777664

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.57  E-value=1.3e-07  Score=62.20  Aligned_cols=83  Identities=16%  Similarity=0.072  Sum_probs=38.4

Q ss_pred             ccChhhHHHHhhccccC---CC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHH
Q 023952            4 VFGIHSGERYFEGLPLS---AK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~---~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      .|++++|+..|++....   .| +...|..+..+|.+.|++++|...|++..+.. +-+...+..+..++.+.|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIASGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQF-PNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCchHHHHHHHHHHHHcCCHHHHH
Confidence            34555555555554443   12 34445555555555555555555555544432 223444444555555555555555


Q ss_pred             HHHHHHhh
Q 023952           80 LVVEEIKR   87 (275)
Q Consensus        80 ~~~~~m~~   87 (275)
                      ..|++..+
T Consensus        82 ~~~~~al~   89 (117)
T 3k9i_A           82 ELLLKIIA   89 (117)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55554444

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.55  E-value=1.1e-06  Score=60.77  Aligned_cols=24  Identities=4%  Similarity=0.077  Sum_probs=11.1

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEM  120 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~  120 (275)
                      +..+...+...|++++|...+++.
T Consensus        52 ~~~l~~~~~~~g~~~~A~~~~~~a   75 (164)
T 3ro3_A           52 YSNLGNAYIFLGEFETASEYYKKT   75 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHH
Confidence            334444444445555554444443

>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=98.55  E-value=5.3e-07  Score=74.52  Aligned_cols=125  Identities=13%  Similarity=-0.009  Sum_probs=99.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      .|..+...+.+.|++++|...|++..+.. +.+...|..+..+|.+.|++++|++.+++..+.... +..++..+..+|.
T Consensus         8 ~~~~lg~~~~~~g~~~~A~~~~~~Al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~   85 (477)
T 1wao_1            8 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNM   85 (477)
T ss_dssp             TSSSSSSSTTTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34444556778899999999999988874 456889999999999999999999999999996433 5778889999999


Q ss_pred             hhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH--HHhcCchHHHHHHHHH
Q 023952          106 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI--YITASHLVNAESSTLV  155 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~  155 (275)
                      ..|++++|.+.|+++.+.  .+.+...+..+..+  +.+.|++++|++ .++
T Consensus        86 ~~g~~~eA~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~-~~~  134 (477)
T 1wao_1           86 ALGKFRAALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIA-GDE  134 (477)
T ss_dssp             HHTCHHHHHHHHHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC------
T ss_pred             HcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhc-ccc
Confidence            999999999999998875  23444555556555  888999999999 666

>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=98.55  E-value=1.5e-06  Score=69.28  Aligned_cols=125  Identities=10%  Similarity=-0.033  Sum_probs=87.1

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC---------------CCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQS---------------NLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---------------~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      ...|..+...+.+.|++++|...|++..+.               .-+.+...|..+..+|.+.|++++|++.+++..+.
T Consensus       223 a~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  302 (370)
T 1ihg_A          223 SEDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI  302 (370)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh
Confidence            445778888899999999999999887751               01223556777777777777777787777777775


Q ss_pred             CCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHH
Q 023952           89 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAES  151 (275)
Q Consensus        89 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  151 (275)
                      ... +...+..+..+|...|++++|...|+++.+.  .+.+...+..+..++.+.++.+++.+
T Consensus       303 ~p~-~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l--~P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          303 DPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEI--APEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             CTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             Cch-hHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            322 4566777777777777777777777777663  24455666666666666666666554

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.55  E-value=1.1e-06  Score=58.12  Aligned_cols=90  Identities=11%  Similarity=-0.061  Sum_probs=43.6

Q ss_pred             HHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 023952           65 MMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  144 (275)
Q Consensus        65 li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  144 (275)
                      +...+.+.|++++|+..|++..+.... +...|..+..++...|++++|+..|++..+.  .+.+...+..+..+|.+.|
T Consensus        23 ~g~~~~~~g~~~~A~~~~~~al~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l--~P~~~~~~~~la~~~~~~g   99 (121)
T 1hxi_A           23 EGLSMLKLANLAEAALAFEAVCQKEPE-REEAWRSLGLTQAENEKDGLAIIALNHARML--DPKDIAVHAALAVSHTNEH   99 (121)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcC
Confidence            334444555555555555555543221 3444444555555555555555555554442  1333444455555555555


Q ss_pred             chHHHHHHHHHHHH
Q 023952          145 HLVNAESSTLVEAE  158 (275)
Q Consensus       145 ~~~~a~~~~~~~~~  158 (275)
                      ++++|.. .++...
T Consensus       100 ~~~~A~~-~~~~al  112 (121)
T 1hxi_A          100 NANAALA-SLRAWL  112 (121)
T ss_dssp             HHHHHHH-HHHHHH
T ss_pred             CHHHHHH-HHHHHH
Confidence            5555555 444443

>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=98.55  E-value=0.00014  Score=56.65  Aligned_cols=231  Identities=10%  Similarity=-0.052  Sum_probs=160.0

Q ss_pred             HhHHHHHHHHH---HcCCCH-HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCC----------HHHHHHHHHHHhhCC
Q 023952           24 SETYTALLHLY---AGAKWT-EKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ----------VEKVALVVEEIKRKN   89 (275)
Q Consensus        24 ~~~~~~li~~~---~~~g~~-~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~   89 (275)
                      ...|..+...+   .+.|.+ ++|+.+++.+...+ |-+..+|+.--..+...+.          +++++.+++.+...+
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~n-P~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~  104 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGAN-PDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN  104 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHC-chhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC
Confidence            44555554433   345665 48999999999876 4455667654443333332          688999999999876


Q ss_pred             CCCchhhHHHHHHHHHhhC--CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc-hHHHHHHHHHHHHHccCCcch
Q 023952           90 VVPDIFTYNLWISSCAATL--NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH-LVNAESSTLVEAEKSITQRQW  166 (275)
Q Consensus        90 ~~p~~~~~~~ll~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~a~~~~~~~~~~~~~~~~~  166 (275)
                      .+ +..+|+.-...+.+.+  .++++..+++++.+.  .+-|..+|+--.-++...|. .+++++ .+..+....+. |.
T Consensus       105 PK-ny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~--dprNy~AW~~R~~vl~~l~~~~~eel~-~~~~~I~~~p~-N~  179 (331)
T 3dss_A          105 PK-SYGTWHHRCWLLSRLPEPNWARELELCARFLEA--DERNFHCWDYRRFVAAQAAVAPAEELA-FTDSLITRNFS-NY  179 (331)
T ss_dssp             TT-CHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCCHHHHHH-HHHHHHHHCSC-CH
T ss_pred             CC-CHHHHHHHHHHHhccCcccHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHhCcCHHHHHH-HHHHHHHHCCC-CH
Confidence            55 7788888877777777  489999999999985  46778888877777778888 588999 88888877665 77


Q ss_pred             hhHHHHHHHHHcc--------------CCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc-----------CCHHHHH
Q 023952          167 ITYDFLIILYAGL--------------GNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML-----------GHLKEVG  221 (275)
Q Consensus       167 ~~~~~l~~~~~~~--------------~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~-----------g~~~~a~  221 (275)
                      ..|+.....+...              +.++++++.+.+..... +-|...|+-+-..+.+.           +.+++++
T Consensus       180 SAW~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~r~ll~~~~~~~~~~~~~~~~l~~el  258 (331)
T 3dss_A          180 SSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYHRWLLGAGSGRCELSVEKSTVLQSEL  258 (331)
T ss_dssp             HHHHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHSSSCGGGCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccCccccchHHHHHHHHHH
Confidence            7887766555544              45788889888887753 22455565444444443           4588999


Q ss_pred             HHHHHHHhcCCCCCCHHHHHHHHH-----HHHhcCChHHHHHHHHHHHh
Q 023952          222 EIIDQWKQSATSDFDISACNRLLG-----AFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~li~-----~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +.++++.+..   ||. .|..+..     +....|..+++...+.++++
T Consensus       259 ~~~~elle~~---pd~-~w~l~~~~~~~~~~~~~~~~~~~~~~l~~l~~  303 (331)
T 3dss_A          259 ESCKELQELE---PEN-KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  303 (331)
T ss_dssp             HHHHHHHHHC---TTC-HHHHHHHHHHHHHHCTTTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhC---ccc-chHHHHHHHHHHhhcccccHHHHHHHHHHHHH
Confidence            9999998853   443 2432222     22246778888889988875

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.54  E-value=5.1e-07  Score=59.33  Aligned_cols=87  Identities=13%  Similarity=-0.055  Sum_probs=51.8

Q ss_pred             cCchHHHHHHHHHHHHHcc--CCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHH
Q 023952          143 ASHLVNAESSTLVEAEKSI--TQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  220 (275)
Q Consensus       143 ~g~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  220 (275)
                      .|++++|+. .+++....+  .+.+...+..+...|...|++++|...|++..+.. +-+...+..+..++...|++++|
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            456666666 666665542  12244556666666777777777777777666543 22345566666777777777777


Q ss_pred             HHHHHHHHhcC
Q 023952          221 GEIIDQWKQSA  231 (275)
Q Consensus       221 ~~~~~~~~~~~  231 (275)
                      ...+++..+..
T Consensus        81 ~~~~~~al~~~   91 (117)
T 3k9i_A           81 VELLLKIIAET   91 (117)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhC
Confidence            77777766644

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.53  E-value=6e-07  Score=62.68  Aligned_cols=100  Identities=12%  Similarity=0.105  Sum_probs=74.5

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhC--------C---------CCCCHHHHHHHHHHhhccCCHHHHHHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQS--------N---------LSFNALMYNEMMTLYMSVGQVEKVALVVEEI   85 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~--------~---------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m   85 (275)
                      ....+......+.+.|++++|...|+.....        .         -+.+...|..+..+|.+.|++++|+..+++.
T Consensus        10 ~a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~A~~~~~~a   89 (162)
T 3rkv_A           10 SVEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEWVELDRKNIPLYANMSQCYLNIGDLHEAEETSSEV   89 (162)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHHHHHHHTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHH
Confidence            4567888889999999999999999987664        0         0123456777777888888888888888887


Q ss_pred             hhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           86 KRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        86 ~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      .+.+.. +...|..+..++...|++++|...|++..+.
T Consensus        90 l~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l  126 (162)
T 3rkv_A           90 LKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRN  126 (162)
T ss_dssp             HHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhc
Confidence            775322 4667777777788888888888888877764

>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=98.50  E-value=3.4e-06  Score=69.37  Aligned_cols=120  Identities=7%  Similarity=-0.164  Sum_probs=55.7

Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC---------------HHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD---------------WVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      ..+..+...+.+.|++++|...|+++.+..  +.+               ...|..+..+|.+.|++++|+. .+.+...
T Consensus       269 ~~~~~~G~~~~~~g~~~~A~~~y~~Al~~~--p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~-~~~~al~  345 (457)
T 1kt0_A          269 AIVKEKGTVYFKGGKYMQAVIQYGKIVSWL--EMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVE-CCDKALG  345 (457)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHH--TTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHHh--cccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH-HHHHHHh
Confidence            345555566666666666666666655531  112               2444444444445555555554 4444444


Q ss_pred             ccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHH
Q 023952          160 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEV  220 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a  220 (275)
                      ..+. +...|..+..+|...|++++|...|++..+.  .| +...+..+...+.+.++.+++
T Consensus       346 ~~p~-~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l--~P~~~~a~~~l~~~~~~~~~~~~a  404 (457)
T 1kt0_A          346 LDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEV--NPQNKAARLQISMCQKKAKEHNER  404 (457)
T ss_dssp             HSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--C----CHHHHHHHHHHHHHHHHHH
T ss_pred             cCCc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHH
Confidence            3322 3444444444444455555555554444432  22 223334444444444444433

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.49  E-value=7e-06  Score=54.49  Aligned_cols=95  Identities=12%  Similarity=-0.018  Sum_probs=71.5

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHccCCcch---hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC----hhhHH
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQW---ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT----SRNYI  205 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~----~~~~~  205 (275)
                      +..+...+.+.|++++|.. .+..+....+. +.   ..+..+..++...|++++|...|++..+..  |+    ...+.
T Consensus         5 ~~~~a~~~~~~~~~~~A~~-~~~~~~~~~p~-~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~--p~~~~~~~~~~   80 (129)
T 2xev_A            5 AYNVAFDALKNGKYDDASQ-LFLSFLELYPN-GVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRY--PTHDKAAGGLL   80 (129)
T ss_dssp             HHHHHHHHHHTTCHHHHHH-HHHHHHHHCSS-STTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTSTTHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHH-HHHHHHHHCCC-CcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHC--CCCcccHHHHH
Confidence            3456677788888998888 88877775543 22   466677778888889999988888887753  33    45567


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          206 CILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       206 ~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .+..++...|++++|...|+++.+..
T Consensus        81 ~la~~~~~~g~~~~A~~~~~~~~~~~  106 (129)
T 2xev_A           81 KLGLSQYGEGKNTEAQQTLQQVATQY  106 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHC
Confidence            77888888889999988888888754

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.48  E-value=6.7e-05  Score=62.19  Aligned_cols=223  Identities=12%  Similarity=0.068  Sum_probs=146.1

Q ss_pred             CHhHHHHHHHHHHcCCC-------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchh
Q 023952           23 TSETYTALLHLYAGAKW-------TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIF   95 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~-------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~   95 (275)
                      +...|...+..-...+.       .+++..+|+++... .+.+...|...+..+.+.|+.++|..+|++....   |...
T Consensus       171 s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~-~p~~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~---P~~~  246 (493)
T 2uy1_A          171 SVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDS-FYYAEEVYFFYSEYLIGIGQKEKAKKVVERGIEM---SDGM  246 (493)
T ss_dssp             SHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH---CCSS
T ss_pred             cHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHc-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhC---CCcH
Confidence            44567666665443211       34577899998875 3566888999999899999999999999999987   4433


Q ss_pred             hHHHHHHHHHhhCCHHHHHHHHHHHhhcC---C-----C---CCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc
Q 023952           96 TYNLWISSCAATLNIDQVKKFLDEMSCDS---G-----G---SDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR  164 (275)
Q Consensus        96 ~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~-----~---~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  164 (275)
                      .+..   .|+...+.++.   ++.+.+..   .     .   .....+|...+..+.+.+..+.|.. ++... . .+..
T Consensus       247 ~l~~---~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~-i~~~A-~-~~~~  317 (493)
T 2uy1_A          247 FLSL---YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRK-LFIEL-G-NEGV  317 (493)
T ss_dssp             HHHH---HHHHHTTCTHH---HHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHH-HHHHH-T-TSCC
T ss_pred             HHHH---HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHH-HHHHh-h-CCCC
Confidence            2221   23322222222   23322210   0     0   1122456677777777888999999 88887 3 2223


Q ss_pred             chhhHHHHHHHHH-ccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 023952          165 QWITYDFLIILYA-GLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRL  243 (275)
Q Consensus       165 ~~~~~~~l~~~~~-~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  243 (275)
                      +...|......-. ..++.+.|..+|+...+.. .-++..+...+......|+.+.|..+|+++.      .....|...
T Consensus       318 ~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~-~~~~~~~~~yid~e~~~~~~~~aR~l~er~~------k~~~lw~~~  390 (493)
T 2uy1_A          318 GPHVFIYCAFIEYYATGSRATPYNIFSSGLLKH-PDSTLLKEEFFLFLLRIGDEENARALFKRLE------KTSRMWDSM  390 (493)
T ss_dssp             CHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC------CBHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH------HHHHHHHHH
Confidence            3344432222222 2347999999999887753 2234455667777788999999999999862      356778888


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 023952          244 LGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       244 i~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +..=...|+.+.+.++++++.+
T Consensus       391 ~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          391 IEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHH
Confidence            8877888999999999988864

>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=98.43  E-value=9.8e-06  Score=68.31  Aligned_cols=172  Identities=6%  Similarity=-0.039  Sum_probs=138.8

Q ss_pred             hhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC--
Q 023952            7 IHSGERYFEGLPLSAK-TSETYTALLHLYAGAKW----------TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG--   73 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~----------~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--   73 (275)
                      -++|++.++.+....| +..+|+.--..+...|+          +++++..++.+.+.. +-+..+|+.-...+.+.|  
T Consensus        45 ~eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~  123 (567)
T 1dce_A           45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  123 (567)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC
T ss_pred             CHHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcccc
Confidence            3577888888887777 67888887777777777          899999999999876 567889998888888889  


Q ss_pred             CHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhC-CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhc---------
Q 023952           74 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL-NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITA---------  143 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---------  143 (275)
                      +++++++.++++.+.+.+ +..+|+.-...+.+.| .++++.+.++++.+.  .+-+...|+.....+.+.         
T Consensus       124 ~~~~el~~~~k~l~~d~~-N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~--~p~n~saW~~r~~ll~~l~~~~~~~~~  200 (567)
T 1dce_A          124 NWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGPQ  200 (567)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHHHSCCCCSSSC
T ss_pred             cHHHHHHHHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHH--CCCCccHHHHHHHHHHhhccccccccc
Confidence            779999999999998665 7888998888888888 899999999999874  467788888777776653         


Q ss_pred             -----CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHH
Q 023952          144 -----SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK  184 (275)
Q Consensus       144 -----g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  184 (275)
                           +.++++.+ .+..+....+. |...|+-+-..+.+.++.++
T Consensus       201 ~~~~~~~~~eel~-~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          201 GRLPENVLLKELE-LVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             CSSCHHHHHHHHH-HHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             ccccHHHHHHHHH-HHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence                 56788888 77777776654 77888888877777776444

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.41  E-value=1.5e-06  Score=68.44  Aligned_cols=150  Identities=11%  Similarity=-0.017  Sum_probs=71.7

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      ....|..+...+.+.|++++|...|++.....  |+...       +...|+.+++...+.          ...|..+..
T Consensus       178 ~a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~--p~~~~-------~~~~~~~~~~~~~l~----------~~~~~nla~  238 (338)
T 2if4_A          178 AADRRKMDGNSLFKEEKLEEAMQQYEMAIAYM--GDDFM-------FQLYGKYQDMALAVK----------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHHTCSSSCCHHHHHHHHHHHHHS--CHHHH-------HTCCHHHHHHHHHHH----------THHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHh--ccchh-------hhhcccHHHHHHHHH----------HHHHHHHHH
Confidence            35556777777778888888888888766643  33221       122233333322221          125666777


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHH-HHccCC
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIIL-YAGLGN  181 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~  181 (275)
                      ++.+.|++++|+..+++..+.  .+.+...+..+..+|...|++++|.. .++......+. +...+..+... ....+.
T Consensus       239 ~~~~~g~~~~A~~~~~~al~~--~p~~~~a~~~lg~a~~~~g~~~~A~~-~l~~al~l~p~-~~~a~~~L~~l~~~~~~~  314 (338)
T 2if4_A          239 CLIKLKRYDEAIGHCNIVLTE--EEKNPKALFRRGKAKAELGQMDSARD-DFRKAQKYAPD-DKAIRRELRALAEQEKAL  314 (338)
T ss_dssp             HHHTTTCCHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTTTCHHHHHH-HHHHTTC-----------------------
T ss_pred             HHHHcCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHHCCC-CHHHHHHHHHHHHHHHHH
Confidence            777777777777777777663  24556677777777777777777777 66665544332 34444444443 233455


Q ss_pred             HHHHHHHHHHHHhc
Q 023952          182 KDKIDQIWKSLRMT  195 (275)
Q Consensus       182 ~~~a~~~~~~m~~~  195 (275)
                      .+++..+|..|...
T Consensus       315 ~~~a~~~~~~~l~~  328 (338)
T 2if4_A          315 YQKQKEMYKGIFKG  328 (338)
T ss_dssp             --------------
T ss_pred             HHHHHHHHHHhhCC
Confidence            66667777766543

>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=98.41  E-value=4.5e-06  Score=66.58  Aligned_cols=97  Identities=7%  Similarity=-0.109  Sum_probs=49.8

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCC--------------CCC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKN--------------VVP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDS  124 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~--------------~~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~  124 (275)
                      ..+..+...+.+.|++++|++.|++..+.-              ..| +..+|..+..++.+.|++++|+..++++.+. 
T Consensus       224 ~~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~-  302 (370)
T 1ihg_A          224 EDLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEI-  302 (370)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHh-
Confidence            446667777888888888888888777510              011 2233444444444444444444444444432 


Q ss_pred             CCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952          125 GGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus       125 ~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                       .+.+...+..+..+|.+.|++++|+. .+++..+
T Consensus       303 -~p~~~~a~~~lg~~~~~~g~~~eA~~-~l~~Al~  335 (370)
T 1ihg_A          303 -DPSNTKALYRRAQGWQGLKEYDQALA-DLKKAQE  335 (370)
T ss_dssp             -CTTCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHH
T ss_pred             -CchhHHHHHHHHHHHHHccCHHHHHH-HHHHHHH
Confidence             12333444444444444444444444 4444433

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.38  E-value=1.8e-06  Score=68.01  Aligned_cols=148  Identities=9%  Similarity=-0.133  Sum_probs=83.1

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      ...+..+...+.+.|++++|+..|++..+.  .|+...       +...++.+++...+   .        ...|..+..
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~  238 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAA  238 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHH
Confidence            345666777778888888888888877763  344331       12223333332221   1        137888999


Q ss_pred             HHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC-hhhHHHHHHH-HHhcCC
Q 023952          139 IYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT-SRNYICILSS-YLMLGH  216 (275)
Q Consensus       139 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~-~~~~~~li~~-~~~~g~  216 (275)
                      +|.+.|++++|+. .+.......+. +...|..+..+|...|++++|...|++..+.  .|+ ...+..+... ....+.
T Consensus       239 ~~~~~g~~~~A~~-~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l--~p~~~~a~~~L~~l~~~~~~~  314 (338)
T 2if4_A          239 CLIKLKRYDEAIG-HCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKY--APDDKAIRRELRALAEQEKAL  314 (338)
T ss_dssp             HHHTTTCCHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC------------------------
T ss_pred             HHHHcCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999 88888876543 7788999999999999999999999988664  444 3344444444 345667


Q ss_pred             HHHHHHHHHHHHhc
Q 023952          217 LKEVGEIIDQWKQS  230 (275)
Q Consensus       217 ~~~a~~~~~~~~~~  230 (275)
                      .+.+..+|..+...
T Consensus       315 ~~~a~~~~~~~l~~  328 (338)
T 2if4_A          315 YQKQKEMYKGIFKG  328 (338)
T ss_dssp             --------------
T ss_pred             HHHHHHHHHHhhCC
Confidence            78888999988764

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.36  E-value=1e-05  Score=56.34  Aligned_cols=61  Identities=20%  Similarity=0.058  Sum_probs=26.2

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          132 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      +|..+..+|.+.|++++|+. .+.......+. +...|..+..+|...|++++|...|++..+
T Consensus        65 ~~~nla~~~~~~~~~~~A~~-~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  125 (162)
T 3rkv_A           65 LYANMSQCYLNIGDLHEAEE-TSSEVLKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLR  125 (162)
T ss_dssp             HHHHHHHHHHHHTCHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCcHHHHHH-HHHHHHhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHh
Confidence            34444444444444444444 44444333221 333444444444444444444444444433

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.32  E-value=2.9e-06  Score=55.39  Aligned_cols=79  Identities=9%  Similarity=-0.042  Sum_probs=55.9

Q ss_pred             hhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHh
Q 023952            8 HSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIK   86 (275)
Q Consensus         8 ~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~   86 (275)
                      +.|++.|++.....| +...|..+...|...|++++|...|++..+.. +.+...|..+..++...|++++|...|++..
T Consensus         2 ~~a~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            2 QAITERLEAMLAQGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFD-PTYSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CCHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHhCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            356666766655555 67777777777777777888877777776654 3456677777777777777777777777766


Q ss_pred             h
Q 023952           87 R   87 (275)
Q Consensus        87 ~   87 (275)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=98.29  E-value=1.2e-05  Score=55.24  Aligned_cols=99  Identities=5%  Similarity=-0.123  Sum_probs=61.5

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCC-C-----C-----HHHHHHHHHHhhccCCHHHHHHHHHHHhhC----
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLS-F-----N-----ALMYNEMMTLYMSVGQVEKVALVVEEIKRK----   88 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-~-----~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----   88 (275)
                      ...+......+.+.|++++|+..|+...+.... |     +     ...|+.+..++.+.|++++|+..+++.++.    
T Consensus        11 a~~~~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~   90 (159)
T 2hr2_A           11 AYLALSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRR   90 (159)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhcc
Confidence            344566666777778888888888877664311 0     1     226667777777777777777777776663    


Q ss_pred             -CCCCc-hhhH----HHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           89 -NVVPD-IFTY----NLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        89 -~~~p~-~~~~----~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                       .+.|+ ...|    .....++...|++++|+..|++..+
T Consensus        91 ~e~~pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           91 GELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             CCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ccCCCchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence             01343 3455    5666666666666666666666554

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.26  E-value=1.3e-06  Score=56.47  Aligned_cols=65  Identities=9%  Similarity=0.077  Sum_probs=45.1

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      +...|..+...+.+.|++++|...|++..+.. +.+...|..+..++.+.|++++|++.+++..+.
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~   67 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQ-PQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRY   67 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            34566667777777777777777777766653 345666777777777777777777777777764

>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=98.26  E-value=0.00013  Score=61.61  Aligned_cols=172  Identities=10%  Similarity=-0.052  Sum_probs=101.4

Q ss_pred             HHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC----------HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC-
Q 023952           76 EKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN----------IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS-  144 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-  144 (275)
                      ++|++.++++.+.+.+ +..+|+.--.++...++          ++++.+.++.+.+.  .+-+..+|+.-.-++.+.| 
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            4556666666554322 33445544444444444          66666666666653  3455556665555556666 


Q ss_pred             -chHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccC-CHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhc--------
Q 023952          145 -HLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG-NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLML--------  214 (275)
Q Consensus       145 -~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~--------  214 (275)
                       +++++++ .+..+.+..+. |..+|+.-...+.+.| .++++.+.++++.+.. .-+...|+.....+.+.        
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-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGP  199 (567)
T ss_dssp             CCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             ccHHHHHH-HHHHHHhhccc-cccHHHHHHHHHHHcCCChHHHHHHHHHHHHHC-CCCccHHHHHHHHHHhhcccccccc
Confidence             4466666 66666665543 5566666555555666 6666666666665542 12344455444444332        


Q ss_pred             ------CCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHH
Q 023952          215 ------GHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEK  255 (275)
Q Consensus       215 ------g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~  255 (275)
                            +.++++.+.+++.....  +-|...|..+-..+.+.++.++
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                  55788888888888754  4577788888877877776443

>2hr2_A Hypothetical protein; alpha-alpha superhelix fold, structural genomics, joint CENT structural genomics, JCSG, protein structure initiative; 2.54A {Chlorobium tepidum} SCOP: a.118.8.8

Probab=98.23  E-value=4.2e-05  Score=52.61  Aligned_cols=94  Identities=10%  Similarity=-0.078  Sum_probs=49.9

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHhccCCC------C-----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CC-CCC
Q 023952          172 LIILYAGLGNKDKIDQIWKSLRMTKQKM------T-----SRNYICILSSYLMLGHLKEVGEIIDQWKQS----AT-SDF  235 (275)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~m~~~~~~p------~-----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~-~~~  235 (275)
                      ....+...|++++|+..|++..+.....      +     ...|..+..++.+.|++++|+..+++..+.    +. .+-
T Consensus        17 ~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd   96 (159)
T 2hr2_A           17 DAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD   96 (159)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc
Confidence            3344445555555555555544432110      1     115555666666666666666666666553    00 122


Q ss_pred             CHHHH----HHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          236 DISAC----NRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       236 ~~~~~----~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      +...|    .....++...|++++|+..|++.++
T Consensus        97 ~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAle  130 (159)
T 2hr2_A           97 EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVE  130 (159)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHh
Confidence            34455    6666666667777777766666643

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=98.22  E-value=1e-05  Score=52.73  Aligned_cols=79  Identities=8%  Similarity=-0.023  Sum_probs=56.1

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHh
Q 023952           42 KAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMS  121 (275)
Q Consensus        42 ~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~  121 (275)
                      .|...|++..+.. +.+...+..+...+...|++++|+..|++..+.... +...|..+..++...|++++|...|++..
T Consensus         3 ~a~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al   80 (115)
T 2kat_A            3 AITERLEAMLAQG-TDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGL   80 (115)
T ss_dssp             CHHHHHHHHHTTT-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhC-CCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4666677766654 446677777777788888888888888877775322 45567777777777888888888877766


Q ss_pred             h
Q 023952          122 C  122 (275)
Q Consensus       122 ~  122 (275)
                      +
T Consensus        81 ~   81 (115)
T 2kat_A           81 A   81 (115)
T ss_dssp             H
T ss_pred             H
Confidence            5

>1zu2_A Mitochondrial import receptor subunit TOM20-3; TPR, tetratricopeptide repeat like, TPR-like, transport protein; NMR {Arabidopsis thaliana} SCOP: a.118.8.1

Probab=98.19  E-value=1.8e-06  Score=59.27  Aligned_cols=92  Identities=12%  Similarity=0.001  Sum_probs=50.5

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCH----------HHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcc
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWT----------EKAEELFERVKQSNLSFNALMYNEMMTLYMSV   72 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~----------~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   72 (275)
                      .+.+++|++.++......| +...|+.+..++.+.+++          ++|+..|++..+.+ +-+...|..+..+|.+.
T Consensus        15 ~~~feeA~~~~~~Ai~l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ld-P~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           15 ILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHH
T ss_pred             HhHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhC-cCcHHHHHHHHHHHHHh
Confidence            3456666666666655544 566666666666666554          35666666555543 23445555555555544


Q ss_pred             C-----------CHHHHHHHHHHHhhCCCCCchhhHH
Q 023952           73 G-----------QVEKVALVVEEIKRKNVVPDIFTYN   98 (275)
Q Consensus        73 g-----------~~~~a~~~~~~m~~~~~~p~~~~~~   98 (275)
                      |           ++++|++.|++..+  +.|+...|.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~--l~P~~~~y~  128 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVD--EQPDNTHYL  128 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHH
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHH--hCCCCHHHH
Confidence            3           45555555555555  344444443

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.19  E-value=1.7e-05  Score=51.00  Aligned_cols=91  Identities=7%  Similarity=-0.142  Sum_probs=64.2

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC------HH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD------WV  131 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~------~~  131 (275)
                      +...|..+...+.+.|++++|++.|++..+.... +...+..+..++...|++++|...+++..+.  .+.+      ..
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~   79 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRY--TSTAEHVAIRSK   79 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTS--CSSTTSHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh--CCCccHHHHHHH
Confidence            4567777888888888888888888888875332 5677778888888888888888888888763  2333      44


Q ss_pred             HHHHHHHHHHhcCchHHHHH
Q 023952          132 KYVNLVNIYITASHLVNAES  151 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~  151 (275)
                      .+..+..++...|+.+.|..
T Consensus        80 ~~~~~~~~~~~~~~~~~a~~   99 (111)
T 2l6j_A           80 LQYRLELAQGAVGSVQIPVV   99 (111)
T ss_dssp             HHHHHHHHHHHHHCCCCCSS
T ss_pred             HHHHHHHHHHHHHhHhhhHh
Confidence            45555556666666555544

>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=98.15  E-value=3.4e-05  Score=52.20  Aligned_cols=110  Identities=10%  Similarity=-0.050  Sum_probs=54.7

Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHh----hCCHHHHH
Q 023952           39 WTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA----TLNIDQVK  114 (275)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~----~~~~~~a~  114 (275)
                      ++++|...|+...+.| .|+..    |-..|...+.+++|++.|++..+.|   +...+..|...|..    .+++++|.
T Consensus        10 d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~   81 (138)
T 1klx_A           10 DLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACELN---SGNGCRFLGDFYENGKYVKKDLRKAA   81 (138)
T ss_dssp             HHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHH
T ss_pred             CHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHcCC---CHHHHHHHHHHHHcCCCCCccHHHHH
Confidence            4455555555555554 22222    4444444455555555555555543   33444445555544    45555555


Q ss_pred             HHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchHHHHHHHHHHHHHcc
Q 023952          115 KFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  161 (275)
                      ..|++..+.    -+...+..|...|..    .++.++|.. .++...+.+
T Consensus        82 ~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~A~~-~~~~Aa~~g  127 (138)
T 1klx_A           82 QYYSKACGL----NDQDGCLILGYKQYAGKGVVKNEKQAVK-TFEKACRLG  127 (138)
T ss_dssp             HHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCHHHHHH-HHHHHHHTT
T ss_pred             HHHHHHHcC----CCHHHHHHHHHHHHCCCCCCcCHHHHHH-HHHHHHHCC
Confidence            555555543    233444455555555    555555555 555544443

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.12  E-value=3.2e-05  Score=63.84  Aligned_cols=88  Identities=3%  Similarity=-0.135  Sum_probs=44.6

Q ss_pred             HHcCCCHHHHHHHHHHHHhC---CCCC----CHHHHHHHHHHhhccCCHHHHHHHHHHHhhC-----CC-CCc-hhhHHH
Q 023952           34 YAGAKWTEKAEELFERVKQS---NLSF----NALMYNEMMTLYMSVGQVEKVALVVEEIKRK-----NV-VPD-IFTYNL   99 (275)
Q Consensus        34 ~~~~g~~~~a~~~~~~m~~~---~~~~----~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~-~p~-~~~~~~   99 (275)
                      +...|++++|+.++++..+.   -+.|    ...+++.|...|...|++++|+.++++..+.     |. -|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            34556666666666554321   1111    1335566666666666666666666554431     11 111 234555


Q ss_pred             HHHHHHhhCCHHHHHHHHHHHh
Q 023952          100 WISSCAATLNIDQVKKFLDEMS  121 (275)
Q Consensus       100 ll~~~~~~~~~~~a~~~~~~~~  121 (275)
                      |...|...|++++|+.++++..
T Consensus       399 La~~~~~~G~~~eA~~~~~~Al  420 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMICKAY  420 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHH
Confidence            5555666666666665555543

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.10  E-value=4.5e-05  Score=46.94  Aligned_cols=64  Identities=14%  Similarity=0.162  Sum_probs=34.6

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      ...|..+...+...|++++|...|++..+.. +.+...+..+...+.+.|++++|++.|++..+.
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~   72 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELD-PNNAEAWYNLGNAYYKQGDYDEAIEYYQKALEL   72 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhc
Confidence            3445555555555566666666665555442 234445555555555555555555555555543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.08  E-value=3.3e-05  Score=63.75  Aligned_cols=125  Identities=9%  Similarity=-0.026  Sum_probs=64.2

Q ss_pred             hhccCCHHHHHHHHHHHhhC---CCCCc----hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc-----CCCCCC-HHHHHH
Q 023952           69 YMSVGQVEKVALVVEEIKRK---NVVPD----IFTYNLWISSCAATLNIDQVKKFLDEMSCD-----SGGSDD-WVKYVN  135 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~~m~~~---~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~-~~~~~~  135 (275)
                      +...|++++|+.++++..+.   -+.|+    ..+++.|...|...|++++|+.++++....     +...|+ ..+++.
T Consensus       319 ~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~n  398 (490)
T 3n71_A          319 ARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVMR  398 (490)
T ss_dssp             HHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHH
T ss_pred             HHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            44667777777777665532   11221    345666666777777777777766664431     111222 234566


Q ss_pred             HHHHHHhcCchHHHHHHHHHHHHH-----ccC-Ccc-hhhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          136 LVNIYITASHLVNAESSTLVEAEK-----SIT-QRQ-WITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       136 l~~~~~~~g~~~~a~~~~~~~~~~-----~~~-~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      |...|...|++++|+. ++++...     .|+ .|+ ..+.+.+..++...+.+++|+.+|..+++
T Consensus       399 La~~~~~~G~~~eA~~-~~~~Al~i~~~~lG~~Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~  463 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHG-MICKAYAILLVTHGPSHPITKDLEAMRMQTEMELRMFRQNEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHTTCHHHHHH-HHHHHHHHHHHHTCTTSHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHH-HHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            6666666666666666 5554432     111 111 12223333444445555555555555443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=98.06  E-value=5.2e-05  Score=46.66  Aligned_cols=81  Identities=9%  Similarity=0.004  Sum_probs=48.5

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      ...+..+...+...|++++|+..|++..+... .+..++..+...+...|++++|...+++..+.  .+.+...+..+..
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            44566666666677777777777776666432 14455666666666777777777777766653  2344455555544


Q ss_pred             HHHh
Q 023952          139 IYIT  142 (275)
Q Consensus       139 ~~~~  142 (275)
                      ++.+
T Consensus        86 ~~~~   89 (91)
T 1na3_A           86 AKQK   89 (91)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            4443

>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=98.03  E-value=0.00038  Score=46.90  Aligned_cols=110  Identities=10%  Similarity=-0.077  Sum_probs=58.6

Q ss_pred             CHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchHHH
Q 023952           74 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNA  149 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a  149 (275)
                      ++++|++.|++..+.|. |+..    |...|...+..++|.+.|++..+.    .+...+..|...|..    .+++++|
T Consensus        10 d~~~A~~~~~~aa~~g~-~~a~----lg~~y~~g~~~~~A~~~~~~Aa~~----g~~~a~~~Lg~~y~~G~g~~~d~~~A   80 (138)
T 1klx_A           10 DLKKAIQYYVKACELNE-MFGC----LSLVSNSQINKQKLFQYLSKACEL----NSGNGCRFLGDFYENGKYVKKDLRKA   80 (138)
T ss_dssp             HHHHHHHHHHHHHHTTC-TTHH----HHHHTCTTSCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHcCCC-Hhhh----HHHHHHcCCCHHHHHHHHHHHHcC----CCHHHHHHHHHHHHcCCCCCccHHHH
Confidence            45566666666655542 2222    444444555555566666665553    234455555555555    5566666


Q ss_pred             HHHHHHHHHHccCCcchhhHHHHHHHHHc----cCCHHHHHHHHHHHHhcc
Q 023952          150 ESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~  196 (275)
                      .+ .++.....+   +...+..|...|..    .+++++|.+.|++..+.|
T Consensus        81 ~~-~~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g  127 (138)
T 1klx_A           81 AQ-YYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLG  127 (138)
T ss_dssp             HH-HHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT
T ss_pred             HH-HHHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCC
Confidence            66 555554443   33445555555555    556666666666555544

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.02  E-value=2.7e-05  Score=49.35  Aligned_cols=64  Identities=16%  Similarity=0.085  Sum_probs=35.4

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhh
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR   87 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   87 (275)
                      +...|..+...|.+.|++++|...|++..+.+ +.+...|..+..+|...|++++|++.|++..+
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~   69 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGIE   69 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            45555555555556666666666665555543 23344555555555555555555555555443

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.91  E-value=7.9e-05  Score=47.14  Aligned_cols=62  Identities=15%  Similarity=-0.026  Sum_probs=29.4

Q ss_pred             hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          166 WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       166 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                      ...+..+...|...|++++|+..|++..+.. +-+...|..+..+|...|++++|.+.|++..
T Consensus         7 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al   68 (100)
T 3ma5_A            7 PFTRYALAQEHLKHDNASRALALFEELVETD-PDYVGTYYHLGKLYERLDRTDDAIDTYAQGI   68 (100)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            3344444445555555555555555544432 1123344445555555555555555555444

>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=0.0001  Score=50.53  Aligned_cols=91  Identities=13%  Similarity=0.049  Sum_probs=41.1

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch----------HHHHHHHHHHHHHccCCcchhhHHHHHHHHH
Q 023952          108 LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL----------VNAESSTLVEAEKSITQRQWITYDFLIILYA  177 (275)
Q Consensus       108 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~----------~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  177 (275)
                      +.+++|.+.++...+.  .|.+...|..+..++.+.+++          ++|+. .+++..+..+. +..+|..+..+|.
T Consensus        16 ~~feeA~~~~~~Ai~l--~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~-~le~AL~ldP~-~~~A~~~LG~ay~   91 (158)
T 1zu2_A           16 LLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAIT-KFEEALLIDPK-KDEAVWCIGNAYT   91 (158)
T ss_dssp             HHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHH-HHHHHHHhCcC-cHHHHHHHHHHHH
Confidence            3444444444444442  233444444444444444433          24444 44444443332 3344444444444


Q ss_pred             cc-----------CCHHHHHHHHHHHHhccCCCChhhH
Q 023952          178 GL-----------GNKDKIDQIWKSLRMTKQKMTSRNY  204 (275)
Q Consensus       178 ~~-----------~~~~~a~~~~~~m~~~~~~p~~~~~  204 (275)
                      ..           |++++|.+.|++..+.  .|+...|
T Consensus        92 ~lg~l~P~~~~a~g~~~eA~~~~~kAl~l--~P~~~~y  127 (158)
T 1zu2_A           92 SFAFLTPDETEAKHNFDLATQFFQQAVDE--QPDNTHY  127 (158)
T ss_dssp             HHHHHCCCHHHHHHHHHHHHHHHHHHHHH--CTTCHHH
T ss_pred             HhcccCcchhhhhccHHHHHHHHHHHHHh--CCCCHHH
Confidence            33           3555666666555542  4444443

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.74  E-value=0.0045  Score=54.44  Aligned_cols=99  Identities=9%  Similarity=0.012  Sum_probs=56.1

Q ss_pred             HHHcCCCHHHHHH-HHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHH
Q 023952           33 LYAGAKWTEKAEE-LFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNID  111 (275)
Q Consensus        33 ~~~~~g~~~~a~~-~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~  111 (275)
                      .....+++++|.+ ++..     ++ +......++..+.+.|..++|+++.+.         ..   .-.......|+++
T Consensus       608 ~~~~~~~~~~a~~~~l~~-----i~-~~~~~~~~~~~l~~~~~~~~a~~~~~~---------~~---~~f~~~l~~~~~~  669 (814)
T 3mkq_A          608 TLTLRGEIEEAIENVLPN-----VE-GKDSLTKIARFLEGQEYYEEALNISPD---------QD---QKFELALKVGQLT  669 (814)
T ss_dssp             HHHHTTCHHHHHHHTGGG-----CC-CHHHHHHHHHHHHHTTCHHHHHHHCCC---------HH---HHHHHHHHHTCHH
T ss_pred             HHHHhCCHHHHHHHHHhc-----CC-chHHHHHHHHHHHhCCChHHheecCCC---------cc---hheehhhhcCCHH
Confidence            3345677777766 4421     11 012225666666777777777765521         11   1122345567777


Q ss_pred             HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952          112 QVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus       112 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                      .|.++.+.       ..+...|..+...+.+.|+++.|++ .|..+
T Consensus       670 ~A~~~~~~-------~~~~~~W~~la~~al~~~~~~~A~~-~y~~~  707 (814)
T 3mkq_A          670 LARDLLTD-------ESAEMKWRALGDASLQRFNFKLAIE-AFTNA  707 (814)
T ss_dssp             HHHHHHTT-------CCCHHHHHHHHHHHHHTTCHHHHHH-HHHHH
T ss_pred             HHHHHHHh-------hCcHhHHHHHHHHHHHcCCHHHHHH-HHHHc
Confidence            77776422       2445667777777777777777777 66544

>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=0.0012  Score=51.78  Aligned_cols=65  Identities=18%  Similarity=0.081  Sum_probs=41.4

Q ss_pred             cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          164 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      .+..+|..+...+...|++++|...+++....+  |+...|..+...+.-.|++++|.+.+.+....
T Consensus       275 ~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL  339 (372)
T 3ly7_A          275 NLSIIYQIKAVSALVKGKTDESYQAINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL  339 (372)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc
Confidence            355566555555555677777777777666653  55555556666666777777777777666653

>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=97.52  E-value=0.015  Score=45.74  Aligned_cols=142  Identities=8%  Similarity=0.048  Sum_probs=76.3

Q ss_pred             CCCHHHHHHHHHHhh--cc---CCHHHHHHHHHHHhhCCCCCc-hhhHHHHHHHHHh---hCCH--HHHH---HHHHHHh
Q 023952           56 SFNALMYNEMMTLYM--SV---GQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAA---TLNI--DQVK---KFLDEMS  121 (275)
Q Consensus        56 ~~~~~~~~~li~~~~--~~---g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~---~~~~--~~a~---~~~~~~~  121 (275)
                      +.+...|...+++..  ..   ....+|..+|++..+.  .|+ ...|..+.-++.-   .+..  ....   ..++...
T Consensus       191 p~~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~  268 (372)
T 3ly7_A          191 PHRGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIV  268 (372)
T ss_dssp             CSSGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHH
Confidence            445666666665432  22   2346677777777764  344 3344443333331   1101  1111   1222211


Q ss_pred             hcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh
Q 023952          122 CDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS  201 (275)
Q Consensus       122 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~  201 (275)
                      .....+.+..+|.++...+...|++++|.. .++++....  |+...|..+...+.-.|++++|.+.|++....  .|..
T Consensus       269 a~~~~~~~a~~~~alal~~l~~gd~d~A~~-~l~rAl~Ln--~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL--~P~~  343 (372)
T 3ly7_A          269 TLPELNNLSIIYQIKAVSALVKGKTDESYQ-AINTGIDLE--MSWLNYVLLGKVYEMKGMNREAADAYLTAFNL--RPGA  343 (372)
T ss_dssp             TCGGGTTCHHHHHHHHHHHHHHTCHHHHHH-HHHHHHHHC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--SCSH
T ss_pred             hcccCCcCHHHHHHHHHHHHhCCCHHHHHH-HHHHHHhcC--CCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCc
Confidence            111235566666666666666677777777 666666654  45556666666677777777777777766653  5555


Q ss_pred             hhH
Q 023952          202 RNY  204 (275)
Q Consensus       202 ~~~  204 (275)
                      .+|
T Consensus       344 ~t~  346 (372)
T 3ly7_A          344 NTL  346 (372)
T ss_dssp             HHH
T ss_pred             ChH
Confidence            554

>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=97.49  E-value=0.00027  Score=57.37  Aligned_cols=85  Identities=13%  Similarity=-0.008  Sum_probs=60.9

Q ss_pred             CCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHhhccCCHHHHHHHHHHHhhC-----CC-CCc-hhhHHHHHHH
Q 023952           38 KWTEKAEELFERVKQS---NLSFN----ALMYNEMMTLYMSVGQVEKVALVVEEIKRK-----NV-VPD-IFTYNLWISS  103 (275)
Q Consensus        38 g~~~~a~~~~~~m~~~---~~~~~----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~-----~~-~p~-~~~~~~ll~~  103 (275)
                      |++++|+.++++..+.   -+.|+    ..+++.|...|...|++++|+.++++..+.     |. .|+ ..+++.|...
T Consensus       312 g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~nLa~~  391 (433)
T 3qww_A          312 KSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVYSLNVASMWLKLGRL  391 (433)
T ss_dssp             SCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCCChHHHHHHHHHHHH
Confidence            6788888888775542   12222    457888888888888888888888887642     21 233 3568888888


Q ss_pred             HHhhCCHHHHHHHHHHHhh
Q 023952          104 CAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~  122 (275)
                      |...|++++|+.++++..+
T Consensus       392 ~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          392 YMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHTTCHHHHHHHHHHHHH
T ss_pred             HHhccCHHHHHHHHHHHHH
Confidence            8888999888888887654

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.49  E-value=0.00057  Score=42.72  Aligned_cols=58  Identities=14%  Similarity=0.104  Sum_probs=37.5

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhccCCCChh-hHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          173 IILYAGLGNKDKIDQIWKSLRMTKQKMTSR-NYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~-~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      ...+...|++++|...|++..+.. +.+.. .+..+..+|...|++++|.+.|++..+..
T Consensus         7 a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~   65 (99)
T 2kc7_A            7 IKELINQGDIENALQALEEFLQTE-PVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELN   65 (99)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-SSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC
Confidence            345566677777777777766542 22334 56666677777777777777777776643

>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=97.44  E-value=0.00076  Score=54.78  Aligned_cols=88  Identities=5%  Similarity=-0.050  Sum_probs=67.0

Q ss_pred             ccCCHHHHHHHHHHHHhc---cCCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHh-----cCCCCCCH-HHHHHHH
Q 023952          178 GLGNKDKIDQIWKSLRMT---KQKMT----SRNYICILSSYLMLGHLKEVGEIIDQWKQ-----SATSDFDI-SACNRLL  244 (275)
Q Consensus       178 ~~~~~~~a~~~~~~m~~~---~~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~-----~~~~~~~~-~~~~~li  244 (275)
                      ..|++++|+.++++..+.   -+.|+    ..+++.|...|...|++++|..++++..+     .|...|++ .+++.|.
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            457889999999876542   22333    25688899999999999999999998864     23233443 4688999


Q ss_pred             HHHHhcCChHHHHHHHHHHHh
Q 023952          245 GAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       245 ~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..|..+|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            999999999999999988753

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.44  E-value=0.00045  Score=43.21  Aligned_cols=57  Identities=16%  Similarity=0.084  Sum_probs=35.3

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFNAL-MYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~-~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      ...+.+.|++++|...|+...+.. +.+.. .|..+..++...|++++|++.|++..+.
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            445556666666666666666543 33455 6666666666666666666666666654

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.37  E-value=0.012  Score=38.77  Aligned_cols=147  Identities=12%  Similarity=0.011  Sum_probs=77.1

Q ss_pred             HHHHHHH--HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHH
Q 023952           97 YNLWISS--CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  174 (275)
Q Consensus        97 ~~~ll~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  174 (275)
                      ...|+.+  +.-.|..++..++..+..++    .+..-||.+|.-....-+-+...+ +++.+   |...|.        
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  44567777777777776664    233334444333333333333333 33332   222232        


Q ss_pred             HHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChH
Q 023952          175 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTE  254 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~  254 (275)
                        ..+|+...+..-+-.+     ..+...+...+......|+-|+-.++...+....  +|+....-.+..+|.+.|+..
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              2344444444443322     2344555566666667777777666666654432  355555666667777777777


Q ss_pred             HHHHHHHHHHhcCC
Q 023952          255 KANEFHMLLLQKNC  268 (275)
Q Consensus       255 ~a~~~~~~m~~~~~  268 (275)
                      +|.+++.+.-++|+
T Consensus       143 ~a~eLl~~AC~kG~  156 (172)
T 1wy6_A          143 DATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHhhh
Confidence            77777777666665

>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=97.35  E-value=0.0014  Score=53.18  Aligned_cols=93  Identities=11%  Similarity=-0.022  Sum_probs=69.1

Q ss_pred             HHHHHccCCHHHHHHHHHHHHhcc---CCCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc-----CCCCCC-HHH
Q 023952          173 IILYAGLGNKDKIDQIWKSLRMTK---QKMT----SRNYICILSSYLMLGHLKEVGEIIDQWKQS-----ATSDFD-ISA  239 (275)
Q Consensus       173 ~~~~~~~~~~~~a~~~~~~m~~~~---~~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~-~~~  239 (275)
                      +..+...|++++|+.++++..+..   ..|+    ..+++.+...|...|++++|..++++..+-     |...|+ ..+
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            445667889999999998876531   1222    245788889999999999999999887642     322333 346


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          240 CNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       240 ~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ++.|...|...|++++|..++++..+
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            88889999999999999999888753

>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=97.31  E-value=0.0017  Score=52.78  Aligned_cols=86  Identities=10%  Similarity=0.029  Sum_probs=39.9

Q ss_pred             cCCHHHHHHHHHHHhhC---CCCCc----hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc-----CCCCCC-HHHHHHHHH
Q 023952           72 VGQVEKVALVVEEIKRK---NVVPD----IFTYNLWISSCAATLNIDQVKKFLDEMSCD-----SGGSDD-WVKYVNLVN  138 (275)
Q Consensus        72 ~g~~~~a~~~~~~m~~~---~~~p~----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~-~~~~~~l~~  138 (275)
                      .|++++|+.++++..+.   -+.|+    ..+++.+..+|...|++++|+.+++++...     +...|+ ..+++.|..
T Consensus       300 ~g~~~~a~~~~~~~L~~~~~~lg~~h~~~~~~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~l~nLa~  379 (429)
T 3qwp_A          300 HWKWEQVLAMCQAIISSNSERLPDINIYQLKVLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGSHPVRGVQVMKVGK  379 (429)
T ss_dssp             TTCHHHHHHHHHHHHTCSSCCCCTTSHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSSCHHHHHHHHHHHH
T ss_pred             hccHHHHHHHHHHHHHhccCcCCccchHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCCChHHHHHHHHHHH
Confidence            34555555555554432   11111    234555555555555555555555543321     111222 223555555


Q ss_pred             HHHhcCchHHHHHHHHHHHH
Q 023952          139 IYITASHLVNAESSTLVEAE  158 (275)
Q Consensus       139 ~~~~~g~~~~a~~~~~~~~~  158 (275)
                      .|...|++++|+. ++++..
T Consensus       380 ~~~~~g~~~eA~~-~~~~Al  398 (429)
T 3qwp_A          380 LQLHQGMFPQAMK-NLRLAF  398 (429)
T ss_dssp             HHHHTTCHHHHHH-HHHHHH
T ss_pred             HHHhcCCHHHHHH-HHHHHH
Confidence            5555566555555 444443

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.11  E-value=0.0067  Score=37.58  Aligned_cols=65  Identities=11%  Similarity=-0.028  Sum_probs=37.3

Q ss_pred             CHhHHHHHHHHHHcCCC---HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           23 TSETYTALLHLYAGAKW---TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      |...+..+..++...++   .++|..+|++..+.+ +-++.....+...+.+.|++++|+..|+.+.+.
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            55555555555543332   466666666665554 344555555666666666666666666666654

>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=97.09  E-value=0.056  Score=40.94  Aligned_cols=85  Identities=7%  Similarity=-0.028  Sum_probs=48.3

Q ss_pred             HHHHHHHHHHHhhcCCCCCC---HHHHHHHHHHHHh-----cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHcc-C
Q 023952          110 IDQVKKFLDEMSCDSGGSDD---WVKYVNLVNIYIT-----ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGL-G  180 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~-----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~  180 (275)
                      ...|...+++..+.   .|+   ...|..+...|.+     -|+.++|.+ .|++.....+.-+..++......++.. |
T Consensus       179 l~~A~a~lerAleL---DP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~-~ferAL~LnP~~~id~~v~YA~~l~~~~g  254 (301)
T 3u64_A          179 VHAAVMMLERACDL---WPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHT-AFEHLTRYCSAHDPDHHITYADALCIPLN  254 (301)
T ss_dssp             HHHHHHHHHHHHHH---CTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHH-HHHHHHHHCCTTCSHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHHh---CCCcccCHHHHHHHHHHHhCCCccCCCHHHHHH-HHHHHHHhCCCCCchHHHHHHHHHHHhcC
Confidence            34555555555543   233   4456666666666     366666666 666666655543345555555555553 6


Q ss_pred             CHHHHHHHHHHHHhccCC
Q 023952          181 NKDKIDQIWKSLRMTKQK  198 (275)
Q Consensus       181 ~~~~a~~~~~~m~~~~~~  198 (275)
                      +.+++.+.+++.......
T Consensus       255 d~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          255 NRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             CHHHHHHHHHHHHHCCGG
T ss_pred             CHHHHHHHHHHHHcCCCC
Confidence            666666666666655444

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.04  E-value=0.016  Score=50.95  Aligned_cols=116  Identities=9%  Similarity=0.092  Sum_probs=78.8

Q ss_pred             ccChhhHHH-HhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            4 VFGIHSGER-YFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         4 ~g~~~~A~~-~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      .+++++|.+ ++..++    +......++..+.+.|..++|.++.+.-.            .-.......|++++|.++.
T Consensus       612 ~~~~~~a~~~~l~~i~----~~~~~~~~~~~l~~~~~~~~a~~~~~~~~------------~~f~~~l~~~~~~~A~~~~  675 (814)
T 3mkq_A          612 RGEIEEAIENVLPNVE----GKDSLTKIARFLEGQEYYEEALNISPDQD------------QKFELALKVGQLTLARDLL  675 (814)
T ss_dssp             TTCHHHHHHHTGGGCC----CHHHHHHHHHHHHHTTCHHHHHHHCCCHH------------HHHHHHHHHTCHHHHHHHH
T ss_pred             hCCHHHHHHHHHhcCC----chHHHHHHHHHHHhCCChHHheecCCCcc------------hheehhhhcCCHHHHHHHH
Confidence            356666766 554443    12334777888888888888887663211            1123446689999999886


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHH
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAES  151 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  151 (275)
                      +.+      .+...|..+...+.+.++++.|+++|.++..          |..+...|...|+.+...+
T Consensus       676 ~~~------~~~~~W~~la~~al~~~~~~~A~~~y~~~~d----------~~~l~~l~~~~~~~~~~~~  728 (814)
T 3mkq_A          676 TDE------SAEMKWRALGDASLQRFNFKLAIEAFTNAHD----------LESLFLLHSSFNNKEGLVT  728 (814)
T ss_dssp             TTC------CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC----------HHHHHHHHHHTTCHHHHHH
T ss_pred             Hhh------CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC----------hhhhHHHHHHcCCHHHHHH
Confidence            443      3667899999999999999999999988765          2355556666676666555

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.01  E-value=0.019  Score=35.44  Aligned_cols=28  Identities=7%  Similarity=-0.173  Sum_probs=11.5

Q ss_pred             hhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          167 ITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       167 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      .....+...+...|++++|+..|+++.+
T Consensus        44 rA~~~lg~~~~~~g~y~~Ai~~w~~~l~   71 (93)
T 3bee_A           44 AALSLIANDHFISFRFQEAIDTWVLLLD   71 (93)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3333333344444444444444444433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.98  E-value=0.0064  Score=41.28  Aligned_cols=85  Identities=8%  Similarity=-0.077  Sum_probs=61.7

Q ss_pred             CchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccC---CHHHHHHHHHHHHhccCCC--ChhhHHHHHHHHHhcCCHH
Q 023952          144 SHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLG---NKDKIDQIWKSLRMTKQKM--TSRNYICILSSYLMLGHLK  218 (275)
Q Consensus       144 g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~---~~~~a~~~~~~m~~~~~~p--~~~~~~~li~~~~~~g~~~  218 (275)
                      ..+..+.+ .+.+....++ ++..+...+..++++++   +.++++.+|+.+.+.. .|  ....+-.+.-+|.+.|+++
T Consensus        12 ~~l~~~~~-~y~~e~~~~~-~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~-~p~~~rd~lY~LAv~~~kl~~Y~   88 (152)
T 1pc2_A           12 EDLLKFEK-KFQSEKAAGS-VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKG-SKEEQRDYVFYLAVGNYRLKEYE   88 (152)
T ss_dssp             HHHHHHHH-HHHHHHHTTC-CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHS-CHHHHHHHHHHHHHHHHHTSCHH
T ss_pred             HHHHHHHH-HHHHHHccCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcC-CccchHHHHHHHHHHHHHccCHH
Confidence            34555666 5665555554 56677777777888888   5669999999888764 34  2445556777889999999


Q ss_pred             HHHHHHHHHHhcC
Q 023952          219 EVGEIIDQWKQSA  231 (275)
Q Consensus       219 ~a~~~~~~~~~~~  231 (275)
                      +|.++++.+.+..
T Consensus        89 ~A~~y~~~lL~ie  101 (152)
T 1pc2_A           89 KALKYVRGLLQTE  101 (152)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999998853

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.95  E-value=0.0097  Score=37.64  Aligned_cols=70  Identities=13%  Similarity=0.050  Sum_probs=51.7

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCch
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSN------LSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDI   94 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~------~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~   94 (275)
                      +...+..|...+.+.|+++.|...|+...+.-      -.+...++..|..++.+.|+++.|+.++++..+.  .|+.
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l--~P~~   79 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL--DPEH   79 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTC
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc--CCCC
Confidence            45667788888888899999988888765531      1245667788888888888888888888888773  4443

>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=96.90  E-value=0.0059  Score=46.19  Aligned_cols=82  Identities=17%  Similarity=0.135  Sum_probs=39.0

Q ss_pred             CHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHhhcc-----CCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhh-CC
Q 023952           39 WTEKAEELFERVKQSNLSFN---ALMYNEMMTLYMSV-----GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT-LN  109 (275)
Q Consensus        39 ~~~~a~~~~~~m~~~~~~~~---~~~~~~li~~~~~~-----g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~-~~  109 (275)
                      ....|..++++..+.+  |+   ...|..+...|.+.     |+.++|.+.|++..+.+..-+..++......++.. |+
T Consensus       178 ~l~~A~a~lerAleLD--P~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          178 TVHAAVMMLERACDLW--PSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHHHHC--TTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             hHHHHHHHHHHHHHhC--CCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            3444555555544433  33   33455555555542     55555555555555532211234444444555442 55


Q ss_pred             HHHHHHHHHHHhh
Q 023952          110 IDQVKKFLDEMSC  122 (275)
Q Consensus       110 ~~~a~~~~~~~~~  122 (275)
                      .+++.+.+++...
T Consensus       256 ~~~a~~~L~kAL~  268 (301)
T 3u64_A          256 RAGFDEALDRALA  268 (301)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            5555555555554

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.84  E-value=0.029  Score=38.09  Aligned_cols=86  Identities=13%  Similarity=-0.003  Sum_probs=55.0

Q ss_pred             HHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC---chHHHHHHHHHHHHHcc-CCcchhhHHHHHHHHHccCCHHHH
Q 023952          110 IDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS---HLVNAESSTLVEAEKSI-TQRQWITYDFLIILYAGLGNKDKI  185 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a  185 (275)
                      ...+++-|.+.... + +++..+...+..++++++   ++++++. +++.+.+.. +..+...+..+.-+|.+.|++++|
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 LLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRSKYNDDIRKGIV-LLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKA   90 (152)
T ss_dssp             HHHHHHHHHHHHHT-T-CCCHHHHHHHHHHHHTCSSHHHHHHHHH-HHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHH
T ss_pred             HHHHHHHHHHHHcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHH-HHHHHHhcCCccchHHHHHHHHHHHHHccCHHHH
Confidence            34455556655543 2 367777777777777776   5667777 777766654 211334444555677888888888


Q ss_pred             HHHHHHHHhccCCCC
Q 023952          186 DQIWKSLRMTKQKMT  200 (275)
Q Consensus       186 ~~~~~~m~~~~~~p~  200 (275)
                      .+.++.+.+.  .|+
T Consensus        91 ~~y~~~lL~i--eP~  103 (152)
T 1pc2_A           91 LKYVRGLLQT--EPQ  103 (152)
T ss_dssp             HHHHHHHHHH--CTT
T ss_pred             HHHHHHHHhc--CCC
Confidence            8888887774  554

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.81  E-value=0.066  Score=37.28  Aligned_cols=98  Identities=10%  Similarity=0.138  Sum_probs=51.9

Q ss_pred             hccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHH
Q 023952           70 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  149 (275)
Q Consensus        70 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  149 (275)
                      .+.|+++.|.++.+++      -+...|..|.......|+++-|+..|.+...          +..+.-.|.-.|+.+..
T Consensus        16 L~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D----------~~~L~~Ly~~tg~~e~L   79 (177)
T 3mkq_B           16 LEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS----------FDKLSFLYLVTGDVNKL   79 (177)
T ss_dssp             HHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC----------HHHHHHHHHHHTCHHHH
T ss_pred             HhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC----------HHHHHHHHHHhCCHHHH
Confidence            4456666666665554      1455666666666666666666666666543          22444445555665554


Q ss_pred             HHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH
Q 023952          150 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  190 (275)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  190 (275)
                      .+ +-+.....+      -++.....+...|+++++.++|.
T Consensus        80 ~k-la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~  113 (177)
T 3mkq_B           80 SK-MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFA  113 (177)
T ss_dssp             HH-HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HH-HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHH
Confidence            44 322222222      12223334445666666666664

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.63  E-value=0.028  Score=39.17  Aligned_cols=128  Identities=6%  Similarity=0.039  Sum_probs=77.8

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHH
Q 023952           33 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  112 (275)
                      ...+.|+++.|.++.+.+      .+...|..|.....+.|+++-|++.|.....         +..+.-.|.-.|+.+.
T Consensus        14 LAL~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~   78 (177)
T 3mkq_B           14 LALEYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNK   78 (177)
T ss_dssp             HHHHTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHH
T ss_pred             HHHhcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHH
Confidence            345678888888887665      2577888888888888888888888876653         3445555666777776


Q ss_pred             HHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023952          113 VKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSL  192 (275)
Q Consensus       113 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  192 (275)
                      ..++-+..... | ..     +.-...+...|+++++.+ ++.+   .+.-|....      .....|..+.|.++.+++
T Consensus        79 L~kla~iA~~~-g-~~-----n~af~~~l~lGdv~~~i~-lL~~---~~r~~eA~~------~A~t~g~~~~a~~~~~~~  141 (177)
T 3mkq_B           79 LSKMQNIAQTR-E-DF-----GSMLLNTFYNNSTKERSS-IFAE---GGSLPLAYA------VAKANGDEAAASAFLEQA  141 (177)
T ss_dssp             HHHHHHHHHHT-T-CH-----HHHHHHHHHHTCHHHHHH-HHHH---TTCHHHHHH------HHHHTTCHHHHHHHHHHT
T ss_pred             HHHHHHHHHHC-c-cH-----HHHHHHHHHcCCHHHHHH-HHHH---CCChHHHHH------HHHHcCcHHHHHHHHHHh
Confidence            66665555443 2 11     223344556678887777 5543   333322211      112245566666666554

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.56  E-value=0.031  Score=35.24  Aligned_cols=65  Identities=9%  Similarity=0.027  Sum_probs=34.3

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCC------CCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKN------VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~------~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      ++.-+..|...+.+.|+++.|...|++..+.-      -.+....+..+..++.+.|+++.|...++++.+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~   74 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLE   74 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHh
Confidence            34444555555666666666666665554420      012334455555555555666666655555554

>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=96.46  E-value=0.099  Score=35.22  Aligned_cols=116  Identities=9%  Similarity=0.076  Sum_probs=71.0

Q ss_pred             CCCHHHHHHHHHHHHhcCch------HHHHHHHHHHHHHccCCcchhhHHHHHH------HHHccCCHHHHHHHHHHHHh
Q 023952          127 SDDWVKYVNLVNIYITASHL------VNAESSTLVEAEKSITQRQWITYDFLII------LYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       127 ~~~~~~~~~l~~~~~~~g~~------~~a~~~~~~~~~~~~~~~~~~~~~~l~~------~~~~~~~~~~a~~~~~~m~~  194 (275)
                      +.|..+|-..+...-+.|+.      +...+ +|+......++.-...|...|.      .+...++.++|.++|+.+.+
T Consensus        10 p~~yd~W~~yl~llE~~g~p~~d~~l~rlrd-~YerAia~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~   88 (161)
T 4h7y_A           10 ANNPEDWLSLLLKLEKNSVPLSDALLNKLIG-RYSQAIEALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARA   88 (161)
T ss_dssp             CCSHHHHHHHHHHHHHHTCSCCHHHHHHHHH-HHHHHHHHSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHcCCCchhhHHHHHHH-HHHHHHHcCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            45667777777777777888      77777 7777766554322222222221      23445788888888888766


Q ss_pred             ccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHH
Q 023952          195 TKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGA  246 (275)
Q Consensus       195 ~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~  246 (275)
                      .+-.. ...|.....--.+.|++..|.+++......+  +.+.......+.-
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~--~k~~~~le~a~~n  137 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERG--AVPLEMLEIALRN  137 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT--CBCHHHHHHHHHH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccC--CCcHHHHHHHHHh
Confidence            53333 5555555555567888888888888877754  2344444444443

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.45  E-value=0.096  Score=34.62  Aligned_cols=68  Identities=15%  Similarity=-0.014  Sum_probs=45.5

Q ss_pred             chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952           93 DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus        93 ~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      +.......++.+...|+-++-.+++..+..  ..+|++.....+..+|.+.|+..+|.+ ++.++-+.|.+
T Consensus        90 ~se~vd~ALd~lv~~~KkDqLdki~~~~l~--n~~~~~~~l~kia~Ay~Klg~~r~a~e-Ll~~AC~kG~k  157 (172)
T 1wy6_A           90 LNEHVNKALDILVIQGKRDKLEEIGREILK--NNEVSASILVAIANALRRVGDERDATT-LLIEACKKGEK  157 (172)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTTCH
T ss_pred             hHHHHHHHHHHHHHhccHhHHHHHHHHHhc--cCCCChHHHHHHHHHHHHhcchhhHHH-HHHHHHHhhhH
Confidence            334555666777777777777777777544  346677777777777777777777777 67666666643

>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=96.35  E-value=0.12  Score=34.78  Aligned_cols=104  Identities=7%  Similarity=-0.088  Sum_probs=70.9

Q ss_pred             chhhHHHHHHHHHhhCCH------HHHHHHHHHHhhcCCCCCCHH----HHHHHHHHH---HhcCchHHHHHHHHHHHHH
Q 023952           93 DIFTYNLWISSCAATLNI------DQVKKFLDEMSCDSGGSDDWV----KYVNLVNIY---ITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        93 ~~~~~~~ll~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~---~~~g~~~~a~~~~~~~~~~  159 (275)
                      |..+|-..+...-+.|+.      +...++|++...  .+||+..    .|--|.--|   ...++.++|.+ +|+.+.+
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~-vy~~a~~   88 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARD-YFQMARA   88 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHH-HHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHH-HHHHHHH
Confidence            566777888888878888      888888888887  4566532    222222222   23578888888 8888866


Q ss_pred             ccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC
Q 023952          160 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT  200 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  200 (275)
                      .+..- ...|-....--.+.|+..+|.+++......+..|.
T Consensus        89 ~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k~~  128 (161)
T 4h7y_A           89 NCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAVPL  128 (161)
T ss_dssp             HCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCBCH
T ss_pred             HhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCCcH
Confidence            54333 66666666666778899999999888777654443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.23  E-value=1.6e-05  Score=64.14  Aligned_cols=96  Identities=11%  Similarity=0.139  Sum_probs=57.3

Q ss_pred             cChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEE   84 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~   84 (275)
                      ++++.|.++-++..    .+.+|..|..+..+.+++.+|++.|-   +.+   |+..|..+|....+.|.+++-+.++..
T Consensus        39 ~~ldRa~eyA~~~n----~p~VWs~LgkAqL~~~~v~eAIdsyI---kA~---Dps~y~eVi~~A~~~~~~edLv~yL~M  108 (624)
T 3lvg_A           39 GNLDRAYEFAERCN----EPAVWSQLAKAQLQKGMVKEAIDSYI---KAD---DPSSYMEVVQAANTSGNWEELVKYLQM  108 (624)
T ss_dssp             CCSTTTTTSSSSCC----CCCCSSSHHHHTTTSSSCTTTTTSSC---CCS---CCCSSSHHHHHTTTSSCCTTHHHHHHT
T ss_pred             cccHHHHHHHHHhC----CccHHHHHHHHHHccCchHHHHHHHH---hCC---ChHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            34555555444433    34567777777777777777766552   222   456677777777777777777777755


Q ss_pred             HhhCCCCCchhhHHHHHHHHHhhCCHHH
Q 023952           85 IKRKNVVPDIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        85 m~~~~~~p~~~~~~~ll~~~~~~~~~~~  112 (275)
                      .++.--  ++..=+.|+-+|++.++..+
T Consensus       109 aRk~~k--e~~IDteLi~ayAk~~rL~e  134 (624)
T 3lvg_A          109 ARKKAR--ESYVETELIFALAKTNRLAE  134 (624)
T ss_dssp             TSTTCC--STTTTHHHHHHHHTSCSSST
T ss_pred             HHHHhc--ccccHHHHHHHHHhhCcHHH
Confidence            544422  33344567777777766544

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=96.17  E-value=0.053  Score=35.41  Aligned_cols=92  Identities=9%  Similarity=-0.034  Sum_probs=58.0

Q ss_pred             HHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHH---HHHHHHHHHhccCCC--ChhhHHHHHHHH
Q 023952          137 VNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDK---IDQIWKSLRMTKQKM--TSRNYICILSSY  211 (275)
Q Consensus       137 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~---a~~~~~~m~~~~~~p--~~~~~~~li~~~  211 (275)
                      +..-.....+..+.+ .+......+. ++..+-..+..++.++.+...   ++.+++.+...+ .|  .....-.+.-++
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            344444445555555 5555544443 455555566667777776665   777888776653 23  223344566778


Q ss_pred             HhcCCHHHHHHHHHHHHhcC
Q 023952          212 LMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       212 ~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .+.|++++|.+.++.+.+..
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            88899999998888888753

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=96.13  E-value=0.11  Score=45.01  Aligned_cols=53  Identities=13%  Similarity=-0.107  Sum_probs=38.3

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 023952          209 SSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       209 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      .-+...|+++.|.++-++.....  +.+..+|..|..+|...|+++.|+-.++-+
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            34556777888888777776642  456777888888888888888887777665

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.05  E-value=0.76  Score=41.01  Aligned_cols=254  Identities=10%  Similarity=0.011  Sum_probs=136.6

Q ss_pred             cccChhhHHHHhhccccCC--CC--HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-------CCCHHHHHHHHHHhhc
Q 023952            3 KVFGIHSGERYFEGLPLSA--KT--SETYTALLHLYAGAKWTEKAEELFERVKQSNL-------SFNALMYNEMMTLYMS   71 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~--~~--~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-------~~~~~~~~~li~~~~~   71 (275)
                      ..|+.++++.+++......  .+  ...-..+.-+.+..|..+++..++.......-       .+....-.++.-+.+-
T Consensus       386 h~g~~~~gl~~L~~yL~~~~s~~~~ik~GAllaLGli~ag~~~~~~~lL~~~L~~~~~~~~~~~~~~ir~gAaLGLGla~  465 (963)
T 4ady_A          386 HKGNLLEGKKVMAPYLPGSRASSRFIKGGSLYGLGLIYAGFGRDTTDYLKNIIVENSGTSGDEDVDVLLHGASLGIGLAA  465 (963)
T ss_dssp             TSSCTTTHHHHHTTTSTTSCCSCHHHHHHHHHHHHHHTTTTTHHHHHHHHHHHHHHSSCCSCHHHHHHHHHHHHHHHHHS
T ss_pred             ccCchHHHHHHHHHhccccCCCcHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHcCccccccccccHHHHHHHHHHHHHHh
Confidence            4577888888888766421  22  23333344455566665677777776554320       0112222333333333


Q ss_pred             cCC-HHHHHHHHHHHhhCCCCCchhhHH--HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHH
Q 023952           72 VGQ-VEKVALVVEEIKRKNVVPDIFTYN--LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN  148 (275)
Q Consensus        72 ~g~-~~~a~~~~~~m~~~~~~p~~~~~~--~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  148 (275)
                      .|. -+++.+.+..+....- +......  .+...+.-.|+.+....++..+...  ...++.-..++.-++...|+.+.
T Consensus       466 ~GS~~eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~--~~e~vrR~aalgLGll~~g~~e~  542 (963)
T 4ady_A          466 MGSANIEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQET--QHGNITRGLAVGLALINYGRQEL  542 (963)
T ss_dssp             TTCCCHHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTCGGG
T ss_pred             cCCCCHHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhcc--CcHHHHHHHHHHHHhhhCCChHH
Confidence            342 2455666666655321 1111122  2333355667877777777776653  12222223333344446788888


Q ss_pred             HHHHHHHHHHHccCCcchhhH--HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHH
Q 023952          149 AESSTLVEAEKSITQRQWITY--DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQ  226 (275)
Q Consensus       149 a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~  226 (275)
                      +.. +++.+... ..|....-  .++.-+|+..|+.....+++..+.+.. ..+......+.-++...|+.+.+.+++..
T Consensus       543 ~~~-li~~L~~~-~dp~vRygaa~alglAyaGTGn~~aIq~LL~~~~~d~-~d~VRraAViaLGlI~~g~~e~v~rlv~~  619 (963)
T 4ady_A          543 ADD-LITKMLAS-DESLLRYGGAFTIALAYAGTGNNSAVKRLLHVAVSDS-NDDVRRAAVIALGFVLLRDYTTVPRIVQL  619 (963)
T ss_dssp             GHH-HHHHHHHC-SCHHHHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTSSSCSSHHHHTTT
T ss_pred             HHH-HHHHHHhC-CCHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHhccCC-cHHHHHHHHHHHHhhccCCHHHHHHHHHH
Confidence            888 66666542 23332222  234456788899888888888877542 22333333344455556776667777766


Q ss_pred             HHhcCCCCCCHHHHHHHHHHHHhcCCh-HHHHHHHHHHH
Q 023952          227 WKQSATSDFDISACNRLLGAFSDVGLT-EKANEFHMLLL  264 (275)
Q Consensus       227 ~~~~~~~~~~~~~~~~li~~~~~~g~~-~~a~~~~~~m~  264 (275)
                      +.+.+  .|.+..-..+.-+....|.. .++..++..+.
T Consensus       620 L~~~~--d~~VR~gAalALGli~aGn~~~~aid~L~~L~  656 (963)
T 4ady_A          620 LSKSH--NAHVRCGTAFALGIACAGKGLQSAIDVLDPLT  656 (963)
T ss_dssp             GGGCS--CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHH
T ss_pred             HHhcC--CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHc
Confidence            65543  46666555555555555543 45666776665

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.91  E-value=0.075  Score=46.14  Aligned_cols=128  Identities=10%  Similarity=0.060  Sum_probs=83.0

Q ss_pred             HHHHHHHHHcCCC-HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC-CHHHHHHHHHHHhhC------CCCC-ch---
Q 023952           27 YTALLHLYAGAKW-TEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKRK------NVVP-DI---   94 (275)
Q Consensus        27 ~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~------~~~p-~~---   94 (275)
                      -..++..+...|+ .+.|..+|+.+.......+......++..+.+.+ +--+|.+++.+..+.      ...+ +.   
T Consensus       251 ~~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~  330 (754)
T 4gns_B          251 MYSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSA  330 (754)
T ss_dssp             HHHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHH
T ss_pred             HHHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhcccccccc
Confidence            3455666666777 5889999999988752122223334444444443 223455555554321      1111 11   


Q ss_pred             -------hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952           95 -------FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus        95 -------~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                             .....-...|...|+++.|+++-++....  .|.+-.+|..|..+|.+.|+++.|+- .++.+
T Consensus       331 ~~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~--aPseF~tW~~La~vYi~l~d~e~ALL-tLNSc  397 (754)
T 4gns_B          331 RLMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTEL--ALDSFESWYNLARCHIKKEEYEKALF-AINSM  397 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSSCHHHHHHHHHHHHHTTCHHHHHH-HHHHS
T ss_pred             cccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhc--CchhhHHHHHHHHHHHHhccHHHHHH-HHhcC
Confidence                   12222344577889999999999999884  46678899999999999999999998 66654

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.77  E-value=0.17  Score=32.97  Aligned_cols=96  Identities=11%  Similarity=-0.031  Sum_probs=60.6

Q ss_pred             HHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHH---HHHHHHHHHHHcc-CCcchhhHHHHHHH
Q 023952          100 WISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVN---AESSTLVEAEKSI-TQRQWITYDFLIIL  175 (275)
Q Consensus       100 ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~~-~~~~~~~~~~l~~~  175 (275)
                      ++..-.....+..+.+-|.+.... + .++..+-..+..++.++.....   ++. ++..+.... +.........|.-+
T Consensus         7 ~l~~~~~~~~l~~~~~~y~~e~~~-~-~~s~~~~F~yAw~Lv~S~~~~d~~~GI~-lLe~l~~~~~p~~~Rd~lY~LAvg   83 (126)
T 1nzn_A            7 VLNELVSVEDLLKFEKKFQSEKAA-G-SVSKSTQFEYAWCLVRTRYNDDIRKGIV-LLEELLPKGSKEEQRDYVFYLAVG   83 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHH-S-CCCHHHHHHHHHHHTTSSSHHHHHHHHH-HHHHHTTTSCHHHHHHHHHHHHHH
T ss_pred             HHhccCCHHHHHHHHHHHHHHhcc-C-CCcHHHHHHHHHHHHcCCCHHHHHHHHH-HHHHHHhcCCcchHHHHHHHHHHH
Confidence            344444445566666667666554 3 3777777777778887776655   666 666665554 11122333455567


Q ss_pred             HHccCCHHHHHHHHHHHHhccCCCC
Q 023952          176 YAGLGNKDKIDQIWKSLRMTKQKMT  200 (275)
Q Consensus       176 ~~~~~~~~~a~~~~~~m~~~~~~p~  200 (275)
                      +.+.|++++|.+.++.+.+.  .|+
T Consensus        84 ~yklg~Y~~A~~~~~~lL~~--eP~  106 (126)
T 1nzn_A           84 NYRLKEYEKALKYVRGLLQT--EPQ  106 (126)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH--CTT
T ss_pred             HHHhhhHHHHHHHHHHHHHh--CCC
Confidence            88888888888888888774  554

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.58  E-value=0.75  Score=37.47  Aligned_cols=50  Identities=10%  Similarity=0.117  Sum_probs=27.8

Q ss_pred             CCHHHHHHHHHHHHh-----CCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhh
Q 023952           38 KWTEKAEELFERVKQ-----SNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR   87 (275)
Q Consensus        38 g~~~~a~~~~~~m~~-----~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   87 (275)
                      |+++.|.+.+..+.+     .+..-+......++..|...|+++...+.+..+.+
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lsk   84 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSK   84 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHH
Confidence            556666665544432     12333455566666666666766666665554443

>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=95.52  E-value=0.082  Score=42.26  Aligned_cols=69  Identities=9%  Similarity=-0.018  Sum_probs=37.4

Q ss_pred             HHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh----cCCCCCCHHH
Q 023952           63 NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVK  132 (275)
Q Consensus        63 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  132 (275)
                      ..++..+...|++++++..+..+..... -+...+..+|.++.+.|+..+|...|+...+    .-|+.|+..+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~P-~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l  247 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEHP-YREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  247 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHST-TCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHH
Confidence            3445555556666666666655554322 2445566666666666666666666655433    1255555554

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=95.50  E-value=0.55  Score=43.29  Aligned_cols=188  Identities=11%  Similarity=-0.003  Sum_probs=106.9

Q ss_pred             HHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCC-----------------
Q 023952           66 MTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSD-----------------  128 (275)
Q Consensus        66 i~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------------  128 (275)
                      +..+...+..+-+.++..-..     -++..--.+..++...|++++|..+|.+...  ++..                 
T Consensus       819 ~~~l~~~~~~~~~~~l~~~~~-----~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~--~~~~~~~l~~~~~~~~~~~~~  891 (1139)
T 4fhn_B          819 VEKLFLFKQYNACMQLIGWLN-----SDPIAVYLKALIYLKSKEAVKAVRCFKTTSL--VLYSHTSQFAVLREFQEIAEK  891 (1139)
T ss_dssp             HHHHHHHSCTTHHHHHHHHSC-----CCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC--SCTTCCCSCSSHHHHHHHHHT
T ss_pred             HHHHHHhhhHHHHHHHhhhcc-----CCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hhcccchhhhhhccccccccc
Confidence            334444455554444332221     1333333455667788888888888877533  1111                 


Q ss_pred             ------CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc----hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC
Q 023952          129 ------DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ----WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK  198 (275)
Q Consensus       129 ------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~  198 (275)
                            -..-|..++..+.+.+.++.+.+ +-..........+    ...|..+...+...|++++|...+-.+..... 
T Consensus       892 ~~~~~~l~~YY~hv~~LFe~~~~~~~vi~-fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~-  969 (1139)
T 4fhn_B          892 YHHQNLLSCYYLHLSKKLFEESAYIDALE-FSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPL-  969 (1139)
T ss_dssp             TTSCCSSHHHHHHHHHHHHHTSCCHHHHH-HHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSS-
T ss_pred             ccccccHHHHHHHHHHHHHHcCCHHHHHH-HHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHH-
Confidence                  11235677788888899998888 5554444332212    12578888899999999999998877765433 


Q ss_pred             CChhhHHHHHHHHHhcCCHH------------HHHHHHHHHHhcC-CCCCCHHHHHHHHHHHHhcCChHHHHHH-HHHH
Q 023952          199 MTSRNYICILSSYLMLGHLK------------EVGEIIDQWKQSA-TSDFDISACNRLLGAFSDVGLTEKANEF-HMLL  263 (275)
Q Consensus       199 p~~~~~~~li~~~~~~g~~~------------~a~~~~~~~~~~~-~~~~~~~~~~~li~~~~~~g~~~~a~~~-~~~m  263 (275)
                       -......++...+..|..+            +..+++..-.+.. .+...+..|..|-.-+...|++..|-.+ |+.+
T Consensus       970 -r~~cLr~LV~~lce~~~~~~L~~lpf~gl~~~Vd~IL~~kAr~~~~~~~~p~Yy~iLYs~ri~r~dyR~AA~vmYe~~ 1047 (1139)
T 4fhn_B          970 -KKSCLLDFVNQLTKQGKINQLLNYSMPTLRQDVDNLLERKAFQMINVESQPCWYNILFSWRYKHQNYRDAAAIIYEKL 1047 (1139)
T ss_dssp             -CHHHHHHHHHHHHHHCCHHHHHHHTTTSCHHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             -HHHHHHHHHHHHHhCCChhhhhCCCCccHHHHHHHHHHHHHHhCCccccCCCHHHHhHhhhhccCChHHHHHHHHHHH
Confidence             3445666777666665543            3333443222111 1112223466666666777777666544 4443

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=94.69  E-value=1.4  Score=40.57  Aligned_cols=24  Identities=21%  Similarity=0.124  Sum_probs=13.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFER   49 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~   49 (275)
                      .--.+..+|...|++++|.+.|++
T Consensus       844 ~~yl~g~~~L~~ge~~~A~~~F~k  867 (1139)
T 4fhn_B          844 AVYLKALIYLKSKEAVKAVRCFKT  867 (1139)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHH
Confidence            334444555566666666666654

>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=94.62  E-value=0.25  Score=39.45  Aligned_cols=57  Identities=5%  Similarity=0.025  Sum_probs=28.7

Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHH
Q 023952          170 DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQW  227 (275)
Q Consensus       170 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~  227 (275)
                      ..++..+...|+++++...+..+.... +.+...+..+|.++.+.|+..+|.+.|+.+
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~~-P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            334444555555555555555544331 224445555555555555555555555554

>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=94.61  E-value=0.44  Score=29.55  Aligned_cols=63  Identities=10%  Similarity=-0.002  Sum_probs=46.3

Q ss_pred             CHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023952          181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  245 (275)
Q Consensus       181 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  245 (275)
                      +.-++.+-++.+....+.|++....+.+++|.|.+++..|.++|+-++.+...  ...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~~--~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--chhhHHHHHH
Confidence            44456666777777778888888888888888889998898888888776543  2334655553

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=94.59  E-value=2.9e-05  Score=62.58  Aligned_cols=183  Identities=10%  Similarity=0.045  Sum_probs=121.6

Q ss_pred             CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           58 NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        58 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      .+..|..|..+..+.+++.+|++-|  ++.    -|+..|..++.+..+.|.+++-..++...++. .-.|  .+=+.|+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsy--IkA----~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~-~ke~--~IDteLi  123 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSY--IKA----DDPSSYMEVVQAANTSGNWEELVKYLQMARKK-ARES--YVETELI  123 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSS--CCC----SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTT-CCST--TTTHHHH
T ss_pred             CccHHHHHHHHHHccCchHHHHHHH--HhC----CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHH-hccc--ccHHHHH
Confidence            4567889999999999988888766  222    25667889999999999999999998877765 3344  4445899


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc--------------------C
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK--------------------Q  197 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~--------------------~  197 (275)
                      -+|++.+++.+.++ ++       ..||..-...+.+-|...|.++.|.-+|..+....                    -
T Consensus       124 ~ayAk~~rL~elEe-fl-------~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArK  195 (624)
T 3lvg_A          124 FALAKTNRLAELEE-FI-------NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARK  195 (624)
T ss_dssp             HHHHTSCSSSTTTS-TT-------SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTT
T ss_pred             HHHHhhCcHHHHHH-HH-------cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHh
Confidence            99999999888766 22       23555555667777777777777766665432111                    1


Q ss_pred             CCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 023952          198 KMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       198 ~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      .-+..||-.+-.+|...+.+..|.-.--.+.-    .+|.  ...++.-|-+.|.+++-..+++.-
T Consensus       196 Ans~ktWKeV~~ACvd~~EfrLAqicGLniIv----hade--L~elv~~YE~~G~f~ELIsLlEag  255 (624)
T 3lvg_A          196 ANSTRTWKEVCFACVDGKEFRLAQMCGLHIVV----HADE--LEELINYYQDRGYFEELITMLEAA  255 (624)
T ss_dssp             CCSSCSHHHHTHHHHHSCTTTTTTHHHHHHHC----CSSC--CSGGGSSSSTTCCCTTSTTTHHHH
T ss_pred             cCChhHHHHHHHHHhCchHHHHHHHhcchhcc----cHHH--HHHHHHHHHhCCCHHHHHHHHHHH
Confidence            23455677777777777776666554444332    1221  122455666777777666666543

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=94.52  E-value=2.2  Score=38.19  Aligned_cols=187  Identities=9%  Similarity=-0.010  Sum_probs=107.4

Q ss_pred             HcCCCHHHHHHHHHHHHhCCCCCCHHHH--HHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHH
Q 023952           35 AGAKWTEKAEELFERVKQSNLSFNALMY--NEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        35 ~~~g~~~~a~~~~~~m~~~~~~~~~~~~--~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~  112 (275)
                      ...++ +++.+.+..+....- +.....  -+|...+.-.|+-+-...++..+.+.. .-+..-+..+.-++.-.|+.+.
T Consensus       466 ~GS~~-eev~e~L~~~L~dd~-~~~~~~AalALGli~vGTgn~~ai~~LL~~~~e~~-~e~vrR~aalgLGll~~g~~e~  542 (963)
T 4ady_A          466 MGSAN-IEVYEALKEVLYNDS-ATSGEAAALGMGLCMLGTGKPEAIHDMFTYSQETQ-HGNITRGLAVGLALINYGRQEL  542 (963)
T ss_dssp             TTCCC-HHHHHHHHHHHHTCC-HHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHCS-CHHHHHHHHHHHHHHTTTCGGG
T ss_pred             cCCCC-HHHHHHHHHHHhcCC-HHHHHHHHHHHhhhhcccCCHHHHHHHHHHHhccC-cHHHHHHHHHHHHhhhCCChHH
Confidence            33444 456666666554331 111112  233344567788888888888777642 1122222333333457789999


Q ss_pred             HHHHHHHHhhcCCCCCCHHHH--HHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHH
Q 023952          113 VKKFLDEMSCDSGGSDDWVKY--VNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWK  190 (275)
Q Consensus       113 a~~~~~~~~~~~~~~~~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  190 (275)
                      +..+.+.+...  ..|...--  .++.-+|+..|+.....+ ++..+... ...++.-.-.+.-++...|+.+.+.++++
T Consensus       543 ~~~li~~L~~~--~dp~vRygaa~alglAyaGTGn~~aIq~-LL~~~~~d-~~d~VRraAViaLGlI~~g~~e~v~rlv~  618 (963)
T 4ady_A          543 ADDLITKMLAS--DESLLRYGGAFTIALAYAGTGNNSAVKR-LLHVAVSD-SNDDVRRAAVIALGFVLLRDYTTVPRIVQ  618 (963)
T ss_dssp             GHHHHHHHHHC--SCHHHHHHHHHHHHHHTTTSCCHHHHHH-HHHHHHHC-SCHHHHHHHHHHHHHHTSSSCSSHHHHTT
T ss_pred             HHHHHHHHHhC--CCHHHHHHHHHHHHHHhcCCCCHHHHHH-HHHHhccC-CcHHHHHHHHHHHHhhccCCHHHHHHHHH
Confidence            99999988864  22333222  234456778889877777 66666543 23344433344445666778777888887


Q ss_pred             HHHhccCCCChhhHHHHHHHHHhcCCH-HHHHHHHHHHHh
Q 023952          191 SLRMTKQKMTSRNYICILSSYLMLGHL-KEVGEIIDQWKQ  229 (275)
Q Consensus       191 ~m~~~~~~p~~~~~~~li~~~~~~g~~-~~a~~~~~~~~~  229 (275)
                      .+.+.+ .|....-..+..+....|+. .++.+.+..+..
T Consensus       619 ~L~~~~-d~~VR~gAalALGli~aGn~~~~aid~L~~L~~  657 (963)
T 4ady_A          619 LLSKSH-NAHVRCGTAFALGIACAGKGLQSAIDVLDPLTK  657 (963)
T ss_dssp             TGGGCS-CHHHHHHHHHHHHHHTSSSCCHHHHHHHHHHHT
T ss_pred             HHHhcC-CHHHHHHHHHHHHHhccCCCcHHHHHHHHHHcc
Confidence            666543 55554444555555555554 567888888865

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.26  E-value=1.8  Score=35.22  Aligned_cols=253  Identities=11%  Similarity=0.057  Sum_probs=145.7

Q ss_pred             cChhhHHHHhhccccC------C-CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHh-CCCCCCHHH--HHHHHHHhhccCC
Q 023952            5 FGIHSGERYFEGLPLS------A-KTSETYTALLHLYAGAKWTEKAEELFERVKQ-SNLSFNALM--YNEMMTLYMSVGQ   74 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~------~-~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~-~~~~~~~~~--~~~li~~~~~~g~   74 (275)
                      |+++.|++.+-.+...      . .+......++..|...|+++...+.+..+.. +|..+...+  .+.++........
T Consensus        30 ~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~~  109 (445)
T 4b4t_P           30 NDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSKS  109 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHCT
T ss_pred             CCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCCc
Confidence            6778888776544321      1 2577788899999999999999888776654 443333322  1223333333333


Q ss_pred             HHH--HHHHHHHHhhCCCCCchh--------hHHHHHHHHHhhCCHHHHHHHHHHHhhc-CCCCCC---HHHHHHHHHHH
Q 023952           75 VEK--VALVVEEIKRKNVVPDIF--------TYNLWISSCAATLNIDQVKKFLDEMSCD-SGGSDD---WVKYVNLVNIY  140 (275)
Q Consensus        75 ~~~--a~~~~~~m~~~~~~p~~~--------~~~~ll~~~~~~~~~~~a~~~~~~~~~~-~~~~~~---~~~~~~l~~~~  140 (275)
                      .+.  -+.+.+.+.  .+.....        ....|...+...|++.+|..++..+... .+..+.   ...+...++.|
T Consensus       110 ~d~~~~~~~i~~l~--~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~  187 (445)
T 4b4t_P          110 LDLNTRISVIETIR--VVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELS  187 (445)
T ss_dssp             THHHHHHHHHHCCS--SSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHH--HHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHH
Confidence            322  222222221  2222211        1245677788899999999999987653 222222   24566778888


Q ss_pred             HhcCchHHHHHHHHHHHHH----ccCCcc--hhhHHHHHHHHHccCCHHHHHHHHHHHHhc-cCCCChhhHH----HHHH
Q 023952          141 ITASHLVNAESSTLVEAEK----SITQRQ--WITYDFLIILYAGLGNKDKIDQIWKSLRMT-KQKMTSRNYI----CILS  209 (275)
Q Consensus       141 ~~~g~~~~a~~~~~~~~~~----~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-~~~p~~~~~~----~li~  209 (275)
                      ...+++..|.. ++..+..    ..+.|+  ...+...+..+...+++.+|...|.++.+. ...-+...+.    .++.
T Consensus       188 l~~~d~~~a~~-~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~  266 (445)
T 4b4t_P          188 ILKGDYSQATV-LSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVY  266 (445)
T ss_dssp             HHHTCHHHHHH-HHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHH-HHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHH
Confidence            89999999988 7776542    222232  234566677778888998888887776542 1111222222    2333


Q ss_pred             HHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcC--ChHHHHHHHH
Q 023952          210 SYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG--LTEKANEFHM  261 (275)
Q Consensus       210 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~  261 (275)
                      +..-.+..+.-..++........ -++...|..++.+|....  +++.+.+.|.
T Consensus       267 ~~iLa~~~~~~~~ll~~~~~~~~-~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~  319 (445)
T 4b4t_P          267 FLVLSPYGNLQNDLIHKIQNDNN-LKKLESQESLVKLFTTNELMRWPIVQKTYE  319 (445)
T ss_dssp             HHHHSSCSSTTHHHHHSHHHHSS-CHHHHHHHHHHHHHHHCCSSSHHHHHHHTC
T ss_pred             HHHhCCCCchHHHHHHHHhhccc-ccccHHHHHHHHHHHhchHhhhHHHHHHHH
Confidence            33344444455555555555443 256677888888887753  4455544443

>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=93.51  E-value=2.3  Score=33.90  Aligned_cols=163  Identities=10%  Similarity=-0.011  Sum_probs=82.9

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhC-CCCC---CHHHHHHHHHHhhcc-CCHHHHHHHHHHHhhCCCCCchhhH--
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQS-NLSF---NALMYNEMMTLYMSV-GQVEKVALVVEEIKRKNVVPDIFTY--   97 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~-~~~~---~~~~~~~li~~~~~~-g~~~~a~~~~~~m~~~~~~p~~~~~--   97 (275)
                      .+...|...|.+.|+.++...++...... +..|   ..-..+.++..+... +..+.-.++..+..+..-. ...+|  
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~r~flr   98 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQ-EKRTFLR   98 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHH-TTCHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHH-HHHHHHH
Confidence            45666777888888888877777765432 1111   233456666666553 3344444444444331100 11233  


Q ss_pred             ----HHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC-----HHHHHHHHHHHHhcCchHHHHHHHHHHHHHcc----CCc
Q 023952           98 ----NLWISSCAATLNIDQVKKFLDEMSCDSGGSDD-----WVKYVNLVNIYITASHLVNAESSTLVEAEKSI----TQR  164 (275)
Q Consensus        98 ----~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~  164 (275)
                          .-++..|...|++.+|.+++.++.+. --..|     ..++..-+..|...+++.++.. .+.......    ++|
T Consensus        99 ~~l~~kL~~l~~~~~~y~~a~~~i~~l~~~-~~~~dd~~~llev~lle~~~~~~~~n~~k~k~-~l~~a~~~~~ai~~~p  176 (394)
T 3txn_A           99 QSLEARLIALYFDTALYTEALALGAQLLRE-LKKLDDKNLLVEVQLLESKTYHALSNLPKARA-ALTSARTTANAIYCPP  176 (394)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-HTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHSCCCH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHH-HhccccchhHHHHHHHHHHHHHHhccHHHHHH-HHHHHHhhhccCCCCH
Confidence                14566677777777777776666553 11111     1234455556666677777766 555544321    122


Q ss_pred             chhhH--HHHHHHHH-ccCCHHHHHHHHH
Q 023952          165 QWITY--DFLIILYA-GLGNKDKIDQIWK  190 (275)
Q Consensus       165 ~~~~~--~~l~~~~~-~~~~~~~a~~~~~  190 (275)
                      .....  ..-...+. ..+++.+|...|-
T Consensus       177 ~i~a~i~~~~Gi~~l~~~rdyk~A~~~F~  205 (394)
T 3txn_A          177 KVQGALDLQSGILHAADERDFKTAFSYFY  205 (394)
T ss_dssp             HHHHHHHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHhccCHHHHHHHHH
Confidence            21111  11122344 5666666666663

>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=93.15  E-value=0.92  Score=28.17  Aligned_cols=63  Identities=8%  Similarity=0.132  Sum_probs=40.1

Q ss_pred             CHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           74 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      +.-++.+-++.+...++.|++....+.+++|-+.+++..|..+|+-++..-  .+...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~--~~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh--cCchhhHHHHHH
Confidence            444566666666666777777777777777777777777777777766542  233344555544

>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=93.04  E-value=1.3  Score=31.54  Aligned_cols=53  Identities=8%  Similarity=-0.068  Sum_probs=38.6

Q ss_pred             cCCHHHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          179 LGNKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       179 ~~~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .+....+.++|..|...|+.... ..|......+...|++.+|.++|+.-.+.+
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~  145 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENN  145 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            34466788888888877776543 446677777778888888888888877765

>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=93.03  E-value=1.2  Score=29.39  Aligned_cols=61  Identities=10%  Similarity=-0.012  Sum_probs=46.5

Q ss_pred             HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHH
Q 023952          183 DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLG  245 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~  245 (275)
                      -+..+-++.+....+.|++......+++|.|.+++..|.++|+-++.+...  ....|..+++
T Consensus        70 wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~~~--~~~iY~y~lq  130 (152)
T 2y69_E           70 WELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHHH
T ss_pred             HHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhcCC--chhhHHHHHH
Confidence            345566666777778899999999999999999999999999988876543  3445665653

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=92.35  E-value=1.8  Score=35.02  Aligned_cols=101  Identities=13%  Similarity=0.094  Sum_probs=60.7

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCC--CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH--
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNV--VPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL--  136 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~--~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--  136 (275)
                      ++..+...|.+.|++++|.+.|.++.....  .--...+-.++..+...+++..+...+.++.....-.+++...+.+  
T Consensus       133 ~~~~la~~~~~~Gd~~~A~~~~~~~~~~~~~~~~kid~~l~~irl~l~~~d~~~~~~~~~ka~~~~~~~~d~~~~~~lk~  212 (429)
T 4b4t_R          133 AWINLGEYYAQIGDKDNAEKTLGKSLSKAISTGAKIDVMLTIARLGFFYNDQLYVKEKLEAVNSMIEKGGDWERRNRYKT  212 (429)
T ss_dssp             CCHHHHHHHHHHCCCTTHHHHHHHHHHHHTCCCSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTCCCTHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHhhhcCCCHHHHHHHHH
Confidence            456677777888888888888888876422  2234556667777888888888888877765421112333222111  


Q ss_pred             --HHHHHhcCchHHHHHHHHHHHHHccC
Q 023952          137 --VNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus       137 --~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                        ...+...+++..|-+ .|.+......
T Consensus       213 ~~gl~~l~~r~f~~Aa~-~f~e~~~t~~  239 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAK-LLVDSLATFT  239 (429)
T ss_dssp             HHHHGGGGTSCHHHHHH-HHHHHHHHSC
T ss_pred             HHHHHHHHhChHHHHHH-HHHHHhccCC
Confidence              111234677777777 6655554433

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=92.12  E-value=1.7  Score=32.53  Aligned_cols=54  Identities=13%  Similarity=0.091  Sum_probs=34.4

Q ss_pred             HHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhh
Q 023952           33 LYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR   87 (275)
Q Consensus        33 ~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   87 (275)
                      ...+.|++++|+.....-++.. |-|...-..++..+|-.|++++|.+-++...+
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~   59 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   59 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            3456666777766666655553 45566666666667777777777766666665

>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=91.44  E-value=0.58  Score=28.92  Aligned_cols=88  Identities=10%  Similarity=0.067  Sum_probs=56.3

Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHH
Q 023952           37 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF  116 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  116 (275)
                      ....++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+    ..||...|..|..  .+.|..+++..-
T Consensus        20 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~r   91 (116)
T 2p58_C           20 NHYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKL----AYPDLEPWLALCE--YRLGLGSALESR   91 (116)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTS----CCGGGHHHHHHHH--HHHTCHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHH
Confidence            3457888888887777652  2222222334567788999888877544    3688888776644  477788888887


Q ss_pred             HHHHhhcCCCCCCHHHHH
Q 023952          117 LDEMSCDSGGSDDWVKYV  134 (275)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~  134 (275)
                      +..+..+ | .|....|.
T Consensus        92 L~~la~s-g-~p~~q~Fa  107 (116)
T 2p58_C           92 LNRLARS-Q-DPRIQTFV  107 (116)
T ss_dssp             HHHHTTC-C-CHHHHHHH
T ss_pred             HHHHHhC-C-CHHHHHHH
Confidence            7777665 3 34444443

>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=91.18  E-value=2.2  Score=28.12  Aligned_cols=63  Identities=8%  Similarity=0.132  Sum_probs=46.1

Q ss_pred             CHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 023952           74 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVN  138 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  138 (275)
                      +.-+..+-++.+...++.|++......+++|-+.+|+..|..+|+-++..-  .+...+|..+++
T Consensus        68 D~wElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~--~~~~~iY~y~lq  130 (152)
T 2y69_E           68 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA--GPHKEIYPYVIQ  130 (152)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT--TTCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc--CCchhhHHHHHH
Confidence            444566777777777888888888888888888888888888888877742  344555665554

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.11  E-value=1.4  Score=30.27  Aligned_cols=60  Identities=5%  Similarity=-0.202  Sum_probs=39.7

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHcc-CCcch-------hhHHHHHHHHHccCCHHHHHHHHHHHH
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSI-TQRQW-------ITYDFLIILYAGLGNKDKIDQIWKSLR  193 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~-------~~~~~l~~~~~~~~~~~~a~~~~~~m~  193 (275)
                      +..-+..+...|.++.|+- +...+.... ..|+.       .++..+.+++...+++.+|...|++..
T Consensus        23 l~dqik~L~d~~LY~sA~~-La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qAL   90 (167)
T 3ffl_A           23 VIDHVRDMAAAGLHSNVRL-LSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMAL   90 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHH-HHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHH-HHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            4455666778888888887 555543322 23332       244566778888888999988888753

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.10  E-value=0.88  Score=31.21  Aligned_cols=24  Identities=4%  Similarity=-0.201  Sum_probs=12.4

Q ss_pred             HHHHHHHHHhhCCHHHHHHHHHHH
Q 023952           97 YNLWISSCAATLNIDQVKKFLDEM  120 (275)
Q Consensus        97 ~~~ll~~~~~~~~~~~a~~~~~~~  120 (275)
                      +..+.+++...+++..|...|++.
T Consensus        66 l~~ladalf~~~eyrrA~~~y~qA   89 (167)
T 3ffl_A           66 LVYHADSLFHDKEYRNAVSKYTMA   89 (167)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHH
Confidence            344445555555555555555553

>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=90.79  E-value=3.3  Score=29.45  Aligned_cols=49  Identities=8%  Similarity=0.007  Sum_probs=23.3

Q ss_pred             HHHHHHHHHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           75 VEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      ..++..+|..|..+|+--. ..-|......+...|++.+|.++|+.-.+.
T Consensus        95 ~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~  144 (202)
T 3esl_A           95 FHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAEN  144 (202)
T ss_dssp             HHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT
T ss_pred             cCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc
Confidence            4455555555555443222 223444444445555555555555554443

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=90.11  E-value=0.54  Score=29.01  Aligned_cols=87  Identities=7%  Similarity=-0.021  Sum_probs=54.3

Q ss_pred             CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHH
Q 023952           37 AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKF  116 (275)
Q Consensus        37 ~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~  116 (275)
                      ....++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+.+    ..||...|..|..  .+.|..+++..-
T Consensus        19 ~H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~----c~pdlepw~ALce--~rlGl~s~le~r   90 (115)
T 2uwj_G           19 QHCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGN----PWPALEPWFALCE--WHLGLGAALDRR   90 (115)
T ss_dssp             TTCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTC----CCGGGHHHHHHHH--HHTTCHHHHHHH
T ss_pred             chHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCC----CCchHHHHHHHHH--HhcccHHHHHHH
Confidence            3457788887777776652  2222222234566788888888766543    3678887776644  477777888877


Q ss_pred             HHHHhhcCCCCCCHHHH
Q 023952          117 LDEMSCDSGGSDDWVKY  133 (275)
Q Consensus       117 ~~~~~~~~~~~~~~~~~  133 (275)
                      +..+..+ | .|....|
T Consensus        91 L~~la~s-g-~p~~q~F  105 (115)
T 2uwj_G           91 LAGLGGS-S-DPALADF  105 (115)
T ss_dssp             HHHHHTC-S-SHHHHHH
T ss_pred             HHHHHhC-C-CHHHHHH
Confidence            7777665 3 3444444

>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=89.97  E-value=3.2  Score=28.03  Aligned_cols=47  Identities=17%  Similarity=0.174  Sum_probs=24.1

Q ss_pred             HHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          185 IDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       185 a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      +.++|..|...|+.... ..|......+...|++.+|.++|+.-.+.+
T Consensus        84 p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~~  131 (152)
T 4a1g_A           84 LHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQNQ  131 (152)
T ss_dssp             HHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            55555555555554332 234444555555555555555555555443

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=89.86  E-value=4.9  Score=30.05  Aligned_cols=53  Identities=13%  Similarity=0.141  Sum_probs=27.9

Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      ..+.|+++++++....-++.  .|-|...-..++..+|-.|+++.|.. -++...+
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            44555555555555554442  24455555555555566666665555 4444433

>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=89.59  E-value=9  Score=32.68  Aligned_cols=116  Identities=12%  Similarity=-0.007  Sum_probs=67.4

Q ss_pred             chHHHHHHHHHHHHHccCCcch---hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHH
Q 023952          145 HLVNAESSTLVEAEKSITQRQW---ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVG  221 (275)
Q Consensus       145 ~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~  221 (275)
                      +.+.|.. .+........-.+.   ..+..+.......+...++...+......  .++.......+....+.|+++.|.
T Consensus       229 d~~~A~~-~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          229 DAENARL-MIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             CHHHHHH-HHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CHHHHHH-HHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHHHHCCCHHHHH
Confidence            5677777 66655443322111   12222232333344345566666654332  334444445556666889999999


Q ss_pred             HHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          222 EIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       222 ~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..|..|.....  ....-.--+..++...|+.++|..+|+.+.+
T Consensus       306 ~~~~~l~~~~~--~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEAK--EKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTGG--GSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHcccccc--ccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            99998865321  2233223356678889999999999988764

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=88.89  E-value=2.8  Score=25.91  Aligned_cols=78  Identities=10%  Similarity=-0.047  Sum_probs=44.7

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHH
Q 023952          109 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  188 (275)
Q Consensus       109 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  188 (275)
                      ..++|..+-+.+... +.  ...+--.-+..+...|++++|..     .....+.||...|-+|..  .+.|-.+++..-
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            456777776666654 21  22222222334556777777777     334455677777766544  456666666666


Q ss_pred             HHHHHhcc
Q 023952          189 WKSLRMTK  196 (275)
Q Consensus       189 ~~~m~~~~  196 (275)
                      +..+..+|
T Consensus        91 L~~la~sg   98 (115)
T 2uwj_G           91 LAGLGGSS   98 (115)
T ss_dssp             HHHHHTCS
T ss_pred             HHHHHhCC
Confidence            66666554

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=88.55  E-value=3  Score=25.83  Aligned_cols=78  Identities=8%  Similarity=0.041  Sum_probs=42.5

Q ss_pred             CHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHH
Q 023952          109 NIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQI  188 (275)
Q Consensus       109 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  188 (275)
                      ..++|..+-+.+... +.  ...+--.-+..+...|++++|..     .....+.||...|-+|..  .+.|-.+++..-
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            456666666666654 21  22222222334556677777776     334445677777666544  355666666666


Q ss_pred             HHHHHhcc
Q 023952          189 WKSLRMTK  196 (275)
Q Consensus       189 ~~~m~~~~  196 (275)
                      +..+...|
T Consensus        92 L~~la~sg   99 (116)
T 2p58_C           92 LNRLARSQ   99 (116)
T ss_dssp             HHHHTTCC
T ss_pred             HHHHHhCC
Confidence            65555544

>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=88.18  E-value=4.7  Score=27.62  Aligned_cols=48  Identities=13%  Similarity=0.140  Sum_probs=32.5

Q ss_pred             HHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          184 KIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      ...++|..|...|+.... ..|......+-..|++.+|.++|..-.+.+
T Consensus        78 ~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~~  126 (164)
T 2wvi_A           78 EPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQK  126 (164)
T ss_dssp             CHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT
T ss_pred             CHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence            366677777777765443 345666666777778888887777777655

>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=87.78  E-value=9.2  Score=30.52  Aligned_cols=222  Identities=12%  Similarity=0.070  Sum_probs=126.6

Q ss_pred             ccccChhhHHHHhhccccC----C--CCHhHHHHHHHHHHcCCC-HHHHHHHHHHHHhCCCCCCHHHH------HHHHHH
Q 023952            2 TKVFGIHSGERYFEGLPLS----A--KTSETYTALLHLYAGAKW-TEKAEELFERVKQSNLSFNALMY------NEMMTL   68 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~----~--~~~~~~~~li~~~~~~g~-~~~a~~~~~~m~~~~~~~~~~~~------~~li~~   68 (275)
                      ++.|+.++..+++......    +  .....-..++..+....+ .+.-.++..+..+-.- -.-.+|      .-++..
T Consensus        30 ~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~-~~~r~flr~~l~~kL~~l  108 (394)
T 3txn_A           30 KQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAK-QEKRTFLRQSLEARLIAL  108 (394)
T ss_dssp             HHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHH-HTTCHHHHHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHH
Confidence            3567777777777665543    1  256667788888877543 4444444444432100 011233      367889


Q ss_pred             hhccCCHHHHHHHHHHHhhCCCCCc-----hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC-CCCCCHHHHHHHHH----
Q 023952           69 YMSVGQVEKVALVVEEIKRKNVVPD-----IFTYNLWISSCAATLNIDQVKKFLDEMSCDS-GGSDDWVKYVNLVN----  138 (275)
Q Consensus        69 ~~~~g~~~~a~~~~~~m~~~~~~p~-----~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~l~~----  138 (275)
                      |...|++.+|.+++.++.+.--+.|     ...+..-+..|...+++..+...+....... .+.+++.+- +.+.    
T Consensus       109 ~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~-a~i~~~~G  187 (394)
T 3txn_A          109 YFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ-GALDLQSG  187 (394)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH-HHHHHHHH
T ss_pred             HHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH-HHHHHHhh
Confidence            9999999999999999887411112     2346666777889999999999999877632 222444332 2222    


Q ss_pred             -HHH-hcCchHHHHHHHHHHHHHccCCcc------hhhHHHHHHHHHccCCHHHHHHHHH-HHHhccCCCChhhHHHHHH
Q 023952          139 -IYI-TASHLVNAESSTLVEAEKSITQRQ------WITYDFLIILYAGLGNKDKIDQIWK-SLRMTKQKMTSRNYICILS  209 (275)
Q Consensus       139 -~~~-~~g~~~~a~~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~-~m~~~~~~p~~~~~~~li~  209 (275)
                       .+. ..+++..|.. .|.+.........      ...|..+. +. -.++..+...++. .....-..|....+..++.
T Consensus       188 i~~l~~~rdyk~A~~-~F~eaf~~f~~~~~~~~~~~lkYlvL~-aL-l~~~r~el~~~l~~~~~~~~~~pei~~l~~L~~  264 (394)
T 3txn_A          188 ILHAADERDFKTAFS-YFYEAFEGFDSVDSVKALTSLKYMLLC-KI-MLGQSDDVNQLVSGKLAITYSGRDIDAMKSVAE  264 (394)
T ss_dssp             HHHHHTTSCHHHHHH-HHHHHHHHHTTTCHHHHHHHHHHHHHH-HH-HTTCGGGHHHHHHSHHHHTTCSHHHHHHHHHHH
T ss_pred             HHHHHhccCHHHHHH-HHHHHHhcccccccHHHHHHHHHHHHH-HH-HcCCHHHHHHHhccccccccCCccHHHHHHHHH
Confidence             344 6899999999 6666654332222      12232222 22 2333333333332 2111112444444555555


Q ss_pred             HHHhcCCHHHHHHHHHHHHh
Q 023952          210 SYLMLGHLKEVGEIIDQWKQ  229 (275)
Q Consensus       210 ~~~~~g~~~~a~~~~~~~~~  229 (275)
                      + ...+++.....++.....
T Consensus       265 a-~~~~dl~~f~~iL~~~~~  283 (394)
T 3txn_A          265 A-SHKRSLADFQAALKEYKK  283 (394)
T ss_dssp             H-HHTTCHHHHHHHHHHSTT
T ss_pred             H-HHhCCHHHHHHHHHHHHH
Confidence            5 456788777777766543

>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=87.63  E-value=4.4  Score=26.64  Aligned_cols=67  Identities=6%  Similarity=-0.100  Sum_probs=34.9

Q ss_pred             cchhhHHHHHHHHHccCCH---HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          164 RQWITYDFLIILYAGLGNK---DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~~~---~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      |+..+--.+..++.++.+.   .+++.+++.+.+.+..-....+-.+.-++.+.|+++.|.++.+.+.+.
T Consensus        38 vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~  107 (134)
T 3o48_A           38 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH  107 (134)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT
T ss_pred             CChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh
Confidence            3443333344444444433   355666666655431112233444556666777777777777766653

>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=87.11  E-value=9.5  Score=29.97  Aligned_cols=59  Identities=10%  Similarity=0.129  Sum_probs=30.4

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC--CHHHHHHHHHHHhh
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG--QVEKVALVVEEIKR   87 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--~~~~a~~~~~~m~~   87 (275)
                      ...+|.-|...|+.++|...++++.....  .......+|..-...+  .-+.+-.++..+..
T Consensus        57 ~~~ii~EYf~~~d~~Ea~~~l~eL~~p~~--~~~~v~~~I~~aLdr~~~erE~~s~LLs~L~~  117 (358)
T 3eiq_C           57 LTPIIQEYFEHGDTNEVAEMLRDLNLGEM--KSGVPVLAVSLALEGKASHREMTSKLLSDLCG  117 (358)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHTTTCCGG--GGGHHHHHHHHHTTSCHHHHHHHHHHHHTTTT
T ss_pred             HHHHHHHHhcCCCHHHHHHHHHHhCCchh--HHHHHHHHHHHHhcCChHHHHHHHHHHHHHHh
Confidence            45566777777777777777777643322  1222233333322222  23345555555553

>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=86.01  E-value=5.5  Score=26.17  Aligned_cols=71  Identities=14%  Similarity=0.027  Sum_probs=40.2

Q ss_pred             CCCHHHHHHHHHHHHhcCc---hHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC
Q 023952          127 SDDWVKYVNLVNIYITASH---LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT  200 (275)
Q Consensus       127 ~~~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~  200 (275)
                      .|+..+--.+..++.++.+   ...++. ++..+.+..+......+--|.-++.+.|++++|.+..+.+.+.  .|+
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~-LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~--eP~  110 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVK-ILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEH--ERN  110 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHH-HHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTT--CTT
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHH-HHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhh--CCC
Confidence            3555554455555555443   335555 5666665543222333445555677777777777777777663  454

>1wdy_A 2-5A-dependent ribonuclease; hydrolase, RNA-binding; HET: 25A; 1.80A {Homo sapiens} SCOP: d.211.1.1

Probab=85.90  E-value=1.8  Score=32.14  Aligned_cols=242  Identities=12%  Similarity=0.029  Sum_probs=114.6

Q ss_pred             ccccChhhHHHHhhccccCC-C-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHhhccCCHHH
Q 023952            2 TKVFGIHSGERYFEGLPLSA-K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALM--YNEMMTLYMSVGQVEK   77 (275)
Q Consensus         2 ~~~g~~~~A~~~~~~~~~~~-~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~--~~~li~~~~~~g~~~~   77 (275)
                      ++.|+++....+++.-.... . +..-+ ..+...+..|+.+-+..+    .+.|..++...  -.+.+...+..|+.+ 
T Consensus        13 ~~~g~~~~v~~Ll~~g~~~~~~~~~~g~-t~L~~A~~~g~~~~v~~L----l~~g~~~~~~~~~g~t~L~~A~~~~~~~-   86 (285)
T 1wdy_A           13 VQNEDVDLVQQLLEGGANVNFQEEEGGW-TPLHNAVQMSREDIVELL----LRHGADPVLRKKNGATPFLLAAIAGSVK-   86 (285)
T ss_dssp             HHTTCHHHHHHHHHTTCCTTCCCTTTCC-CHHHHHHHTTCHHHHHHH----HHTTCCTTCCCTTCCCHHHHHHHHTCHH-
T ss_pred             HHcCCHHHHHHHHHcCCCcccccCCCCC-cHHHHHHHcCCHHHHHHH----HHcCCCCcccCCCCCCHHHHHHHcCCHH-
Confidence            35677777777776533211 1 22122 344555566776544444    44454333211  112233334456554 


Q ss_pred             HHHHHHHHhhCCCCCchh---hHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH------------HHHHHHHHHHh
Q 023952           78 VALVVEEIKRKNVVPDIF---TYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV------------KYVNLVNIYIT  142 (275)
Q Consensus        78 a~~~~~~m~~~~~~p~~~---~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------------~~~~l~~~~~~  142 (275)
                         +++.+.+.|..++..   .++ .+...+..|+.+-+..+++.     |..++..            .-.+.+...+.
T Consensus        87 ---~v~~Ll~~g~~~~~~~~~g~t-~L~~A~~~~~~~~~~~Ll~~-----g~~~~~~~~~~~~~~~~~~~g~t~L~~A~~  157 (285)
T 1wdy_A           87 ---LLKLFLSKGADVNECDFYGFT-AFMEAAVYGKVKALKFLYKR-----GANVNLRRKTKEDQERLRKGGATALMDAAE  157 (285)
T ss_dssp             ---HHHHHHHTTCCTTCBCTTCCB-HHHHHHHTTCHHHHHHHHHT-----TCCTTCCCCCCHHHHHTTCCCCCHHHHHHH
T ss_pred             ---HHHHHHHcCCCCCccCcccCC-HHHHHHHhCCHHHHHHHHHh-----CCCcccccccHHHHHhhccCCCcHHHHHHH
Confidence               444455556554432   222 33444566776555444433     2222211            00123344556


Q ss_pred             cCchHHHHHHHHHHHHHc-cCCcc---hhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhh--HHHHHHHHHhcCC
Q 023952          143 ASHLVNAESSTLVEAEKS-ITQRQ---WITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRN--YICILSSYLMLGH  216 (275)
Q Consensus       143 ~g~~~~a~~~~~~~~~~~-~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~--~~~li~~~~~~g~  216 (275)
                      .|+.+-+..     +... +..++   ....+.+..+ +..++.....++.+.+.+.|..++...  -.+.+...++.|+
T Consensus       158 ~~~~~~v~~-----Ll~~~~~~~~~~~~~g~t~l~~a-~~~~~~~~~~~i~~~Ll~~g~~~~~~~~~g~t~L~~A~~~~~  231 (285)
T 1wdy_A          158 KGHVEVLKI-----LLDEMGADVNACDNMGRNALIHA-LLSSDDSDVEAITHLLLDHGADVNVRGERGKTPLILAVEKKH  231 (285)
T ss_dssp             HTCHHHHHH-----HHHTSCCCTTCCCTTSCCHHHHH-HHCSCTTTHHHHHHHHHHTTCCSSCCCTTSCCHHHHHHHTTC
T ss_pred             cCCHHHHHH-----HHHhcCCCCCccCCCCCCHHHHH-HHccccchHHHHHHHHHHcCCCCCCcCCCCCcHHHHHHHcCC
Confidence            677664444     3332 33332   2223334333 345565555677777778877665432  1234555667788


Q ss_pred             HHHHHHHHHHHHhcCCCCC---CHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCCCC
Q 023952          217 LKEVGEIIDQWKQSATSDF---DISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPTNA  273 (275)
Q Consensus       217 ~~~a~~~~~~~~~~~~~~~---~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~  273 (275)
                      .+-+..+++.   .+ ..+   |..-.+. +...+..|..+    +.+.+++.|..|+..
T Consensus       232 ~~~v~~Ll~~---~g-~~~~~~~~~g~t~-l~~A~~~~~~~----i~~~Ll~~Ga~~~~~  282 (285)
T 1wdy_A          232 LGLVQRLLEQ---EH-IEINDTDSDGKTA-LLLAVELKLKK----IAELLCKRGASTDCG  282 (285)
T ss_dssp             HHHHHHHHHS---SS-CCTTCCCTTSCCH-HHHHHHTTCHH----HHHHHHHHSSCSCCS
T ss_pred             HHHHHHHHhc---cC-CCccccCCCCCcH-HHHHHHcCcHH----HHHHHHHcCCCCCcc
Confidence            7765555442   11 122   2222222 33344556554    455556778887753

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=85.71  E-value=13  Score=30.08  Aligned_cols=60  Identities=15%  Similarity=0.050  Sum_probs=29.4

Q ss_pred             HHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcc--hhhHHHHHHHHHccCCHHHHHHHHHHH
Q 023952          132 KYVNLVNIYITASHLVNAESSTLVEAEKSITQRQ--WITYDFLIILYAGLGNKDKIDQIWKSL  192 (275)
Q Consensus       132 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~m  192 (275)
                      +...+...|.+.|+++.|.+ .+.++......+.  ...+-..++.+...+++..+...+.+.
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            34445555555555555555 5555544332221  233344445555555555555555544

>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=85.15  E-value=11  Score=28.88  Aligned_cols=64  Identities=11%  Similarity=0.152  Sum_probs=32.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCC--hHHHHHHHHHHHhcCCC
Q 023952          204 YICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGL--TEKANEFHMLLLQKNCA  269 (275)
Q Consensus       204 ~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~  269 (275)
                      ...++.-|...|+.++|.+.++++.... . ........+..++-+.++  .+...+++..+.+.|+-
T Consensus       169 i~~lL~EY~~~~D~~EA~~ci~EL~~p~-f-~~e~V~~ai~~alE~~~~~~re~~~~LL~~L~~~~~l  234 (307)
T 2zu6_B          169 IDMLLKEYLLSGDISEAEHCLKELEVPH-F-HHELVYEAIIMVLESTGESTFKMILDLLKSLWKSSTI  234 (307)
T ss_dssp             HHHHHHHHHHHCCHHHHHHHHHHHCCGG-G-HHHHHHHHHHHHHTCCSSHHHHHHHHHHHHHHHHCSS
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHcCCCc-c-hHHHHHHHHHHHHccCChHHHHHHHHHHHHHHHCCCC
Confidence            3456666777777777777777664211 0 112233344444444322  34455666666555443

>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=84.80  E-value=7.1  Score=26.35  Aligned_cols=71  Identities=7%  Similarity=-0.012  Sum_probs=45.1

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV  131 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  131 (275)
                      -|+.-....|..--..   +++.++|..|..+|+--. ..-|......+...|++.+|.++|+.-.+. +..|-..
T Consensus        66 nD~RyLklWl~ya~~~---~dp~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~-~A~P~~r  137 (152)
T 4a1g_A           66 NDPRFISYCLKFAEYN---SDLHQFFEFLYNHGIGTLSSPLYIAWAGHLEAQGELQHASAVLQRGIQN-QAEPREF  137 (152)
T ss_dssp             TCHHHHHHHHHHHTTB---SCHHHHHHHHHTTTTTTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCBSHHH
T ss_pred             CCHHHHHHHHHHHHhc---CCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCccHHH
Confidence            3555444444432222   337788888888766433 345666777777888888888888887776 5555443

>3hra_A Ankyrin repeat family protein; structural protein; 1.69A {Enterococcus faecalis}

Probab=84.37  E-value=2.1  Score=29.95  Aligned_cols=14  Identities=29%  Similarity=0.439  Sum_probs=7.3

Q ss_pred             HcCCCHHHHHHHHH
Q 023952           35 AGAKWTEKAEELFE   48 (275)
Q Consensus        35 ~~~g~~~~a~~~~~   48 (275)
                      +..|+.+.+..++.
T Consensus        13 ~~~g~~~~v~~ll~   26 (201)
T 3hra_A           13 ANQRDTKKVKEILQ   26 (201)
T ss_dssp             HHTTCHHHHHHHHT
T ss_pred             HHhccHHHHHHHHH
Confidence            34555555555543

>4aez_C MAD3, mitotic spindle checkpoint component MAD3; cell cycle, KEN-BOX, D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}

Probab=83.78  E-value=2.9  Score=30.28  Aligned_cols=49  Identities=14%  Similarity=0.108  Sum_probs=36.4

Q ss_pred             HHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          183 DKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      +...++|..|...|+.... ..|......+...|++.+|..+|+.-.+.+
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            4667788888887776543 446677777778888888888888877765

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=83.10  E-value=8.1  Score=25.73  Aligned_cols=67  Identities=15%  Similarity=0.053  Sum_probs=32.3

Q ss_pred             CCCHHHHHHHHHHHHhcCch---HHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          127 SDDWVKYVNLVNIYITASHL---VNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       127 ~~~~~~~~~l~~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      .|+..+--.+..++.++.+.   .+++. +++.+....+.........|.-++.+.|++++|.++.+.+.+
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~-LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~  105 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVK-ILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFE  105 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHH-HHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHH-HHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHh
Confidence            35555544555555554433   34444 455544433322222223344455666666666666665555

>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=81.78  E-value=10  Score=25.96  Aligned_cols=54  Identities=9%  Similarity=0.014  Sum_probs=35.5

Q ss_pred             HHHHHHHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHH
Q 023952           77 KVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWV  131 (275)
Q Consensus        77 ~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  131 (275)
                      ...++|..|..+|+--. ...|......+-..|++.+|.++|..-++. +..|...
T Consensus        78 ~p~~if~~L~~~~IG~~~AlfY~~wA~~lE~~~~~~~A~~Iy~~Gi~~-~A~P~~~  132 (164)
T 2wvi_A           78 EPLDMYSYLHNQGIGVSLAQFYISWAEEYEARENFRKADAIFQEGIQQ-KAEPLER  132 (164)
T ss_dssp             CHHHHHHHHHHTTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT-TCBSHHH
T ss_pred             CHHHHHHHHHHCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCCcHHH
Confidence            36667777777766433 344566666677778888888888877765 5555543

>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=81.71  E-value=7.9  Score=27.79  Aligned_cols=86  Identities=12%  Similarity=0.049  Sum_probs=43.8

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHH--HHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhh--HHHHHHHHHh
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFNALM--YNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFT--YNLWISSCAA  106 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~--~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~--~~~ll~~~~~  106 (275)
                      +...++.|+.+.+..+++.+.+.|..++...  -.+.+...+..|+.+    +++.+.+.|..|+...  -.+.+...+.
T Consensus        13 L~~A~~~g~~~~v~~Ll~~~~~~~~~~~~~~~~g~t~L~~A~~~~~~~----~v~~Ll~~g~~~~~~~~~g~t~l~~A~~   88 (241)
T 1k1a_A           13 LHIAVVQGNLPAVHRLVNLFQQGGRELDIYNNLRQTPLHLAVITTLPS----VVRLLVTAGASPMALDRHGQTAAHLACE   88 (241)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTTCCSCCCCTTSCCHHHHHHHTTCHH----HHHHHHHTTCCTTCCCTTSCCHHHHHHH
T ss_pred             HHHHHHcCCHHHHHHHHHHHHhcCCCCCcccccCCCHHHHHHHcCCHH----HHHHHHHcCCCccccCCCCCCHHHHHHH
Confidence            4445567888887777776666554443221  112233344556654    3444445555443321  1123344456


Q ss_pred             hCCHHHHHHHHHHH
Q 023952          107 TLNIDQVKKFLDEM  120 (275)
Q Consensus       107 ~~~~~~a~~~~~~~  120 (275)
                      .|+.+-+..+++..
T Consensus        89 ~~~~~~~~~Ll~~~  102 (241)
T 1k1a_A           89 HRSPTCLRALLDSA  102 (241)
T ss_dssp             TTCHHHHHHHHHHS
T ss_pred             cCCHHHHHHHHHcC
Confidence            67766665555543

>3kea_A K1L; tropism, ANK repeat, viral protein; 2.30A {Vaccinia virus}

Probab=81.53  E-value=6.2  Score=29.61  Aligned_cols=208  Identities=8%  Similarity=-0.029  Sum_probs=97.0

Q ss_pred             ccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVE   83 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~   83 (275)
                      ..+..+..+++..-....+|..-++.| ...+..|+.+-+..+++.    |..++...-.+.+...+..|+.+-+.-   
T Consensus         9 ~~~~~~v~~lL~~~~~~~~d~~g~t~L-~~A~~~g~~~~v~~Ll~~----g~~~~~~~g~t~L~~A~~~g~~~~v~~---   80 (285)
T 3kea_A            9 TWKSKQLKSFLSSKDTFKADVHGHSAS-YYAIADNNVRLVCTLLNA----GALKNLLENEFPLHQAATLEDTKIVKI---   80 (285)
T ss_dssp             GCCHHHHHHHHHSTTTTCCCTTSCCHH-HHHHHTTCHHHHHHHHHT----TGGGSCCTTCCHHHHHTTSSSCHHHHH---
T ss_pred             hcCHHHHHHHHHhCCCCccCCCCCCHH-HHHHHcCCHHHHHHHHhC----CCCCCCCCCCCHHHHHHHcCCHHHHHH---
Confidence            445566666665432112344444333 444567887766555543    433322222334455566777654444   


Q ss_pred             HHhhCCCCCch---hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH---HHHHHHHHHHHhcCchHHHHHHHHHHH
Q 023952           84 EIKRKNVVPDI---FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW---VKYVNLVNIYITASHLVNAESSTLVEA  157 (275)
Q Consensus        84 ~m~~~~~~p~~---~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~  157 (275)
                       +.+.|..++.   .-++ .+...+..|+.+-+.-+++.     |..++.   .-+.+.+...+..|+.+-+..     +
T Consensus        81 -Ll~~ga~~~~~d~~g~t-~L~~A~~~g~~~~v~~Ll~~-----ga~~~~~~~~g~~t~L~~A~~~~~~~~v~~-----L  148 (285)
T 3kea_A           81 -LLFSGLDDSQFDDKGNT-ALYYAVDSGNMQTVKLFVKK-----NWRLMFYGKTGWKTSFYHAVMLNDVSIVSY-----F  148 (285)
T ss_dssp             -HHHTTCCTTCCCTTSCC-HHHHHHHTTCHHHHHHHHHH-----CGGGGGCSSSGGGSHHHHHHHTTCHHHHHH-----H
T ss_pred             -HHHCCCCCCCcCCCCCc-HHHHHHHcCCHHHHHHHHhc-----CCCCCccCCCCCCCHHHHHHHcCCHHHHHH-----H
Confidence             4445655443   2233 33444566777666655554     222221   111234445556677654443     4


Q ss_pred             HHccCCc-ch-hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCC
Q 023952          158 EKSITQR-QW-ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDF  235 (275)
Q Consensus       158 ~~~~~~~-~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~  235 (275)
                      ...+..+ +. ...+.|. ..+..|+.+-+..+++.-..... .+..-.+..+...++.|+.+-    .+.+.+.|. .+
T Consensus       149 l~~g~~~~~~~~g~t~L~-~A~~~g~~~~v~~Ll~~gad~n~-~~~~g~t~~L~~A~~~~~~~~----v~~Ll~~ga-d~  221 (285)
T 3kea_A          149 LSEIPSTFDLAILLSCIH-ITIKNGHVDMMILLLDYMTSTNT-NNSLLFIPDIKLAIDNKDIEM----LQALFKYDI-NI  221 (285)
T ss_dssp             HTTSCTTCCCSTHHHHHH-HHHHTTCHHHHHHHHHHHHHTCT-TCCCBCCTTHHHHHHHTCHHH----HHHHTTSCB-CS
T ss_pred             HhCCCccccccCCccHHH-HHHHcChHHHHHHHHHcCCCCCc-ccCCCCChHHHHHHHcCCHHH----HHHHHHcCC-CC
Confidence            4445433 22 2334443 44567777766655554222111 111122233444556676543    344444443 44


Q ss_pred             CHH
Q 023952          236 DIS  238 (275)
Q Consensus       236 ~~~  238 (275)
                      +..
T Consensus       222 ~~~  224 (285)
T 3kea_A          222 YSA  224 (285)
T ss_dssp             TTT
T ss_pred             CCC
Confidence            443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=80.89  E-value=10  Score=25.29  Aligned_cols=69  Identities=6%  Similarity=-0.097  Sum_probs=47.8

Q ss_pred             CcchhhHHHHHHHHHccCCH---HHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          163 QRQWITYDFLIILYAGLGNK---DKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       163 ~~~~~~~~~l~~~~~~~~~~---~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      .|+..+--.+..++.++.+.   .+++.+++.+...+..-.....-.+.-++.+.|++++|.++.+.+.+..
T Consensus        36 ~vs~~t~F~YAw~Lv~S~~~~di~~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~e  107 (144)
T 1y8m_A           36 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  107 (144)
T ss_dssp             TSCHHHHHHHHHHHHHSSSHHHHHHHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTC
T ss_pred             CCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcC
Confidence            45555555555666666654   4788888888775422233344567778999999999999999999853

>4aez_C MAD3, mitotic spindle checkpoint component MAD3; cell cycle, KEN-BOX, D-BOX, APC/C; 2.30A {Schizosaccharomyces pombe}

Probab=80.85  E-value=14  Score=26.79  Aligned_cols=53  Identities=2%  Similarity=-0.024  Sum_probs=30.4

Q ss_pred             HHHHHHHHHHhhCCCCCc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCC
Q 023952           76 EKVALVVEEIKRKNVVPD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDD  129 (275)
Q Consensus        76 ~~a~~~~~~m~~~~~~p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~  129 (275)
                      ++...+|..|..+|+--. ...|......+...|++.+|..+|+.-++. +..|-
T Consensus       131 ~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~Gi~~-~A~P~  184 (223)
T 4aez_C          131 DEPVELFSFLAHHHIGQESSIFYEEYANYFESRGLFQKADEVYQKGKRM-KAKPF  184 (223)
T ss_dssp             SCHHHHHHHHHHTTCSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-TCBSH
T ss_pred             CCHHHHHHHHHHCCcchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc-CCccH
Confidence            355566666666655322 334555555566666777777777666554 44443

---

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	275
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.87
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	99.76
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.56
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.51
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.51
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.46
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.41
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.4
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.32
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.32
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.16
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.14
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	99.01
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.99
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.96
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.93
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.89
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.87
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.85
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.79
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.78
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.76
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.75
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.65
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.64
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.58
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.58
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.57
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.49
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.46
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.4
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.39
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.38
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.38
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.37
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.26
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.24
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.24
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.22
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.22
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.2
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.17
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	98.17
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.13
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	98.11
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	97.91
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.81
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.66
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.63
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.54
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	97.34
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.2
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	97.07
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.92
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.31
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	95.98
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.22
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	94.16
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.84
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	91.73
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	90.22
d1uoha_	223	26S proteasome non-ATPase regulatory subunit 10, g	81.62

>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=3.1e-19  Score=141.20  Aligned_cols=259  Identities=12%  Similarity=0.017  Sum_probs=168.5

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|++.|+++.+..| +...+..+...|.+.|++++|...|+...+.. |-++.+|..+...|.+.|++++|++.
T Consensus        11 ~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~a~~~l~~~~~~~g~~~~A~~~   89 (388)
T d1w3ba_          11 QAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQN-PLLAEAYSNLGNVYKERGQLQEAIEH   89 (388)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHhhhhccccccccc
Confidence            45888888888888776666 67788888888888888888888888877664 34566777777777777777777776


Q ss_pred             HHHHhhCCC-----------------------------------------------------------------------
Q 023952           82 VEEIKRKNV-----------------------------------------------------------------------   90 (275)
Q Consensus        82 ~~~m~~~~~-----------------------------------------------------------------------   90 (275)
                      +....+...                                                                       
T Consensus        90 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (388)
T d1w3ba_          90 YRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAIETQPNFA  169 (388)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHHHCTTCH
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhhccCcchh
Confidence            665332110                                                                       


Q ss_pred             -----------------------------CC-chhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 023952           91 -----------------------------VP-DIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  140 (275)
Q Consensus        91 -----------------------------~p-~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  140 (275)
                                                   .| +..++..+...+...|++++|...+++....  .+.+...+..+...+
T Consensus       170 ~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~l~~~~  247 (388)
T d1w3ba_         170 VAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSL--SPNHAVVHGNLACVY  247 (388)
T ss_dssp             HHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHH--CTTCHHHHHHHHHHH
T ss_pred             HHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHH--hhhHHHHHHHHHHHH
Confidence                                         11 2233444444555555555555555555442  234444555556666


Q ss_pred             HhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHH
Q 023952          141 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEV  220 (275)
Q Consensus       141 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a  220 (275)
                      .+.|++++|.. .+++.....+. +..+|..+...+...|++++|.+.++...... +.+...+..+...+...|++++|
T Consensus       248 ~~~~~~~~A~~-~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A  324 (388)
T d1w3ba_         248 YEQGLIDLAID-TYRRAIELQPH-FPDAYCNLANALKEKGSVAEAEDCYNTALRLC-PTHADSLNNLANIKREQGNIEEA  324 (388)
T ss_dssp             HHTTCHHHHHH-HHHHHHHTCSS-CHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHH
T ss_pred             HHCCCHHHHHH-HHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC-CccchhhhHHHHHHHHCCCHHHH
Confidence            66666666666 66655554432 45556666666666677777777666655542 34455666677777777888888


Q ss_pred             HHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCCC
Q 023952          221 GEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAPT  271 (275)
Q Consensus       221 ~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~  271 (275)
                      .+.|++..+..  +.+..++..+..+|.+.|++++|...|++.++  +.|+
T Consensus       325 ~~~~~~al~~~--p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--l~P~  371 (388)
T d1w3ba_         325 VRLYRKALEVF--PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPT  371 (388)
T ss_dssp             HHHHHHHTTSC--TTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHT--TCTT
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCC
Confidence            88887776643  34566777777888888888888888877765  3454

>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=3.5e-19  Score=140.92  Aligned_cols=230  Identities=12%  Similarity=0.022  Sum_probs=150.9

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  109 (275)
                      +...+.+.|++++|.+.++++.+.. |-++..+..+...|.+.|++++|+..|++..+.... +..+|..+...+.+.|+
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~g~   82 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPL-LAEAYSNLGNVYKERGQ   82 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHhhhhcc
Confidence            4566788999999999999998764 456889999999999999999999999999986433 56788889999999999


Q ss_pred             HHHHHHHHHHHhhcCC----------------------------------------------------------------
Q 023952          110 IDQVKKFLDEMSCDSG----------------------------------------------------------------  125 (275)
Q Consensus       110 ~~~a~~~~~~~~~~~~----------------------------------------------------------------  125 (275)
                      +++|...+....+...                                                                
T Consensus        83 ~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (388)
T d1w3ba_          83 LQEAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYCVRSDLGNLLKALGRLEEAKACYLKAI  162 (388)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccchhhhhHHHHHHhh
Confidence            9998887766544210                                                                


Q ss_pred             --CCCCHHHHHHHHHHHHhcCchHHHHHH---------------------------------HHHHHHHccCCcchhhHH
Q 023952          126 --GSDDWVKYVNLVNIYITASHLVNAESS---------------------------------TLVEAEKSITQRQWITYD  170 (275)
Q Consensus       126 --~~~~~~~~~~l~~~~~~~g~~~~a~~~---------------------------------~~~~~~~~~~~~~~~~~~  170 (275)
                        .+.+...+..+...+...|++++|...                                 .+.......+. +...+.
T Consensus       163 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~  241 (388)
T d1w3ba_         163 ETQPNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLSPN-HAVVHG  241 (388)
T ss_dssp             HHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             ccCcchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHhhh-HHHHHH
Confidence              011123344444444445555544440                                 44443333222 334444


Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhc
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV  250 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  250 (275)
                      .+...+...|++++|...|++..+.. +-+...+..+...+...|++++|.+.++......  +.+...+..+...+...
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~--~~~~~~~~~l~~~~~~~  318 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDCYNTALRLC--PTHADSLNNLANIKREQ  318 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccC--CccchhhhHHHHHHHHC
Confidence            55555666666666666666655432 1133455566666666666666666666665543  34556666666677777


Q ss_pred             CChHHHHHHHHHHHh
Q 023952          251 GLTEKANEFHMLLLQ  265 (275)
Q Consensus       251 g~~~~a~~~~~~m~~  265 (275)
                      |++++|...|++.++
T Consensus       319 ~~~~~A~~~~~~al~  333 (388)
T d1w3ba_         319 GNIEEAVRLYRKALE  333 (388)
T ss_dssp             TCHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHH
Confidence            777777777776654

>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=7.6e-17  Score=124.89  Aligned_cols=249  Identities=12%  Similarity=0.006  Sum_probs=182.1

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|+..|+++.+..| +..+|..+..++...|++++|...|++..+.. |-+...|..+...|...|++++|.+.
T Consensus        31 ~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~A~~~  109 (323)
T d1fcha_          31 QEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEI  109 (323)
T ss_dssp             HTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccccccccccc
Confidence            56889999999998887777 68889999999999999999999999887764 44677888888889999999999999


Q ss_pred             HHHHhhCCCCCchhh----------------HHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCc
Q 023952           82 VEEIKRKNVVPDIFT----------------YNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASH  145 (275)
Q Consensus        82 ~~~m~~~~~~p~~~~----------------~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  145 (275)
                      +++.....  |+...                ....+..+...+.+.++...|.+..+......+..++..+...+...|+
T Consensus       110 ~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~p~~~~~~~~~~l~~~~~~~~~  187 (323)
T d1fcha_         110 LRDWLRYT--PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGE  187 (323)
T ss_dssp             HHHHHHTS--TTTGGGCC---------------CTTHHHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTC
T ss_pred             hhhHHHhc--cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHH
Confidence            98887642  22111                1112233445566778888888776642334556777888888889999


Q ss_pred             hHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHH
Q 023952          146 LVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIID  225 (275)
Q Consensus       146 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~  225 (275)
                      +++|.. .++......+. +...|..+...|...|++++|.+.|++..+.. +-+...+..+..+|.+.|++++|++.|+
T Consensus       188 ~~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~  264 (323)
T d1fcha_         188 YDKAVD-CFTAALSVRPN-DYLLWNKLGATLANGNQSEEAVAAYRRALELQ-PGYIRSRYNLGISCINLGAHREAVEHFL  264 (323)
T ss_dssp             HHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             Hhhhhc-ccccccccccc-cccchhhhhhcccccccchhHHHHHHHHHHHh-hccHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999 88887766554 66788888888999999999999998887653 2245667788888999999999999998


Q ss_pred             HHHhcCC---------CCCCHHHHHHHHHHHHhcCChHHHH
Q 023952          226 QWKQSAT---------SDFDISACNRLLGAFSDVGLTEKAN  257 (275)
Q Consensus       226 ~~~~~~~---------~~~~~~~~~~li~~~~~~g~~~~a~  257 (275)
                      +..+...         .......|..+-.++...|+.+.+.
T Consensus       265 ~al~l~p~~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         265 EALNMQRKSRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHTC------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHhCCcChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            8765210         0112234555666666666666544

>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=99.76  E-value=5.4e-16  Score=119.99  Aligned_cols=230  Identities=10%  Similarity=-0.080  Sum_probs=185.2

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHh
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAA  106 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~  106 (275)
                      +-.....+.+.|++++|...|+.+.+.. |-++.+|..+..++...|++++|+..|.+..+.... +...+..+...+..
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            3456777889999999999999999875 456889999999999999999999999999886433 56788888999999


Q ss_pred             hCCHHHHHHHHHHHhhcCCCCCCH-H---------------HHHHHHHHHHhcCchHHHHHHHHHHHHHccC-CcchhhH
Q 023952          107 TLNIDQVKKFLDEMSCDSGGSDDW-V---------------KYVNLVNIYITASHLVNAESSTLVEAEKSIT-QRQWITY  169 (275)
Q Consensus       107 ~~~~~~a~~~~~~~~~~~~~~~~~-~---------------~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~  169 (275)
                      .|++++|.+.++++....   |+. .               .....+..+...+...+|.+ .+.......+ ..+...+
T Consensus       100 ~~~~~~A~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~-~~~~al~~~p~~~~~~~~  175 (323)
T d1fcha_         100 ESLQRQACEILRDWLRYT---PAYAHLVTPAEEGAGGAGLGPSKRILGSLLSDSLFLEVKE-LFLAAVRLDPTSIDPDVQ  175 (323)
T ss_dssp             TTCHHHHHHHHHHHHHTS---TTTGGGCC---------------CTTHHHHHHHHHHHHHH-HHHHHHHHSTTSCCHHHH
T ss_pred             cccccccccchhhHHHhc---cchHHHHHhhhhhhhhcccccchhhHHHHHHhhHHHHHHH-HHHHHHHHhhcccccccc
Confidence            999999999999987631   211 1               11122333445677788888 7776665443 3456778


Q ss_pred             HHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 023952          170 DFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  249 (275)
Q Consensus       170 ~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  249 (275)
                      ..+...+...|++++|...|++..... +-+...+..+...|...|++++|.+.|++..+..  +-+..+|..+..+|.+
T Consensus       176 ~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--p~~~~a~~~lg~~~~~  252 (323)
T d1fcha_         176 CGLGVLFNLSGEYDKAVDCFTAALSVR-PNDYLLWNKLGATLANGNQSEEAVAAYRRALELQ--PGYIRSRYNLGISCIN  252 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhhhhcccccccccc-cccccchhhhhhcccccccchhHHHHHHHHHHHh--hccHHHHHHHHHHHHH
Confidence            888889999999999999999987753 2246778889999999999999999999998854  3567889999999999


Q ss_pred             cCChHHHHHHHHHHHh
Q 023952          250 VGLTEKANEFHMLLLQ  265 (275)
Q Consensus       250 ~g~~~~a~~~~~~m~~  265 (275)
                      .|++++|...|++.++
T Consensus       253 ~g~~~~A~~~~~~al~  268 (323)
T d1fcha_         253 LGAHREAVEHFLEALN  268 (323)
T ss_dssp             HTCHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999999876

>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=99.56  E-value=3.5e-12  Score=97.90  Aligned_cols=217  Identities=9%  Similarity=0.016  Sum_probs=172.3

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC-CHHHHHHHHHHHhhCCCCCchhhHHHHHH
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG-QVEKVALVVEEIKRKNVVPDIFTYNLWIS  102 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g-~~~~a~~~~~~m~~~~~~p~~~~~~~ll~  102 (275)
                      ...|+.+...+.+.+.+++|+.+++.+.+.+ |-+...|+....++...| ++++|+..++...+...+ +..+|..+..
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~-~~~a~~~~~~  120 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPK-NYQVWHHRRV  120 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHh-hhhHHHHHhH
Confidence            6678888888999999999999999999976 556778999988888876 599999999999986554 6788999999


Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCC-
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGN-  181 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-  181 (275)
                      .+.+.|++++|+..++++.+.  .+.+...|..+...+.+.|++++|++ .++.+....+. +...|+.+...+.+.+. 
T Consensus       121 ~~~~l~~~~eAl~~~~kal~~--dp~n~~a~~~~~~~~~~~~~~~~Al~-~~~~al~~~p~-n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         121 LVEWLRDPSQELEFIADILNQ--DAKNYHAWQHRQWVIQEFKLWDNELQ-YVDQLLKEDVR-NNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHTCCTTHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCCTTHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHTTCS
T ss_pred             HHHhhccHHHHHHHHhhhhhh--hhcchHHHHHHHHHHHHHHhhHHHHH-HHHHHHHHCCc-cHHHHHHHHHHHHHcccc
Confidence            999999999999999999984  47788999999999999999999999 89998887655 67788877666666554 


Q ss_pred             -----HHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHh
Q 023952          182 -----KDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSD  249 (275)
Q Consensus       182 -----~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~  249 (275)
                           +++|.+.+.+..+.  .| +...|+.+...+ .....+++.+.++...+......+...+..++..|..
T Consensus       197 ~~~~~~~~ai~~~~~al~~--~P~~~~~~~~l~~ll-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~  267 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKL--VPHNESAWNYLKGIL-QDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYED  267 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHH--STTCHHHHHHHHHHH-TTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHh--CCCchHHHHHHHHHH-HhcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHH
Confidence                 57888888887775  34 455566555554 4445677888888877654333456666677777654

>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=99.51  E-value=1e-11  Score=95.09  Aligned_cols=219  Identities=12%  Similarity=0.080  Sum_probs=140.9

Q ss_pred             hhHHHHhhccccCCC-CHhHHHHHHHHHHcC--------------CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhcc
Q 023952            8 HSGERYFEGLPLSAK-TSETYTALLHLYAGA--------------KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSV   72 (275)
Q Consensus         8 ~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~--------------g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~   72 (275)
                      +.+..+|+++....| +...|..-+..+-+.              +..++|..+|++..+...+.+...|...+....+.
T Consensus        33 ~Rv~~vyerAl~~~~~~~~lW~~y~~~~~~~~~~~~~~~~~~~~~~~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~  112 (308)
T d2onda1          33 KRVMFAYEQCLLVLGHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESR  112 (308)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCchHHHHHHHhhcccchHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhc
Confidence            445566766655433 566666655544322              23466777777776654455566777777777777


Q ss_pred             CCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHH-HHhcCchHHHHH
Q 023952           73 GQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNI-YITASHLVNAES  151 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~a~~  151 (275)
                      |++++|..+|+.+.+........+|...+..+.+.|+++.|.++|+.+.+.  .+.+...|...+.. +...|+.+.|..
T Consensus       113 ~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~~--~~~~~~~~~~~a~~e~~~~~~~~~a~~  190 (308)
T d2onda1         113 MKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ARTRHHVYVTAALMEYYCSKDKSVAFK  190 (308)
T ss_dssp             TCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTS--TTCCTHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHhccCHHHHHH
Confidence            888888888888776533323446777777777778888888888877764  24444444444433 233567777777


Q ss_pred             HHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhcc-CCCC--hhhHHHHHHHHHhcCCHHHHHHHHHHHH
Q 023952          152 STLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTK-QKMT--SRNYICILSSYLMLGHLKEVGEIIDQWK  228 (275)
Q Consensus       152 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~-~~p~--~~~~~~li~~~~~~g~~~~a~~~~~~~~  228 (275)
                       +++.+....+. +...|...+......|+.++|..+|++..... ..|.  ...|...+..-...|+.+.+.++.+++.
T Consensus       191 -i~e~~l~~~p~-~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~  268 (308)
T d2onda1         191 -IFELGLKKYGD-IPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRF  268 (308)
T ss_dssp             -HHHHHHHHHTT-CHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHH
T ss_pred             -HHHHHHHhhhh-hHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence             77777766543 56677777777777788888888887765542 2332  2356666666667788888877777776


Q ss_pred             hc
Q 023952          229 QS  230 (275)
Q Consensus       229 ~~  230 (275)
                      +.
T Consensus       269 ~~  270 (308)
T d2onda1         269 TA  270 (308)
T ss_dssp             HH
T ss_pred             HH
Confidence            54

>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=99.51  E-value=2.1e-11  Score=93.30  Aligned_cols=221  Identities=10%  Similarity=0.059  Sum_probs=168.4

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc--------------cCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           40 TEKAEELFERVKQSNLSFNALMYNEMMTLYMS--------------VGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        40 ~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~--------------~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      .+++..+|+++... ++-++..|...+..+.+              .+..++|..+|++..+...+.+...|...+....
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            45577788887765 24566777665554332              2345889999999987644446677888888899


Q ss_pred             hhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHH-HHHccCCHHH
Q 023952          106 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII-LYAGLGNKDK  184 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~-~~~~~~~~~~  184 (275)
                      +.|+++.|..+|+++.+. .......+|...+....+.|+++.|.+ ++..+.+..+. +...|..... -+...|+.+.
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 99988876654 3344433333 3455789999


Q ss_pred             HHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC--HHHHHHHHHHHHhcCChHHHHHHHHH
Q 023952          185 IDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD--ISACNRLLGAFSDVGLTEKANEFHML  262 (275)
Q Consensus       185 a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~~li~~~~~~g~~~~a~~~~~~  262 (275)
                      |..+|+.+.+.. +.+...+...+..+...|+++.|..+|++.......+|+  ...|...+..-...|+.+.+.+++++
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 445678899999999999999999999999886533343  45788888888889999999999998


Q ss_pred             HHh
Q 023952          263 LLQ  265 (275)
Q Consensus       263 m~~  265 (275)
                      +.+
T Consensus       267 ~~~  269 (308)
T d2onda1         267 RFT  269 (308)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            865

>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=99.46  E-value=1.9e-11  Score=94.73  Aligned_cols=262  Identities=11%  Similarity=0.022  Sum_probs=187.0

Q ss_pred             cccChhhHHHHhhccccCCCC------HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC----CC-CCHHHHHHHHHHhhc
Q 023952            3 KVFGIHSGERYFEGLPLSAKT------SETYTALLHLYAGAKWTEKAEELFERVKQSN----LS-FNALMYNEMMTLYMS   71 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~----~~-~~~~~~~~li~~~~~   71 (275)
                      ..|++++|+++|++.....|+      ...++.+...|...|++++|...|++..+..    .. .....+..+...+..
T Consensus        24 ~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (366)
T d1hz4a_          24 NDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSEILFA  103 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHHHHHHH
Confidence            469999999999987655442      3567788899999999999999999876531    11 123456677788899


Q ss_pred             cCCHHHHHHHHHHHhhC----CCC--Cc-hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcC---CCCCCHHHHHHHHHHHH
Q 023952           72 VGQVEKVALVVEEIKRK----NVV--PD-IFTYNLWISSCAATLNIDQVKKFLDEMSCDS---GGSDDWVKYVNLVNIYI  141 (275)
Q Consensus        72 ~g~~~~a~~~~~~m~~~----~~~--p~-~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~~~~~~l~~~~~  141 (275)
                      .|++..+...+.+....    +..  +. ...+..+...+...|+++.+...+.......   +.......+..+...+.
T Consensus       104 ~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (366)
T d1hz4a_         104 QGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSL  183 (366)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHH
Confidence            99999999999886542    111  11 2345566777889999999999998876631   22223345566677788


Q ss_pred             hcCchHHHHHHHHHHHHHccCCc------chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCC---hhhHHHHHHHHH
Q 023952          142 TASHLVNAESSTLVEAEKSITQR------QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMT---SRNYICILSSYL  212 (275)
Q Consensus       142 ~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~---~~~~~~li~~~~  212 (275)
                      ..++...+.. .+..........      ....+..+...+...|++++|...+..........+   ...+..+...+.
T Consensus       184 ~~~~~~~a~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~  262 (366)
T d1hz4a_         184 ARGDLDNARS-QLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQI  262 (366)
T ss_dssp             HHTCHHHHHH-HHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHH
T ss_pred             hhhhHHHHHH-HHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHH
Confidence            8899998888 666554422211      123455666778899999999999987655432222   233556788899


Q ss_pred             hcCCHHHHHHHHHHHHhc----CCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          213 MLGHLKEVGEIIDQWKQS----ATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       213 ~~g~~~~a~~~~~~~~~~----~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ..|++++|...+++....    +..+....++..+...|...|++++|.+.+++.++
T Consensus       263 ~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~Al~  319 (366)
T d1hz4a_         263 LLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLLDALK  319 (366)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            999999999999988642    22122345778888999999999999999988754

>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=99.41  E-value=7.9e-11  Score=90.22  Aligned_cols=199  Identities=9%  Similarity=0.007  Sum_probs=160.2

Q ss_pred             HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhC-CHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           59 ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATL-NIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        59 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      ...|+.+-..+.+.+.+++|+++++++++.++. +...|+....++...| ++++|...++...+.  .+-+..+|..+.
T Consensus        43 ~~a~~~~~~~~~~~e~~~~Al~~~~~ai~lnP~-~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~--~p~~~~a~~~~~  119 (315)
T d2h6fa1          43 RDVYDYFRAVLQRDERSERAFKLTRDAIELNAA-NYTVWHFRRVLLKSLQKDLHEEMNYITAIIEE--QPKNYQVWHHRR  119 (315)
T ss_dssp             HHHHHHHHHHHHHTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH--CTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHHCCC-ChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHH--HHhhhhHHHHHh
Confidence            446677777788889999999999999996443 5667888888888776 589999999999874  467788999999


Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCC-
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGH-  216 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~-  216 (275)
                      ..+.+.|++++|+. .+..+....+. +...|..+...+...|++++|++.++++.+.+ +-+...|+.+...+.+.+. 
T Consensus       120 ~~~~~l~~~~eAl~-~~~kal~~dp~-n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~  196 (315)
T d2h6fa1         120 VLVEWLRDPSQELE-FIADILNQDAK-NYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGY  196 (315)
T ss_dssp             HHHHHHTCCTTHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCS
T ss_pred             HHHHhhccHHHHHH-HHhhhhhhhhc-chHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHcccc
Confidence            99999999999999 99998886655 78999999999999999999999999998864 2245667776666666555 


Q ss_pred             -----HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhc
Q 023952          217 -----LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQK  266 (275)
Q Consensus       217 -----~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~  266 (275)
                           +++|.+.+....+..  +.+...|+.+...+...| .+++.+.++...+.
T Consensus       197 ~~~~~~~~ai~~~~~al~~~--P~~~~~~~~l~~ll~~~~-~~~~~~~~~~~~~l  248 (315)
T d2h6fa1         197 NDRAVLEREVQYTLEMIKLV--PHNESAWNYLKGILQDRG-LSKYPNLLNQLLDL  248 (315)
T ss_dssp             CSHHHHHHHHHHHHHHHHHS--TTCHHHHHHHHHHHTTTC-GGGCHHHHHHHHHH
T ss_pred             chhhhhHHhHHHHHHHHHhC--CCchHHHHHHHHHHHhcC-hHHHHHHHHHHHHh
Confidence                 678999999888865  457788887776665544 57788888877653

>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=99.40  E-value=1e-11  Score=92.36  Aligned_cols=217  Identities=11%  Similarity=-0.008  Sum_probs=144.6

Q ss_pred             cChhhHHHHhhccccCC----C-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHH
Q 023952            5 FGIHSGERYFEGLPLSA----K-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVA   79 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~----~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~   79 (275)
                      ++.+.|+.-+++.....    + ...+|..+..+|.+.|++++|...|++..+.. |-++.+|+.+..+|.+.|++++|+
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhh
Confidence            34455555555554432    2 45678888999999999999999999988865 457889999999999999999999


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      +.|++..+.... +..++..+..++...|++++|...|+...+.  .+.+......+...+.+.+..+.+.. +......
T Consensus        92 ~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  167 (259)
T d1xnfa_          92 EAFDSVLELDPT-YNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEV-LKQHFEK  167 (259)
T ss_dssp             HHHHHHHHHCTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHH-HHHHHHH
T ss_pred             hhhhHHHHHHhh-hhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHH-HHHHhhc
Confidence            999999986433 4667888889999999999999999998875  24455554455555566666555554 3333333


Q ss_pred             ccCCcchhhHHHHHHHHHccCCH----HHHHHHHHHHHhccCCCC-hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          160 SITQRQWITYDFLIILYAGLGNK----DKIDQIWKSLRMTKQKMT-SRNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~----~~a~~~~~~m~~~~~~p~-~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      ...  +...++ ++..+......    +.+...+......  .|+ ..++..+...|...|++++|.+.|+......
T Consensus       168 ~~~--~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~  239 (259)
T d1xnfa_         168 SDK--EQWGWN-IVEFYLGNISEQTLMERLKADATDNTSL--AEHLSETNFYLGKYYLSLGDLDSATALFKLAVANN  239 (259)
T ss_dssp             SCC--CSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHH--HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             cch--hhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhc--CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC
Confidence            222  222222 22222222221    2222221111111  121 2356678889999999999999999988743

>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=99.32  E-value=9.7e-11  Score=86.95  Aligned_cols=223  Identities=13%  Similarity=-0.021  Sum_probs=150.7

Q ss_pred             CCHHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHH
Q 023952           38 KWTEKAEELFERVKQSNL-SF--NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVK  114 (275)
Q Consensus        38 g~~~~a~~~~~~m~~~~~-~~--~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~  114 (275)
                      .+.+.++.-+++...... .+  ...+|..+...|.+.|++++|++.|++..+.... +..+|..+..++.+.|++++|+
T Consensus        13 ~~~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~-~~~a~~~lg~~~~~~g~~~~A~   91 (259)
T d1xnfa_          13 LQQEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPD-MPEVFNYLGIYLTQAGNFDAAY   91 (259)
T ss_dssp             HHHHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCC-CHHHHhhhchHHHHHHHHHHhh
Confidence            345667777777765421 11  2457778888999999999999999999986433 6788999999999999999999


Q ss_pred             HHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHh
Q 023952          115 KFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      ..|+++.+.  .|.+..++..+..+|...|++++|.. .++...+..+. +......+...+.+.+..+....+......
T Consensus        92 ~~~~~al~~--~p~~~~a~~~lg~~~~~~g~~~~A~~-~~~~al~~~p~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  167 (259)
T d1xnfa_          92 EAFDSVLEL--DPTYNYAHLNRGIALYYGGRDKLAQD-DLLAFYQDDPN-DPFRSLWLYLAEQKLDEKQAKEVLKQHFEK  167 (259)
T ss_dssp             HHHHHHHHH--CTTCTHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHCTT-CHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hhhhHHHHH--HhhhhhhHHHHHHHHHHHhhHHHHHH-HHHHHHhhccc-cHHHHHHHHHHHHHhhhHHHHHHHHHHhhc
Confidence            999999984  35567788899999999999999999 88888776653 444444444455566666656555555544


Q ss_pred             ccCCCChhhHHHHHHHHHhcCC----HHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHhcCCCC
Q 023952          195 TKQKMTSRNYICILSSYLMLGH----LKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLLQKNCAP  270 (275)
Q Consensus       195 ~~~~p~~~~~~~li~~~~~~g~----~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p  270 (275)
                      .  .++...++ ++..+.....    .+.+...+.......  +....+|..+...|...|++++|...|++.+..  .|
T Consensus       168 ~--~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~--~p  240 (259)
T d1xnfa_         168 S--DKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLA--EHLSETNFYLGKYYLSLGDLDSATALFKLAVAN--NV  240 (259)
T ss_dssp             S--CCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHH--HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT--CC
T ss_pred             c--chhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcC--cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHc--CC
Confidence            3  22222222 2333222222    222222222111111  112346777889999999999999999998863  45


Q ss_pred             CC
Q 023952          271 TN  272 (275)
Q Consensus       271 ~~  272 (275)
                      +.
T Consensus       241 ~~  242 (259)
T d1xnfa_         241 HN  242 (259)
T ss_dssp             TT
T ss_pred             CC
Confidence            43

>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=99.32  E-value=8.6e-12  Score=96.55  Aligned_cols=246  Identities=7%  Similarity=-0.020  Sum_probs=168.3

Q ss_pred             hhhHHHHhhccccCCC-CHhHHHHHHHH---HHc-------CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccC--
Q 023952            7 IHSGERYFEGLPLSAK-TSETYTALLHL---YAG-------AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVG--   73 (275)
Q Consensus         7 ~~~A~~~~~~~~~~~~-~~~~~~~li~~---~~~-------~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g--   73 (275)
                      .++|+++++......| +...|+..-..   +..       .|++++|+.+++...+.+ +-+...|..+..++...+  
T Consensus        45 ~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~~~~  123 (334)
T d1dcea1          45 DESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEP  123 (334)
T ss_dssp             SHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSC
T ss_pred             cHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHhccc
Confidence            3788888888877667 45556543333   222       344778888888887764 456777777766665554  


Q ss_pred             CHHHHHHHHHHHhhCCCCCchhhHH-HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHH
Q 023952           74 QVEKVALVVEEIKRKNVVPDIFTYN-LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESS  152 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~~~~~-~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~  152 (275)
                      ++++|+..+....+.... +...+. .....+...+.++.|...++.+.+.  -+-+...|+.+..++.+.|++++|.. 
T Consensus       124 ~~~~a~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~--~p~~~~a~~~l~~~~~~~~~~~~A~~-  199 (334)
T d1dcea1         124 NWARELELCARFLEADER-NFHCWDYRRFVAAQAAVAPAEELAFTDSLITR--NFSNYSSWHYRSCLLPQLHPQPDSGP-  199 (334)
T ss_dssp             CHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTT--TCCCHHHHHHHHHHHHHHSCCCCSSS-
T ss_pred             cHHHHHHHHHHHHhhCch-hhhhhhhHHHHHHHhccccHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCHHHHHH-
Confidence            588899999888886432 444444 3445666778889999998888874  35677788888888888888888766 


Q ss_pred             HHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 023952          153 TLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  232 (275)
Q Consensus       153 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  232 (275)
                      .+.......+. +    ......+...+..+++...+....... .++...+..+...+...|+.++|...+.+..+.. 
T Consensus       200 ~~~~~~~~~~~-~----~~~~~~~~~l~~~~~a~~~~~~~l~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  272 (334)
T d1dcea1         200 QGRLPENVLLK-E----LELVQNAFFTDPNDQSAWFYHRWLLGR-AEPLFRCELSVEKSTVLQSELESCKELQELEPEN-  272 (334)
T ss_dssp             CCSSCHHHHHH-H----HHHHHHHHHHCSSCSHHHHHHHHHHSC-CCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC-
T ss_pred             HHHHhHHhHHH-H----HHHHHHHHHhcchhHHHHHHHHHHHhC-cchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC-
Confidence            43332222111 1    112233445566667777777665543 3345556667778888889999999888877643 


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          233 SDFDISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       233 ~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                       +.+..+|..+...+.+.|++++|.+.+++.++
T Consensus       273 -p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~  304 (334)
T d1dcea1         273 -KWCLLTIILLMRALDPLLYEKETLQYFSTLKA  304 (334)
T ss_dssp             -HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHH
T ss_pred             -chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence             34567788888899999999999999998876

>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=99.16  E-value=4.9e-08  Score=74.95  Aligned_cols=240  Identities=10%  Similarity=-0.009  Sum_probs=168.9

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCC-----HHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC-CCc----
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNLSFN-----ALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV-VPD----   93 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~-----~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~p~----   93 (275)
                      ..........+...|++++|..++++..+.. +.+     ...++.+...+...|++++|++.|++..+... .++    
T Consensus        12 ae~~~lrA~~~~~~g~~~~A~~~~~~aL~~~-~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~   90 (366)
T d1hz4a_          12 AEFNALRAQVAINDGNPDEAERLAKLALEEL-PPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYA   90 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-CTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHhhC-cCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHH
Confidence            3444455677889999999999999987753 222     34677788899999999999999999876311 111    


Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhc---CCCCC---CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC----
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCD---SGGSD---DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ----  163 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~---~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~----  163 (275)
                      ..++..+...+...|++..+...+.+....   .....   ....+..+...+...|+++.+.. .+.........    
T Consensus        91 ~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~-~~~~~~~~~~~~~~~  169 (366)
T d1hz4a_          91 LWSLIQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEA-SARSGIEVLSSYQPQ  169 (366)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHHTTTSCGG
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHH-HHHHHHHHhhhhhhh
Confidence            245566677788999999999988876531   01111   12345667788999999999999 77776654332    


Q ss_pred             cchhhHHHHHHHHHccCCHHHHHHHHHHHHhccC--CCC----hhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCC--C
Q 023952          164 RQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQ--KMT----SRNYICILSSYLMLGHLKEVGEIIDQWKQSATSD--F  235 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~--~p~----~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~--~  235 (275)
                      .....+......+...++...+...+.+......  ...    ...+..+...+...|+++.|...+....+.....  .
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  249 (366)
T d1hz4a_         170 QQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHF  249 (366)
T ss_dssp             GGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGG
T ss_pred             hHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchH
Confidence            2234455566678889999999988876544311  111    1234556777889999999999999876543211  1


Q ss_pred             CHHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          236 DISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       236 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                      ....+..+..++...|++++|...+++...
T Consensus       250 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~  279 (366)
T d1hz4a_         250 LQGQWRNIARAQILLGEFEPAEIVLEELNE  279 (366)
T ss_dssp             GHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            234566678899999999999999988753

>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=99.14  E-value=2.5e-11  Score=93.92  Aligned_cols=231  Identities=8%  Similarity=-0.073  Sum_probs=170.5

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCC--HHHHHHHHHHHHhCCCCCCHHHHHH-HHHHhhccCCHHHHH
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKW--TEKAEELFERVKQSNLSFNALMYNE-MMTLYMSVGQVEKVA   79 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~--~~~a~~~~~~m~~~~~~~~~~~~~~-li~~~~~~g~~~~a~   79 (275)
                      .|++++|+.+|+......| +...|..+..++...++  +++|...++.+.+.. +++...+.. ....+...+.+++|+
T Consensus        86 ~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al  164 (334)
T d1dcea1          86 AALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEEL  164 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHH
Confidence            3567889999999877666 78888888888777664  889999999998875 456666654 446777889999999


Q ss_pred             HHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHH
Q 023952           80 LVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEK  159 (275)
Q Consensus        80 ~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  159 (275)
                      +.++.+.+.+.. +...|..+...+.+.|++++|...+....+.   .|..   ..+...+...+..+++.. .+.....
T Consensus       165 ~~~~~~i~~~p~-~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~---~~~~~~~~~l~~~~~a~~-~~~~~l~  236 (334)
T d1dcea1         165 AFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPDSGPQGRLPENV---LLKE---LELVQNAFFTDPNDQSAW-FYHRWLL  236 (334)
T ss_dssp             HHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCCSSSCCSSCHHH---HHHH---HHHHHHHHHHCSSCSHHH-HHHHHHH
T ss_pred             HHHHHHHHcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHhHHh---HHHH---HHHHHHHHHhcchhHHHH-HHHHHHH
Confidence            999999987654 6788999999999999998887766554442   1211   123344566677778877 6666655


Q ss_pred             ccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHH
Q 023952          160 SITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDIS  238 (275)
Q Consensus       160 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  238 (275)
                      ..+ ++...+..+...+...++.++|...+.+....  .| +...+..+...+.+.|++++|.+.+++..+..  |.+..
T Consensus       237 ~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ld--P~~~~  311 (334)
T d1dcea1         237 GRA-EPLFRCELSVEKSTVLQSELESCKELQELEPE--NKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVD--PMRAA  311 (334)
T ss_dssp             SCC-CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTT--CHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHC--GGGHH
T ss_pred             hCc-chhhHHHHHHHHHHHHhhHHHHHHHHHHHHhh--CchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC--cccHH
Confidence            443 34555666677778889999999999877654  33 34667778889999999999999999998853  23455


Q ss_pred             HHHHHHHHHH
Q 023952          239 ACNRLLGAFS  248 (275)
Q Consensus       239 ~~~~li~~~~  248 (275)
                      .|..|...+.
T Consensus       312 y~~~L~~~~~  321 (334)
T d1dcea1         312 YLDDLRSKFL  321 (334)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            6666655444

>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=99.01  E-value=2e-08  Score=70.74  Aligned_cols=138  Identities=15%  Similarity=0.013  Sum_probs=72.6

Q ss_pred             HHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCH
Q 023952           31 LHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNI  110 (275)
Q Consensus        31 i~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~  110 (275)
                      ...+...|+++.|++.|+++    .+|++.+|..+..+|...|++++|++.|++.++.+.. +...|..+..++.+.|++
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~-~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKH-LAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhh-hhhhHHHHHHHHHhhccH
Confidence            33445556666666655542    2345555555666666666666666666666554322 344555555556666666


Q ss_pred             HHHHHHHHHHhhcC-----------C--CCC-CHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHH
Q 023952          111 DQVKKFLDEMSCDS-----------G--GSD-DWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  174 (275)
Q Consensus       111 ~~a~~~~~~~~~~~-----------~--~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  174 (275)
                      ++|.+.|++.....           +  .++ ...++..+..+|.+.|++++|.+ .+.......+.+........+.
T Consensus        87 ~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~-~l~~A~~~~~~~~~~~~~~Al~  163 (192)
T d1hh8a_          87 DLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEE-QLALATSMKSEPRHSKIDKAME  163 (192)
T ss_dssp             HHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHH-HHHHHHTTCCSGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHH-HHHHHHhcCCCcchHHHHHHHH
Confidence            66666665544310           0  000 12344555666666666666666 6666555555444434443333

>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=98.99  E-value=4.9e-08  Score=68.70  Aligned_cols=139  Identities=11%  Similarity=-0.035  Sum_probs=82.1

Q ss_pred             HHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCch
Q 023952           67 TLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHL  146 (275)
Q Consensus        67 ~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  146 (275)
                      ..+...|++++|++.|.++    .+|+..+|..+..++...|++++|++.|++..+.  -+.+...|..+..+|.+.|++
T Consensus        13 ~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~l--dp~~~~a~~~~g~~~~~~g~~   86 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSINR--DKHLAVAYFQRGMLYYQTEKY   86 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHH--hhhhhhhHHHHHHHHHhhccH
Confidence            3445667777777776643    2345566666777777777777777777776663  245566666777777777777


Q ss_pred             HHHHHHHHHHHHHccCCc---------------chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHH
Q 023952          147 VNAESSTLVEAEKSITQR---------------QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSY  211 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~---------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~  211 (275)
                      ++|.+ .+++........               ...++..+..++...|++++|.+.+....+....+........+..+
T Consensus        87 ~~A~~-~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~~~~~~~~~Al~~~  165 (192)
T d1hh8a_          87 DLAIK-DLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEPRHSKIDKAMECV  165 (192)
T ss_dssp             HHHHH-HHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSGGGGHHHHHHHHH
T ss_pred             HHHHH-HHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcchHHHHHHHHHH
Confidence            77776 666654422110               12344455566667777777777776666544444333344334433


Q ss_pred             H
Q 023952          212 L  212 (275)
Q Consensus       212 ~  212 (275)
                      .
T Consensus       166 ~  166 (192)
T d1hh8a_         166 W  166 (192)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=2.5e-08  Score=75.06  Aligned_cols=59  Identities=15%  Similarity=0.064  Sum_probs=25.6

Q ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHhhccCCHHHHHHHHHHH
Q 023952           27 YTALLHLYAGAKWTEKAEELFERVKQS----NLSF-NALMYNEMMTLYMSVGQVEKVALVVEEI   85 (275)
Q Consensus        27 ~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m   85 (275)
                      |......|...|++++|...|.+..+.    +-++ -..+|+.+..+|.+.|++++|++.+++.
T Consensus        40 y~~aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a  103 (290)
T d1qqea_          40 CVQAATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENA  103 (290)
T ss_dssp             HHHHHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHh
Confidence            444444444555555555555443321    1011 1224444444444445555554444443

>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=98.93  E-value=8.2e-08  Score=72.19  Aligned_cols=211  Identities=10%  Similarity=-0.089  Sum_probs=145.8

Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhC----CCCC-chhhHHHHHHHHHhhCCHHH
Q 023952           38 KWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRK----NVVP-DIFTYNLWISSCAATLNIDQ  112 (275)
Q Consensus        38 g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~----~~~p-~~~~~~~ll~~~~~~~~~~~  112 (275)
                      +++++|.++|.+.               ...|...|++++|.+.|.+..+.    +-.+ -..+|..+..+|.+.|++++
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            4578888877654               45688899999999999988753    2122 24678889999999999999


Q ss_pred             HHHHHHHHhhc----CCCCCCHHHHHHHHHHHH-hcCchHHHHHHHHHHHHHccC---Cc--chhhHHHHHHHHHccCCH
Q 023952          113 VKKFLDEMSCD----SGGSDDWVKYVNLVNIYI-TASHLVNAESSTLVEAEKSIT---QR--QWITYDFLIILYAGLGNK  182 (275)
Q Consensus       113 a~~~~~~~~~~----~~~~~~~~~~~~l~~~~~-~~g~~~~a~~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~  182 (275)
                      |...+++....    +.......++..+...|. ..|++++|++ .+.+......   .+  ...++..+...|...|++
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            99999986542    111122445667777774 4699999999 8877654211   11  245678889999999999


Q ss_pred             HHHHHHHHHHHhccCCCCh------hhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCC---HHHHHHHHHHHHh--cC
Q 023952          183 DKIDQIWKSLRMTKQKMTS------RNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFD---ISACNRLLGAFSD--VG  251 (275)
Q Consensus       183 ~~a~~~~~~m~~~~~~p~~------~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~~li~~~~~--~g  251 (275)
                      ++|...|+++.........      ..+...+..+...|+++.|...+++..+....-++   ......++.++-.  .+
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            9999999998765322211      12345566777899999999999998764321122   2345667777665  35


Q ss_pred             ChHHHHHHHHHHH
Q 023952          252 LTEKANEFHMLLL  264 (275)
Q Consensus       252 ~~~~a~~~~~~m~  264 (275)
                      .+++|...|+++.
T Consensus       255 ~~~eai~~y~~~~  267 (290)
T d1qqea_         255 QLSEHCKEFDNFM  267 (290)
T ss_dssp             THHHHHHHHTTSS
T ss_pred             HHHHHHHHHHHHh
Confidence            6888888776544

>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=98.89  E-value=8.5e-08  Score=61.61  Aligned_cols=91  Identities=10%  Similarity=-0.029  Sum_probs=61.1

Q ss_pred             HHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCC
Q 023952           30 LLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLN  109 (275)
Q Consensus        30 li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~  109 (275)
                      -...+.+.|++++|+..|++..+.. |-++..|..+..+|.+.|++++|+..+....+.+.. +...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIKLD-PHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhcC-CcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccC
Confidence            3455666677777777777766654 455666777777777777777777777777665432 55666667777777777


Q ss_pred             HHHHHHHHHHHhh
Q 023952          110 IDQVKKFLDEMSC  122 (275)
Q Consensus       110 ~~~a~~~~~~~~~  122 (275)
                      +++|+..|++..+
T Consensus        87 ~~~A~~~~~~a~~   99 (117)
T d1elwa_          87 FEEAKRTYEEGLK   99 (117)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHH
Confidence            7777777777665

>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=98.87  E-value=1.1e-07  Score=64.76  Aligned_cols=108  Identities=14%  Similarity=0.003  Sum_probs=81.6

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHH
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCA  105 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~  105 (275)
                      .+......|.+.|++++|...|++..+.+ |-+...|..+..+|...|++++|++.|++.++.+.. +..+|..+..++.
T Consensus        12 ~l~~~gn~~~~~~~y~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~   89 (159)
T d1a17a_          12 ELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNM   89 (159)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHhhhccccc-hhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHH
Confidence            34455667888888888888888888775 557778888888888888888888888888875432 5578888888888


Q ss_pred             hhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952          106 ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus       106 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      ..|++++|...+++..+.  .+.+...+..+.
T Consensus        90 ~~g~~~eA~~~~~~a~~~--~p~~~~~~~~l~  119 (159)
T d1a17a_          90 ALGKFRAALRDYETVVKV--KPHDKDAKMKYQ  119 (159)
T ss_dssp             HTTCHHHHHHHHHHHHHH--STTCHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHc--CCCCHHHHHHHH
Confidence            888888888888888774  234444444433

>d1elwa_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.85  E-value=1.7e-08  Score=64.97  Aligned_cols=90  Identities=13%  Similarity=-0.047  Sum_probs=81.2

Q ss_pred             cccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALV   81 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~   81 (275)
                      +.|++++|+..|++.....| +...|..+..+|...|++++|+..++...+.+ +.++..|..+..++...|++++|+..
T Consensus        15 ~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~g~~~~~~~~~~~A~~~   93 (117)
T d1elwa_          15 SVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLK-PDWGKGYSRKAAALEFLNRFEEAKRT   93 (117)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhc-cchhhHHHHHHHHHHHccCHHHHHHH
Confidence            56999999999999887777 79999999999999999999999999999876 67889999999999999999999999


Q ss_pred             HHHHhhCCCCCchh
Q 023952           82 VEEIKRKNVVPDIF   95 (275)
Q Consensus        82 ~~~m~~~~~~p~~~   95 (275)
                      |++..+.  .|+..
T Consensus        94 ~~~a~~~--~p~~~  105 (117)
T d1elwa_          94 YEEGLKH--EANNP  105 (117)
T ss_dssp             HHHHHTT--CTTCH
T ss_pred             HHHHHHh--CCCCH
Confidence            9999985  45443

>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=98.79  E-value=8.4e-08  Score=67.80  Aligned_cols=99  Identities=10%  Similarity=0.018  Sum_probs=65.4

Q ss_pred             CCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHH
Q 023952           22 KTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWI  101 (275)
Q Consensus        22 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll  101 (275)
                      |+...+......|.+.|++++|+..|+...+.. |.++..|+.+..+|.+.|++++|+..|++..+.... +..+|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~-~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTT-CHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCC-cHHHHHHHH
Confidence            455555666667777777777777777766654 456666777777777777777777777777663221 355666677


Q ss_pred             HHHHhhCCHHHHHHHHHHHhh
Q 023952          102 SSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus       102 ~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      .+|.+.|++++|...|+++.+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~  100 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYS  100 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHH
Confidence            777777777777777776554

>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=98.78  E-value=2.6e-07  Score=62.77  Aligned_cols=90  Identities=16%  Similarity=0.005  Sum_probs=51.8

Q ss_pred             HHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCH
Q 023952          138 NIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHL  217 (275)
Q Consensus       138 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~  217 (275)
                      ..|.+.|++++|+. .|.+..+..+. +...|..+...|...|++++|...|++..+.. +-+...|..+..+|...|++
T Consensus        18 n~~~~~~~y~~A~~-~~~~al~~~p~-~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~-p~~~~a~~~~g~~~~~~g~~   94 (159)
T d1a17a_          18 NDYFKAKDYENAIK-FYSQAIELNPS-NAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKF   94 (159)
T ss_dssp             HHHHHTTCHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHcCCHHHHHH-Hhhhccccchh-hhhhhhhhHHHHHhccccchHHHHHHHHHHHc-ccchHHHHHHHHHHHHcCCH
Confidence            44556666666666 55555554433 55555666666666666666666666655542 22334555566666666666


Q ss_pred             HHHHHHHHHHHhc
Q 023952          218 KEVGEIIDQWKQS  230 (275)
Q Consensus       218 ~~a~~~~~~~~~~  230 (275)
                      ++|...+++....
T Consensus        95 ~eA~~~~~~a~~~  107 (159)
T d1a17a_          95 RAALRDYETVVKV  107 (159)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHc
Confidence            6666666666554

>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=98.76  E-value=1.1e-05  Score=59.27  Aligned_cols=226  Identities=13%  Similarity=-0.006  Sum_probs=152.6

Q ss_pred             CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc----cCCHHHHHHHHHHHhhCCCCCchhhHH
Q 023952           23 TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMS----VGQVEKVALVVEEIKRKNVVPDIFTYN   98 (275)
Q Consensus        23 ~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~p~~~~~~   98 (275)
                      |+..+..|...+.+.+++++|.+.|++..+.|   +...+..|-..|..    ..+...|...+....+.+.   .....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhh
Confidence            46678888888889999999999999998887   66666667766665    6689999999998887653   33344


Q ss_pred             HHHHHHHh----hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchHHHHHHHHHHHHHccCCcchhhHH
Q 023952           99 LWISSCAA----TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYD  170 (275)
Q Consensus        99 ~ll~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~  170 (275)
                      .+...+..    ..+.+.|...++..... +.   ......+...+..    ......+.. .+...   ....+...+.
T Consensus        75 ~l~~~~~~~~~~~~~~~~a~~~~~~a~~~-g~---~~a~~~l~~~~~~~~~~~~~~~~a~~-~~~~~---~~~~~~~~~~  146 (265)
T d1ouva_          75 LLGNLYYSGQGVSQNTNKALQYYSKACDL-KY---AEGCASLGGIYHDGKVVTRDFKKAVE-YFTKA---CDLNDGDGCT  146 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHT-TC---HHHHHHHHHHHHHCSSSCCCHHHHHH-HHHHH---HHTTCHHHHH
T ss_pred             ccccccccccccchhhHHHHHHHhhhhhh-hh---hhHHHhhcccccCCCcccchhHHHHH-Hhhhh---hcccccchhh
Confidence            44444332    45778899999888775 32   2222333333333    233344444 33332   2234556777


Q ss_pred             HHHHHHHc----cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHHHHHHHHHHHHhcCCCCCCHHHHHH
Q 023952          171 FLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLKEVGEIIDQWKQSATSDFDISACNR  242 (275)
Q Consensus       171 ~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~  242 (275)
                      .+...|..    ..+...+...++...+.|   +......+...|..    ..+++.|..+|.+..+.+    ++..+..
T Consensus       147 ~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g----~~~a~~~  219 (265)
T d1ouva_         147 ILGSLYDAGRGTPKDLKKALASYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE----NGGGCFN  219 (265)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT----CHHHHHH
T ss_pred             hhhhhhccCCCcccccccchhhhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc----CHHHHHH
Confidence            77777764    456778888888777654   44555556555654    568999999999988764    3455666


Q ss_pred             HHHHHHh----cCChHHHHHHHHHHHhcCCC
Q 023952          243 LLGAFSD----VGLTEKANEFHMLLLQKNCA  269 (275)
Q Consensus       243 li~~~~~----~g~~~~a~~~~~~m~~~~~~  269 (275)
                      |...|.+    ..+.++|.++|++..+.|-.
T Consensus       220 LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         220 LGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             HHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            7777765    34788999999998877643

>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=98.75  E-value=5.1e-08  Score=68.94  Aligned_cols=101  Identities=10%  Similarity=-0.119  Sum_probs=86.3

Q ss_pred             CCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHH
Q 023952           57 FNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNL  136 (275)
Q Consensus        57 ~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  136 (275)
                      |++..+......+.+.|++++|+..|++..+.... +...|..+..+|.+.|++++|+..|+++.+.  .|.+..+|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~p~-~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l--~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRNPL-VAVYYTNRALCYLKMQQPEQALADCRRALEL--DGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--CTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHhHHHHHhhhhhhhhhhHHHHHHHHh--CCCcHHHHHHH
Confidence            67777778888999999999999999999886543 6778999999999999999999999999873  35667889999


Q ss_pred             HHHHHhcCchHHHHHHHHHHHHHcc
Q 023952          137 VNIYITASHLVNAESSTLVEAEKSI  161 (275)
Q Consensus       137 ~~~~~~~g~~~~a~~~~~~~~~~~~  161 (275)
                      ..+|.+.|++++|+. .++......
T Consensus        79 g~~~~~l~~~~~A~~-~~~~al~l~  102 (201)
T d2c2la1          79 GQCQLEMESYDEAIA-NLQRAYSLA  102 (201)
T ss_dssp             HHHHHHTTCHHHHHH-HHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHH-HHHHHHHhC
Confidence            999999999999999 888776543

>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=98.65  E-value=2.3e-07  Score=58.97  Aligned_cols=91  Identities=11%  Similarity=-0.062  Sum_probs=61.6

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhh
Q 023952           28 TALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAAT  107 (275)
Q Consensus        28 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~  107 (275)
                      -.+...+.+.|++++|...|++..+.. |-++..|..+..++.+.|++++|+..|++..+.... +..+|..+...|...
T Consensus        20 ~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~   97 (112)
T d1hxia_          20 MEEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHC
Confidence            344556667777777777777776654 335667777777777777777777777777764322 456666677777777


Q ss_pred             CCHHHHHHHHHHH
Q 023952          108 LNIDQVKKFLDEM  120 (275)
Q Consensus       108 ~~~~~a~~~~~~~  120 (275)
                      |++++|.+.+++.
T Consensus        98 g~~~~A~~~l~~~  110 (112)
T d1hxia_          98 HNANAALASLRAW  110 (112)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHH
Confidence            7777777777654

>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=98.64  E-value=2.3e-07  Score=59.85  Aligned_cols=95  Identities=14%  Similarity=0.040  Sum_probs=70.7

Q ss_pred             HHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCC---HHHHHHHHHHHhhCCCCCch-hhHHHHHHH
Q 023952           28 TALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQ---VEKVALVVEEIKRKNVVPDI-FTYNLWISS  103 (275)
Q Consensus        28 ~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~---~~~a~~~~~~m~~~~~~p~~-~~~~~ll~~  103 (275)
                      ..++..+...+++++|.+.|+.....+ +.++.++..+..++.+.++   +++|+++|+++.+.+..|+. .++..+..+
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            356677777888888888888888765 5677888888888876554   45688888888776544432 366777888


Q ss_pred             HHhhCCHHHHHHHHHHHhhc
Q 023952          104 CAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~  123 (275)
                      |.+.|++++|.+.|+++.+.
T Consensus        82 y~~~g~~~~A~~~~~~aL~~  101 (122)
T d1nzna_          82 NYRLKEYEKALKYVRGLLQT  101 (122)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhhhHHHHHHHHHHHHh
Confidence            88888888888888888874

>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=98.58  E-value=2e-06  Score=58.87  Aligned_cols=97  Identities=3%  Similarity=-0.126  Sum_probs=52.7

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC-CC-------------CHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSNL-SF-------------NALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV   90 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~-~~-------------~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   90 (275)
                      ..+......+.+.|++++|...|++..+..- .+             -..+|+.+..+|.+.|++++|+..++..++.++
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~y~k~~~~~~A~~~~~~al~~~p   93 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALELDS   93 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchHHHhhhchhHHHHHHHHHHHHHhhhhcccccchhhhhhhccc
Confidence            4455566778888888888888887664310 00             012344444455555555555555555554322


Q ss_pred             CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           91 VPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        91 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      . ++.++..+..++...|++++|...|++..+
T Consensus        94 ~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~  124 (170)
T d1p5qa1          94 N-NEKGLSRRGEAHLAVNDFELARADFQKVLQ  124 (170)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             c-chhhhHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            1 344455555555555555555555555544

>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=98.58  E-value=5.6e-07  Score=57.10  Aligned_cols=91  Identities=8%  Similarity=-0.110  Sum_probs=68.2

Q ss_pred             HHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhc
Q 023952          171 FLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDV  250 (275)
Q Consensus       171 ~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~  250 (275)
                      .....+.+.|++++|...|++..... +-+...|..+..++.+.|++++|+..|++..+..  +.+...|..+...|...
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~--p~~~~a~~~la~~y~~~   97 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARMLD--PKDIAVHAALAVSHTNE   97 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccccc--cccccchHHHHHHHHHC
Confidence            34556777888888888888877653 2246677778888888888888888888887754  45677788888888888


Q ss_pred             CChHHHHHHHHHHH
Q 023952          251 GLTEKANEFHMLLL  264 (275)
Q Consensus       251 g~~~~a~~~~~~m~  264 (275)
                      |++++|.+.+++.+
T Consensus        98 g~~~~A~~~l~~~l  111 (112)
T d1hxia_          98 HNANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            88888888887653

>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=98.57  E-value=3e-07  Score=59.25  Aligned_cols=93  Identities=10%  Similarity=-0.012  Sum_probs=51.2

Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC---chHHHHHHHHHHHHHccCCcc-hhhHHHHHH
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS---HLVNAESSTLVEAEKSITQRQ-WITYDFLII  174 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~  174 (275)
                      .+++.+...+++++|++.|++....  -|.+..++..+..++.+.+   ++++|+. +++.+....+.|+ ..+|..+..
T Consensus         4 ~l~n~~~~~~~l~~Ae~~Y~~aL~~--~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~-~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           4 AVLNELVSVEDLLKFEKKFQSEKAA--GSVSKSTQFEYAWCLVRTRYNDDIRKGIV-LLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--SCCCHHHHHHHHHHHTTSSSHHHHHHHHH-HHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHhcCHHHHHHHHHHHHHHHhh--CCCCHHHHHHHHHHHHHhcchHHHHHHHH-HHHHHHhccCCchHHHHHHHHHH
Confidence            4555556666666666666666553  2455556666666665433   3334555 5555544443333 234555556


Q ss_pred             HHHccCCHHHHHHHHHHHHh
Q 023952          175 LYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m~~  194 (275)
                      +|.+.|++++|.+.|+++.+
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~  100 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQ  100 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHH
Confidence            66666666666666666655

>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=98.49  E-value=3.9e-05  Score=56.20  Aligned_cols=211  Identities=12%  Similarity=-0.028  Sum_probs=143.3

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHc----CCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhh----ccCC
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAG----AKWTEKAEELFERVKQSNLSFNALMYNEMMTLYM----SVGQ   74 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~----~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~----~~g~   74 (275)
                      +.+++++|++.|++..+.+ +..++..|...|..    ..+...|...+......+   ++.....+...+.    ..++
T Consensus        14 ~~~d~~~A~~~~~kAa~~g-~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~~l~~~~~~~~~~~~~   89 (265)
T d1ouva_          14 KEKDFTQAKKYFEKACDLK-ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCHLLGNLYYSGQGVSQN   89 (265)
T ss_dssp             HTTCHHHHHHHHHHHHHTT-CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCC
T ss_pred             HCCCHHHHHHHHHHHHHCC-CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhhccccccccccccchh
Confidence            3579999999999987643 66777778877776    668999999999988877   3444444444433    3568


Q ss_pred             HHHHHHHHHHHhhCCCCCchhhHHHHHHHHH----hhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCch
Q 023952           75 VEKVALVVEEIKRKNVVPDIFTYNLWISSCA----ATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHL  146 (275)
Q Consensus        75 ~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  146 (275)
                      .+.|...+++..+.|..   .....+...+.    .......+...+......    .+...+..+...|..    ..+.
T Consensus        90 ~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~L~~~~~~~~~~~~~~  162 (265)
T d1ouva_          90 TNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTRDFKKAVEYFTKACDL----NDGDGCTILGSLYDAGRGTPKDL  162 (265)
T ss_dssp             HHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHT----TCHHHHHHHHHHHHHTSSSCCCH
T ss_pred             hHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccchhHHHHHHhhhhhcc----cccchhhhhhhhhccCCCccccc
Confidence            89999999998887643   22223333333    234566677777666553    566677778888876    3344


Q ss_pred             HHHHHHHHHHHHHccCCcchhhHHHHHHHHHc----cCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHh----cCCHH
Q 023952          147 VNAESSTLVEAEKSITQRQWITYDFLIILYAG----LGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLM----LGHLK  218 (275)
Q Consensus       147 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~----~g~~~  218 (275)
                      ..+.. .+....+.+   +......+...|..    ..++++|...|++..+.|   ++..+..|...|.+    ..+.+
T Consensus       163 ~~~~~-~~~~a~~~g---~~~A~~~lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~  235 (265)
T d1ouva_         163 KKALA-SYDKACDLK---DSPGCFNAGNMYHHGEGATKNFKEALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEK  235 (265)
T ss_dssp             HHHHH-HHHHHHHTT---CHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCST
T ss_pred             ccchh-hhhcccccc---ccccccchhhhcccCcccccchhhhhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHH
Confidence            45555 444444433   55556566655554    568999999999988876   34555667777764    34788


Q ss_pred             HHHHHHHHHHhcC
Q 023952          219 EVGEIIDQWKQSA  231 (275)
Q Consensus       219 ~a~~~~~~~~~~~  231 (275)
                      +|.++|++..+.|
T Consensus       236 ~A~~~~~kAa~~g  248 (265)
T d1ouva_         236 QAIENFKKGCKLG  248 (265)
T ss_dssp             THHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHCc
Confidence            9999999988766

>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=98.46  E-value=2.1e-06  Score=55.83  Aligned_cols=98  Identities=12%  Similarity=0.065  Sum_probs=71.6

Q ss_pred             hHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCCC-Cc-----hhhHH
Q 023952           25 ETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNVV-PD-----IFTYN   98 (275)
Q Consensus        25 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~-p~-----~~~~~   98 (275)
                      ..+..+...+.+.|++++|+..|++..+.+ |.++..|..+..+|.+.|++++|++.++++++.... +.     ..+|.
T Consensus         5 ~~~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~l~~~~~~~~~~~a~~~~   83 (128)
T d1elra_           5 LKEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYA   83 (128)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHHhCcccHHHHHHHHHHHH
Confidence            345667778888888888888888888775 456788888888888888888888888887763211 01     13555


Q ss_pred             HHHHHHHhhCCHHHHHHHHHHHhhc
Q 023952           99 LWISSCAATLNIDQVKKFLDEMSCD  123 (275)
Q Consensus        99 ~ll~~~~~~~~~~~a~~~~~~~~~~  123 (275)
                      .+...+...+++++|...|++....
T Consensus        84 ~lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          84 RIGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHhc
Confidence            6666677777888888888776653

>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=98.40  E-value=1.4e-07  Score=76.43  Aligned_cols=225  Identities=9%  Similarity=-0.054  Sum_probs=114.9

Q ss_pred             hHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHhhccCCHHHHHHHHHHHh
Q 023952            9 SGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNA-LMYNEMMTLYMSVGQVEKVALVVEEIK   86 (275)
Q Consensus         9 ~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~-~~~~~li~~~~~~g~~~~a~~~~~~m~   86 (275)
                      +|.+.|++.....| ...+|..+..++...|++++|   ++++...+  |+. ..++..-. +. ...+..+.+.++...
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~d--p~~a~~~~~e~~-Lw-~~~y~~~ie~~r~~~   76 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTD--LEYALDKKVEQD-LW-NHAFKNQITTLQGQA   76 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHC--HHHHHHHTHHHH-HH-HHHTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcC--hhhHHHHhHHHH-HH-HHHHHHHHHHHHHhc
Confidence            56677777655445 355666677777777777766   56655433  221 11111111 00 112455667777766


Q ss_pred             hCCCCCchhhHHHHHHHH--HhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCc
Q 023952           87 RKNVVPDIFTYNLWISSC--AATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQR  164 (275)
Q Consensus        87 ~~~~~p~~~~~~~ll~~~--~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  164 (275)
                      +....++..-....+..+  ...+.++.++..+....+  ..+++...+..+...+.+.|+.+.|.. .+.......+  
T Consensus        77 k~~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~--l~~~~~~~~~~lg~~~~~~~~~~~A~~-~~~~al~~~~--  151 (497)
T d1ya0a1          77 KNRANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFN--VDLPCRVKSSQLGIISNKQTHTSAIVK-PQSSSCSYIC--  151 (497)
T ss_dssp             SCSSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC----------------------------------CCHHHHHHH--
T ss_pred             ccccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC--CChhhHHHHHHhHHHHHhCCCHHHHHH-HHHHHhCCCH--
Confidence            654444433222222222  223445555554444333  224455566777777888888888877 5444333221  


Q ss_pred             chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCC-ChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHH
Q 023952          165 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKM-TSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRL  243 (275)
Q Consensus       165 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p-~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l  243 (275)
                       ..++..+...+...+++++|...|.+..+.  .| +...|+.+...+...|+..+|...|.+.....  +|...++..|
T Consensus       152 -~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l--~P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~~--~~~~~a~~nL  226 (497)
T d1ya0a1         152 -QHCLVHLGDIARYRNQTSQAESYYRHAAQL--VPSNGQPYNQLAILASSKGDHLTTIFYYCRSIAVK--FPFPAASTNL  226 (497)
T ss_dssp             -HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHSSS--BCCHHHHHHH
T ss_pred             -HHHHHHHHHHHHHcccHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHHcCCHHHHHHHHHHHHhCC--CCCHHHHHHH
Confidence             245667778888888999999988887775  44 44678888888888999998888888887643  4666777777


Q ss_pred             HHHHHhc
Q 023952          244 LGAFSDV  250 (275)
Q Consensus       244 i~~~~~~  250 (275)
                      ...+.+.
T Consensus       227 ~~~~~~~  233 (497)
T d1ya0a1         227 QKALSKA  233 (497)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            7666543

>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=2.1e-05  Score=53.68  Aligned_cols=131  Identities=6%  Similarity=-0.153  Sum_probs=84.7

Q ss_pred             hhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHH
Q 023952           95 FTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLII  174 (275)
Q Consensus        95 ~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  174 (275)
                      ..+......+.+.|++++|+..|.+........+...            .  ... . ....+       ...+|+.+..
T Consensus        14 ~~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~------------~--~~~-~-~~~~~-------~~~~~~nla~   70 (170)
T d1p5qa1          14 TIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFS------------N--EEA-Q-KAQAL-------RLASHLNLAM   70 (170)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCC------------S--HHH-H-HHHHH-------HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccc------------h--HHH-h-hhchh-------HHHHHHHHHH
Confidence            3455556678888888888888888776411111100            0  000 0 11111       1235667788


Q ss_pred             HHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcC
Q 023952          175 LYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVG  251 (275)
Q Consensus       175 ~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g  251 (275)
                      +|.+.|++++|+..++...... +.+...+..+..+|...|++++|...|+...+..  |.+......+-....+.+
T Consensus        71 ~y~k~~~~~~A~~~~~~al~~~-p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~--P~n~~~~~~l~~~~~~~~  144 (170)
T d1p5qa1          71 CHLKLQAFSAAIESCNKALELD-SNNEKGLSRRGEAHLAVNDFELARADFQKVLQLY--PNNKAAKTQLAVCQQRIR  144 (170)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--SSCHHHHHHHHHHHHHHH
T ss_pred             HHHhhhhcccccchhhhhhhcc-ccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhC--CCCHHHHHHHHHHHHHHH
Confidence            8889999999999998888763 2366778888889999999999999999988854  235555555544444333

>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=98.38  E-value=1.1e-05  Score=54.05  Aligned_cols=98  Identities=6%  Similarity=-0.108  Sum_probs=52.9

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCC----CCC-----------HHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSNL----SFN-----------ALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~----~~~-----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      ...+..-...+.+.|++++|...|.+....-.    .++           ..+|+.+..+|.+.|++++|++.+++..+.
T Consensus        17 a~~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Al~~~~~al~~   96 (153)
T d2fbna1          17 AFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLNLATCYNKNKDYPKAIDHASKVLKI   96 (153)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhhhHHHHHHhhHHHHHHHhcccchhhhhhhccccc
Confidence            34566667778888999999998888765310    011           123344444455555555555555554443


Q ss_pred             CCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           89 NVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        89 ~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      +. .+..+|..+..++...|++++|...|++..+
T Consensus        97 ~p-~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~  129 (153)
T d2fbna1          97 DK-NNVKALYKLGVANMYFGFLEEAKENLYKAAS  129 (153)
T ss_dssp             ST-TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             cc-hhhhhhHHhHHHHHHcCCHHHHHHHHHHHHH
Confidence            21 1344444555555555555555555555444

>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=98.38  E-value=6.2e-06  Score=56.28  Aligned_cols=96  Identities=8%  Similarity=-0.058  Sum_probs=55.1

Q ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHhCC--------------C-CCCHHHHHHHHHHhhccCCHHHHHHHHHHHhhCCC
Q 023952           26 TYTALLHLYAGAKWTEKAEELFERVKQSN--------------L-SFNALMYNEMMTLYMSVGQVEKVALVVEEIKRKNV   90 (275)
Q Consensus        26 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~--------------~-~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~   90 (275)
                      .+......+.+.|++++|+..|++..+..              + +.....|..+..++.+.|++++|+..+++.++...
T Consensus        29 ~~~~~~~~~~~~~~y~~Ai~~y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p  108 (169)
T d1ihga1          29 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEIDP  108 (169)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhhhhhhhhhhhHHHHHhChhhHHHHHHHHHHHHhhcccchhhhhhhhhhhhhh
Confidence            34556667788899999988887764310              0 11233444455555555666666666655555432


Q ss_pred             CCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           91 VPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        91 ~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      . +..+|..+..++.+.|++++|...|++..+
T Consensus       109 ~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~  139 (169)
T d1ihga1         109 S-NTKALYRRAQGWQGLKEYDQALADLKKAQE  139 (169)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             h-hhhHHHhHHHHHHHccCHHHHHHHHHHHHH
Confidence            2 344555555555555666666665555555

>d1kt1a1 a.118.8.1 (A:254-421) FKBP51, C-terminal domain {Monkey (Saimiri boliviensis) [TaxId: 27679]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP51, C-terminal domain
species: Monkey (Saimiri boliviensis) [TaxId: 27679]

Probab=98.37  E-value=7e-06  Score=55.99  Aligned_cols=98  Identities=5%  Similarity=-0.020  Sum_probs=58.0

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhC---CCCCC-----------HHHHHHHHHHhhccCCHHHHHHHHHHHhhCC
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQS---NLSFN-----------ALMYNEMMTLYMSVGQVEKVALVVEEIKRKN   89 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~---~~~~~-----------~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~   89 (275)
                      ...+......+.+.|++++|...|+.....   ...++           ..+|+.+..+|.+.|++++|+..+++..+.+
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~~~~~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~   94 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD   94 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchhhhhhcchhHHHHHHhHHHHHHHhhhcccchhhhhhhhhcc
Confidence            455677788888999999999999875531   11111           1233444455555666666666666655543


Q ss_pred             CCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh
Q 023952           90 VVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC  122 (275)
Q Consensus        90 ~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~  122 (275)
                      . .+..+|..+..++...|++++|...|+++.+
T Consensus        95 p-~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~  126 (168)
T d1kt1a1          95 S-ANEKGLYRRGEAQLLMNEFESAKGDFEKVLE  126 (168)
T ss_dssp             T-TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             c-chHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            2 2445555555556666666666666666554

>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=98.26  E-value=7.9e-06  Score=52.95  Aligned_cols=96  Identities=13%  Similarity=0.044  Sum_probs=70.0

Q ss_pred             HHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCC-CC-----hhhHHH
Q 023952          133 YVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQK-MT-----SRNYIC  206 (275)
Q Consensus       133 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~-p~-----~~~~~~  206 (275)
                      +..+...|.+.|++++|+. .|.+.....+. +...+..+..+|.+.|++++|.+.++++.+.... +.     ..+|..
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            4456677888888888888 88887776654 6778888888888888888888888887653211 11     124556


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhc
Q 023952          207 ILSSYLMLGHLKEVGEIIDQWKQS  230 (275)
Q Consensus       207 li~~~~~~g~~~~a~~~~~~~~~~  230 (275)
                      +...+...+++++|.+.|......
T Consensus        85 lg~~~~~~~~~~~A~~~~~kal~~  108 (128)
T d1elra_          85 IGNSYFKEEKYKDAIHFYNKSLAE  108 (128)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhCCHHHHHHHHHHHHhc
Confidence            667777888888888888877654

>d1ihga1 a.118.8.1 (A:197-365) Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Cyclophilin 40
species: Cow (Bos taurus) [TaxId: 9913]

Probab=98.24  E-value=3e-05  Score=52.78  Aligned_cols=81  Identities=6%  Similarity=-0.134  Sum_probs=62.9

Q ss_pred             chhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 023952          165 QWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  244 (275)
Q Consensus       165 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  244 (275)
                      +...|..+..+|.+.|++++|+..+++..+.. +.+...|..+..+|.+.|++++|.+.|++..+..  +.+......+.
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~-p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~--p~n~~~~~~l~  152 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEID-PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA--PEDKAIQAELL  152 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--TTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhh-hhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhC--CCCHHHHHHHH
Confidence            45567778888999999999999999988754 3356778889999999999999999999998854  34555555554


Q ss_pred             HHHH
Q 023952          245 GAFS  248 (275)
Q Consensus       245 ~~~~  248 (275)
                      .+..
T Consensus       153 ~~~~  156 (169)
T d1ihga1         153 KVKQ  156 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4443

>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=98.24  E-value=3e-06  Score=58.46  Aligned_cols=72  Identities=10%  Similarity=-0.003  Sum_probs=47.4

Q ss_pred             HHHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhh----cCCCCCCHHH
Q 023952           60 LMYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSC----DSGGSDDWVK  132 (275)
Q Consensus        60 ~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~  132 (275)
                      ..+..+...+.+.|++++|+..++++.+.... +...|..++.++.+.|+.++|...|+++.+    .-|+.|+..+
T Consensus        68 ~a~~~la~~~~~~g~~~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l  143 (179)
T d2ff4a2          68 LAHTAKAEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTL  143 (179)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHH
T ss_pred             HHHHHHHHHHHHCCCchHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHH
Confidence            45566677777777777777777777765332 556677777777777777777777776533    1266666554

>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=98.22  E-value=6.3e-07  Score=65.98  Aligned_cols=51  Identities=14%  Similarity=0.137  Sum_probs=28.4

Q ss_pred             cCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHhh
Q 023952           36 GAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIKR   87 (275)
Q Consensus        36 ~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~   87 (275)
                      +.|++++|+..+++..+.. |-|...+..+...++..|++++|.+.|+...+
T Consensus         8 ~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~   58 (264)
T d1zbpa1           8 SEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK   58 (264)
T ss_dssp             TTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            4455555555555555543 34455555555555555555555555555555

>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=98.22  E-value=2.9e-05  Score=51.86  Aligned_cols=112  Identities=11%  Similarity=-0.028  Sum_probs=64.4

Q ss_pred             HHHHHHHHhhccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 023952           61 MYNEMMTLYMSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIY  140 (275)
Q Consensus        61 ~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  140 (275)
                      .+..-...+.+.|++++|+..|.+..+.-  |....           .. +....  ....     .....+|..+..+|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~--~~~~~-----------~~-~~~~~--~~~~-----~~~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFF--IHTEE-----------WD-DQILL--DKKK-----NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTT--TTCTT-----------CC-CHHHH--HHHH-----HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC--cchhh-----------hh-hHHHH--Hhhh-----hHHHHHHhhHHHHH
Confidence            34444456778889999998888877531  10000           00 00000  0000     01123556666777


Q ss_pred             HhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          141 ITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       141 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      .+.|++++|++ .+..+....|. ++.+|..+..++...|++++|...|++..+.
T Consensus        78 ~~l~~~~~Al~-~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l  130 (153)
T d2fbna1          78 NKNKDYPKAID-HASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASL  130 (153)
T ss_dssp             HHTTCHHHHHH-HHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHhcccchhhh-hhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHh
Confidence            77777777777 66666655433 5667777777777777777777777766654

>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=98.20  E-value=0.00052  Score=51.72  Aligned_cols=223  Identities=9%  Similarity=-0.004  Sum_probs=138.5

Q ss_pred             cccChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHH
Q 023952            3 KVFGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVV   82 (275)
Q Consensus         3 ~~g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~   82 (275)
                      +.|.++.|..+|..+.       .|..++..+.+.++++.|.+++...   +   +..+|..+...+.+.....-+    
T Consensus        26 ~~~lye~A~~lY~~~~-------d~~rl~~~~v~l~~~~~avd~~~k~---~---~~~~~k~~~~~l~~~~e~~la----   88 (336)
T d1b89a_          26 DEKMYDAAKLLYNNVS-------NFGRLASTLVHLGEYQAAVDGARKA---N---STRTWKEVCFACVDGKEFRLA----   88 (336)
T ss_dssp             ---CTTTHHHHHHHTT-------CHHHHHHHHHTTTCHHHHHHHHHHH---T---CHHHHHHHHHHHHHTTCHHHH----
T ss_pred             HCCCHHHHHHHHHhCC-------CHHHHHHHHHhhccHHHHHHHHHHc---C---CHHHHHHHHHHHHhCcHHHHH----
Confidence            5677888888888776       4777888888899999888877643   2   577888888888877765443    


Q ss_pred             HHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccC
Q 023952           83 EEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSIT  162 (275)
Q Consensus        83 ~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  162 (275)
                       ++.......++.....++..|-..|.+++...+++.....  -..+...++-++..|++.+... ..+    .+.....
T Consensus        89 -~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~--~~~~~~~~~~L~~lyak~~~~k-l~e----~l~~~s~  160 (336)
T d1b89a_          89 -QMCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGL--ERAHMGMFTELAILYSKFKPQK-MRE----HLELFWS  160 (336)
T ss_dssp             -HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTS--TTCCHHHHHHHHHHHHTTCHHH-HHH----HHHHHST
T ss_pred             -HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcC--CccchHHHHHHHHHHHHhChHH-HHH----HHHhccc
Confidence             2333334445666678889999999999999999987652  3567778889999999876433 222    2332111


Q ss_pred             Ccch----------hhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCC
Q 023952          163 QRQW----------ITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSAT  232 (275)
Q Consensus       163 ~~~~----------~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~  232 (275)
                      .-|.          ..|..++..|.+.|++++|..+.-   +  ..++.......+..+.+..+.+...++.....+.  
T Consensus       161 ~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~--~~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--  233 (336)
T d1b89a_         161 RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---N--HPTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--  233 (336)
T ss_dssp             TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---H--STTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--
T ss_pred             cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---H--cchhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--
Confidence            1111          234455555666666665554432   1  2344555566777777777777777777666552  


Q ss_pred             CCCCHHHHHHHHHHHHhcCChHHHHHHH
Q 023952          233 SDFDISACNRLLGAFSDVGLTEKANEFH  260 (275)
Q Consensus       233 ~~~~~~~~~~li~~~~~~g~~~~a~~~~  260 (275)
                       .|+.  .+.++......-+.....+.+
T Consensus       234 -~p~~--i~~lL~~v~~~~d~~r~V~~~  258 (336)
T d1b89a_         234 -KPLL--LNDLLMVLSPRLDHTRAVNYF  258 (336)
T ss_dssp             -CGGG--HHHHHHHHGGGCCHHHHHHHH
T ss_pred             -CHHH--HHHHHHHhccCCCHHHHHHHH
Confidence             2332  233444444444444444333

>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=98.17  E-value=0.00013  Score=49.35  Aligned_cols=145  Identities=6%  Similarity=-0.114  Sum_probs=89.2

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHH
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLI  173 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  173 (275)
                      ...+......+.+.|++.+|...|.+....-...+..              ..+....  ...+       ....|+.+.
T Consensus        15 a~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~--------------~~~~~~~--~~~~-------~~~~~~Nla   71 (168)
T d1kt1a1          15 AAIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGL--------------SEKESKA--SESF-------LLAAFLNLA   71 (168)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSC--------------CHHHHHH--HHHH-------HHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcc--------------chhhhhh--cchh-------HHHHHHhHH
Confidence            3455566677777888888888877765421111110              0000000  1000       134566677


Q ss_pred             HHHHccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCCh
Q 023952          174 ILYAGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLT  253 (275)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~  253 (275)
                      .+|.+.|++++|+..++...+.. +.+...|..+..++...|++++|...|.+..+..  |.+......+-......+..
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            78888999999999999887763 3466778888889999999999999999988743  34555555554444444333


Q ss_pred             -HHHHHHHHHHH
Q 023952          254 -EKANEFHMLLL  264 (275)
Q Consensus       254 -~~a~~~~~~m~  264 (275)
                       +...+++..|.
T Consensus       149 ~e~~kk~~~~~f  160 (168)
T d1kt1a1         149 NERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence             23445555553

>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=2.4e-06  Score=56.83  Aligned_cols=67  Identities=12%  Similarity=-0.035  Sum_probs=36.5

Q ss_pred             ccChhhHHHHhhccccCCC-CHhHHHHHHHHHHcCC----------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhc
Q 023952            4 VFGIHSGERYFEGLPLSAK-TSETYTALLHLYAGAK----------WTEKAEELFERVKQSNLSFNALMYNEMMTLYMS   71 (275)
Q Consensus         4 ~g~~~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g----------~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~   71 (275)
                      .+.+++|++.|+......| +..++..+..++...+          .+++|+..|+...+.+ |.+..+|..+..+|..
T Consensus        10 ~~~fe~A~~~~e~al~~~P~~~~~~~~~g~~l~~~~~~~~~~e~~~~~~~Ai~~~~kAl~l~-P~~~~a~~~lG~~y~~   87 (145)
T d1zu2a1          10 ILLFEQIRQDAENTYKSNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLID-PKKDEAVWCIGNAYTS   87 (145)
T ss_dssp             HHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHH
T ss_pred             HccHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHHHHHHhc-chhhHHHhhHHHHHHH
Confidence            3556677777776665555 5666666666665432          2345555555555443 3344455555554443

>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=98.13  E-value=6.1e-05  Score=51.65  Aligned_cols=68  Identities=9%  Similarity=-0.013  Sum_probs=50.1

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHHH-----hcCCCCCC
Q 023952          203 NYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLLL-----QKNCAPTN  272 (275)
Q Consensus       203 ~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~-----~~~~~p~~  272 (275)
                      .+..+...+...|++++|...++++.+..  +.+...|..++.+|.+.|+..+|++.|+++.     +.|+.|+.
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            45567777778888888888888877754  4577778888888888888888888877763     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=98.11  E-value=5.8e-06  Score=60.69  Aligned_cols=122  Identities=9%  Similarity=-0.032  Sum_probs=64.0

Q ss_pred             hccCCHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHH
Q 023952           70 MSVGQVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNA  149 (275)
Q Consensus        70 ~~~g~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  149 (275)
                      .+.|++++|+..+++.++.... |...+..+...++..|++++|.+.|+...+.  .+.+...+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~P~-d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l--~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKASPK-DASLRSSFIELLCIDGDFERADEQLMQSIKL--FPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH--CGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHhccccHHH
Confidence            4556677777777776665433 5566666666677777777777777766653  233344444444444444444443


Q ss_pred             HHHHHHHHHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhc
Q 023952          150 ESSTLVEAEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMT  195 (275)
Q Consensus       150 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  195 (275)
                      .. ...........++...+......+...|+.++|.+.++++.+.
T Consensus        84 ~~-~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~  128 (264)
T d1zbpa1          84 AQ-GAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEEL  128 (264)
T ss_dssp             TT-SCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HH-HhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhc
Confidence            32 1111111112222333333444556667777777766666554

>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=97.91  E-value=1.7e-05  Score=63.87  Aligned_cols=131  Identities=6%  Similarity=-0.206  Sum_probs=65.4

Q ss_pred             hhHHHHhhccccCCC-CHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHHHh
Q 023952            8 HSGERYFEGLPLSAK-TSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEEIK   86 (275)
Q Consensus         8 ~~A~~~~~~~~~~~~-~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~   86 (275)
                      +.|+..+.......| +...+..+...+.+.|+.+.|...+.......   ...++..+...+...|++++|+..|++..
T Consensus       103 ~~ai~~l~~~~~l~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~---~~~~~~~LG~l~~~~~~~~~A~~~y~~A~  179 (497)
T d1ya0a1         103 TQLLQELCTVFNVDLPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYI---CQHCLVHLGDIARYRNQTSQAESYYRHAA  179 (497)
T ss_dssp             HHHHHHHTC-------------------------------CCHHHHHH---HHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCChhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCC---HHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            344444444333323 45566666666777777777776665544322   13456666777777788888888888777


Q ss_pred             hCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcC
Q 023952           87 RKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITAS  144 (275)
Q Consensus        87 ~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  144 (275)
                      +.... +..+|+.|...+...|+..+|...|.+....  .+|...++..|...+.+..
T Consensus       180 ~l~P~-~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~~--~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         180 QLVPS-NGQPYNQLAILASSKGDHLTTIFYYCRSIAV--KFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHCTT-BSHHHHHHHHHHHHTTCHHHHHHHHHHHHSS--SBCCHHHHHHHHHHHHHHT
T ss_pred             HHCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHhC--CCCCHHHHHHHHHHHHHhh
Confidence            75322 4467777777777788888888877777763  3566777777777666543

>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=97.81  E-value=0.00015  Score=47.81  Aligned_cols=34  Identities=9%  Similarity=0.056  Sum_probs=15.9

Q ss_pred             hCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh
Q 023952          107 TLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT  142 (275)
Q Consensus       107 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  142 (275)
                      .+.+++|...|+...+.  .|.+..++..+..++..
T Consensus        10 ~~~fe~A~~~~e~al~~--~P~~~~~~~~~g~~l~~   43 (145)
T d1zu2a1          10 ILLFEQIRQDAENTYKS--NPLDADNLTRWGGVLLE   43 (145)
T ss_dssp             HHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHH
T ss_pred             HccHHHHHHHHHHHHhh--CCcchHHHHHHHHHHHH
Confidence            33455555555555442  24444444444444443

>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=97.66  E-value=0.0004  Score=46.22  Aligned_cols=55  Identities=9%  Similarity=-0.165  Sum_probs=27.9

Q ss_pred             HHHhhCCHHHHHHHHHHHhhcCCCCCC----------HHHHHHHHHHHHhcCchHHHHHHHHHHHH
Q 023952          103 SCAATLNIDQVKKFLDEMSCDSGGSDD----------WVKYVNLVNIYITASHLVNAESSTLVEAE  158 (275)
Q Consensus       103 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  158 (275)
                      .+...|++++|+..|++..+.....|+          ...|+.+..+|.+.|++++|.. .+....
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            344556666666666665542111111          2345555666666666666665 444433

>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=97.63  E-value=0.00043  Score=46.06  Aligned_cols=92  Identities=13%  Similarity=-0.029  Sum_probs=59.2

Q ss_pred             HHHHccCCHHHHHHHHHHHHhccC-CCC----------hhhHHHHHHHHHhcCCHHHHHHHHHHHHhc----CCCCCC--
Q 023952          174 ILYAGLGNKDKIDQIWKSLRMTKQ-KMT----------SRNYICILSSYLMLGHLKEVGEIIDQWKQS----ATSDFD--  236 (275)
Q Consensus       174 ~~~~~~~~~~~a~~~~~~m~~~~~-~p~----------~~~~~~li~~~~~~g~~~~a~~~~~~~~~~----~~~~~~--  236 (275)
                      ..+...|++++|+..|++..+... .|+          ...|+.+..+|...|++++|...+++..+.    ....++  
T Consensus        17 ~~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~   96 (156)
T d2hr2a1          17 QRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEG   96 (156)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhccccccccccccc
Confidence            345556777777777776654321 111          235667777888888888888887776542    111111  


Q ss_pred             ---HHHHHHHHHHHHhcCChHHHHHHHHHHHh
Q 023952          237 ---ISACNRLLGAFSDVGLTEKANEFHMLLLQ  265 (275)
Q Consensus       237 ---~~~~~~li~~~~~~g~~~~a~~~~~~m~~  265 (275)
                         ...++.+..+|...|++++|...|++.++
T Consensus        97 ~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~  128 (156)
T d2hr2a1          97 KLWISAVYSRALALDGLGRGAEAMPEFKKVVE  128 (156)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhHHHHHHHHHHHHHHHHHHHHHH
Confidence               22456677888888888888888888754

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.54  E-value=0.00031  Score=42.40  Aligned_cols=65  Identities=11%  Similarity=0.055  Sum_probs=40.6

Q ss_pred             HhHHHHHHHHHHcCCCHHHHHHHHHHHHhCC-----CCCC-HHHHHHHHHHhhccCCHHHHHHHHHHHhhC
Q 023952           24 SETYTALLHLYAGAKWTEKAEELFERVKQSN-----LSFN-ALMYNEMMTLYMSVGQVEKVALVVEEIKRK   88 (275)
Q Consensus        24 ~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~-----~~~~-~~~~~~li~~~~~~g~~~~a~~~~~~m~~~   88 (275)
                      ...+-.+...+.+.|++++|...|++..+..     ..++ ..+++.|..++.+.|++++|+..+++..+.
T Consensus         5 addc~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l   75 (95)
T d1tjca_           5 AEDSFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (95)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHh
Confidence            3445566677777777777777777654321     1111 446666777777777777777777776664

>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=97.34  E-value=0.016  Score=43.35  Aligned_cols=232  Identities=9%  Similarity=-0.021  Sum_probs=142.4

Q ss_pred             cChhhHHHHhhccccCCCCHhHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHhhccCCHHHHHHHHHH
Q 023952            5 FGIHSGERYFEGLPLSAKTSETYTALLHLYAGAKWTEKAEELFERVKQSNLSFNALMYNEMMTLYMSVGQVEKVALVVEE   84 (275)
Q Consensus         5 g~~~~A~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~   84 (275)
                      ++++.|.+++...    -+..+|..+...+.+......|     .+.......++.....++..|-..|.+++...+++.
T Consensus        54 ~~~~~avd~~~k~----~~~~~~k~~~~~l~~~~e~~la-----~i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~  124 (336)
T d1b89a_          54 GEYQAAVDGARKA----NSTRTWKEVCFACVDGKEFRLA-----QMCGLHIVVHADELEELINYYQDRGYFEELITMLEA  124 (336)
T ss_dssp             TCHHHHHHHHHHH----TCHHHHHHHHHHHHHTTCHHHH-----HHTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHc----CCHHHHHHHHHHHHhCcHHHHH-----HHHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHH
Confidence            4444554444332    3677888888888887766543     223333445667777899999999999999999998


Q ss_pred             HhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCH--------HHHHHHHHHHHhcCchHHHHHHHHHH
Q 023952           85 IKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDW--------VKYVNLVNIYITASHLVNAESSTLVE  156 (275)
Q Consensus        85 m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~--------~~~~~l~~~~~~~g~~~~a~~~~~~~  156 (275)
                      .... -.++...++.++..|++.+. ++..+.+.....  .+.+..        ..|.-++-.|.+.|+++.|..+++..
T Consensus       125 ~~~~-~~~~~~~~~~L~~lyak~~~-~kl~e~l~~~s~--~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i~~  200 (336)
T d1b89a_         125 ALGL-ERAHMGMFTELAILYSKFKP-QKMREHLELFWS--RVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNH  200 (336)
T ss_dssp             HTTS-TTCCHHHHHHHHHHHHTTCH-HHHHHHHHHHST--TSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHHS
T ss_pred             HHcC-CccchHHHHHHHHHHHHhCh-HHHHHHHHhccc--cCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHHHc
Confidence            7654 24567778889998988643 444444433322  122221        12456777888888888887722221


Q ss_pred             HHHccCCcchhhHHHHHHHHHccCCHHHHHHHHHHHHhccCCCCh-----------hhHHHHHHHHHhcCCHHHHHHHHH
Q 023952          157 AEKSITQRQWITYDFLIILYAGLGNKDKIDQIWKSLRMTKQKMTS-----------RNYICILSSYLMLGHLKEVGEIID  225 (275)
Q Consensus       157 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~~~~p~~-----------~~~~~li~~~~~~g~~~~a~~~~~  225 (275)
                            .+++.-....+..+.+..+++...++.....+.  .|+.           .....++..+.+.+++.....+++
T Consensus       201 ------~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~--~p~~i~~lL~~v~~~~d~~r~V~~~~k~~~l~li~p~Le  272 (336)
T d1b89a_         201 ------PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF--KPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLR  272 (336)
T ss_dssp             ------TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH--CGGGHHHHHHHHGGGCCHHHHHHHHHHTTCTTTTHHHHH
T ss_pred             ------chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc--CHHHHHHHHHHhccCCCHHHHHHHHHhcCCcHHHHHHHH
Confidence                  112222334445555556655555544443332  2221           112346666777777777777777


Q ss_pred             HHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHH
Q 023952          226 QWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHM  261 (275)
Q Consensus       226 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~  261 (275)
                      .....+    +....+++...|...++++.-++..+
T Consensus       273 ~v~~~n----~~~vn~al~~lyie~~d~~~l~~~i~  304 (336)
T d1b89a_         273 SVQNHN----NKSVNESLNNLFITEEDYQALRTSID  304 (336)
T ss_dssp             HHHTTC----CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHcC----hHHHHHHHHHHHhCcchhHHHHHHHH
Confidence            765533    34678999999999999776555443

>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=97.20  E-value=0.002  Score=38.65  Aligned_cols=19  Identities=0%  Similarity=0.038  Sum_probs=7.5

Q ss_pred             HHHHHhhCCHHHHHHHHHH
Q 023952          101 ISSCAATLNIDQVKKFLDE  119 (275)
Q Consensus       101 l~~~~~~~~~~~a~~~~~~  119 (275)
                      ...+.+.|++++|...|++
T Consensus        12 G~~~~~~g~y~~A~~~~~~   30 (95)
T d1tjca_          12 GKVAYTEADYYHTELWMEQ   30 (95)
T ss_dssp             HHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHH
Confidence            3333334444444443333

>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=97.07  E-value=0.012  Score=36.65  Aligned_cols=140  Identities=12%  Similarity=0.015  Sum_probs=74.3

Q ss_pred             HHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHccCCHH
Q 023952          104 CAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAGLGNKD  183 (275)
Q Consensus       104 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  183 (275)
                      +.-.|..++..++..+..++    .+..-||.+|.-....-+-+...+ +++.+.+   ..|.          ..+++..
T Consensus        12 ~ildG~ve~Gveii~k~~~s----s~~~E~NW~ICNiidt~dC~~v~~-~Ld~IG~---~FDl----------s~C~Nlk   73 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS----STKSEYNWFICNLLESIDCRYMFQ-VLDKIGS---YFDL----------DKCQNLK   73 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH----SCHHHHTHHHHHHHHHCCHHHHHH-HHHHHGG---GSCG----------GGCSCTH
T ss_pred             HHHhhhHHhHHHHHHHHccc----CCccccceeeeecccccchHHHHH-HHHHHhh---hcCc----------hhhhcHH
Confidence            44566777777777776664    333444444444444444444333 3333322   2221          2233333


Q ss_pred             HHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHHHHHHHHH
Q 023952          184 KIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKANEFHMLL  263 (275)
Q Consensus       184 ~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a~~~~~~m  263 (275)
                      ....-+-.+     ..+...+...++.....|+-+.-.++.+.+.+.+  ++++...-.+..+|.+.|...++-+++.+.
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            333332211     2234455556666667777777777777666544  355555666667777777777777777777


Q ss_pred             HhcCC
Q 023952          264 LQKNC  268 (275)
Q Consensus       264 ~~~~~  268 (275)
                      -++|+
T Consensus       147 Ce~G~  151 (161)
T d1wy6a1         147 CKKGE  151 (161)
T ss_dssp             HHTTC
T ss_pred             HHHhH
Confidence            66665

>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=96.92  E-value=0.0088  Score=38.18  Aligned_cols=17  Identities=12%  Similarity=-0.038  Sum_probs=8.1

Q ss_pred             CCHHHHHHHHHHHhhCC
Q 023952           73 GQVEKVALVVEEIKRKN   89 (275)
Q Consensus        73 g~~~~a~~~~~~m~~~~   89 (275)
                      .+.++|++++++..+.|
T Consensus        37 ~~~~~a~~~~~~aa~~g   53 (133)
T d1klxa_          37 INKQKLFQYLSKACELN   53 (133)
T ss_dssp             SCHHHHHHHHHHHHHTT
T ss_pred             cCHHHHHHHHhhhhccc
Confidence            34445555555444443

>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=96.31  E-value=0.056  Score=34.17  Aligned_cols=81  Identities=11%  Similarity=-0.041  Sum_probs=34.7

Q ss_pred             CCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHh----cCchHHHHHHHHHHHHHccCCcchhhHHHHHHHHHc----c
Q 023952          108 LNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYIT----ASHLVNAESSTLVEAEKSITQRQWITYDFLIILYAG----L  179 (275)
Q Consensus       108 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~  179 (275)
                      .+.++|.+.+++..+. |   +...+..|...|..    ..+.++|.+ .++...+.+.   +.....|...|..    .
T Consensus        37 ~~~~~a~~~~~~aa~~-g---~~~a~~~Lg~~y~~g~~~~~d~~~A~~-~~~~aa~~g~---~~a~~~Lg~~y~~G~gv~  108 (133)
T d1klxa_          37 INKQKLFQYLSKACEL-N---SGNGCRFLGDFYENGKYVKKDLRKAAQ-YYSKACGLND---QDGCLILGYKQYAGKGVV  108 (133)
T ss_dssp             SCHHHHHHHHHHHHHT-T---CHHHHHHHHHHHHHCSSSCCCHHHHHH-HHHHHHHTTC---HHHHHHHHHHHHHTSSSC
T ss_pred             cCHHHHHHHHhhhhcc-c---chhhhhhHHHhhhhccccchhhHHHHH-HHhhhhccCc---chHHHHHHHHHHcCCccC
Confidence            3445555555554443 2   22333334444432    233455555 4544444332   2223333333332    2


Q ss_pred             CCHHHHHHHHHHHHhcc
Q 023952          180 GNKDKIDQIWKSLRMTK  196 (275)
Q Consensus       180 ~~~~~a~~~~~~m~~~~  196 (275)
                      .+.++|.++|++..+.|
T Consensus       109 ~d~~~A~~~~~~Aa~~G  125 (133)
T d1klxa_         109 KNEKQAVKTFEKACRLG  125 (133)
T ss_dssp             CCHHHHHHHHHHHHHTT
T ss_pred             CCHHHHHHHHHHHHHCC
Confidence            35555555555554444

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=95.98  E-value=0.079  Score=32.92  Aligned_cols=67  Identities=15%  Similarity=0.014  Sum_probs=45.8

Q ss_pred             hhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHhcCchHHHHHHHHHHHHHccCC
Q 023952           94 IFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLVNIYITASHLVNAESSTLVEAEKSITQ  163 (275)
Q Consensus        94 ~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~  163 (275)
                      ...+...++.....|+-++-.+++..+.+.  -.+++...-.+..+|.+.|...++.+ ++.+.-+.|.+
T Consensus        86 se~vdlALd~lv~~~kkd~Ld~i~~~l~kn--~~i~~~~llkia~A~kkig~~re~ne-ll~~ACe~G~K  152 (161)
T d1wy6a1          86 NEHVNKALDILVIQGKRDKLEEIGREILKN--NEVSASILVAIANALRRVGDERDATT-LLIEACKKGEK  152 (161)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHC----CCSCHHHHHHHHHHHHHTTCHHHHHH-HHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHhc--CCCCHHHHHHHHHHHHHhcchhhHHH-HHHHHHHHhHH
Confidence            344556677777777777777777776663  35666667777788888888888877 77776666643

>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=95.22  E-value=0.16  Score=31.42  Aligned_cols=23  Identities=22%  Similarity=0.095  Sum_probs=10.2

Q ss_pred             HHHHHHccCCHHHHHHHHHHHHh
Q 023952          172 LIILYAGLGNKDKIDQIWKSLRM  194 (275)
Q Consensus       172 l~~~~~~~~~~~~a~~~~~~m~~  194 (275)
                      |.-+|.+.|++++|.+.++.+.+
T Consensus        79 Lav~yyklgdy~~A~~~~~~~L~  101 (124)
T d2pqrb1          79 LTIGCYKLGEYSMAKRYVDTLFE  101 (124)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhHHHHHHHHHHHHc
Confidence            33344444444444444444443

>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=94.16  E-value=0.26  Score=28.87  Aligned_cols=62  Identities=10%  Similarity=0.003  Sum_probs=44.8

Q ss_pred             CHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHH
Q 023952          181 NKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLL  244 (275)
Q Consensus       181 ~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li  244 (275)
                      +.-++.+-++.+......|++....+.+++|.|.+++..|.++|+-++.+...  +...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~~--~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGP--HKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTT--CTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcC--cHHHHHHHH
Confidence            34456666666777777888888888888888888888888888888776532  333455554

>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=92.84  E-value=0.58  Score=28.84  Aligned_cols=67  Identities=6%  Similarity=-0.087  Sum_probs=45.2

Q ss_pred             cchhhHHHHHHHHHccC---CHHHHHHHHHHHHhccCCCCh-hhHHHHHHHHHhcCCHHHHHHHHHHHHhcC
Q 023952          164 RQWITYDFLIILYAGLG---NKDKIDQIWKSLRMTKQKMTS-RNYICILSSYLMLGHLKEVGEIIDQWKQSA  231 (275)
Q Consensus       164 ~~~~~~~~l~~~~~~~~---~~~~a~~~~~~m~~~~~~p~~-~~~~~li~~~~~~g~~~~a~~~~~~~~~~~  231 (275)
                      +.+.+--....++.++.   +.++++.+++++.+.+ +.+. ..+-.|.-+|.+.|++++|.+.++.+.+..
T Consensus        33 ~s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~-p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ie  103 (124)
T d2pqrb1          33 ATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEA-ESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHE  103 (124)
T ss_dssp             SCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHC-GGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC
T ss_pred             CCcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcC-chhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccC
Confidence            44444444444555543   4568888998887643 1222 355567778889999999999999998853

>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=91.73  E-value=0.68  Score=27.07  Aligned_cols=62  Identities=10%  Similarity=0.164  Sum_probs=39.3

Q ss_pred             CHHHHHHHHHHHhhCCCCCchhhHHHHHHHHHhhCCHHHHHHHHHHHhhcCCCCCCHHHHHHHH
Q 023952           74 QVEKVALVVEEIKRKNVVPDIFTYNLWISSCAATLNIDQVKKFLDEMSCDSGGSDDWVKYVNLV  137 (275)
Q Consensus        74 ~~~~a~~~~~~m~~~~~~p~~~~~~~ll~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  137 (275)
                      +.-++.+-++.+-..++.|++....+.+.+|-+.+++..|..+|+.++...+  ++...|..++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yil   82 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVI   82 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHH
Confidence            4445566666666667777777777777777777777777777777665422  2344454444

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=90.22  E-value=3  Score=31.92  Aligned_cols=85  Identities=13%  Similarity=0.014  Sum_probs=57.3

Q ss_pred             HccCCHHHHHHHHHHHHhccCCCChhhHHHHHHHHHhcCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhcCChHHH
Q 023952          177 AGLGNKDKIDQIWKSLRMTKQKMTSRNYICILSSYLMLGHLKEVGEIIDQWKQSATSDFDISACNRLLGAFSDVGLTEKA  256 (275)
Q Consensus       177 ~~~~~~~~a~~~~~~m~~~~~~p~~~~~~~li~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~li~~~~~~g~~~~a  256 (275)
                      ...+..+.+...+......+  .+.......+....+.+++..+...+..+....  .....-.--+..++...|+.+.|
T Consensus       263 ~~~~~~~~a~~~~~~~~~~~--~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~~--~~~~r~~YW~gRa~~~~G~~~~A  338 (450)
T d1qsaa1         263 MGNDVTDEQAKWRDDAIMRS--QSTSLIERRVRMALGTGDRRGLNTWLARLPMEA--KEKDEWRYWQADLLLERGREAEA  338 (450)
T ss_dssp             CSTTCCHHHHHHHHHHHHTC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTTG--GGSHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHcCchHHHHHHHHhhcccc--cchHHHHHHHHHHHHcCChHHHHHHHHhcCccc--ccHHHHHHHHHHHHHHcCChhhH
Confidence            34556677777776655443  344444556666778899999999998875432  12233333467889999999999


Q ss_pred             HHHHHHHHh
Q 023952          257 NEFHMLLLQ  265 (275)
Q Consensus       257 ~~~~~~m~~  265 (275)
                      ...|.....
T Consensus       339 ~~~~~~~a~  347 (450)
T d1qsaa1         339 KEILHQLMQ  347 (450)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHhc
Confidence            999988753

>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=81.62  E-value=4  Score=27.52  Aligned_cols=21  Identities=14%  Similarity=-0.051  Sum_probs=13.6

Q ss_pred             HHHHHHHcCCCHHHHHHHHHH
Q 023952           29 ALLHLYAGAKWTEKAEELFER   49 (275)
Q Consensus        29 ~li~~~~~~g~~~~a~~~~~~   49 (275)
                      .++.-.+..|+.+.+.+++..
T Consensus         5 ~~~~~~a~~G~~~~v~~~l~~   25 (223)
T d1uoha_           5 LMVCNLAYSGKLEELKESILA   25 (223)
T ss_dssp             SHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHh
Confidence            345555777777777666654