Citrus Sinensis ID: 012108

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210-------220-------230-------240-------250-------260-------270-------280-------290-------300-------310-------320-------330-------340-------350-------360-------370-------380-------390-------400-------410-------420-------430-------440-------450-------460-------470-
Protein Sequence
MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHLSNLLTM
Secondary Structure (PSIPRED)
ccccccccccccHHHHHHHHHcccccHHHHHHHHHHHHHcccccHHHHHHHHHHHHHcccHHHHHHHHcccccccEEEHHHHHHHHHccccHHHHHHHHcccccccccHHHHHHHHHHccccHHHHHHHccccccccHHHHHHHHHHHHHcccHHHHHHHHccccccccccHHHHHHHHHHccccHHHHHHHHHHHHccccccHHHHHHHHHHHHHHccHHHHHHHHHHHHHHcccccccHHHHHHHHHHccccHHHHHHHHccccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHcccccHHHHHHHHHHHcHHcccccccccHHHHHHHHHcccccHHHHHHHHHHccccccHHHHHHHHHHHHHccccHHHHHHHHHHHHHccccccccHHHHHHHHHcccccHHHHHHHHHHHHccccccccccEEEEccEEEEEEEcccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccccccHHHHHHHHHHcccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccEEHHHHHHHHHHcccHHHHHHHHHHHcccccccHHHHHHHHHHcccHHHHHHHHHHHHccccHHHHHHHHHHHHcccHHHHHHHHHHccccccEEHHHHHHHHHHcccHHHHHHHHHHHHHccccccccHHHHHHHHHHHHccHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHcccccEEEHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHccccccHHHHHHHHHHHHHcccHHHHHHHHHHHHHcccccccHHHHHHHHHHHHcccHHHHHHHHHHHHHccccccccEEEEEEccEEEEEEEcccccccccccc
Coil and Loop (DISEMBL)
mqelgvhadnysfPLLLKAAGILSSSCIGlmlhgqtiktgfcgHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKlidlmplkdvtsfnIMISGYARIGKIHSaryifdkvpakdvvsWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFdemkagnvkpdyLTVTSVLSACANlgsletgarihvyatdnglasnphATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEmndscvkadditFIGLLSACSHAGLVQEGCELFSRMEKdfgvtrklEHYGCMVDLLGRARLLDRAIELIeampfepteSILGALLSACVIHQDLEIGDRVAKMVCaksnylsdgELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLaggighlsnlltm
Flexible Loop (DISEMBL)
mqelgvhadNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFlaggighlsnlltm
Low Complexity Region (SEG)
MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVdllgrarlldraIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHLSNLLTM
Disordered region (IsUnstruct)
*****VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHLSN****
Disordered Region (DISOPRED)
****GVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHL***L**
Disordered Region (DISEMBL)
MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHLSNLLTM
Disordered Region (DISPRO)
*****VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH*******
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHLSNLLTM
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	471	2.2.26 [Sep-21-2011]
Q9LS72	600	Pentatricopeptide repeat-	yes	no	0.978	0.768	0.387	2e-98
O82380	738	Pentatricopeptide repeat-	no	no	0.976	0.623	0.360	7e-93
O22137	613	Pentatricopeptide repeat-	no	no	0.974	0.748	0.355	3e-90
Q9LN01	741	Pentatricopeptide repeat-	no	no	0.989	0.628	0.374	2e-88
Q1PEU4	555	Pentatricopeptide repeat-	no	no	0.972	0.825	0.372	2e-87
Q9LSB8	687	Putative pentatricopeptid	no	no	0.980	0.672	0.342	1e-84
Q9SJZ3	681	Pentatricopeptide repeat-	no	no	0.955	0.660	0.342	7e-84
O23337	722	Pentatricopeptide repeat-	no	no	0.983	0.641	0.347	2e-83
Q9FJY7	620	Pentatricopeptide repeat-	no	no	0.808	0.614	0.416	2e-83
Q9SIT7	697	Pentatricopeptide repeat-	no	no	0.978	0.661	0.339	1e-82

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

 Score =  359 bits (922), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 182/470 (38%), Positives = 273/470 (58%), Gaps = 9/470 (1%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           MQ  G+ ADN+++P LLKA    S   +  M+H    K G    +YV  AL+  Y   RC
Sbjct: 108 MQRFGLFADNFTYPFLLKACSGQSWLPVVKMMHNHIEKLGLSSDIYVPNALIDCYS--RC 165

Query: 61  ----IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISG 116
               + DA K+FEKM E+D ++WNSML      G++  A +L D MP +D+ S+N M+ G
Sbjct: 166 GGLGVRDAMKLFEKMSERDTVSWNSMLGGLVKAGELRDARRLFDEMPQRDLISWNTMLDG 225

Query: 117 YARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV--KNVITWNT 174
           YAR  ++  A  +F+K+P ++ VSW+++++ Y+ AG+ME A  MF KM +  KNV+TW  
Sbjct: 226 YARCREMSKAFELFEKMPERNTVSWSTMVMGYSKAGDMEMARVMFDKMPLPAKNVVTWTI 285

Query: 175 MVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNG 234
           ++ GY    L  E   L D+M A  +K D   V S+L+AC   G L  G RIH     + 
Sbjct: 286 IIAGYAEKGLLKEADRLVDQMVASGLKFDAAAVISILAACTESGLLSLGMRIHSILKRSN 345

Query: 235 LASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLG 294
           L SN +   AL+DMYAKCG+++++ +VF     KD+  WN M+ GL +HG+G  A++L  
Sbjct: 346 LGSNAYVLNALLDMYAKCGNLKKAFDVFNDIPKKDLVSWNTMLHGLGVHGHGKEAIELFS 405

Query: 295 EMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA 354
            M    ++ D +TFI +L +C+HAGL+ EG + F  MEK + +  ++EHYGC+VDLLGR 
Sbjct: 406 RMRREGIRPDKVTFIAVLCSCNHAGLIDEGIDYFYSMEKVYDLVPQVEHYGCLVDLLGRV 465

Query: 355 RLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMF 414
             L  AI++++ MP EP   I GALL AC +H +++I   V   +  K +    G   + 
Sbjct: 466 GRLKEAIKVVQTMPMEPNVVIWGALLGACRMHNEVDIAKEVLDNL-VKLDPCDPGNYSLL 524

Query: 415 ANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
           +N+YA+   WE     R+ M   G+ K +G+S +E+    H+F      H
Sbjct: 525 SNIYAAAEDWEGVADIRSKMKSMGVEKPSGASSVELEDGIHEFTVFDKSH 574

Arabidopsis thaliana (taxid: 3702)

>sp|O82380|PP175_ARATH Pentatricopeptide repeat-containing protein At2g29760, chloroplastic OS=Arabidopsis thaliana GN=PCMP-H33 PE=2 SV=1

 Score =  341 bits (875), Expect = 7e-93,   Method: Compositional matrix adjust.
 Identities = 183/507 (36%), Positives = 284/507 (56%), Gaps = 47/507 (9%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           + E   + + Y+FP L+KAA  +SS  +G  LHG  +K+     V+V  +L+  Y S   
Sbjct: 122 VSESQCYPNKYTFPFLIKAAAEVSSLSLGQSLHGMAVKSAVGSDVFVANSLIHCYFSCGD 181

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDV------------- 107
           +D A KVF  + EKD+++WNSM++ F   G  D A++L   M  +DV             
Sbjct: 182 LDSACKVFTTIKEKDVVSWNSMINGFVQKGSPDKALELFKKMESEDVKASHVTMVGVLSA 241

Query: 108 --------------------------TSFNIMISGYARIGKIHSARYIFDKVPAKDVVSW 141
                                     T  N M+  Y + G I  A+ +FD +  KD V+W
Sbjct: 242 CAKIRNLEFGRQVCSYIEENRVNVNLTLANAMLDMYTKCGSIEDAKRLFDAMEEKDNVTW 301

Query: 142 NSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMK-AGNV 200
            +++  Y  + + E A E+   M  K+++ WN +++ Y ++    E + +F E++   N+
Sbjct: 302 TTMLDGYAISEDYEAAREVLNSMPQKDIVAWNALISAYEQNGKPNEALIVFHELQLQKNM 361

Query: 201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLE 260
           K + +T+ S LSACA +G+LE G  IH Y   +G+  N H T+ALI MY+KCG +E+S E
Sbjct: 362 KLNQITLVSTLSACAQVGALELGRWIHSYIKKHGIRMNFHVTSALIHMYSKCGDLEKSRE 421

Query: 261 VFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGL 320
           VF   + +DVF W+AMI GLA+HG G  A+ +  +M ++ VK + +TF  +  ACSH GL
Sbjct: 422 VFNSVEKRDVFVWSAMIGGLAMHGCGNEAVDMFYKMQEANVKPNGVTFTNVFCACSHTGL 481

Query: 321 VQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALL 380
           V E   LF +ME ++G+  + +HY C+VD+LGR+  L++A++ IEAMP  P+ S+ GALL
Sbjct: 482 VDEAESLFHQMESNYGIVPEEKHYACIVDVLGRSGYLEKAVKFIEAMPIPPSTSVWGALL 541

Query: 381 SACVIHQDLEIGDRVAKMVCAKSNYL---SDGELMMFANLYASCGQWEEANRWRNMMNDT 437
            AC IH +L +    A+M C +   L   +DG  ++ +N+YA  G+WE  +  R  M  T
Sbjct: 542 GACKIHANLNL----AEMACTRLLELEPRNDGAHVLLSNIYAKLGKWENVSELRKHMRVT 597

Query: 438 GIVKTAGSSVIEVNGSYHKFLAGGIGH 464
           G+ K  G S IE++G  H+FL+G   H
Sbjct: 598 GLKKEPGCSSIEIDGMIHEFLSGDNAH 624

Arabidopsis thaliana (taxid: 3702)

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

 Score =  332 bits (852), Expect = 3e-90,   Method: Compositional matrix adjust.
 Identities = 176/495 (35%), Positives = 281/495 (56%), Gaps = 36/495 (7%)

Query: 3   ELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCID 62
           E GV  D +S  L+LKA   L     G+ +HG   KTG    +++Q  L+ +Y    C+ 
Sbjct: 114 ENGVSVDKFSLSLVLKACSRLGFVKGGMQIHGFLKKTGLWSDLFLQNCLIGLYLKCGCLG 173

Query: 63  DAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPL------------------ 104
            + ++F++MP++D +++NSM+D +  CG +  A +L DLMP+                  
Sbjct: 174 LSRQMFDRMPKRDSVSYNSMIDGYVKCGLIVSARELFDLMPMEMKNLISWNSMISGYAQT 233

Query: 105 ----------------KDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAY 148
                           KD+ S+N MI GY + G+I  A+ +FD +P +DVV+W ++I  Y
Sbjct: 234 SDGVDIASKLFADMPEKDLISWNSMIDGYVKHGRIEDAKGLFDVMPRRDVVTWATMIDGY 293

Query: 149 TNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEM-KAGNVKPDYLTV 207
              G +  A  +F +M  ++V+ +N+M+ GY++++ ++E +++F +M K  ++ PD  T+
Sbjct: 294 AKLGFVHHAKTLFDQMPHRDVVAYNSMMAGYVQNKYHMEALEIFSDMEKESHLLPDDTTL 353

Query: 208 TSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV 267
             VL A A LG L     +H+Y  +           ALIDMY+KCGSI+ ++ VF   + 
Sbjct: 354 VIVLPAIAQLGRLSKAIDMHLYIVEKQFYLGGKLGVALIDMYSKCGSIQHAMLVFEGIEN 413

Query: 268 KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCEL 327
           K +  WNAMI GLA+HG G +A  +L ++    +K DDITF+G+L+ACSH+GLV+EG   
Sbjct: 414 KSIDHWNAMIGGLAIHGLGESAFDMLLQIERLSLKPDDITFVGVLNACSHSGLVKEGLLC 473

Query: 328 FSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQ 387
           F  M +   +  +L+HYGCMVD+L R+  ++ A  LIE MP EP + I    L+AC  H+
Sbjct: 474 FELMRRKHKIEPRLQHYGCMVDILSRSGSIELAKNLIEEMPVEPNDVIWRTFLTACSHHK 533

Query: 388 DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSV 447
           + E G+ VAK +  ++ Y +    ++ +N+YAS G W++  R R MM +  I K  G S 
Sbjct: 534 EFETGELVAKHLILQAGY-NPSSYVLLSNMYASFGMWKDVRRVRTMMKERKIEKIPGCSW 592

Query: 448 IEVNGSYHKFLAGGI 462
           IE++G  H+F    I
Sbjct: 593 IELDGRVHEFFVDSI 607

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

Arabidopsis thaliana (taxid: 3702)

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

 Score =  327 bits (837), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 190/508 (37%), Positives = 285/508 (56%), Gaps = 42/508 (8%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M  LG+  ++Y+FP +LK+     +   G  +HG  +K G    +YV T+L+ MY     
Sbjct: 125 MISLGLLPNSYTFPFVLKSCAKSKAFKEGQQIHGHVLKLGCDLDLYVHTSLISMYVQNGR 184

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
           ++DA KVF+K P +D++++ +++  +AS G +++A KL D +P+KDV S+N MISGYA  
Sbjct: 185 LEDAHKVFDKSPHRDVVSYTALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAET 244

Query: 121 GKIHSARYIF----------DKVPAKDVVS----------------W------------- 141
           G    A  +F          D+     VVS                W             
Sbjct: 245 GNYKEALELFKDMMKTNVRPDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIV 304

Query: 142 NSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVK 201
           N+LI  Y+  GE+E A  +F+++  K+VI+WNT++ GY    LY E + LF EM      
Sbjct: 305 NALIDLYSKCGELETACGLFERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGET 364

Query: 202 PDYLTVTSVLSACANLGSLETGARIHVYATDN--GLASNPHATTALIDMYAKCGSIEQSL 259
           P+ +T+ S+L ACA+LG+++ G  IHVY      G+ +     T+LIDMYAKCG IE + 
Sbjct: 365 PNDVTMLSILPACAHLGAIDIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAH 424

Query: 260 EVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAG 319
           +VF     K +  WNAMI G A+HG   A+  L   M    ++ DDITF+GLLSACSH+G
Sbjct: 425 QVFNSILHKSLSSWNAMIFGFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSG 484

Query: 320 LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGAL 379
           ++  G  +F  M +D+ +T KLEHYGCM+DLLG + L   A E+I  M  EP   I  +L
Sbjct: 485 MLDLGRHIFRTMTQDYKMTPKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSL 544

Query: 380 LSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI 439
           L AC +H ++E+G+  A+ +  K    + G  ++ +N+YAS G+W E  + R ++ND G+
Sbjct: 545 LKACKMHGNVELGESFAENLI-KIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGM 603

Query: 440 VKTAGSSVIEVNGSYHKFLAGGIGHLSN 467
            K  G S IE++   H+F+ G   H  N
Sbjct: 604 KKVPGCSSIEIDSVVHEFIIGDKFHPRN 631

Arabidopsis thaliana (taxid: 3702)

>sp|Q1PEU4|PP201_ARATH Pentatricopeptide repeat-containing protein At2g44880 OS=Arabidopsis thaliana GN=PCMP-E9 PE=2 SV=2

 Score =  323 bits (827), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 174/467 (37%), Positives = 274/467 (58%), Gaps = 9/467 (1%)

Query: 2   QELGVHADNYSFPLLLKAAGILSSSCI--GLMLHGQTIKTGFCGHVYVQTALLKMYGSLR 59
           +E     DN++F  L K+  +  S C+  GL LH Q  + GFC  +YV T ++ MY    
Sbjct: 70  KETCFAPDNFTFTTLTKSCSL--SMCVYQGLQLHSQIWRFGFCADMYVSTGVVDMYAKFG 127

Query: 60  CIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMP-LKDVTSFNIMISGYA 118
            +  A   F++MP +  ++W +++  +  CG++D A KL D MP +KDV  +N M+ G+ 
Sbjct: 128 KMGCARNAFDEMPHRSEVSWTALISGYIRCGELDLASKLFDQMPHVKDVVIYNAMMDGFV 187

Query: 119 RIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTG 178
           + G + SAR +FD++  K V++W ++I  Y N  +++ A ++F  M  +N+++WNTM+ G
Sbjct: 188 KSGDMTSARRLFDEMTHKTVITWTTMIHGYCNIKDIDAARKLFDAMPERNLVSWNTMIGG 247

Query: 179 YLRSQLYIEVVDLFDEMKA-GNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLAS 237
           Y +++   E + LF EM+A  ++ PD +T+ SVL A ++ G+L  G   H +     L  
Sbjct: 248 YCQNKQPQEGIRLFQEMQATTSLDPDDVTILSVLPAISDTGALSLGEWCHCFVQRKKLDK 307

Query: 238 NPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMN 297
                TA++DMY+KCG IE++  +F +   K V  WNAMI G AL+G   AAL L   M 
Sbjct: 308 KVKVCTAILDMYSKCGEIEKAKRIFDEMPEKQVASWNAMIHGYALNGNARAALDLFVTMM 367

Query: 298 DSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL 357
               K D+IT + +++AC+H GLV+EG + F  M ++ G+  K+EHYGCMVDLLGRA  L
Sbjct: 368 IE-EKPDEITMLAVITACNHGGLVEEGRKWFHVM-REMGLNAKIEHYGCMVDLLGRAGSL 425

Query: 358 DRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL 417
             A +LI  MPFEP   IL + LSAC  ++D+E  +R+ K    +    +DG  ++  NL
Sbjct: 426 KEAEDLITNMPFEPNGIILSSFLSACGQYKDIERAERILKKA-VELEPQNDGNYVLLRNL 484

Query: 418 YASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
           YA+  +W++    +N+M      K  G S+IE+N    +F++G   H
Sbjct: 485 YAADKRWDDFGMVKNVMRKNQAKKEVGCSLIEINYIVSEFISGDTTH 531

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LSB8|PP235_ARATH Putative pentatricopeptide repeat-containing protein At3g15930 OS=Arabidopsis thaliana GN=PCMP-E51 PE=3 SV=2

 Score =  314 bits (804), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 175/511 (34%), Positives = 278/511 (54%), Gaps = 49/511 (9%)

Query: 1   MQELGVHADNYSFPLLL----KAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYG 56
           M + GV  D+++FP LL    +  G L+    G  LH   +K G   ++YVQ AL+KMY 
Sbjct: 125 MLKEGVTPDSHTFPFLLNGLKRDGGALAC---GKKLHCHVVKFGLGSNLYVQNALVKMYS 181

Query: 57  SLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLI-----DLMPLKDVTSF- 110
               +D A  VF++  ++D+ +WN M+  +    + + +++L+     +L+    VT   
Sbjct: 182 LCGLMDMARGVFDRRCKEDVFSWNLMISGYNRMKEYEESIELLVEMERNLVSPTSVTLLL 241

Query: 111 ---------------------------------NIMISGYARIGKIHSARYIFDKVPAKD 137
                                            N +++ YA  G++  A  IF  + A+D
Sbjct: 242 VLSACSKVKDKDLCKRVHEYVSECKTEPSLRLENALVNAYAACGEMDIAVRIFRSMKARD 301

Query: 138 VVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKA 197
           V+SW S++  Y   G ++ A   F +M V++ I+W  M+ GYLR+  + E +++F EM++
Sbjct: 302 VISWTSIVKGYVERGNLKLARTYFDQMPVRDRISWTIMIDGYLRAGCFNESLEIFREMQS 361

Query: 198 GNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQ 257
             + PD  T+ SVL+ACA+LGSLE G  I  Y   N + ++     ALIDMY KCG  E+
Sbjct: 362 AGMIPDEFTMVSVLTACAHLGSLEIGEWIKTYIDKNKIKNDVVVGNALIDMYFKCGCSEK 421

Query: 258 SLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSH 317
           + +VF+    +D F W AM++GLA +G G  A+K+  +M D  ++ DDIT++G+LSAC+H
Sbjct: 422 AQKVFHDMDQRDKFTWTAMVVGLANNGQGQEAIKVFFQMQDMSIQPDDITYLGVLSACNH 481

Query: 318 AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILG 377
           +G+V +  + F++M  D  +   L HYGCMVD+LGRA L+  A E++  MP  P   + G
Sbjct: 482 SGMVDQARKFFAKMRSDHRIEPSLVHYGCMVDMLGRAGLVKEAYEILRKMPMNPNSIVWG 541

Query: 378 ALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELM-MFANLYASCGQWEEANRWRNMMND 436
           ALL A  +H D  + +  AK +        +G +  +  N+YA C +W++    R  + D
Sbjct: 542 ALLGASRLHNDEPMAELAAKKILELEP--DNGAVYALLCNIYAGCKRWKDLREVRRKIVD 599

Query: 437 TGIVKTAGSSVIEVNGSYHKFLAGGIGHLSN 467
             I KT G S+IEVNG  H+F+AG   HL +
Sbjct: 600 VAIKKTPGFSLIEVNGFAHEFVAGDKSHLQS 630

Arabidopsis thaliana (taxid: 3702)

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

 Score =  311 bits (797), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 168/490 (34%), Positives = 272/490 (55%), Gaps = 40/490 (8%)

Query: 8   ADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKV 67
            D++++P+L K    L  S +G M+ G  +K       +V  A + M+ S   +++A KV
Sbjct: 154 PDHFTYPVLFKVCADLRLSSLGHMILGHVLKLRLELVSHVHNASIHMFASCGDMENARKV 213

Query: 68  FEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK-----DVTSF------------ 110
           F++ P +D+++WN +++ +   G+ + A+ +  LM  +     DVT              
Sbjct: 214 FDESPVRDLVSWNCLINGYKKIGEAEKAIYVYKLMESEGVKPDDVTMIGLVSSCSMLGDL 273

Query: 111 ----------------------NIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAY 148
                                 N ++  +++ G IH AR IFD +  + +VSW ++I  Y
Sbjct: 274 NRGKEFYEYVKENGLRMTIPLVNALMDMFSKCGDIHEARRIFDNLEKRTIVSWTTMISGY 333

Query: 149 TNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVT 208
              G ++ + ++F  M  K+V+ WN M+ G ++++   + + LF EM+  N KPD +T+ 
Sbjct: 334 ARCGLLDVSRKLFDDMEEKDVVLWNAMIGGSVQAKRGQDALALFQEMQTSNTKPDEITMI 393

Query: 209 SVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK 268
             LSAC+ LG+L+ G  IH Y     L+ N    T+L+DMYAKCG+I ++L VF+  Q +
Sbjct: 394 HCLSACSQLGALDVGIWIHRYIEKYSLSLNVALGTSLVDMYAKCGNISEALSVFHGIQTR 453

Query: 269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELF 328
           +   + A+I GLALHG    A+    EM D+ +  D+ITFIGLLSAC H G++Q G + F
Sbjct: 454 NSLTYTAIIGGLALHGDASTAISYFNEMIDAGIAPDEITFIGLLSACCHGGMIQTGRDYF 513

Query: 329 SRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQD 388
           S+M+  F +  +L+HY  MVDLLGRA LL+ A  L+E+MP E   ++ GALL  C +H +
Sbjct: 514 SQMKSRFNLNPQLKHYSIMVDLLGRAGLLEEADRLMESMPMEADAAVWGALLFGCRMHGN 573

Query: 389 LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVI 448
           +E+G++ AK +  + +    G  ++   +Y     WE+A R R MMN+ G+ K  G S I
Sbjct: 574 VELGEKAAKKLL-ELDPSDSGIYVLLDGMYGEANMWEDAKRARRMMNERGVEKIPGCSSI 632

Query: 449 EVNGSYHKFL 458
           EVNG   +F+
Sbjct: 633 EVNGIVCEFI 642

Arabidopsis thaliana (taxid: 3702)

>sp|O23337|PP311_ARATH Pentatricopeptide repeat-containing protein At4g14820 OS=Arabidopsis thaliana GN=PCMP-H3 PE=2 SV=1

 Score =  310 bits (794), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 175/503 (34%), Positives = 271/503 (53%), Gaps = 40/503 (7%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           ++ +G   D +SF  +LKA   +S+   G+ LHG   K       +V+T  + MY S   
Sbjct: 102 IRHVGGRLDQFSFLPILKAVSKVSALFEGMELHGVAFKIATLCDPFVETGFMDMYASCGR 161

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIM----ISG 116
           I+ A  VF++M  +D++ WN+M++ +   G +D A KL + M   +V    ++    +S 
Sbjct: 162 INYARNVFDEMSHRDVVTWNTMIERYCRFGLVDEAFKLFEEMKDSNVMPDEMILCNIVSA 221

Query: 117 YARIGKIHSARYIFDKVPAKDVVS----WNSLILAYTNAGEMEKAGEMFKKMLVKNV--- 169
             R G +   R I++ +   DV        +L+  Y  AG M+ A E F+KM V+N+   
Sbjct: 222 CGRTGNMRYNRAIYEFLIENDVRMDTHLLTALVTMYAGAGCMDMAREFFRKMSVRNLFVS 281

Query: 170 ----------------------------ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVK 201
                                       + W TM++ Y+ S    E + +F+EM    +K
Sbjct: 282 TAMVSGYSKCGRLDDAQVIFDQTEKKDLVCWTTMISAYVESDYPQEALRVFEEMCCSGIK 341

Query: 202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEV 261
           PD +++ SV+SACANLG L+    +H     NGL S      ALI+MYAKCG ++ + +V
Sbjct: 342 PDVVSMFSVISACANLGILDKAKWVHSCIHVNGLESELSINNALINMYAKCGGLDATRDV 401

Query: 262 FYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLV 321
           F K   ++V  W++MI  L++HG    AL L   M    V+ +++TF+G+L  CSH+GLV
Sbjct: 402 FEKMPRRNVVSWSSMINALSMHGEASDALSLFARMKQENVEPNEVTFVGVLYGCSHSGLV 461

Query: 322 QEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLS 381
           +EG ++F+ M  ++ +T KLEHYGCMVDL GRA LL  A+E+IE+MP      I G+L+S
Sbjct: 462 EEGKKIFASMTDEYNITPKLEHYGCMVDLFGRANLLREALEVIESMPVASNVVIWGSLMS 521

Query: 382 ACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK 441
           AC IH +LE+G   AK +  +     DG L++ +N+YA   +WE+    R +M +  + K
Sbjct: 522 ACRIHGELELGKFAAKRI-LELEPDHDGALVLMSNIYAREQRWEDVRNIRRVMEEKNVFK 580

Query: 442 TAGSSVIEVNGSYHKFLAGGIGH 464
             G S I+ NG  H+FL G   H
Sbjct: 581 EKGLSRIDQNGKSHEFLIGDKRH 603

Arabidopsis thaliana (taxid: 3702)

>sp|Q9FJY7|PP449_ARATH Pentatricopeptide repeat-containing protein At5g66520 OS=Arabidopsis thaliana GN=PCMP-H61 PE=2 SV=1

 Score =  310 bits (793), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 160/384 (41%), Positives = 234/384 (60%), Gaps = 3/384 (0%)

Query: 81  SMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVS 140
           S L AF    Q+ HA ++  L    DV + N +I+ YA  G    A  +FD++P  D VS
Sbjct: 126 SNLSAFEETTQI-HA-QITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVS 183

Query: 141 WNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV 200
           WNS+I  Y  AG+M+ A  +F+KM  KN I+W TM++GY+++ +  E + LF EM+  +V
Sbjct: 184 WNSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDV 243

Query: 201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLE 260
           +PD +++ + LSACA LG+LE G  IH Y     +  +      LIDMYAKCG +E++LE
Sbjct: 244 EPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALE 303

Query: 261 VFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGL 320
           VF   + K V  W A+I G A HG+G  A+    EM    +K + ITF  +L+ACS+ GL
Sbjct: 304 VFKNIKKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGL 363

Query: 321 VQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALL 380
           V+EG  +F  ME+D+ +   +EHYGC+VDLLGRA LLD A   I+ MP +P   I GALL
Sbjct: 364 VEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALL 423

Query: 381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV 440
            AC IH+++E+G+ + +++ A   Y   G  +  AN++A   +W++A   R +M + G+ 
Sbjct: 424 KACRIHKNIELGEEIGEILIAIDPY-HGGRYVHKANIHAMDKKWDKAAETRRLMKEQGVA 482

Query: 441 KTAGSSVIEVNGSYHKFLAGGIGH 464
           K  G S I + G+ H+FLAG   H
Sbjct: 483 KVPGCSTISLEGTTHEFLAGDRSH 506

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SIT7|PP151_ARATH Pentatricopeptide repeat-containing protein At2g13600 OS=Arabidopsis thaliana GN=PCMP-E76 PE=3 SV=1

 Score =  307 bits (786), Expect = 1e-82,   Method: Compositional matrix adjust.
 Identities = 174/512 (33%), Positives = 265/512 (51%), Gaps = 51/512 (9%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M + G   + YSF  +L A   L+    G+ +H    K+ F   VY+ +AL+ MY     
Sbjct: 143 MHKEGFVLNEYSFASVLSACSGLNDMNKGVQVHSLIAKSPFLSDVYIGSALVDMYSKCGN 202

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLM------P----------- 103
           ++DA +VF++M ++++++WNS++  F   G    A+ +  +M      P           
Sbjct: 203 VNDAQRVFDEMGDRNVVSWNSLITCFEQNGPAVEALDVFQMMLESRVEPDEVTLASVISA 262

Query: 104 -----------------------LKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVS 140
                                    D+   N  +  YA+  +I  AR+IFD +P ++V++
Sbjct: 263 CASLSAIKVGQEVHGRVVKNDKLRNDIILSNAFVDMYAKCSRIKEARFIFDSMPIRNVIA 322

Query: 141 WNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV 200
             S+I  Y  A   + A  MF KM  +NV++WN ++ GY ++    E + LF  +K  +V
Sbjct: 323 ETSMISGYAMAASTKAARLMFTKMAERNVVSWNALIAGYTQNGENEEALSLFCLLKRESV 382

Query: 201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA------SNPHATTALIDMYAKCGS 254
            P + +  ++L ACA+L  L  G + HV+   +G         +     +LIDMY KCG 
Sbjct: 383 CPTHYSFANILKACADLAELHLGMQAHVHVLKHGFKFQSGEEDDIFVGNSLIDMYVKCGC 442

Query: 255 IEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSA 314
           +E+   VF K   +D   WNAMI+G A +GYG  AL+L  EM +S  K D IT IG+LSA
Sbjct: 443 VEEGYLVFRKMMERDCVSWNAMIIGFAQNGYGNEALELFREMLESGEKPDHITMIGVLSA 502

Query: 315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTES 374
           C HAG V+EG   FS M +DFGV    +HY CMVDLLGRA  L+ A  +IE MP +P   
Sbjct: 503 CGHAGFVEEGRHYFSSMTRDFGVAPLRDHYTCMVDLLGRAGFLEEAKSMIEEMPMQPDSV 562

Query: 375 ILGALLSACVIHQDLEIGDRVAK--MVCAKSNYLSDGELMMFANLYASCGQWEEANRWRN 432
           I G+LL+AC +H+++ +G  VA+  +    SN    G  ++ +N+YA  G+WE+    R 
Sbjct: 563 IWGSLLAACKVHRNITLGKYVAEKLLEVEPSN---SGPYVLLSNMYAELGKWEDVMNVRK 619

Query: 433 MMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
            M   G+ K  G S I++ G  H F+     H
Sbjct: 620 SMRKEGVTKQPGCSWIKIQGHDHVFMVKDKSH 651

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	471
224092607	500	predicted protein [Populus trichocarpa]	0.893	0.842	0.691	0.0
255548718	507	pentatricopeptide repeat-containing prot	0.983	0.913	0.676	0.0
225430506	517	PREDICTED: pentatricopeptide repeat-cont	0.906	0.825	0.675	0.0
147784564	1302	hypothetical protein VITISV_008663 [Viti	0.940	0.340	0.638	1e-173
359484088	762	PREDICTED: pentatricopeptide repeat-cont	0.983	0.607	0.405	1e-104
147864534	643	hypothetical protein VITISV_017238 [Viti	0.959	0.702	0.406	1e-104
359485688	585	PREDICTED: pentatricopeptide repeat-cont	0.980	0.789	0.405	1e-103
147807930	585	hypothetical protein VITISV_032407 [Viti	0.980	0.789	0.405	1e-103
225452922	594	PREDICTED: pentatricopeptide repeat-cont	0.963	0.764	0.409	1e-101
449531466	610	PREDICTED: pentatricopeptide repeat-cont	0.966	0.745	0.400	6e-99

>gi|224092607|ref|XP_002309680.1| predicted protein [Populus trichocarpa] gi|222855656|gb|EEE93203.1| predicted protein [Populus trichocarpa]

 Score =  691 bits (1784), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 318/460 (69%), Positives = 387/460 (84%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           +QE+G HADN++FP+LLKAAG  SS CIGL LHGQTIK GF  HV+VQTALL MY S  C
Sbjct: 41  VQEIGFHADNFTFPILLKAAGSWSSPCIGLALHGQTIKAGFSSHVFVQTALLNMYRSHSC 100

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
           + DA KVFEKMP KD++AWNS+LDA+AS  QMD A+K+ + MPLKD++SFNIMISGY+ I
Sbjct: 101 VADACKVFEKMPVKDVVAWNSILDAYASTDQMDDALKVFNSMPLKDLSSFNIMISGYSSI 160

Query: 121 GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYL 180
           GK  SAR IFD +  KD+VSWNS+I AY    +ME+A ++F++M  KN+ITWNTMV G+L
Sbjct: 161 GKTLSARSIFDNMAEKDIVSWNSMISAYIQGEDMERACDLFREMPAKNIITWNTMVKGFL 220

Query: 181 RSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH 240
           ++QLY EV+DLFDEMK  N  PDYLTVT VLSACA+ GSL+ G  +H+YA DNGLAS+PH
Sbjct: 221 QNQLYAEVLDLFDEMKTTNCLPDYLTVTGVLSACAHSGSLKKGTEVHIYAIDNGLASSPH 280

Query: 241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSC 300
            TTALIDMYAKCGSI+Q L+VFYKSQVKD++CWNA+I GLALHG+GYAAL +  +M  + 
Sbjct: 281 VTTALIDMYAKCGSIQQGLQVFYKSQVKDIYCWNALISGLALHGHGYAALNIFNKMRKNH 340

Query: 301 VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA 360
            + DDITFIGLLSACSH+GLVQEG +LF  M+K+FG++ K+EHYGCMVDLL RAR LD A
Sbjct: 341 TRPDDITFIGLLSACSHSGLVQEGSQLFYSMQKEFGISPKIEHYGCMVDLLSRARHLDCA 400

Query: 361 IELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS 420
           ++LI+ MPF+P E+ILGALLSAC++HQDLE+G+RV K+V ++ NYLSDGELMMF+NLYAS
Sbjct: 401 LQLIKTMPFKPGEAILGALLSACIVHQDLEVGERVVKLVSSRGNYLSDGELMMFSNLYAS 460

Query: 421 CGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAG 460
           CGQWEEAN+WR MMNDTGIVKTAG SV+EVNG +HKFLAG
Sbjct: 461 CGQWEEANKWREMMNDTGIVKTAGFSVVEVNGKFHKFLAG 500

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255548718|ref|XP_002515415.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis] gi|223545359|gb|EEF46864.1| pentatricopeptide repeat-containing protein, putative [Ricinus communis]

 Score =  671 bits (1732), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 313/463 (67%), Positives = 383/463 (82%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           +QELG HADNY+FP+LLKAAG + +S IG  LHGQTIKTGFC H +VQTAL+ MYG+L C
Sbjct: 41  VQELGFHADNYTFPILLKAAGRICASKIGFALHGQTIKTGFCAHAFVQTALVNMYGNLHC 100

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
           I DAFKVFE MP KD+IAWNSMLDA+AS  QMD+A  L + MPLKD++SFNIMISGY+  
Sbjct: 101 IGDAFKVFEIMPVKDLIAWNSMLDAYASNAQMDYASNLFNSMPLKDISSFNIMISGYSTR 160

Query: 121 GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYL 180
           G+   AR IFD +  +D VSWNS+I AY  AG+MEK   +F++M VKN +TWNTM+TG L
Sbjct: 161 GEAMLARSIFDSMEVRDFVSWNSMISAYIRAGDMEKGLALFREMPVKNTVTWNTMITGCL 220

Query: 181 RSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH 240
           +S+ +  V+DLF+EMK  N  PDYLTVTSVLS C +LGSL TG +IH+YA DNGL S+PH
Sbjct: 221 QSEHFGMVLDLFEEMKTANYIPDYLTVTSVLSTCGHLGSLGTGIKIHIYAIDNGLVSSPH 280

Query: 241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSC 300
            TTALIDMY+KCGSIEQ L VF KSQVKD++CWNA+I  LALHG+GYAALK+ G+M  + 
Sbjct: 281 VTTALIDMYSKCGSIEQGLHVFCKSQVKDIYCWNALISALALHGHGYAALKVFGKMRKNH 340

Query: 301 VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA 360
           ++ DDITFIG+++ACSH+GLVQEGC+LF  M++DFG++ KLEHYGCMV+LLGR+  L  A
Sbjct: 341 IQPDDITFIGIINACSHSGLVQEGCQLFVSMQEDFGISPKLEHYGCMVNLLGRSGHLALA 400

Query: 361 IELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS 420
           +++IE MPFEP ESILGALLSAC+I+QDLE G+RV ++VC+K++YLSDGELMMF+NLYAS
Sbjct: 401 LQVIETMPFEPGESILGALLSACIIYQDLETGERVIELVCSKAHYLSDGELMMFSNLYAS 460

Query: 421 CGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIG 463
           CG WEEANRWR MMN TGIVKTAG SVIEV+G + KFLAG +G
Sbjct: 461 CGNWEEANRWREMMNSTGIVKTAGYSVIEVSGRFQKFLAGEVG 503

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225430506|ref|XP_002283354.1| PREDICTED: pentatricopeptide repeat-containing protein At3g29230-like [Vitis vinifera]

 Score =  656 bits (1692), Expect = 0.0,   Method: Compositional matrix adjust.
 Identities = 312/462 (67%), Positives = 376/462 (81%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M+ +G  ADN++FP+LLKAA  LSS CIG  LHGQ +KTGF GH +V TALL MY +   
Sbjct: 45  MKRVGFDADNFTFPVLLKAASSLSSCCIGFALHGQAMKTGFSGHCFVGTALLDMYSAFGA 104

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
           ID A KVFE+M  KD++ WNSML A+ASCGQMD+AMKL D MPLKD+ SFNIMISGYA+I
Sbjct: 105 IDHATKVFEEMGVKDVVVWNSMLAAYASCGQMDNAMKLFDNMPLKDLASFNIMISGYAKI 164

Query: 121 GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYL 180
           GK  +AR IFD++ AKD+VSWNS+ILA TN G+M  A  +F  M  KNVITWNTM++GYL
Sbjct: 165 GKKAAARSIFDRIHAKDIVSWNSMILACTNVGDMGNARNLFDVMPKKNVITWNTMISGYL 224

Query: 181 RSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH 240
            +QLY E VDLFDEMKAGN + D+LTVT VLSACA+LG L  G  +HVYA D+ LAS+PH
Sbjct: 225 HAQLYAEAVDLFDEMKAGNHEADHLTVTLVLSACAHLGWLGKGTEMHVYAQDHRLASSPH 284

Query: 241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSC 300
             T+LIDMYAKCG+I++SLEVFYKSQVKD++CWNA+I GLALHGYG+AA+KLL +M D+ 
Sbjct: 285 VATSLIDMYAKCGTIQRSLEVFYKSQVKDIYCWNAIISGLALHGYGHAAVKLLDKMRDNG 344

Query: 301 VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA 360
           V+ D+ITFIGLLSACSH  LVQEGC LF  MEK+FG+  KLEHYGCMVDLLGRA  LD A
Sbjct: 345 VRPDEITFIGLLSACSHRSLVQEGCRLFDCMEKEFGLPPKLEHYGCMVDLLGRAGFLDPA 404

Query: 361 IELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS 420
            +LI+AMPFEP ESILGALL ACVIHQDLE G++V  ++ +K++++SDGE MMF NLYAS
Sbjct: 405 FQLIKAMPFEPGESILGALLGACVIHQDLETGEKVINLITSKAHHVSDGEFMMFVNLYAS 464

Query: 421 CGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGI 462
           CGQW+EANRWR  MN++GI KTAG S IEV+G +++FLAG I
Sbjct: 465 CGQWKEANRWRERMNESGIAKTAGGSTIEVDGKFYRFLAGDI 506

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147784564|emb|CAN70487.1| hypothetical protein VITISV_008663 [Vitis vinifera]

 Score =  614 bits (1583), Expect = e-173,   Method: Compositional matrix adjust.
 Identities = 295/462 (63%), Positives = 358/462 (77%), Gaps = 19/462 (4%)

Query: 1    MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
            M+ +G HADN++FP+LLKAA  LSS CIG  LHGQ +KTGF GH +V TALL MY +   
Sbjct: 849  MKRVGFHADNFTFPVLLKAASSLSSCCIGFALHGQAMKTGFSGHCFVGTALLDMYXAFGA 908

Query: 61   IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
            ID A KVFE+M  KD++ WNSML A+AS GQMD+AMKL D MPLKD+ SFNIMISGYA+I
Sbjct: 909  IDHATKVFEEMGVKDVVVWNSMLAAYASXGQMDNAMKLFDNMPLKDLASFNIMISGYAKI 968

Query: 121  GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYL 180
            G+  +AR IFD++ AKD+VSWNS+ILA TN G+M  A  +F  M  KN            
Sbjct: 969  GRKAAARSIFDRIHAKDIVSWNSMILACTNVGDMGNARNLFDVMPKKNA----------- 1017

Query: 181  RSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH 240
                    VDLFDEMKAGN + D+LTV  VLSACA+LG L  G  +HVYA D+ LAS+PH
Sbjct: 1018 --------VDLFDEMKAGNHEADHLTVALVLSACAHLGWLGKGTEMHVYAQDHRLASSPH 1069

Query: 241  ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSC 300
              T+LIDMYAKCG+I++SLEVFYKSQVKD++CWNA+I GLALHGYG+AA+KLL +M D+ 
Sbjct: 1070 VATSLIDMYAKCGTIQRSLEVFYKSQVKDIYCWNAIISGLALHGYGHAAVKLLDKMRDNG 1129

Query: 301  VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA 360
            ++ D+ITFIGLLSACSH  LVQEGC LF  MEK+FG+  KLEHYGCMVDLLGRA  LD A
Sbjct: 1130 IRPDEITFIGLLSACSHGSLVQEGCRLFDCMEKEFGLPPKLEHYGCMVDLLGRAGFLDPA 1189

Query: 361  IELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS 420
             +LI+AMPFEP ESILGALL ACVIHQDLE G++V  ++ +K++++SDGE MMF NLYAS
Sbjct: 1190 FQLIKAMPFEPGESILGALLGACVIHQDLETGEKVIBLITSKAHHVSDGEFMMFVNLYAS 1249

Query: 421  CGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGI 462
            CGQW+EANRWR  MN++GI KTAG S IEV+G +++FLAG I
Sbjct: 1250 CGQWKEANRWRERMNESGIAKTAGGSTIEVDGKFYRFLAGDI 1291

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359484088|ref|XP_002263394.2| PREDICTED: pentatricopeptide repeat-containing protein At2g29760, chloroplastic [Vitis vinifera]

 Score =  386 bits (991), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 188/464 (40%), Positives = 292/464 (62%), Gaps = 1/464 (0%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M + G+  D+ ++P ++KA    S +  GL++H   +K+GF    Y+ ++L+ +Y + + 
Sbjct: 186 MLQSGLKPDHMTYPFVIKACNESSVTWFGLLVHTHVVKSGFECDSYIVSSLIHLYANGKD 245

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
           +  A ++F     +D+++WN+M+D +    +M HA  + D M  +DV S+N MI+GYA +
Sbjct: 246 LGAAKQLFNLCSARDVVSWNAMIDGYVKHVEMGHARMVFDRMVCRDVISWNTMINGYAIV 305

Query: 121 GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYL 180
           GKI  A+ +FD++P +++VSWNS++  +   G +E A  +F +M  ++V++WN+M+  Y 
Sbjct: 306 GKIDEAKRLFDEMPERNLVSWNSMLAGFVKCGNVEDAFGLFSEMPCRDVVSWNSMLACYA 365

Query: 181 RSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH 240
           +     E + LFD+M+A  VKP   TV S+LSACA+LG+L+ G  +H Y  DN +  N  
Sbjct: 366 QCGKPNEALALFDQMRAVGVKPTEATVVSLLSACAHLGALDKGLHLHTYINDNRIEVNSI 425

Query: 241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSC 300
             TAL+DMYAKCG I  + +VF   + KDV  WN +I G+A+HG    A +L  EM ++ 
Sbjct: 426 VGTALVDMYAKCGKISLATQVFNAMESKDVLAWNTIIAGMAIHGNVKEAQQLFKEMKEAG 485

Query: 301 VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA 360
           V+ +DITF+ +LSACSHAG+V EG +L   M   +G+  K+EHYGC++DLL RA  L+ A
Sbjct: 486 VEPNDITFVAILSACSHAGMVDEGQKLLDCMSSSYGIEPKVEHYGCVIDLLARAGFLEEA 545

Query: 361 IELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS 420
           +ELI  MP EP  S LGALL  C IH + E+G+ V K +       S G  ++ +N+YA+
Sbjct: 546 MELIGTMPMEPNPSALGALLGGCRIHGNFELGEMVGKRLINLQPCHS-GRYILLSNIYAA 604

Query: 421 CGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
             +W++A + RN+M   GI K  G SVIE+ G  H+F+AG   H
Sbjct: 605 AKKWDDARKVRNLMKVNGISKVPGVSVIELKGMVHRFVAGDWSH 648

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147864534|emb|CAN78385.1| hypothetical protein VITISV_017238 [Vitis vinifera]

 Score =  383 bits (984), Expect = e-104,   Method: Compositional matrix adjust.
 Identities = 184/453 (40%), Positives = 288/453 (63%), Gaps = 1/453 (0%)

Query: 12  SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKM 71
           ++P ++KA    S +  GL++H   +K+GF    Y+  +L+ +Y + + +  A ++F   
Sbjct: 2   TYPFVIKACNESSVTWFGLLVHTHVVKSGFECDSYIVNSLIHLYANGKDLGAAKQLFSLC 61

Query: 72  PEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFD 131
            ++D+++WN+M+D +   G+M H   + D M  +DV S+N +I+GYA +GKI  A+ +FD
Sbjct: 62  SDRDVVSWNAMIDGYVKRGEMGHTRMVFDRMVCRDVISWNTIINGYAIVGKIDEAKRLFD 121

Query: 132 KVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDL 191
           ++P +++VSWNS++  +   G +E+A  +F +M  ++V++WN+M+  Y +     E + L
Sbjct: 122 EMPERNLVSWNSMLSGFVKCGNVEEAFGLFSEMPCRDVVSWNSMLACYAQCGKPNEALAL 181

Query: 192 FDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAK 251
           FD+M+A  VKP   TV S+LSACA+LG+L+ G  +H Y  DN +  N    TAL+DMYAK
Sbjct: 182 FDQMRAVGVKPTEATVVSLLSACAHLGALDKGLHLHTYINDNRIEVNSIVGTALVDMYAK 241

Query: 252 CGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGL 311
           CG I  + +VF   + KDV  WN +I G+A+HG+   A +L  EM ++ V+ +DITF+ +
Sbjct: 242 CGKISLATQVFNAMESKDVLAWNTIIAGMAIHGHVKEAQQLFKEMKEASVEPNDITFVAM 301

Query: 312 LSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEP 371
           LSACSHAG+V EG +L   M   +G+  K+EHY C++DLL RA LL+ A+ELI  MP EP
Sbjct: 302 LSACSHAGMVDEGQKLLDCMSSSYGIEPKVEHYDCVIDLLARAGLLEEAMELIGTMPMEP 361

Query: 372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWR 431
             S LGALL  C IH + E+G+ V K +       S G  ++ +N+YA+  +W++A + R
Sbjct: 362 NPSALGALLGGCRIHGNFELGEMVGKRLINLQPCHS-GRYILLSNIYAAAKKWDDARKVR 420

Query: 432 NMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
           N+M   GI K  G SVIE+ G  H+F+AG   H
Sbjct: 421 NLMKVNGISKVPGVSVIELKGMVHRFVAGDWSH 453

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/468 (40%), Positives = 295/468 (63%), Gaps = 6/468 (1%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M+  G+  DNY++P +LKA G +     G ++ G+ +K GF G V+V   L+ MY   RC
Sbjct: 101 MRRKGLLGDNYTYPFVLKACGAMCGLLEGGLVQGEAVKRGFGGDVFVVNGLISMY--CRC 158

Query: 61  IDD--AFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYA 118
            +   A  VF+   EKD+++WNSML  +  CG+M++A  + D MP +DV S++IMI GY 
Sbjct: 159 GETGWARAVFDGFSEKDLVSWNSMLGGYVWCGEMENAQNMFDEMPERDVVSWSIMIDGYG 218

Query: 119 R-IGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVT 177
           + +G+++ AR  FD +P +D+VSWNS+I  Y   GEME A E+F KML KNVI+W+ M+ 
Sbjct: 219 KKMGEVNRARVFFDSMPTRDLVSWNSMIDGYAKVGEMEVAREIFDKMLQKNVISWSIMID 278

Query: 178 GYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLAS 237
           GY + +   E ++LF +M    +KPD ++V   +SAC+ LG+L+ G  IH+Y   N +  
Sbjct: 279 GYAQHRDSKEALNLFRQMLCQGIKPDRVSVVGAVSACSQLGALDQGRWIHLYMKRNRMLL 338

Query: 238 NPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMN 297
           +    TAL+DMY KCGS +++  +F     ++V  WN MI+GL ++G+G  AL+   +M 
Sbjct: 339 DIVVQTALVDMYLKCGSRDEARRIFNSMPERNVVSWNVMIVGLGMNGFGKEALECFTQME 398

Query: 298 DSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL 357
              +  DD+ F+G+L ACSHA LV EG  +F++M+  + +  KLEHYGC+VDLLGRA  L
Sbjct: 399 MERIPMDDLLFLGVLMACSHANLVTEGLHIFNQMKGVYRLEPKLEHYGCLVDLLGRAGQL 458

Query: 358 DRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL 417
           D+   +I++MP +P  ++ G+LL AC IHQ++ + + V + + A+      G  ++ +N+
Sbjct: 459 DQIQNIIQSMPMKPNAALWGSLLLACRIHQNVTLAEIVVERL-AELKADDSGVYVLMSNI 517

Query: 418 YASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHL 465
           YA  G WE   R R +M +  + K  G SVIEV+G+  +F++G   H+
Sbjct: 518 YADVGMWEGMLRIRKLMKERKMKKDIGRSVIEVDGNVEEFVSGEKSHI 565

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

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

 Score =  382 bits (980), Expect = e-103,   Method: Compositional matrix adjust.
 Identities = 190/468 (40%), Positives = 295/468 (63%), Gaps = 6/468 (1%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M++ G+  DNY++P +LKA G +     G ++ G+ +K GF G V+V   L+ MY   RC
Sbjct: 101 MRKKGLLGDNYTYPFVLKACGAMCGLLEGGLVQGEAVKRGFGGDVFVVNGLISMY--CRC 158

Query: 61  IDD--AFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYA 118
            +   A  VF+   EKD+++WNSML  +  CG+M++A  + D MP +DV S++IMI GY 
Sbjct: 159 GETGWARAVFDGFSEKDLVSWNSMLGGYVWCGEMENAQNMFDEMPERDVVSWSIMIDGYG 218

Query: 119 R-IGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVT 177
           + +G+++ AR  FD +P +D+VSWNS+I  Y   GEME A E+F KML KNVI+W+ M+ 
Sbjct: 219 KKMGEVNRARVFFDSMPTRDLVSWNSMIDGYAKVGEMEVAREIFBKMLQKNVISWSIMID 278

Query: 178 GYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLAS 237
           GY   +   E ++LF +M    +KPD ++V   +SAC+ LG+L+ G  IH+Y   N +  
Sbjct: 279 GYAXHRDSKEALNLFRQMLCQGIKPDRVSVVGAVSACSQLGALDQGRWIHLYMKRNRMLL 338

Query: 238 NPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMN 297
           +    TAL+DMY KCGS +++  +F     ++V  WN MI+GL ++G+G  AL+   +M 
Sbjct: 339 DIVVQTALVDMYLKCGSXDEARXIFNSMPERNVVSWNVMIVGLGMNGFGKEALECFXQME 398

Query: 298 DSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL 357
              +  DD+ F+G+L ACSHA LV EG  +F++M+  + +  KLEHYGC+VDLLGRA  L
Sbjct: 399 MERIPMDDLLFLGVLMACSHANLVTEGLHIFNQMKGVYRLEPKLEHYGCLVDLLGRAGQL 458

Query: 358 DRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL 417
           D+   +I++MP +P  ++ G+LL AC IHQ++ + + V + + A+      G  ++ +N+
Sbjct: 459 DQIQNIIQSMPMKPNAALWGSLLLACRIHQNVTLAEIVVERL-AELKADDSGVYVLMSNI 517

Query: 418 YASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHL 465
           YA  G WE   R R +M +  + K  G SVIEV+G+  +F++G   H+
Sbjct: 518 YADVGMWEGMLRIRKLMKERKMKKDIGRSVIEVDGNVEEFVSGEKSHI 565

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225452922|ref|XP_002278886.1| PREDICTED: pentatricopeptide repeat-containing protein At3g29230 [Vitis vinifera]

 Score =  374 bits (959), Expect = e-101,   Method: Compositional matrix adjust.
 Identities = 189/461 (40%), Positives = 275/461 (59%), Gaps = 7/461 (1%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           MQ+ GV ADN+++P LLKA        +  M+H Q  K GFC  ++V  +L+  Y   +C
Sbjct: 106 MQDSGVCADNFTYPFLLKACSGKVWVRVVEMIHAQVEKMGFCLDIFVPNSLIDSY--FKC 163

Query: 61  ----IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISG 116
               +  A KVFE M E+D ++WNSM+      G++  A +L D MP +D  S+N ++ G
Sbjct: 164 GLDGVAAARKVFEVMAERDTVSWNSMIGGLVKVGELGEARRLFDEMPERDTVSWNTILDG 223

Query: 117 YARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMV 176
           Y + G++++A  +F+K+PA++VVSW++++L Y+ AG+M+ A  +F KM VKN++ W  M+
Sbjct: 224 YVKAGEMNAAFELFEKMPARNVVSWSTMVLGYSKAGDMDMARILFDKMPVKNLVPWTIMI 283

Query: 177 TGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA 236
           +GY    L  + ++L+++M+   +K D  TV S+LSACA  G L  G R+H         
Sbjct: 284 SGYAEKGLAKDAINLYNQMEEAGLKFDDGTVISILSACAVSGLLGLGKRVHASIERTRFK 343

Query: 237 SNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEM 296
            +   + ALIDMYAKCGS+E +L +F+    KDV  WNA+I GLA+HG+G  AL+L   M
Sbjct: 344 CSTPVSNALIDMYAKCGSLENALSIFHGMVRKDVVSWNAIIQGLAMHGHGEKALQLFSRM 403

Query: 297 NDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL 356
                  D +TF+G+L AC+HAG V EG   F  ME+D+GV  ++EHYGCMVDLLGR   
Sbjct: 404 KGEGFVPDKVTFVGVLCACTHAGFVDEGLHYFHAMERDYGVPPEVEHYGCMVDLLGRGGR 463

Query: 357 LDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFAN 416
           L  A  L+ +MP EP   I G LL AC +H    + + V   +  KS     G L M +N
Sbjct: 464 LKEAFRLVHSMPLEPNAIIWGTLLGACRMHSATGLAEEVFDRL-VKSELSDSGNLSMLSN 522

Query: 417 LYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKF 457
           +YA+ G W+     R  M  T I K +G S IEV+   H+F
Sbjct: 523 IYAAAGDWDNFANIRLRMKSTSIQKPSGGSSIEVDDEVHEF 563

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449531466|ref|XP_004172707.1| PREDICTED: pentatricopeptide repeat-containing protein At3g29230-like, partial [Cucumis sativus]

 Score =  367 bits (943), Expect = 6e-99,   Method: Compositional matrix adjust.
 Identities = 184/459 (40%), Positives = 285/459 (62%), Gaps = 4/459 (0%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M+ + V  + ++FPL+LK+   + +   G  +H + IK G  G+ +V T L+ +Y   R 
Sbjct: 114 MKSMDVRPNCFTFPLVLKSCAKIGAFVEGEEIHCEVIKGGLEGNQFVATTLIDVYSGGRA 173

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
           I  A+K+F  M E++I+AW SM+  +  C ++  A +L DL P +DV  +NIM+SGY  I
Sbjct: 174 IGSAYKLFVGMLERNIVAWTSMISGYILCNRVALARRLFDLAPERDVVLWNIMVSGYIEI 233

Query: 121 GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYL 180
           G + +AR +FD +P +D +SWN+++  Y N G++E   ++F++M  +NV +WN ++ GY 
Sbjct: 234 GDMKAARKLFDTMPYRDTMSWNTMLNGYANNGDVEACEQLFEEMPERNVFSWNGLIGGYA 293

Query: 181 RSQLYIEVVDLFDEMKA-GNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNP 239
            +  + EV+  F  M   G V P+  T+ +VLSACA LG+L+ G  +HVYA   G   + 
Sbjct: 294 HNGCFFEVLRCFKRMLIDGLVVPNDATLVTVLSACARLGALDLGKWVHVYAATIGFKGSI 353

Query: 240 HATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDS 299
           +   ALIDMY+KCG IE ++EVF    +KD+  WN+MI GLA HG G  AL L  +M  +
Sbjct: 354 YVGNALIDMYSKCGLIENAMEVFESMDLKDLITWNSMICGLATHGCGADALTLFHQMKIN 413

Query: 300 CVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR 359
             K D ITFIG+L +C+H GLV+EG   F+ M  ++ +  ++EHYGCMVDL GRA LLDR
Sbjct: 414 GEKPDGITFIGVLCSCTHLGLVEEGTSYFNSMVNEYSIAPQIEHYGCMVDLFGRAGLLDR 473

Query: 360 AIELIEAMPFEPTESILGALLSACVIHQDLEIGD-RVAKMVCAKSNYLSDGELMMFANLY 418
           AIE ++ MP E    I  ALL AC I++++++ +  + K++  +    +    ++ +N+Y
Sbjct: 474 AIEFVKRMPMEADAVIWAALLGACRIYKNIDLAELALQKLIVLEPK--NPANYVLLSNIY 531

Query: 419 ASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKF 457
              G+W++  R + +M DTG  K  G S+IEVN S  +F
Sbjct: 532 GDLGRWKDVARLKILMRDTGSKKLPGCSLIEVNDSVVEF 570

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	471
TAIR|locus:2094812	600	AT3G29230 "AT3G29230" [Arabido	0.963	0.756	0.375	1.1e-87
TAIR|locus:2054966	555	AHG11 "ABA hypersensitive germ	0.957	0.812	0.358	6.8e-79
TAIR|locus:2205200	741	OTP82 "AT1G08070" [Arabidopsis	0.887	0.564	0.372	2.2e-73
TAIR|locus:2010012	474	AT1G13410 "AT1G13410" [Arabido	0.883	0.877	0.369	4.1e-72
TAIR|locus:2154855	620	AT5G66520 "AT5G66520" [Arabido	0.808	0.614	0.390	1.1e-71
TAIR|locus:2054789	534	MEF21 "mitochondrial editing f	0.876	0.773	0.351	3.7e-71
TAIR|locus:2011892	596	AT1G50270 "AT1G50270" [Arabido	0.970	0.766	0.348	9.9e-71
TAIR|locus:2077878	685	AT3G08820 "AT3G08820" [Arabido	0.972	0.668	0.326	1.4e-69
TAIR|locus:2151694	550	AT5G37570 "AT5G37570" [Arabido	0.949	0.812	0.308	1e-68
TAIR|locus:2044797	627	AT2G35030 [Arabidopsis thalian	0.855	0.642	0.351	1.3e-68

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

 Score = 876 (313.4 bits), Expect = 1.1e-87, P = 1.1e-87
 Identities = 174/463 (37%), Positives = 265/463 (57%)

Query:     1 MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
             MQ  G+ ADN+++P LLKA    S   +  M+H    K G    +YV  AL+  Y   RC
Sbjct:   108 MQRFGLFADNFTYPFLLKACSGQSWLPVVKMMHNHIEKLGLSSDIYVPNALIDCYS--RC 165

Query:    61 ----IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISG 116
                 + DA K+FEKM E+D ++WNSML      G++  A +L D MP +D+ S+N M+ G
Sbjct:   166 GGLGVRDAMKLFEKMSERDTVSWNSMLGGLVKAGELRDARRLFDEMPQRDLISWNTMLDG 225

Query:   117 YARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV--KNVITWNT 174
             YAR  ++  A  +F+K+P ++ VSW+++++ Y+ AG+ME A  MF KM +  KNV+TW  
Sbjct:   226 YARCREMSKAFELFEKMPERNTVSWSTMVMGYSKAGDMEMARVMFDKMPLPAKNVVTWTI 285

Query:   175 MVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNG 234
             ++ GY    L  E   L D+M A  +K D   V S+L+AC   G L  G RIH     + 
Sbjct:   286 IIAGYAEKGLLKEADRLVDQMVASGLKFDAAAVISILAACTESGLLSLGMRIHSILKRSN 345

Query:   235 LASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLG 294
             L SN +   AL+DMYAKCG+++++ +VF     KD+  WN M+ GL +HG+G  A++L  
Sbjct:   346 LGSNAYVLNALLDMYAKCGNLKKAFDVFNDIPKKDLVSWNTMLHGLGVHGHGKEAIELFS 405

Query:   295 EMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVXXXXXX 354
              M    ++ D +TFI +L +C+HAGL+ EG + F  MEK + +  ++EHYGC+V      
Sbjct:   406 RMRREGIRPDKVTFIAVLCSCNHAGLIDEGIDYFYSMEKVYDLVPQVEHYGCLVDLLGRV 465

Query:   355 XXXXXXIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMF 414
                   I++++ MP EP   I GALL AC +H +++I   V   +  K +    G   + 
Sbjct:   466 GRLKEAIKVVQTMPMEPNVVIWGALLGACRMHNEVDIAKEVLDNL-VKLDPCDPGNYSLL 524

Query:   415 ANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKF 457
             +N+YA+   WE     R+ M   G+ K +G+S +E+    H+F
Sbjct:   525 SNIYAAAEDWEGVADIRSKMKSMGVEKPSGASSVELEDGIHEF 567

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 793 (284.2 bits), Expect = 6.8e-79, P = 6.8e-79
 Identities = 165/460 (35%), Positives = 264/460 (57%)

Query:     9 DNYSFPLLLKAAGILSSSCI--GLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFK 66
             DN++F  L K+  +  S C+  GL LH Q  + GFC  +YV T ++ MY     +  A  
Sbjct:    77 DNFTFTTLTKSCSL--SMCVYQGLQLHSQIWRFGFCADMYVSTGVVDMYAKFGKMGCARN 134

Query:    67 VFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMP-LKDVTSFNIMISGYARIGKIHS 125
              F++MP +  ++W +++  +  CG++D A KL D MP +KDV  +N M+ G+ + G + S
Sbjct:   135 AFDEMPHRSEVSWTALISGYIRCGELDLASKLFDQMPHVKDVVIYNAMMDGFVKSGDMTS 194

Query:   126 ARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLY 185
             AR +FD++  K V++W ++I  Y N  +++ A ++F  M  +N+++WNTM+ GY +++  
Sbjct:   195 ARRLFDEMTHKTVITWTTMIHGYCNIKDIDAARKLFDAMPERNLVSWNTMIGGYCQNKQP 254

Query:   186 IEVVDLFDEMKAG-NVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTA 244
              E + LF EM+A  ++ PD +T+ SVL A ++ G+L  G   H +     L       TA
Sbjct:   255 QEGIRLFQEMQATTSLDPDDVTILSVLPAISDTGALSLGEWCHCFVQRKKLDKKVKVCTA 314

Query:   245 LIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKAD 304
             ++DMY+KCG IE++  +F +   K V  WNAMI G AL+G   AAL L   M     K D
Sbjct:   315 ILDMYSKCGEIEKAKRIFDEMPEKQVASWNAMIHGYALNGNARAALDLFVTMMIE-EKPD 373

Query:   305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVXXXXXXXXXXXXIELI 364
             +IT + +++AC+H GLV+EG + F  M ++ G+  K+EHYGCMV             +LI
Sbjct:   374 EITMLAVITACNHGGLVEEGRKWFHVM-REMGLNAKIEHYGCMVDLLGRAGSLKEAEDLI 432

Query:   365 EAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQW 424
               MPFEP   IL + LSAC  ++D+E  +R+ K    +    +DG  ++  NLYA+  +W
Sbjct:   433 TNMPFEPNGIILSSFLSACGQYKDIERAERILKKA-VELEPQNDGNYVLLRNLYAADKRW 491

Query:   425 EEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
             ++    +N+M      K  G S+IE+N    +F++G   H
Sbjct:   492 DDFGMVKNVMRKNQAKKEVGCSLIEINYIVSEFISGDTTH 531

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

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

 Score = 741 (265.9 bits), Expect = 2.2e-73, P = 2.2e-73
 Identities = 160/429 (37%), Positives = 246/429 (57%)

Query:    49 TALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLI-DLMPLK-- 105
             TAL+K Y S   I++A K+F+++P KD+++WN+M+  +A  G    A++L  D+M     
Sbjct:   204 TALIKGYASRGYIENAQKLFDEIPVKDVVSWNAMISGYAETGNYKEALELFKDMMKTNVR 263

Query:   106 -DVTSFNIMISGYARIGKIHSAR----YIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEM 160
              D ++   ++S  A+ G I   R    +I D     ++   N+LI  Y+  GE+E A  +
Sbjct:   264 PDESTMVTVVSACAQSGSIELGRQVHLWIDDHGFGSNLKIVNALIDLYSKCGELETACGL 323

Query:   161 FKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSL 220
             F+++  K+VI+WNT++ GY    LY E + LF EM      P+ +T+ S+L ACA+LG++
Sbjct:   324 FERLPYKDVISWNTLIGGYTHMNLYKEALLLFQEMLRSGETPNDVTMLSILPACAHLGAI 383

Query:   221 ETGARIHVYATDN--GLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMIL 278
             + G  IHVY      G+ +     T+LIDMYAKCG IE + +VF     K +  WNAMI 
Sbjct:   384 DIGRWIHVYIDKRLKGVTNASSLRTSLIDMYAKCGDIEAAHQVFNSILHKSLSSWNAMIF 443

Query:   279 GLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVT 338
             G A+HG   A+  L   M    ++ DDITF+GLLSACSH+G++  G  +F  M +D+ +T
Sbjct:   444 GFAMHGRADASFDLFSRMRKIGIQPDDITFVGLLSACSHSGMLDLGRHIFRTMTQDYKMT 503

Query:   339 RKLEHYGCMVXXXXXXXXXXXXIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKM 398
              KLEHYGCM+             E+I  M  EP   I  +LL AC +H ++E+G+  A+ 
Sbjct:   504 PKLEHYGCMIDLLGHSGLFKEAEEMINMMEMEPDGVIWCSLLKACKMHGNVELGESFAEN 563

Query:   399 VCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFL 458
             +  K    + G  ++ +N+YAS G+W E  + R ++ND G+ K  G S IE++   H+F+
Sbjct:   564 LI-KIEPENPGSYVLLSNIYASAGRWNEVAKTRALLNDKGMKKVPGCSSIEIDSVVHEFI 622

Query:   459 AGGIGHLSN 467
              G   H  N
Sbjct:   623 IGDKFHPRN 631

GO:0003674 "molecular_function" evidence=ND

GO:0009507 "chloroplast" evidence=ISM

GO:0031425 "chloroplast RNA processing" evidence=IMP

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

 Score = 729 (261.7 bits), Expect = 4.1e-72, P = 4.1e-72
 Identities = 155/419 (36%), Positives = 233/419 (55%)

Query:    48 QTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDV 107
             Q  L  M   +  I  A KVF +M EK+++ W SM++ +     +  A +  DL P +D+
Sbjct:    31 QMFLFGMLCLMGVIASANKVFCEMVEKNVVLWTSMINGYLLNKDLVSARRYFDLSPERDI 90

Query:   108 TSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVK 167
               +N MISGY  +G +  AR +FD++P +DV+SWN+++  Y N G+ME    +F  M  +
Sbjct:    91 VLWNTMISGYIEMGNMLEARSLFDQMPCRDVMSWNTVLEGYANIGDMEACERVFDDMPER 150

Query:   168 NVITWNTMVTGYLRSQLYIEVVDLFDEM-KAGNVKPDYLTVTSVLSACANLGSLETGARI 226
             NV +WN ++ GY ++    EV+  F  M   G+V P+  T+T VLSACA LG+ + G  +
Sbjct:   151 NVFSWNGLIKGYAQNGRVSEVLGSFKRMVDEGSVVPNDATMTLVLSACAKLGAFDFGKWV 210

Query:   227 HVYATDNGLAS-NPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGY 285
             H Y    G    + +   ALIDMY KCG+IE ++EVF   + +D+  WN MI GLA HG+
Sbjct:   211 HKYGETLGYNKVDVNVKNALIDMYGKCGAIEIAMEVFKGIKRRDLISWNTMINGLAAHGH 270

Query:   286 GYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG 345
             G  AL L  EM +S +  D +TF+G+L AC H GLV++G   F+ M  DF +  ++EH G
Sbjct:   271 GTEALNLFHEMKNSGISPDKVTFVGVLCACKHMGLVEDGLAYFNSMFTDFSIMPEIEHCG 330

Query:   346 CMVXXXXXXXXXXXXIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY 405
             C+V            +E I  MP +    I   LL A  +++ ++IG+ VA     K   
Sbjct:   331 CVVDLLSRAGFLTQAVEFINKMPVKADAVIWATLLGASKVYKKVDIGE-VALEELIKLEP 389

Query:   406 LSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
              +    +M +N+Y   G++++A R +  M DTG  K AG S IE +    KF + G  H
Sbjct:   390 RNPANFVMLSNIYGDAGRFDDAARLKVAMRDTGFKKEAGVSWIETDDGLVKFYSSGEKH 448

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2154855 AT5G66520 "AT5G66520" [Arabidopsis thaliana (taxid:3702)]

 Score = 725 (260.3 bits), Expect = 1.1e-71, P = 1.1e-71
 Identities = 150/384 (39%), Positives = 224/384 (58%)

Query:    81 SMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVS 140
             S L AF    Q+ HA ++  L    DV + N +I+ YA  G    A  +FD++P  D VS
Sbjct:   126 SNLSAFEETTQI-HA-QITKLGYENDVYAVNSLINSYAVTGNFKLAHLLFDRIPEPDDVS 183

Query:   141 WNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV 200
             WNS+I  Y  AG+M+ A  +F+KM  KN I+W TM++GY+++ +  E + LF EM+  +V
Sbjct:   184 WNSVIKGYVKAGKMDIALTLFRKMAEKNAISWTTMISGYVQADMNKEALQLFHEMQNSDV 243

Query:   201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLE 260
             +PD +++ + LSACA LG+LE G  IH Y     +  +      LIDMYAKCG +E++LE
Sbjct:   244 EPDNVSLANALSACAQLGALEQGKWIHSYLNKTRIRMDSVLGCVLIDMYAKCGEMEEALE 303

Query:   261 VFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGL 320
             VF   + K V  W A+I G A HG+G  A+    EM    +K + ITF  +L+ACS+ GL
Sbjct:   304 VFKNIKKKSVQAWTALISGYAYHGHGREAISKFMEMQKMGIKPNVITFTAVLTACSYTGL 363

Query:   321 VQEGCELFSRMEKDFGVTRKLEHYGCMVXXXXXXXXXXXXIELIEAMPFEPTESILGALL 380
             V+EG  +F  ME+D+ +   +EHYGC+V               I+ MP +P   I GALL
Sbjct:   364 VEEGKLIFYSMERDYNLKPTIEHYGCIVDLLGRAGLLDEAKRFIQEMPLKPNAVIWGALL 423

Query:   381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV 440
              AC IH+++E+G+ + +++ A   Y   G  +  AN++A   +W++A   R +M + G+ 
Sbjct:   424 KACRIHKNIELGEEIGEILIAIDPY-HGGRYVHKANIHAMDKKWDKAAETRRLMKEQGVA 482

Query:   441 KTAGSSVIEVNGSYHKFLAGGIGH 464
             K  G S I + G+ H+FLAG   H
Sbjct:   483 KVPGCSTISLEGTTHEFLAGDRSH 506

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

GO:0016556 "mRNA modification" evidence=RCA

TAIR|locus:2054789 MEF21 "mitochondrial editing factor 21" [Arabidopsis thaliana (taxid:3702)]

 Score = 720 (258.5 bits), Expect = 3.7e-71, P = 3.7e-71
 Identities = 151/429 (35%), Positives = 240/429 (55%)

Query:    44 HVYVQTALLKMY--GSLRCIDDAFKVFEKMPEK-----DIIAWNSMLDAFAS---C--GQ 91
             +V++  ++++ Y   SL C  D  ++++++  K     D   +  M  + AS   C  G+
Sbjct:    72 NVFLYNSIIRAYTHNSLYC--DVIRIYKQLLRKSFELPDRFTFPFMFKSCASLGSCYLGK 129

Query:    92 MDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNA 151
               H   L    P   V + N +I  Y +   +  A  +FD++  +DV+SWNSL+  Y   
Sbjct:   130 QVHG-HLCKFGPRFHVVTENALIDMYMKFDDLVDAHKVFDEMYERDVISWNSLLSGYARL 188

Query:   152 GEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVL 211
             G+M+KA  +F  ML K +++W  M++GY     Y+E +D F EM+   ++PD +++ SVL
Sbjct:   189 GQMKKAKGLFHLMLDKTIVSWTAMISGYTGIGCYVEAMDFFREMQLAGIEPDEISLISVL 248

Query:   212 SACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVF 271
              +CA LGSLE G  IH+YA   G         ALI+MY+KCG I Q++++F + + KDV 
Sbjct:   249 PSCAQLGSLELGKWIHLYAERRGFLKQTGVCNALIEMYSKCGVISQAIQLFGQMEGKDVI 308

Query:   272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRM 331
              W+ MI G A HG  + A++   EM  + VK + ITF+GLLSACSH G+ QEG   F  M
Sbjct:   309 SWSTMISGYAYHGNAHGAIETFNEMQRAKVKPNGITFLGLLSACSHVGMWQEGLRYFDMM 368

Query:   332 EKDFGVTRKLEHYGCMVXXXXXXXXXXXXIELIEAMPFEPTESILGALLSACVIHQDLEI 391
              +D+ +  K+EHYGC++            +E+ + MP +P   I G+LLS+C    +L++
Sbjct:   369 RQDYQIEPKIEHYGCLIDVLARAGKLERAVEITKTMPMKPDSKIWGSLLSSCRTPGNLDV 428

Query:   392 GDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVN 451
                VA     +      G  ++ AN+YA  G+WE+ +R R M+ +  + KT G S+IEVN
Sbjct:   429 A-LVAMDHLVELEPEDMGNYVLLANIYADLGKWEDVSRLRKMIRNENMKKTPGGSLIEVN 487

Query:   452 GSYHKFLAG 460
                 +F++G
Sbjct:   488 NIVQEFVSG 496

GO:0005739 "mitochondrion" evidence=ISM

GO:0080156 "mitochondrial mRNA modification" evidence=IMP

TAIR|locus:2011892 AT1G50270 "AT1G50270" [Arabidopsis thaliana (taxid:3702)]

 Score = 716 (257.1 bits), Expect = 9.9e-71, P = 9.9e-71
 Identities = 163/468 (34%), Positives = 244/468 (52%)

Query:     1 MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
             M+  GV    ++FP LLKA   L  S      H   +K G     +V+ +L+  Y S   
Sbjct:    95 MRRNGVIPSRHTFPPLLKAVFKLRDSN-PFQFHAHIVKFGLDSDPFVRNSLISGYSSSGL 153

Query:    61 IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNI-MISGYAR 119
              D A ++F+   +KD++ W +M+D F   G    AM     M    V +  + ++S    
Sbjct:   154 FDFASRLFDGAEDKDVVTWTAMIDGFVRNGSASEAMVYFVEMKKTGVAANEMTVVSVLKA 213

Query:   120 IGKIHSARY-------IFDKVPAK-DVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVIT 171
              GK+   R+         +    K DV   +SL+  Y      + A ++F +M  +NV+T
Sbjct:   214 AGKVEDVRFGRSVHGLYLETGRVKCDVFIGSSLVDMYGKCSCYDDAQKVFDEMPSRNVVT 273

Query:   172 WNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYAT 231
             W  ++ GY++S+ + + + +F+EM   +V P+  T++SVLSACA++G+L  G R+H Y  
Sbjct:   274 WTALIAGYVQSRCFDKGMLVFEEMLKSDVAPNEKTLSSVLSACAHVGALHRGRRVHCYMI 333

Query:   232 DNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALK 291
              N +  N  A T LID+Y KCG +E+++ VF +   K+V+ W AMI G A HGY   A  
Sbjct:   334 KNSIEINTTAGTTLIDLYVKCGCLEEAILVFERLHEKNVYTWTAMINGFAAHGYARDAFD 393

Query:   292 LLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVXXX 351
             L   M  S V  +++TF+ +LSAC+H GLV+EG  LF  M+  F +  K +HY CMV   
Sbjct:   394 LFYTMLSSHVSPNEVTFMAVLSACAHGGLVEEGRRLFLSMKGRFNMEPKADHYACMVDLF 453

Query:   352 XXXXXXXXXIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGEL 411
                        LIE MP EPT  + GAL  +C++H+D E+G   A  V  K      G  
Sbjct:   454 GRKGLLEEAKALIERMPMEPTNVVWGALFGSCLLHKDYELGKYAASRVI-KLQPSHSGRY 512

Query:   412 MMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLA 459
              + ANLY+    W+E  R R  M D  +VK+ G S IEV G   +F+A
Sbjct:   513 TLLANLYSESQNWDEVARVRKQMKDQQVVKSPGFSWIEVKGKLCEFIA 560

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

GO:0007059 "chromosome segregation" evidence=RCA

GO:0007062 "sister chromatid cohesion" evidence=RCA

GO:0007129 "synapsis" evidence=RCA

GO:0007131 "reciprocal meiotic recombination" evidence=RCA

GO:0009887 "organ morphogenesis" evidence=RCA

GO:0009888 "tissue development" evidence=RCA

GO:0010638 "positive regulation of organelle organization" evidence=RCA

GO:0033044 "regulation of chromosome organization" evidence=RCA

GO:0042138 "meiotic DNA double-strand break formation" evidence=RCA

GO:0045132 "meiotic chromosome segregation" evidence=RCA

TAIR|locus:2077878 AT3G08820 "AT3G08820" [Arabidopsis thaliana (taxid:3702)]

 Score = 705 (253.2 bits), Expect = 1.4e-69, P = 1.4e-69
 Identities = 153/469 (32%), Positives = 254/469 (54%)

Query:     5 GVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDA 64
             G++   ++FPL+LKA    SS  +G+ LH   +K GF   V   T+LL +Y     ++DA
Sbjct:   106 GLYLHGFTFPLVLKACTRASSRKLGIDLHSLVVKCGFNHDVAAMTSLLSIYSGSGRLNDA 165

Query:    65 FKVFEKMPEKDIIAWNSMLDAFASCGQMDHAM----KLIDLMPLKDVTSFNIMI-SGYAR 119
              K+F+++P++ ++ W ++   + + G+   A+    K+++ M +K  + F + + S    
Sbjct:   166 HKLFDEIPDRSVVTWTALFSGYTTSGRHREAIDLFKKMVE-MGVKPDSYFIVQVLSACVH 224

Query:   120 IGKIHSA----RYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTM 175
             +G + S     +Y+ +    K+     +L+  Y   G+MEKA  +F  M+ K+++TW+TM
Sbjct:   225 VGDLDSGEWIVKYMEEMEMQKNSFVRTTLVNLYAKCGKMEKARSVFDSMVEKDIVTWSTM 284

Query:   176 VTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGL 235
             + GY  +    E ++LF +M   N+KPD  ++   LS+CA+LG+L+ G         +  
Sbjct:   285 IQGYASNSFPKEGIELFLQMLQENLKPDQFSIVGFLSSCASLGALDLGEWGISLIDRHEF 344

Query:   236 ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGE 295
              +N     ALIDMYAKCG++ +  EVF + + KD+   NA I GLA +G+   +  + G+
Sbjct:   345 LTNLFMANALIDMYAKCGAMARGFEVFKEMKEKDIVIMNAAISGLAKNGHVKLSFAVFGQ 404

Query:   296 MNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVXXXXXXX 355
                  +  D  TF+GLL  C HAGL+Q+G   F+ +   + + R +EHYGCMV       
Sbjct:   405 TEKLGISPDGSTFLGLLCGCVHAGLIQDGLRFFNAISCVYALKRTVEHYGCMVDLWGRAG 464

Query:   356 XXXXXIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFA 415
                    LI  MP  P   + GALLS C + +D ++ + V K + A   + + G  +  +
Sbjct:   465 MLDDAYRLICDMPMRPNAIVWGALLSGCRLVKDTQLAETVLKELIALEPW-NAGNYVQLS 523

Query:   416 NLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
             N+Y+  G+W+EA   R+MMN  G+ K  G S IE+ G  H+FLA    H
Sbjct:   524 NIYSVGGRWDEAAEVRDMMNKKGMKKIPGYSWIELEGKVHEFLADDKSH 572

GO:0003674 "molecular_function" evidence=ND

GO:0005575 "cellular_component" evidence=ND

GO:0008150 "biological_process" evidence=ND

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

 Score = 697 (250.4 bits), Expect = 1.0e-68, P = 1.0e-68
 Identities = 139/450 (30%), Positives = 247/450 (54%)

Query:     1 MQELGV-HADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLR 59
             M   G+   D Y+FPL++K         +G  +HG  ++ GF   V V T+ +  YG  +
Sbjct:   100 MMRTGLARPDEYTFPLVMKVCSNNGQVRVGSSVHGLVLRIGFDKDVVVGTSFVDFYGKCK 159

Query:    60 CIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYAR 119
              +  A KVF +MPE++ ++W +++ A+   G+++ A  + DLMP +++ S+N ++ G  +
Sbjct:   160 DLFSARKVFGEMPERNAVSWTALVVAYVKSGELEEAKSMFDLMPERNLGSWNALVDGLVK 219

Query:   120 IGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGY 179
              G + +A+ +FD++P +D++S+ S+I  Y   G+M  A ++F++    +V  W+ ++ GY
Sbjct:   220 SGDLVNAKKLFDEMPKRDIISYTSMIDGYAKGGDMVSARDLFEEARGVDVRAWSALILGY 279

Query:   180 LRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDN-GLASN 238
              ++    E   +F EM A NVKPD   +  ++SAC+ +G  E   ++  Y        S+
Sbjct:   280 AQNGQPNEAFKVFSEMCAKNVKPDEFIMVGLMSACSQMGCFELCEKVDSYLHQRMNKFSS 339

Query:   239 PHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMND 298
              +   ALIDM AKCG ++++ ++F +   +D+  + +M+ G+A+HG G  A++L  +M D
Sbjct:   340 HYVVPALIDMNAKCGHMDRAAKLFEEMPQRDLVSYCSMMEGMAIHGCGSEAIRLFEKMVD 399

Query:   299 SCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVXXXXXXXXXX 358
               +  D++ F  +L  C  + LV+EG   F  M K + +    +HY C+V          
Sbjct:   400 EGIVPDEVAFTVILKVCGQSRLVEEGLRYFELMRKKYSILASPDHYSCIVNLLSRTGKLK 459

Query:   359 XXIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY 418
                ELI++MPFE   S  G+LL  C +H + EI + VA+ +       S G  ++ +N+Y
Sbjct:   460 EAYELIKSMPFEAHASAWGSLLGGCSLHGNTEIAEVVARHLFELEPQ-SAGSYVLLSNIY 518

Query:   419 ASCGQWEEANRWRNMMNDTGIVKTAGSSVI 448
             A+  +W +    R+ MN+ GI K  G S I
Sbjct:   519 AALDRWTDVAHLRDKMNENGITKICGRSWI 548

GO:0003674 "molecular_function" evidence=ND

GO:0005739 "mitochondrion" evidence=ISM

GO:0008150 "biological_process" evidence=ND

TAIR|locus:2044797 AT2G35030 [Arabidopsis thaliana (taxid:3702)]

 Score = 696 (250.1 bits), Expect = 1.3e-68, P = 1.3e-68
 Identities = 143/407 (35%), Positives = 231/407 (56%)

Query:    61 IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI 120
             ID+A  +FE+MP +D+++W +M+D  A  G++D A +L D MP +++ S+N MI+GYA+ 
Sbjct:   187 IDEAMNLFERMPRRDVVSWTAMVDGLAKNGKVDEARRLFDCMPERNIISWNAMITGYAQN 246

Query:   121 GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYL 180
              +I  A  +F  +P +D  SWN++I  +    EM KA  +F +M  KNVI+W TM+TGY+
Sbjct:   247 NRIDEADQLFQVMPERDFASWNTMITGFIRNREMNKACGLFDRMPEKNVISWTTMITGYV 306

Query:   181 RSQLYIEVVDLFDEM-KAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNP 239
              ++   E +++F +M + G+VKP+  T  S+LSAC++L  L  G +IH   + +    N 
Sbjct:   307 ENKENEEALNVFSKMLRDGSVKPNVGTYVSILSACSDLAGLVEGQQIHQLISKSVHQKNE 366

Query:   240 HATTALIDMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMN 297
               T+AL++MY+K G +  + ++F    V  +D+  WN+MI   A HG+G  A+++  +M 
Sbjct:   367 IVTSALLNMYSKSGELIAARKMFDNGLVCQRDLISWNSMIAVYAHHGHGKEAIEMYNQMR 426

Query:   298 DSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVXXXXXXXXX 357
                 K   +T++ LL ACSHAGLV++G E F  + +D  +  + EHY C+V         
Sbjct:   427 KHGFKPSAVTYLNLLFACSHAGLVEKGMEFFKDLVRDESLPLREEHYTCLVDLCGRAGRL 486

Query:   358 XXXIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL 417
                   I       + S  GA+LSAC +H ++ I   V K V    +    G  ++ +N+
Sbjct:   487 KDVTNFINCDDARLSRSFYGAILSACNVHNEVSIAKEVVKKVLETGSD-DAGTYVLMSNI 545

Query:   418 YASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
             YA+ G+ EEA   R  M + G+ K  G S ++V    H F+ G   H
Sbjct:   546 YAANGKREEAAEMRMKMKEKGLKKQPGCSWVKVGKQNHLFVVGDKSH 592

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

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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: fgenesh4_pg.C_LG_VI001912 hypothetical protein (500 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	471
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-102
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	9e-72
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-44
PLN03081	697	PLN03081, PLN03081, pentatricopeptide (PPR) repeat	2e-37
PLN03077	857	PLN03077, PLN03077, Protein ECB2; Provisional	1e-29
PLN03218	1060	PLN03218, PLN03218, maturation of RBCL 1; Provisio	5e-13
pfam13041	50	pfam13041, PPR_2, PPR repeat family	1e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	2e-08
pfam13041	50	pfam13041, PPR_2, PPR repeat family	6e-08
pfam01535	31	pfam01535, PPR, PPR repeat	2e-04
pfam13041	50	pfam13041, PPR_2, PPR repeat family	3e-04
TIGR00756	35	TIGR00756, PPR, pentatricopeptide repeat domain (P	3e-04
pfam01535	31	pfam01535, PPR, PPR repeat	0.003
pfam01535	31	pfam01535, PPR, PPR repeat	0.004

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

 Score =  324 bits (831), Expect = e-102
 Identities = 165/478 (34%), Positives = 251/478 (52%), Gaps = 23/478 (4%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M+EL V  D  +   ++ A  +L    +G  +HG  +KTGF   V V  +L++MY SL  
Sbjct: 279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGS 338

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMI----SG 116
             +A KVF +M  KD ++W +M+  +   G  D A++   LM   +V+   I I    S 
Sbjct: 339 WGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSA 398

Query: 117 YARIG------KIH----SARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV 166
            A +G      K+H        I        VV  N+LI  Y+    ++KA E+F  +  
Sbjct: 399 CACLGDLDVGVKLHELAERKGLI------SYVVVANALIEMYSKCKCIDKALEVFHNIPE 452

Query: 167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARI 226
           K+VI+W +++ G   +    E +  F +M    +KP+ +T+ + LSACA +G+L  G  I
Sbjct: 453 KDVISWTSIIAGLRLNNRCFEALIFFRQML-LTLKPNSVTLIAALSACARIGALMCGKEI 511

Query: 227 HVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYG 286
           H +    G+  +     AL+D+Y +CG +  +   F  S  KDV  WN ++ G   HG G
Sbjct: 512 HAHVLRTGIGFDGFLPNALLDLYVRCGRMNYAWNQF-NSHEKDVVSWNILLTGYVAHGKG 570

Query: 287 YAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGC 346
             A++L   M +S V  D++TFI LL ACS +G+V +G E F  ME+ + +T  L+HY C
Sbjct: 571 SMAVELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHYAC 630

Query: 347 MVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL 406
           +VDLLGRA  L  A   I  MP  P  ++ GALL+AC IH+ +E+G+  A+ +  + +  
Sbjct: 631 VVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELGELAAQHI-FELDPN 689

Query: 407 SDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGH 464
           S G  ++  NLYA  G+W+E  R R  M + G+    G S +EV G  H FL     H
Sbjct: 690 SVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESH 747

Length = 857

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

 Score =  240 bits (613), Expect = 9e-72
 Identities = 135/472 (28%), Positives = 226/472 (47%), Gaps = 28/472 (5%)

Query: 10  NYSFPLLLKAAGILSSSCIGL-------MLHGQTIKTGFCGHVYVQTALLKMYGSLRCID 62
              F L       L  +CI L        ++     +GF    Y+   +L M+     + 
Sbjct: 116 GCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLI 175

Query: 63  DAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVT-----SFNIMISGY 117
           DA ++F++MPE+++ +W +++      G    A  L   M  +D +     +F +M+   
Sbjct: 176 DARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREM-WEDGSDAEPRTFVVMLRAS 234

Query: 118 ARIGKIHSARYIFDKVPAKDVVSWN----SLILAYTNAGEMEKAGEMFKKMLVKNVITWN 173
           A +G   + + +   V    VV       +LI  Y+  G++E A  +F  M  K  + WN
Sbjct: 235 AGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMPEKTTVAWN 294

Query: 174 TMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDN 233
           +M+ GY       E + L+ EM+   V  D  T + ++   + L  LE   + H      
Sbjct: 295 SMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRT 354

Query: 234 GLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLL 293
           G   +  A TAL+D+Y+K G +E +  VF +   K++  WNA+I G   HG G  A+++ 
Sbjct: 355 GFPLDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMF 414

Query: 294 GEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR 353
             M    V  + +TF+ +LSAC ++GL ++G E+F  M ++  +  +  HY CM++LLGR
Sbjct: 415 ERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGR 474

Query: 354 ARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAK-----SNYLSD 408
             LLD A  +I   PF+PT ++  ALL+AC IH++LE+G   A+ +        +NY+  
Sbjct: 475 EGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPEKLNNYV-- 532

Query: 409 GELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAG 460
               +  NLY S G+  EA +    +   G+      + IEV    H F +G
Sbjct: 533 ----VLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSG 580

Length = 697

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

 Score =  166 bits (423), Expect = 1e-44
 Identities = 109/382 (28%), Positives = 183/382 (47%), Gaps = 21/382 (5%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           MQEL V  D  ++  L +      +   G  +  + + +     V +  A+L M+     
Sbjct: 77  MQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCSRALSSHPSLGVRLGNAMLSMFVRFGE 136

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLM------PLKDVTSFNIMI 114
           +  A+ VF KMPE+D+ +WN ++  +A  G  D A+ L   M      P  DV +F  ++
Sbjct: 137 LVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEALCLYHRMLWAGVRP--DVYTFPCVL 194

Query: 115 SGYA-----RIGK---IHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV 166
                      G+    H  R+ F+     DV   N+LI  Y   G++  A  +F +M  
Sbjct: 195 RTCGGIPDLARGREVHAHVVRFGFEL----DVDVVNALITMYVKCGDVVSARLVFDRMPR 250

Query: 167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARI 226
           ++ I+WN M++GY  +   +E ++LF  M+  +V PD +T+TSV+SAC  LG    G  +
Sbjct: 251 RDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREM 310

Query: 227 HVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYG 286
           H Y    G A +     +LI MY   GS  ++ +VF + + KD   W AMI G   +G  
Sbjct: 311 HGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWTAMISGYEKNGLP 370

Query: 287 YAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGC 346
             AL+    M    V  D+IT   +LSAC+  G +  G +L    E+  G+   +     
Sbjct: 371 DKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERK-GLISYVVVANA 429

Query: 347 MVDLLGRARLLDRAIELIEAMP 368
           ++++  + + +D+A+E+   +P
Sbjct: 430 LIEMYSKCKCIDKALEVFHNIP 451

Length = 857

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

 Score =  145 bits (366), Expect = 2e-37
 Identities = 98/310 (31%), Positives = 157/310 (50%), Gaps = 18/310 (5%)

Query: 1   MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC 60
           M E G  A+  +F ++L+A+  L S+  G  LH   +KTG  G  +V  AL+ MY     
Sbjct: 215 MWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGD 274

Query: 61  IDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVT----SFNIMISG 116
           I+DA  VF+ MPEK  +AWNSML  +A  G  + A+ L   M    V+    +F+IMI  
Sbjct: 275 IEDARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRI 334

Query: 117 YARIGKIHSAR-----YIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVIT 171
           ++R+  +  A+      I    P  D+V+  +L+  Y+  G ME A  +F +M  KN+I+
Sbjct: 335 FSRLALLEHAKQAHAGLIRTGFPL-DIVANTALVDLYSKWGRMEDARNVFDRMPRKNLIS 393

Query: 172 WNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYAT 231
           WN ++ GY       + V++F+ M A  V P+++T  +VLSAC   G  E G  I    +
Sbjct: 394 WNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMS 453

Query: 232 DNGLASNPHAT--TALIDMYAKCGSIEQSLEVFYKSQVK-DVFCWNAMILGLALHGY--- 285
           +N     P A     +I++  + G ++++  +  ++  K  V  W A++    +H     
Sbjct: 454 EN-HRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLEL 512

Query: 286 -GYAALKLLG 294
              AA KL G
Sbjct: 513 GRLAAEKLYG 522

Length = 697

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

 Score =  122 bits (307), Expect = 1e-29
 Identities = 91/361 (25%), Positives = 147/361 (40%), Gaps = 55/361 (15%)

Query: 80  NSMLDAFASCGQMDHAMKLIDLMPLKDVT----SFNIMI------SGYARIGKIHSARYI 129
           NS L A  S GQ++ A+KL++ M    V     ++  +              ++ S    
Sbjct: 55  NSQLRALCSHGQLEQALKLLESMQELRVPVDEDAYVALFRLCEWKRAVEEGSRVCS--RA 112

Query: 130 FDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVV 189
               P+  V   N+++  +   GE+  A  +F KM  +++ +WN +V GY ++  + E +
Sbjct: 113 LSSHPSLGVRLGNAMLSMFVRFGELVHAWYVFGKMPERDLFSWNVLVGGYAKAGYFDEAL 172

Query: 190 DLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMY 249
            L+  M    V+PD  T   VL  C  +  L  G  +H +    G   +     ALI MY
Sbjct: 173 CLYHRMLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMY 232

Query: 250 AKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFI 309
            KCG +  +  VF +   +D   WNAMI G   +G     L+L   M +  V  D +T  
Sbjct: 233 VKCGDVVSARLVFDRMPRRDCISWNAMISGYFENGECLEGLELFFTMRELSVDPDLMTIT 292

Query: 310 GLLSAC-----------------------------------SHAGLVQEGCELFSRMEKD 334
            ++SAC                                      G   E  ++FSRME  
Sbjct: 293 SVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRME-- 350

Query: 335 FGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFE---PTESILGALLSACVIHQDLEI 391
              T+    +  M+    +  L D+A+E    M  +   P E  + ++LSAC    DL++
Sbjct: 351 ---TKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDV 407

Query: 392 G 392
           G
Sbjct: 408 G 408

Length = 857

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

 Score = 71.4 bits (175), Expect = 5e-13
 Identities = 82/376 (21%), Positives = 167/376 (44%), Gaps = 33/376 (8%)

Query: 59  RCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMP---LK-DVTSFNIMI 114
           R + +AF+  + +    +  +N ++   AS   +D A++++ L+    LK D   +  +I
Sbjct: 420 RAVKEAFRFAKLIRNPTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLI 479

Query: 115 SGYARIGKIHSARYIFDKVPAK----DVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNV- 169
           S  A+ GK+ +   +F ++       +V ++ +LI     AG++ KA   +  M  KNV 
Sbjct: 480 STCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAKAFGAYGIMRSKNVK 539

Query: 170 ---ITWNTMVTGYLRSQLYIEVVDLFDEMKAGN--VKPDYLTVTSVLSACANLGSLETGA 224
              + +N +++   +S       D+  EMKA    + PD++TV +++ ACAN G ++   
Sbjct: 540 PDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAK 599

Query: 225 RIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHG 284
            ++    +  +   P   T  ++  ++ G  + +L + Y    K     + +     +  
Sbjct: 600 EVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSI-YDDMKKKGVKPDEVFFSALVDV 658

Query: 285 YGYA-----ALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR 339
            G+A     A ++L +     +K   +++  L+ ACS+A   ++  EL+  + K   +  
Sbjct: 659 AGHAGDLDKAFEILQDARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDI-KSIKLRP 717

Query: 340 KLEHYGCMVDLLGRARLLDRAIELIEAM------PFEPTESILGALLSACVIHQDLEIGD 393
            +     ++  L     L +A+E++  M      P   T SI   LL A     D ++G 
Sbjct: 718 TVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSI---LLVASERKDDADVGL 774

Query: 394 RV---AKMVCAKSNYL 406
            +   AK    K N +
Sbjct: 775 DLLSQAKEDGIKPNLV 790

Length = 1060

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

 Score = 50.9 bits (123), Expect = 1e-08
 Identities = 15/50 (30%), Positives = 28/50 (56%)

Query: 167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACAN 216
            +V+T+NT++ GY +     E + LF+EMK   +KP+  T + ++     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 50.1 bits (121), Expect = 2e-08
 Identities = 12/50 (24%), Positives = 31/50 (62%), Gaps = 4/50 (8%)

Query: 74  KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK----DVTSFNIMISGYAR 119
            D++ +N+++D +   G+++ A+KL + M  +    +V +++I+I G  +
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 48.6 bits (117), Expect = 6e-08
 Identities = 16/48 (33%), Positives = 30/48 (62%), Gaps = 4/48 (8%)

Query: 136 KDVVSWNSLILAYTNAGEMEKAGEMFKKMLVK----NVITWNTMVTGY 179
            DVV++N+LI  Y   G++E+A ++F +M  +    NV T++ ++ G 
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGL 48

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

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

 Score = 38.2 bits (90), Expect = 2e-04
 Identities = 16/31 (51%), Positives = 23/31 (74%)

Query: 139 VSWNSLILAYTNAGEMEKAGEMFKKMLVKNV 169
           V++NSLI  Y  AG++E+A E+FK+M  K V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 38.2 bits (90), Expect = 3e-04
 Identities = 15/50 (30%), Positives = 21/50 (42%)

Query: 268 KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSH 317
            DV  +N +I G    G    ALKL  EM    +K +  T+  L+     
Sbjct: 1   PDVVTYNTLIDGYCKKGKVEEALKLFNEMKKRGIKPNVYTYSILIDGLCK 50

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

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

 Score = 37.8 bits (89), Expect = 3e-04
 Identities = 12/34 (35%), Positives = 22/34 (64%)

Query: 170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD 203
           +T+NT++ G  ++    E ++LF EMK   ++PD
Sbjct: 1   VTYNTLIDGLCKAGRVEEALELFKEMKERGIEPD 34

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

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

 Score = 34.7 bits (81), Expect = 0.003
 Identities = 11/31 (35%), Positives = 21/31 (67%)

Query: 170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV 200
           +T+N++++GY ++    E ++LF EMK   V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

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

 Score = 34.4 bits (80), Expect = 0.004
 Identities = 8/31 (25%), Positives = 18/31 (58%)

Query: 77  IAWNSMLDAFASCGQMDHAMKLIDLMPLKDV 107
           + +NS++  +   G+++ A++L   M  K V
Sbjct: 1   VTYNSLISGYCKAGKLEEALELFKEMKEKGV 31

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	471
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03077	857	Protein ECB2; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03218	1060	maturation of RBCL 1; Provisional	100.0
PLN03081	697	pentatricopeptide (PPR) repeat-containing protein;	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
TIGR02917	899	PEP_TPR_lipo putative PEP-CTERM system TPR-repeat	100.0
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
PRK11447	1157	cellulose synthase subunit BcsC; Provisional	99.94
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.94
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.92
KOG4626	966	consensus O-linked N-acetylglucosamine transferase	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.92
PRK11788	389	tetratricopeptide repeat protein; Provisional	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK15174	656	Vi polysaccharide export protein VexE; Provisional	99.9
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK10049	765	pgaA outer membrane protein PgaA; Provisional	99.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.89
PRK09782	987	bacteriophage N4 receptor, outer membrane subunit;	99.87
PRK14574	822	hmsH outer membrane protein; Provisional	99.87
TIGR00990	615	3a0801s09 mitochondrial precursor proteins import	99.86
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.84
PRK14574	822	hmsH outer membrane protein; Provisional	99.82
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.78
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.77
KOG2003	840	consensus TPR repeat-containing protein [General f	99.77
KOG2002	1018	consensus TPR-containing nuclear phosphoprotein th	99.76
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.74
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.73
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.72
KOG2003	840	consensus TPR repeat-containing protein [General f	99.72
KOG0495	913	consensus HAT repeat protein [RNA processing and m	99.72
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.72
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.71
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
KOG2076	895	consensus RNA polymerase III transcription factor	99.68
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.68
KOG2076	895	consensus RNA polymerase III transcription factor	99.68
PRK10747	398	putative protoheme IX biogenesis protein; Provisio	99.68
KOG1915	677	consensus Cell cycle control protein (crooked neck	99.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.66
TIGR00540	409	hemY_coli hemY protein. This is an uncharacterized	99.65
PF13429	280	TPR_15: Tetratricopeptide repeat; PDB: 2VQ2_A 2PL2	99.65
KOG4422	625	consensus Uncharacterized conserved protein [Funct	99.61
KOG1126	638	consensus DNA-binding cell division cycle control	99.61
KOG1126	638	consensus DNA-binding cell division cycle control	99.61
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.59
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.58
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.57
KOG1155	559	consensus Anaphase-promoting complex (APC), Cdc23	99.56
COG3071	400	HemY Uncharacterized enzyme of heme biosynthesis [	99.55
COG2956	389	Predicted N-acetylglucosaminyl transferase [Carboh	99.54
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.49
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.49
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.48
KOG0547	606	consensus Translocase of outer mitochondrial membr	99.46
KOG1173	611	consensus Anaphase-promoting complex (APC), Cdc16	99.45
PRK12370	553	invasion protein regulator; Provisional	99.43
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.43
TIGR02521	234	type_IV_pilW type IV pilus biogenesis/stability pr	99.4
KOG1129	478	consensus TPR repeat-containing protein [General f	99.4
KOG1129	478	consensus TPR repeat-containing protein [General f	99.4
PRK12370	553	invasion protein regulator; Provisional	99.37
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.37
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.36
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.34
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.33
KOG1174	564	consensus Anaphase-promoting complex (APC), subuni	99.33
KOG1840	508	consensus Kinesin light chain [Cytoskeleton]	99.33
PF13041	50	PPR_2: PPR repeat family	99.33
KOG3785	557	consensus Uncharacterized conserved protein [Funct	99.29
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.29
PF12569	517	NARP1: NMDA receptor-regulated protein 1 ; InterPr	99.29
PF13041	50	PPR_2: PPR repeat family	99.28
PRK11189	296	lipoprotein NlpI; Provisional	99.27
KOG2047	835	consensus mRNA splicing factor [RNA processing and	99.27
KOG2376	652	consensus Signal recognition particle, subunit Srp	99.25
PRK11189	296	lipoprotein NlpI; Provisional	99.25
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.25
KOG4318	1088	consensus Bicoid mRNA stability factor [RNA proces	99.25
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.22
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.21
KOG4162	799	consensus Predicted calmodulin-binding protein [Si	99.21
COG3063	250	PilF Tfp pilus assembly protein PilF [Cell motilit	99.2
KOG1156	700	consensus N-terminal acetyltransferase [Chromatin	99.19
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.14
KOG3617	1416	consensus WD40 and TPR repeat-containing protein [	99.14
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.13
PF04733	290	Coatomer_E: Coatomer epsilon subunit; InterPro: IP	99.12
KOG3616	1636	consensus Selective LIM binding factor [Transcript	99.08
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.07
PRK04841	903	transcriptional regulator MalT; Provisional	99.07
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	99.06
KOG0624	504	consensus dsRNA-activated protein kinase inhibitor	99.05
KOG4340	459	consensus Uncharacterized conserved protein [Funct	99.04
cd05804	355	StaR_like StaR_like; a well-conserved protein foun	99.02
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	99.01
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	99.01
KOG1125	579	consensus TPR repeat-containing protein [General f	98.99
KOG0985	1666	consensus Vesicle coat protein clathrin, heavy cha	98.95
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.95
PRK04841	903	transcriptional regulator MalT; Provisional	98.94
KOG1125	579	consensus TPR repeat-containing protein [General f	98.93
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.92
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.9
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.9
KOG1127	1238	consensus TPR repeat-containing protein [RNA proce	98.83
PRK15359	144	type III secretion system chaperone protein SscB;	98.81
KOG1914	656	consensus mRNA cleavage and polyadenylation factor	98.78
PLN02789	320	farnesyltranstransferase	98.77
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.77
PF12854	34	PPR_1: PPR repeat	98.75
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.72
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.72
PRK15359	144	type III secretion system chaperone protein SscB;	98.72
KOG1128	777	consensus Uncharacterized conserved protein, conta	98.71
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.7
KOG3081	299	consensus Vesicle coat complex COPI, epsilon subun	98.68
KOG0548	539	consensus Molecular co-chaperone STI1 [Posttransla	98.67
PLN02789	320	farnesyltranstransferase	98.65
TIGR03302	235	OM_YfiO outer membrane assembly lipoprotein YfiO.	98.64
PF12854	34	PPR_1: PPR repeat	98.63
KOG1070	1710	consensus rRNA processing protein Rrp5 [RNA proces	98.62
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.59
PRK10370	198	formate-dependent nitrite reductase complex subuni	98.59
COG5010	257	TadD Flp pilus assembly protein TadD, contains TPR	98.59
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.58
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.57
COG4783	484	Putative Zn-dependent protease, contains TPR repea	98.56
PRK15179	694	Vi polysaccharide biosynthesis protein TviE; Provi	98.54
PRK14720	906	transcript cleavage factor/unknown domain fusion p	98.48
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.46
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.43
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.41
KOG3060	289	consensus Uncharacterized conserved protein [Funct	98.38
KOG2053	932	consensus Mitochondrial inheritance and actin cyto	98.38
TIGR02552	135	LcrH_SycD type III secretion low calcium response	98.37
PF09295	395	ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); Inter	98.36
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	98.27
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.26
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	98.23
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	98.22
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	98.21
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	98.19
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	98.19
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.18
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	98.16
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.16
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.16
TIGR00756	35	PPR pentatricopeptide repeat domain (PPR motif). T	98.16
PF09976	145	TPR_21: Tetratricopeptide repeat; InterPro: IPR018	98.14
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	98.11
TIGR02795	119	tol_pal_ybgF tol-pal system protein YbgF. Members	98.1
PF13812	34	PPR_3: Pentatricopeptide repeat domain	98.08
KOG0553	304	consensus TPR repeat-containing protein [General f	98.02
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	98.01
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	98.0
COG5107	660	RNA14 Pre-mRNA 3'-end processing (cleavage and pol	97.97
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.95
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.93
cd00189	100	TPR Tetratricopeptide repeat domain; typically con	97.92
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.91
PF12895	84	Apc3: Anaphase-promoting complex, cyclosome, subun	97.9
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.88
PLN03088	356	SGT1, suppressor of G2 allele of SKP1; Provisional	97.87
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.87
PF13371	73	TPR_9: Tetratricopeptide repeat	97.86
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.85
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.83
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.8
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	97.8
PF14938	282	SNAP: Soluble NSF attachment protein, SNAP; PDB: 1	97.8
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.78
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.77
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.77
PRK02603	172	photosystem I assembly protein Ycf3; Provisional	97.76
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.76
KOG0553	304	consensus TPR repeat-containing protein [General f	97.75
PF01535	31	PPR: PPR repeat; InterPro: IPR002885 This entry re	97.74
PF05843	280	Suf: Suppressor of forked protein (Suf); InterPro:	97.73
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.7
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.68
PRK10153	517	DNA-binding transcriptional activator CadC; Provis	97.67
PRK15363	157	pathogenicity island 2 chaperone protein SscA; Pro	97.66
PF04840	319	Vps16_C: Vps16, C-terminal region; InterPro: IPR00	97.65
PF12688	120	TPR_5: Tetratrico peptide repeat	97.65
CHL00033	168	ycf3 photosystem I assembly protein Ycf3	97.63
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.58
PF13432	65	TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL	97.57
COG4700	251	Uncharacterized protein conserved in bacteria cont	97.57
KOG2280	829	consensus Vacuolar assembly/sorting protein VPS16	97.56
PF08579	120	RPM2: Mitochondrial ribonuclease P subunit (RPM2);	97.55
PRK10866	243	outer membrane biogenesis protein BamD; Provisiona	97.55
PF10037	429	MRP-S27: Mitochondrial 28S ribosomal protein S27;	97.53
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.49
KOG1258	577	consensus mRNA processing protein [RNA processing	97.48
PF12688	120	TPR_5: Tetratrico peptide repeat	97.44
PRK10803	263	tol-pal system protein YbgF; Provisional	97.43
PF14559	68	TPR_19: Tetratricopeptide repeat; PDB: 2R5S_A 3QDN	97.43
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.41
PF13414	69	TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A	97.41
KOG2796	366	consensus Uncharacterized conserved protein [Funct	97.36
KOG0550	486	consensus Molecular chaperone (DnaJ superfamily) [	97.28
KOG2041	1189	consensus WD40 repeat protein [General function pr	97.28
COG3898	531	Uncharacterized membrane-bound protein [Function u	97.26
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.25
PF13281	374	DUF4071: Domain of unknown function (DUF4071)	97.21
PRK15331	165	chaperone protein SicA; Provisional	97.21
PF13525	203	YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M	97.15
PF03704	146	BTAD: Bacterial transcriptional activator domain;	97.13
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	97.12
KOG1130	639	consensus Predicted G-alpha GTPase interaction pro	97.11
PF13428	44	TPR_14: Tetratricopeptide repeat	97.07
PF06239	228	ECSIT: Evolutionarily conserved signalling interme	97.05
COG4235	287	Cytochrome c biogenesis factor [Posttranslational	97.02
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.99
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.99
KOG1538	1081	consensus Uncharacterized conserved protein WDR10,	96.97
PF13431	34	TPR_17: Tetratricopeptide repeat	96.97
PRK10803	263	tol-pal system protein YbgF; Provisional	96.97
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.88
PF13371	73	TPR_9: Tetratricopeptide repeat	96.88
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.88
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.85
PF03704	146	BTAD: Bacterial transcriptional activator domain;	96.81
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	96.71
PF13424	78	TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15	96.6
PF07079	549	DUF1347: Protein of unknown function (DUF1347); In	96.6
PRK15331	165	chaperone protein SicA; Provisional	96.54
KOG1941	518	consensus Acetylcholine receptor-associated protei	96.45
KOG0543	397	consensus FKBP-type peptidyl-prolyl cis-trans isom	96.42
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.39
PF04053	443	Coatomer_WDAD: Coatomer WD associated region ; Int	96.39
PLN03098	453	LPA1 LOW PSII ACCUMULATION1; Provisional	96.26
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	96.21
KOG1585	308	consensus Protein required for fusion of vesicles	96.18
KOG2114	933	consensus Vacuolar assembly/sorting protein PEP5/V	96.12
COG3118	304	Thioredoxin domain-containing protein [Posttransla	96.09
PF12921	126	ATP13: Mitochondrial ATPase expression; InterPro:	96.09
PRK11906	458	transcriptional regulator; Provisional	96.06
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	96.0
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	96.0
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.91
COG3898	531	Uncharacterized membrane-bound protein [Function u	95.87
PRK11619	644	lytic murein transglycosylase; Provisional	95.77
COG1729	262	Uncharacterized protein conserved in bacteria [Fun	95.76
PF13512	142	TPR_18: Tetratricopeptide repeat	95.75
PF09205	161	DUF1955: Domain of unknown function (DUF1955); Int	95.7
PF13428	44	TPR_14: Tetratricopeptide repeat	95.6
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.55
PF10300	468	DUF3808: Protein of unknown function (DUF3808); In	95.53
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	95.52
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.49
KOG1585	308	consensus Protein required for fusion of vesicles	95.47
KOG3941	406	consensus Intermediate in Toll signal transduction	95.45
smart00299	140	CLH Clathrin heavy chain repeat homology.	95.44
KOG1258	577	consensus mRNA processing protein [RNA processing	95.37
KOG2610	491	consensus Uncharacterized conserved protein [Funct	95.35
COG4105	254	ComL DNA uptake lipoprotein [General function pred	95.32
KOG4234	271	consensus TPR repeat-containing protein [General f	95.32
PF13512	142	TPR_18: Tetratricopeptide repeat	95.29
KOG0403	645	consensus Neoplastic transformation suppressor Pdc	95.22
COG0457	291	NrfG FOG: TPR repeat [General function prediction	95.16
KOG4555	175	consensus TPR repeat-containing protein [Function	95.09
COG3629	280	DnrI DNA-binding transcriptional activator of the	95.08
KOG1941	518	consensus Acetylcholine receptor-associated protei	95.08
PRK15180	831	Vi polysaccharide biosynthesis protein TviD; Provi	94.96
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	94.95
KOG4555	175	consensus TPR repeat-containing protein [Function	94.88
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	94.86
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	94.83
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	94.67
PRK09687	280	putative lyase; Provisional	94.67
COG4105	254	ComL DNA uptake lipoprotein [General function pred	94.6
PRK11906	458	transcriptional regulator; Provisional	94.59
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.51
COG3118	304	Thioredoxin domain-containing protein [Posttransla	94.47
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.4
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.39
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	94.34
KOG3941	406	consensus Intermediate in Toll signal transduction	94.21
PF07719	34	TPR_2: Tetratricopeptide repeat; InterPro: IPR0131	94.16
PF04184	539	ST7: ST7 protein; InterPro: IPR007311 The ST7 (for	94.14
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	94.11
PF00515	34	TPR_1: Tetratricopeptide repeat; InterPro: IPR0014	94.06
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	93.97
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	93.86
PF02259	352	FAT: FAT domain; InterPro: IPR003151 The FAT domai	93.75
PF13176	36	TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_	93.68
KOG4648	536	consensus Uncharacterized conserved protein, conta	93.16
PF07035	167	Mic1: Colon cancer-associated protein Mic1-like; I	92.82
KOG1920	1265	consensus IkappaB kinase complex, IKAP component [	92.81
COG2909	894	MalT ATP-dependent transcriptional regulator [Tran	92.77
PF10602	177	RPN7: 26S proteasome subunit RPN7; InterPro: IPR01	92.49
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	92.17
PF13431	34	TPR_17: Tetratricopeptide repeat	92.14
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	92.05
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	91.83
PF08631	278	SPO22: Meiosis protein SPO22/ZIP4 like; InterPro:	91.79
KOG2066	846	consensus Vacuolar assembly/sorting protein VPS41	91.56
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	91.55
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	91.48
COG3629	280	DnrI DNA-binding transcriptional activator of the	91.43
PF09613	160	HrpB1_HrpK: Bacterial type III secretion protein (	91.24
PF00637	143	Clathrin: Region in Clathrin and VPS; InterPro: IP	91.22
PF07721	26	TPR_4: Tetratricopeptide repeat; InterPro: IPR0117	91.13
KOG1586	288	consensus Protein required for fusion of vesicles	90.98
PRK09687	280	putative lyase; Provisional	90.76
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.53
PF13181	34	TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_	90.34
COG1747	711	Uncharacterized N-terminal domain of the transcrip	90.26
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	90.1
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	90.05
KOG4234	271	consensus TPR repeat-containing protein [General f	90.03
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	90.0
COG4649	221	Uncharacterized protein conserved in bacteria [Fun	89.94
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	89.91
KOG2471	696	consensus TPR repeat-containing protein [General f	89.83
PF13170	297	DUF4003: Protein of unknown function (DUF4003)	89.67
KOG4570	418	consensus Uncharacterized conserved protein [Funct	89.25
COG2976	207	Uncharacterized protein conserved in bacteria [Fun	89.1
PRK10941	269	hypothetical protein; Provisional	88.98
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.83
PF10345	608	Cohesin_load: Cohesin loading factor; InterPro: IP	88.64
KOG1550	552	consensus Extracellular protein SEL-1 and related	88.53
KOG0276	794	consensus Vesicle coat complex COPI, beta' subunit	88.43
COG3947	361	Response regulator containing CheY-like receiver a	88.25
cd00923	103	Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va.	88.02
PF13174	33	TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_	87.94
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	87.9
KOG2396	568	consensus HAT (Half-A-TPR) repeat-containing prote	87.67
PF13374	42	TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT	87.57
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	87.31
KOG4648	536	consensus Uncharacterized conserved protein, conta	87.29
PF06552	186	TOM20_plant: Plant specific mitochondrial import r	87.18
PF14669	233	Asp_Glu_race_2: Putative aspartate racemase	87.09
KOG0890	2382	consensus Protein kinase of the PI-3 kinase family	86.98
COG4455	273	ImpE Protein of avirulence locus involved in tempe	86.77
PF02284	108	COX5A: Cytochrome c oxidase subunit Va; InterPro:	86.69
KOG4570	418	consensus Uncharacterized conserved protein [Funct	86.52
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	86.52
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	86.46
KOG1550	552	consensus Extracellular protein SEL-1 and related	85.77
KOG1464	440	consensus COP9 signalosome, subunit CSN2 [Posttran	85.58
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	84.99
PF14561	90	TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S	84.98
PF04097	613	Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic9	84.97
COG4785	297	NlpI Lipoprotein NlpI, contains TPR repeats [Gener	84.55
PRK11619	644	lytic murein transglycosylase; Provisional	84.37
KOG0545	329	consensus Aryl-hydrocarbon receptor-interacting pr	84.25
COG3947	361	Response regulator containing CheY-like receiver a	84.07
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	84.05
TIGR02508	115	type_III_yscG type III secretion protein, YscG fam	83.66
PRK13800	897	putative oxidoreductase/HEAT repeat-containing pro	83.63
TIGR02561	153	HrpB1_HrpK type III secretion protein HrpB1/HrpK.	83.61
TIGR03504	44	FimV_Cterm FimV C-terminal domain. This protein is	83.56
KOG0686	466	consensus COP9 signalosome, subunit CSN1 [Posttran	83.44
PF11207	203	DUF2989: Protein of unknown function (DUF2989); In	83.3
KOG3364	149	consensus Membrane protein involved in organellar	83.1
KOG0687	393	consensus 26S proteasome regulatory complex, subun	82.34
KOG1308	377	consensus Hsp70-interacting protein Hip/Transient	82.16
smart00028	34	TPR Tetratricopeptide repeats. Repeats present in	82.01
TIGR02270	410	conserved hypothetical protein. Members are found	81.34
PF09986	214	DUF2225: Uncharacterized protein conserved in bact	81.23
COG4455	273	ImpE Protein of avirulence locus involved in tempe	80.57
PRK12798	421	chemotaxis protein; Reviewed	80.48
PF04190	260	DUF410: Protein of unknown function (DUF410) ; Int	80.31

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

Probab=100.00  E-value=1.2e-73  Score=563.33  Aligned_cols=462  Identities=28%  Similarity=0.472  Sum_probs=450.9

Q ss_pred             CCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHH
Q 012108            5 GVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLD   84 (471)
Q Consensus         5 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~   84 (471)
                      ++.||..+|+.++.+|++.++++.+.+++..|.+.|+.||..+|+.++..|++.|++++|.++|++|.+||..+|+.++.
T Consensus       118 ~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~  197 (697)
T PLN03081        118 PFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMNRVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIG  197 (697)
T ss_pred             CCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHHHHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHH
Confidence            47899999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCHHHHHHHHhcCCC----CChhhHHHHHHHHHhcCCHHHHHHHHhhc----CCCChhhHHHHHHHHHhCCCHHH
Q 012108           85 AFASCGQMDHAMKLIDLMPL----KDVTSFNIMISGYARIGKIHSARYIFDKV----PAKDVVSWNSLILAYTNAGEMEK  156 (471)
Q Consensus        85 ~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~  156 (471)
                      +|++.|++++|+++|++|..    ++..+|+.++.+|++.|..+.+.+++..+    ..+|..++++|+++|++.|++++
T Consensus       198 ~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~  277 (697)
T PLN03081        198 GLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARAGQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIED  277 (697)
T ss_pred             HHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHHHHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHH
Confidence            99999999999999999964    48899999999999999999999998877    45899999999999999999999


Q ss_pred             HHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 012108          157 AGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA  236 (471)
Q Consensus       157 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  236 (471)
                      |.++|++|..+|..+||.++.+|++.|++++|+++|++|.+.|+.||..||+.++.+|++.|++++|.++++.|.+.|++
T Consensus       278 A~~vf~~m~~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~  357 (697)
T PLN03081        278 ARCVFDGMPEKTTVAWNSMLAGYALHGYSEEALCLYYEMRDSGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFP  357 (697)
T ss_pred             HHHHHHhCCCCChhHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCC
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             CchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 012108          237 SNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACS  316 (471)
Q Consensus       237 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  316 (471)
                      |+..+++.|+.+|++.|++++|.++|++|..+|..+||+||.+|++.|+.++|.++|++|...|+.||..||+.++.+|+
T Consensus       358 ~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~~~d~~t~n~lI~~y~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll~a~~  437 (697)
T PLN03081        358 LDIVANTALVDLYSKWGRMEDARNVFDRMPRKNLISWNALIAGYGNHGRGTKAVEMFERMIAEGVAPNHVTFLAVLSACR  437 (697)
T ss_pred             CCeeehHHHHHHHHHCCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHh
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          317 HAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       317 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      +.|..++|.++|+.|.++.|+.|+..+|+.++++|++.|++++|.+++++|+..|+..+|+.|+.+|...|+++.|..++
T Consensus       438 ~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~r~G~~~eA~~~~~~~~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~  517 (697)
T PLN03081        438 YSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLGREGLLDEAYAMIRRAPFKPTVNMWAALLTACRIHKNLELGRLAA  517 (697)
T ss_pred             cCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHHhcCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCCcHHHHHHH
Confidence            99999999999999988789999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcceEEEEcCeEeEEeeCCCCCccc
Q 012108          397 KMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHLSN  467 (471)
Q Consensus       397 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  467 (471)
                      +++.+.+|. +..+|..|+.+|.+.|++++|.+++++|.+.|+.++++.+|+.+.+.+|.|.++|.+||+.
T Consensus       518 ~~l~~~~p~-~~~~y~~L~~~y~~~G~~~~A~~v~~~m~~~g~~k~~g~s~i~~~~~~~~f~~~d~~h~~~  587 (697)
T PLN03081        518 EKLYGMGPE-KLNNYVVLLNLYNSSGRQAEAAKVVETLKRKGLSMHPACTWIEVKKQDHSFFSGDRLHPQS  587 (697)
T ss_pred             HHHhCCCCC-CCcchHHHHHHHHhCCCHHHHHHHHHHHHHcCCccCCCeeEEEECCeEEEEccCCCCCccH
Confidence            999999988 8899999999999999999999999999999999999999999999999999999999975

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=2.5e-71  Score=559.73  Aligned_cols=464  Identities=34%  Similarity=0.612  Sum_probs=452.1

Q ss_pred             CcccCCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHH
Q 012108            1 MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWN   80 (471)
Q Consensus         1 m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~   80 (471)
                      |++.|+.||..||+.+|.+|++.|+++.|.+++..|.+.|+.||..+|+.++.+|++.|++++|.++|++|..||..+|+
T Consensus       279 M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~~s~n  358 (857)
T PLN03077        279 MRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLGSWGEAEKVFSRMETKDAVSWT  358 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcCCHHHHHHHHhhCCCCCeeeHH
Confidence            67789999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCHHHHHHHHhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHhhc----CCCChhhHHHHHHHHHhCC
Q 012108           81 SMLDAFASCGQMDHAMKLIDLMP----LKDVTSFNIMISGYARIGKIHSARYIFDKV----PAKDVVSWNSLILAYTNAG  152 (471)
Q Consensus        81 ~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~l~~~~~~~~  152 (471)
                      .+|.+|++.|++++|+++|++|.    .||..+|+.++.+|++.|+++.|.++++.+    ..++..++++|+++|++.|
T Consensus       359 ~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~~~~~~n~Li~~y~k~g  438 (857)
T PLN03077        359 AMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAERKGLISYVVVANALIEMYSKCK  438 (857)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHHhCCCcchHHHHHHHHHHHHcC
Confidence            99999999999999999999995    458899999999999999999999999998    4578999999999999999


Q ss_pred             CHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 012108          153 EMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       153 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      ++++|.++|++|.++|..+||.++.+|++.|+.++|+.+|++|.. ++.||..||+.++.+|++.|+.+.+.+++..+.+
T Consensus       439 ~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL~a~~~~g~l~~~~~i~~~~~~  517 (857)
T PLN03077        439 CIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAALSACARIGALMCGKEIHAHVLR  517 (857)
T ss_pred             CHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHHHHHhhhchHHHhHHHHHHHHH
Confidence            999999999999999999999999999999999999999999986 5899999999999999999999999999999999


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012108          233 NGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLL  312 (471)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  312 (471)
                      .|+.++..++++|+..|++.|++++|.++|+.+ .+|..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.++
T Consensus       518 ~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~-~~d~~s~n~lI~~~~~~G~~~~A~~lf~~M~~~g~~Pd~~T~~~ll  596 (857)
T PLN03077        518 TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH-EKDVVSWNILLTGYVAHGKGSMAVELFNRMVESGVNPDEVTFISLL  596 (857)
T ss_pred             hCCCccceechHHHHHHHHcCCHHHHHHHHHhc-CCChhhHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCCcccHHHHH
Confidence            999999999999999999999999999999999 8999999999999999999999999999999999999999999999


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHH
Q 012108          313 SACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       313 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  392 (471)
                      .+|++.|.+++|.++|+.|.+..|+.|+..+|+.++++|++.|++++|.+++++|+++||..+|++|+.+|...|+.+.+
T Consensus       597 ~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y~~lv~~l~r~G~~~eA~~~~~~m~~~pd~~~~~aLl~ac~~~~~~e~~  676 (857)
T PLN03077        597 CACSRSGMVTQGLEYFHSMEEKYSITPNLKHYACVVDLLGRAGKLTEAYNFINKMPITPDPAVWGALLNACRIHRHVELG  676 (857)
T ss_pred             HHHhhcChHHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHhCCCHHHHHHHHHHCCCCCCHHHHHHHHHHHHHcCChHHH
Confidence            99999999999999999999668999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcceEEEEcCeEeEEeeCCCCCccc
Q 012108          393 DRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLAGGIGHLSN  467 (471)
Q Consensus       393 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  467 (471)
                      +...+++.+..|. +...|..|.+.|.+.|+|++|.++.+.|++.|+.++++++|+.+.+.+|.|..+|.+||+.
T Consensus       677 e~~a~~l~~l~p~-~~~~y~ll~n~ya~~g~~~~a~~vr~~M~~~g~~k~~g~s~ie~~~~~~~f~~~d~~h~~~  750 (857)
T PLN03077        677 ELAAQHIFELDPN-SVGYYILLCNLYADAGKWDEVARVRKTMRENGLTVDPGCSWVEVKGKVHAFLTDDESHPQI  750 (857)
T ss_pred             HHHHHHHHhhCCC-CcchHHHHHHHHHHCCChHHHHHHHHHHHHcCCCCCCCccEEEECCEEEEEecCCCCCcch
Confidence            9999999999999 9999999999999999999999999999999999999999999999999999999999985

>PLN03077 Protein ECB2; Provisional

Probab=100.00  E-value=4.2e-66  Score=521.78  Aligned_cols=442  Identities=28%  Similarity=0.432  Sum_probs=400.4

Q ss_pred             CcccCCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHH
Q 012108            1 MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWN   80 (471)
Q Consensus         1 m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~   80 (471)
                      |++.|+.||..||+.++++|+..+++..+.+++..+.+.|+.||..+++.++.+|++.|++++|.++|++|.+||..+||
T Consensus       178 M~~~g~~Pd~~t~~~ll~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~n~Li~~y~k~g~~~~A~~lf~~m~~~d~~s~n  257 (857)
T PLN03077        178 MLWAGVRPDVYTFPCVLRTCGGIPDLARGREVHAHVVRFGFELDVDVVNALITMYVKCGDVVSARLVFDRMPRRDCISWN  257 (857)
T ss_pred             HHHcCCCCChhHHHHHHHHhCCccchhhHHHHHHHHHHcCCCcccchHhHHHHHHhcCCCHHHHHHHHhcCCCCCcchhH
Confidence            55678888888888888888888888888888888888888899999999999999999999999999999999999999


Q ss_pred             HHHHHHHcCCCHHHHHHHHhcCC----CCChhhHHHHHHHHHhcCCHHHHHHHHhhc----CCCChhhHHHHHHHHHhCC
Q 012108           81 SMLDAFASCGQMDHAMKLIDLMP----LKDVTSFNIMISGYARIGKIHSARYIFDKV----PAKDVVSWNSLILAYTNAG  152 (471)
Q Consensus        81 ~li~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~l~~~~~~~~  152 (471)
                      .+|.+|++.|++++|+++|++|.    .||..||+.++.+|++.|+++.|.+++..+    ..||..+|++|+.+|++.|
T Consensus       258 ~li~~~~~~g~~~eAl~lf~~M~~~g~~Pd~~ty~~ll~a~~~~g~~~~a~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g  337 (857)
T PLN03077        258 AMISGYFENGECLEGLELFFTMRELSVDPDLMTITSVISACELLGDERLGREMHGYVVKTGFAVDVSVCNSLIQMYLSLG  337 (857)
T ss_pred             HHHHHHHhCCCHHHHHHHHHHHHHcCCCCChhHHHHHHHHHHhcCChHHHHHHHHHHHHhCCccchHHHHHHHHHHHhcC
Confidence            99999999999999999999996    458999999999999999999999999998    5589999999999999999


Q ss_pred             CHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 012108          153 EMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       153 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      ++++|.++|++|..||..+||.++.+|.+.|++++|+++|++|.+.|+.||..||+.++.+|++.|+++.|.++++.+.+
T Consensus       338 ~~~~A~~vf~~m~~~d~~s~n~li~~~~~~g~~~~A~~lf~~M~~~g~~Pd~~t~~~ll~a~~~~g~~~~a~~l~~~~~~  417 (857)
T PLN03077        338 SWGEAEKVFSRMETKDAVSWTAMISGYEKNGLPDKALETYALMEQDNVSPDEITIASVLSACACLGDLDVGVKLHELAER  417 (857)
T ss_pred             CHHHHHHHHhhCCCCCeeeHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCCCceeHHHHHHHHhccchHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012108          233 NGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLL  312 (471)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  312 (471)
                      .|+.|+..+++.|+..|++.|++++|.++|++|..+|..+|+.++.+|++.|+.++|+.+|++|.. ++.||..||+.++
T Consensus       418 ~g~~~~~~~~n~Li~~y~k~g~~~~A~~vf~~m~~~d~vs~~~mi~~~~~~g~~~eA~~lf~~m~~-~~~pd~~t~~~lL  496 (857)
T PLN03077        418 KGLISYVVVANALIEMYSKCKCIDKALEVFHNIPEKDVISWTSIIAGLRLNNRCFEALIFFRQMLL-TLKPNSVTLIAAL  496 (857)
T ss_pred             hCCCcchHHHHHHHHHHHHcCCHHHHHHHHHhCCCCCeeeHHHHHHHHHHCCCHHHHHHHHHHHHh-CCCCCHhHHHHHH
Confidence            999999999999999999999999999999999999999999999999999999999999999986 5999999999999


Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHH
Q 012108          313 SACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       313 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a  392 (471)
                      .+|++.|+.+.+.+++..+.+ .|+.++..++++|+++|+++|++++|.++|+++  .||..+|+.++.+|++.|+.++|
T Consensus       497 ~a~~~~g~l~~~~~i~~~~~~-~g~~~~~~~~naLi~~y~k~G~~~~A~~~f~~~--~~d~~s~n~lI~~~~~~G~~~~A  573 (857)
T PLN03077        497 SACARIGALMCGKEIHAHVLR-TGIGFDGFLPNALLDLYVRCGRMNYAWNQFNSH--EKDVVSWNILLTGYVAHGKGSMA  573 (857)
T ss_pred             HHHhhhchHHHhHHHHHHHHH-hCCCccceechHHHHHHHHcCCHHHHHHHHHhc--CCChhhHHHHHHHHHHcCCHHHH
Confidence            999999999999999999988 688888777777777777777777777777777  57777777777777777777777


Q ss_pred             HHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh-hCCCcccCcce
Q 012108          393 DRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN-DTGIVKTAGSS  446 (471)
Q Consensus       393 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-~~~~~~~~~~~  446 (471)
                      .++|++|.+.|..||..+|..++.+|.+.|++++|.++|+.|. +.|+.|+..++
T Consensus       574 ~~lf~~M~~~g~~Pd~~T~~~ll~a~~~~g~v~ea~~~f~~M~~~~gi~P~~~~y  628 (857)
T PLN03077        574 VELFNRMVESGVNPDEVTFISLLCACSRSGMVTQGLEYFHSMEEKYSITPNLKHY  628 (857)
T ss_pred             HHHHHHHHHcCCCCCcccHHHHHHHHhhcChHHHHHHHHHHHHHHhCCCCchHHH
Confidence            7777777777777777777777777777777777777777776 46666654433

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=1e-62  Score=488.45  Aligned_cols=444  Identities=17%  Similarity=0.228  Sum_probs=418.9

Q ss_pred             CCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhcc-CCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHH
Q 012108            6 VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGF-CGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLD   84 (471)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~   84 (471)
                      -.+|...|..++..+++.|++++|.++|++|.+.|+ +++...++.++..|.+.|..++|..+|+.|..|+..+|+.++.
T Consensus       366 ~~~~~~~~~~~y~~l~r~G~l~eAl~Lfd~M~~~gvv~~~~v~~~~li~~~~~~g~~~eAl~lf~~M~~pd~~Tyn~LL~  445 (1060)
T PLN03218        366 GKRKSPEYIDAYNRLLRDGRIKDCIDLLEDMEKRGLLDMDKIYHAKFFKACKKQRAVKEAFRFAKLIRNPTLSTFNMLMS  445 (1060)
T ss_pred             CCCCchHHHHHHHHHHHCcCHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHCCCHHHHHHHHHHcCCCCHHHHHHHHH
Confidence            456678899999999999999999999999999995 5677888899999999999999999999999999999999999


Q ss_pred             HHHcCCCHHHHHHHHhcCCC----CChhhHHHHHHHHHhcCCHHHHHHHHhhcC----CCChhhHHHHHHHHHhCCCHHH
Q 012108           85 AFASCGQMDHAMKLIDLMPL----KDVTSFNIMISGYARIGKIHSARYIFDKVP----AKDVVSWNSLILAYTNAGEMEK  156 (471)
Q Consensus        85 ~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~  156 (471)
                      +|++.|++++|.++|+.|.+    +|..+|+.++.+|++.|++++|.++|++|.    .||..+|+.+|.+|++.|++++
T Consensus       446 a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI~gy~k~G~~ee  525 (1060)
T PLN03218        446 VCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALIDGCARAGQVAK  525 (1060)
T ss_pred             HHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCcCHHH
Confidence            99999999999999999974    489999999999999999999999999995    6899999999999999999999


Q ss_pred             HHHHHHhc----cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHh--CCCCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 012108          157 AGEMFKKM----LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKA--GNVKPDYLTVTSVLSACANLGSLETGARIHVYA  230 (471)
Q Consensus       157 A~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~--~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  230 (471)
                      |.++|++|    ..||..+|+.++.+|++.|++++|.++|++|..  .|+.||..+|+.++.+|++.|++++|.++|+.|
T Consensus       526 Al~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~ldeA~elf~~M  605 (1060)
T PLN03218        526 AFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQVDRAKEVYQMI  605 (1060)
T ss_pred             HHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence            99999999    568999999999999999999999999999986  688999999999999999999999999999999


Q ss_pred             HHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH
Q 012108          231 TDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDI  306 (471)
Q Consensus       231 ~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~  306 (471)
                      .+.|++|+..+|+.++.+|++.|++++|.++|++|..    ||..+|+.++.+|++.|++++|.+++++|.+.|+.||..
T Consensus       606 ~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~eM~k~G~~pd~~  685 (1060)
T PLN03218        606 HEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQDARKQGIKLGTV  685 (1060)
T ss_pred             HHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHH
Confidence            9999999999999999999999999999999999875    689999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHH
Q 012108          307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM---PFEPTESILGALLSAC  383 (471)
Q Consensus       307 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~  383 (471)
                      +|+.++.+|++.|++++|.++|++|.+ .|+.|+..+|+.||.+|++.|++++|.++|++|   ++.||..+|+.++.+|
T Consensus       686 tynsLI~ay~k~G~~eeA~~lf~eM~~-~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~~Ty~sLL~a~  764 (1060)
T PLN03218        686 SYSSLMGACSNAKNWKKALELYEDIKS-IKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNTITYSILLVAS  764 (1060)
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHH
Confidence            999999999999999999999999998 699999999999999999999999999999998   7899999999999999


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh----cC-------------------CHHHHHHHHHHhhhCCCc
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS----CG-------------------QWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g-------------------~~~~A~~~~~~m~~~~~~  440 (471)
                      ++.|++++|.+++++|.+.+..||..+|+.++..|.+    .+                   ..++|..+|++|.+.|+.
T Consensus       765 ~k~G~le~A~~l~~~M~k~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~lf~eM~~~Gi~  844 (1060)
T PLN03218        765 ERKDDADVGLDLLSQAKEDGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALMVYRETISAGTL  844 (1060)
T ss_pred             HHCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHHHHHHHHHCCCC
Confidence            9999999999999999999999999999999876432    22                   236799999999999999


Q ss_pred             ccCcceEEEE
Q 012108          441 KTAGSSVIEV  450 (471)
Q Consensus       441 ~~~~~~~~~~  450 (471)
                      |+..++...+
T Consensus       845 Pd~~T~~~vL  854 (1060)
T PLN03218        845 PTMEVLSQVL  854 (1060)
T ss_pred             CCHHHHHHHH
Confidence            9987776555

>PLN03218 maturation of RBCL 1; Provisional

Probab=100.00  E-value=7.4e-63  Score=489.38  Aligned_cols=434  Identities=19%  Similarity=0.279  Sum_probs=408.0

Q ss_pred             CCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccC----CCCcccHHHHH
Q 012108            8 ADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMP----EKDIIAWNSML   83 (471)
Q Consensus         8 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~li   83 (471)
                      ||..+|+.+|.+|++.|+++.|.+++++|.+.|+.||..+|+.+|.+|++.|++++|.++|++|.    .||..+|+.+|
T Consensus       435 pd~~Tyn~LL~a~~k~g~~e~A~~lf~~M~~~Gl~pD~~tynsLI~~y~k~G~vd~A~~vf~eM~~~Gv~PdvvTynaLI  514 (1060)
T PLN03218        435 PTLSTFNMLMSVCASSQDIDGALRVLRLVQEAGLKADCKLYTTLISTCAKSGKVDAMFEVFHEMVNAGVEANVHTFGALI  514 (1060)
T ss_pred             CCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCcCHHHHHHHHHHHHHcCCCCCHHHHHHHH
Confidence            89999999999999999999999999999999999999999999999999999999999999998    48999999999


Q ss_pred             HHHHcCCCHHHHHHHHhcCCC----CChhhHHHHHHHHHhcCCHHHHHHHHhhcC------CCChhhHHHHHHHHHhCCC
Q 012108           84 DAFASCGQMDHAMKLIDLMPL----KDVTSFNIMISGYARIGKIHSARYIFDKVP------AKDVVSWNSLILAYTNAGE  153 (471)
Q Consensus        84 ~~~~~~g~~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~------~~~~~~~~~l~~~~~~~~~  153 (471)
                      .+|++.|++++|+++|+.|..    ||..+|+.++.+|++.|++++|.++|++|.      .||..+|++++.+|++.|+
T Consensus       515 ~gy~k~G~~eeAl~lf~~M~~~Gv~PD~vTYnsLI~a~~k~G~~deA~~lf~eM~~~~~gi~PD~vTynaLI~ay~k~G~  594 (1060)
T PLN03218        515 DGCARAGQVAKAFGAYGIMRSKNVKPDRVVFNALISACGQSGAVDRAFDVLAEMKAETHPIDPDHITVGALMKACANAGQ  594 (1060)
T ss_pred             HHHHHCcCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHCCC
Confidence            999999999999999999963    589999999999999999999999999993      5899999999999999999


Q ss_pred             HHHHHHHHHhc----cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHH
Q 012108          154 MEKAGEMFKKM----LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVY  229 (471)
Q Consensus       154 ~~~A~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  229 (471)
                      +++|.++|+.|    ..|+..+||.+|.+|++.|++++|.++|++|.+.|+.||..+|+.++.+|++.|++++|.++++.
T Consensus       595 ldeA~elf~~M~e~gi~p~~~tynsLI~ay~k~G~~deAl~lf~eM~~~Gv~PD~~TynsLI~a~~k~G~~eeA~~l~~e  674 (1060)
T PLN03218        595 VDRAKEVYQMIHEYNIKGTPEVYTIAVNSCSQKGDWDFALSIYDDMKKKGVKPDEVFFSALVDVAGHAGDLDKAFEILQD  674 (1060)
T ss_pred             HHHHHHHHHHHHHcCCCCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            99999999999    45678999999999999999999999999999999999999999999999999999999999999


Q ss_pred             HHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCC----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 012108          230 ATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQ----VKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD  305 (471)
Q Consensus       230 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  305 (471)
                      |.+.|+.|+..+|+.++.+|++.|++++|.++|++|.    .||..+|+.||.+|++.|++++|.++|++|...|+.||.
T Consensus       675 M~k~G~~pd~~tynsLI~ay~k~G~~eeA~~lf~eM~~~g~~PdvvtyN~LI~gy~k~G~~eeAlelf~eM~~~Gi~Pd~  754 (1060)
T PLN03218        675 ARKQGIKLGTVSYSSLMGACSNAKNWKKALELYEDIKSIKLRPTVSTMNALITALCEGNQLPKALEVLSEMKRLGLCPNT  754 (1060)
T ss_pred             HHHcCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCCH
Confidence            9999999999999999999999999999999999885    589999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----c-------------------CCHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----A-------------------RLLDRAIE  362 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~-------------------g~~~~A~~  362 (471)
                      .||+.++.+|++.|+++.|.++|.+|.+ .|+.||..+|+.++..|.+    +                   +..++|..
T Consensus       755 ~Ty~sLL~a~~k~G~le~A~~l~~~M~k-~Gi~pd~~tynsLIglc~~~y~ka~~l~~~v~~f~~g~~~~~n~w~~~Al~  833 (1060)
T PLN03218        755 ITYSILLVASERKDDADVGLDLLSQAKE-DGIKPNLVMCRCITGLCLRRFEKACALGEPVVSFDSGRPQIENKWTSWALM  833 (1060)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHH-cCCCCCHHHHHHHHHHHHHHHHHHhhhhhhhhhhhccccccccchHHHHHH
Confidence            9999999999999999999999999998 6999999999999876432    1                   22467999


Q ss_pred             HHHhC---CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          363 LIEAM---PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       363 ~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      +|++|   ++.||..||+.++.++++.+....+..+++.+...+..|+..+|++|++++.+.  .++|..++++|.+.|+
T Consensus       834 lf~eM~~~Gi~Pd~~T~~~vL~cl~~~~~~~~~~~m~~~m~~~~~~~~~~~y~~Li~g~~~~--~~~A~~l~~em~~~Gi  911 (1060)
T PLN03218        834 VYRETISAGTLPTMEVLSQVLGCLQLPHDATLRNRLIENLGISADSQKQSNLSTLVDGFGEY--DPRAFSLLEEAASLGV  911 (1060)
T ss_pred             HHHHHHHCCCCCCHHHHHHHHHHhcccccHHHHHHHHHHhccCCCCcchhhhHHHHHhhccC--hHHHHHHHHHHHHcCC
Confidence            99999   799999999999988888999999999999888777777899999999998432  3689999999999999


Q ss_pred             cccCc
Q 012108          440 VKTAG  444 (471)
Q Consensus       440 ~~~~~  444 (471)
                      .|+..
T Consensus       912 ~p~~~  916 (1060)
T PLN03218        912 VPSVS  916 (1060)
T ss_pred             CCCcc
Confidence            99875

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

Probab=100.00  E-value=1.5e-56  Score=442.00  Aligned_cols=423  Identities=15%  Similarity=0.159  Sum_probs=398.3

Q ss_pred             CCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhc-cCCchhHHHHHHHHHhccCCHhHHHHHhcccC----CCCcccHH
Q 012108            6 VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTG-FCGHVYVQTALLKMYGSLRCIDDAFKVFEKMP----EKDIIAWN   80 (471)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~   80 (471)
                      ..++..+|+.+|..+.+.|++++|.++|+.|.+.+ +.||..+|+.++.++.+.++++.+.+++..|.    .||..+|+
T Consensus        83 ~~~~~~~~~~~i~~l~~~g~~~~Al~~f~~m~~~~~~~~~~~t~~~ll~a~~~~~~~~~a~~l~~~m~~~g~~~~~~~~n  162 (697)
T PLN03081         83 IRKSGVSLCSQIEKLVACGRHREALELFEILEAGCPFTLPASTYDALVEACIALKSIRCVKAVYWHVESSGFEPDQYMMN  162 (697)
T ss_pred             CCCCceeHHHHHHHHHcCCCHHHHHHHHHHHHhcCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCcchHHHH
Confidence            34566799999999999999999999999999765 68999999999999999999999999999986    38999999


Q ss_pred             HHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhc----CCCChhhHHHHHHHHHhCCCHHH
Q 012108           81 SMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKV----PAKDVVSWNSLILAYTNAGEMEK  156 (471)
Q Consensus        81 ~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~  156 (471)
                      .++.+|++.|++++|.++|++|..+|..+|+.++.+|++.|++++|.++|++|    ..||..+|+.++.++++.|+.+.
T Consensus       163 ~Li~~y~k~g~~~~A~~lf~~m~~~~~~t~n~li~~~~~~g~~~~A~~lf~~M~~~g~~p~~~t~~~ll~a~~~~~~~~~  242 (697)
T PLN03081        163 RVLLMHVKCGMLIDARRLFDEMPERNLASWGTIIGGLVDAGNYREAFALFREMWEDGSDAEPRTFVVMLRASAGLGSARA  242 (697)
T ss_pred             HHHHHHhcCCCHHHHHHHHhcCCCCCeeeHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCChhhHHHHHHHHhcCCcHHH
Confidence            99999999999999999999999999999999999999999999999999999    55889999999999999999999


Q ss_pred             HHHHHHhc----cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 012108          157 AGEMFKKM----LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       157 A~~~~~~~----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      +.+++..+    ..+|..+||.|+.+|++.|++++|.++|++|.    .+|..+|+.++.+|++.|+.++|.++|++|.+
T Consensus       243 ~~~l~~~~~~~g~~~d~~~~n~Li~~y~k~g~~~~A~~vf~~m~----~~~~vt~n~li~~y~~~g~~~eA~~lf~~M~~  318 (697)
T PLN03081        243 GQQLHCCVLKTGVVGDTFVSCALIDMYSKCGDIEDARCVFDGMP----EKTTVAWNSMLAGYALHGYSEEALCLYYEMRD  318 (697)
T ss_pred             HHHHHHHHHHhCCCccceeHHHHHHHHHHCCCHHHHHHHHHhCC----CCChhHHHHHHHHHHhCCCHHHHHHHHHHHHH
Confidence            99998887    45789999999999999999999999999996    46899999999999999999999999999999


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 012108          233 NGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITF  308 (471)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  308 (471)
                      .|+.||..+|+.++.+|++.|++++|.+++..+.+    +|..+|++|+.+|++.|++++|.++|++|.    .||..+|
T Consensus       319 ~g~~pd~~t~~~ll~a~~~~g~~~~a~~i~~~m~~~g~~~d~~~~~~Li~~y~k~G~~~~A~~vf~~m~----~~d~~t~  394 (697)
T PLN03081        319 SGVSIDQFTFSIMIRIFSRLALLEHAKQAHAGLIRTGFPLDIVANTALVDLYSKWGRMEDARNVFDRMP----RKNLISW  394 (697)
T ss_pred             cCCCCCHHHHHHHHHHHHhccchHHHHHHHHHHHHhCCCCCeeehHHHHHHHHHCCCHHHHHHHHHhCC----CCCeeeH
Confidence            99999999999999999999999999999987764    688999999999999999999999999997    4688999


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCCHhHHHHHHHHHh
Q 012108          309 IGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM----PFEPTESILGALLSACV  384 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~  384 (471)
                      +.+|.+|++.|+.++|.++|++|.+ .|+.||..+|+.++.+|.+.|..++|.++|+.|    ++.|+..+|+.++.+|+
T Consensus       395 n~lI~~y~~~G~~~~A~~lf~~M~~-~g~~Pd~~T~~~ll~a~~~~g~~~~a~~~f~~m~~~~g~~p~~~~y~~li~~l~  473 (697)
T PLN03081        395 NALIAGYGNHGRGTKAVEMFERMIA-EGVAPNHVTFLAVLSACRYSGLSEQGWEIFQSMSENHRIKPRAMHYACMIELLG  473 (697)
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH-hCCCCCHHHHHHHHHHHhcCCcHHHHHHHHHHHHHhcCCCCCccchHhHHHHHH
Confidence            9999999999999999999999998 699999999999999999999999999999998    57899999999999999


Q ss_pred             hcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          385 IHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       385 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +.|++++|.++++++   ...|+..+|..|+.+|...|+++.|..+++++.+.++.
T Consensus       474 r~G~~~eA~~~~~~~---~~~p~~~~~~~Ll~a~~~~g~~~~a~~~~~~l~~~~p~  526 (697)
T PLN03081        474 REGLLDEAYAMIRRA---PFKPTVNMWAALLTACRIHKNLELGRLAAEKLYGMGPE  526 (697)
T ss_pred             hcCCHHHHHHHHHHC---CCCCCHHHHHHHHHHHHHcCCcHHHHHHHHHHhCCCCC
Confidence            999999999998765   56678999999999999999999999999999766543

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

Probab=100.00  E-value=1.5e-30  Score=269.05  Aligned_cols=418  Identities=14%  Similarity=0.045  Sum_probs=207.2

Q ss_pred             HHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcC
Q 012108           13 FPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASC   89 (471)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~   89 (471)
                      ...++..+...|++++|.++++.+.+.. +++..++..+...+...|++++|...|+++.+   .+...+..+...+...
T Consensus       434 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~  512 (899)
T TIGR02917       434 DLLLILSYLRSGQFDKALAAAKKLEKKQ-PDNASLHNLLGAIYLGKGDLAKAREAFEKALSIEPDFFPAAANLARIDIQE  512 (899)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHC
Confidence            3444455555556666666555555432 33445555555555555666666655555432   2233444455555555


Q ss_pred             CCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHh
Q 012108           90 GQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKK  163 (471)
Q Consensus        90 g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~  163 (471)
                      |++++|.+.|+++...   +..++..+...+.+.|+.++|...++++..   .+...+..++..+.+.|++++|.++++.
T Consensus       513 g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  592 (899)
T TIGR02917       513 GNPDDAIQRFEKVLTIDPKNLRAILALAGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNE  592 (899)
T ss_pred             CCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            5555555555554322   344555555555555555555555555421   2333444455555555555555555555


Q ss_pred             cc---ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchh
Q 012108          164 ML---VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH  240 (471)
Q Consensus       164 ~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  240 (471)
                      +.   ..+...|..+..++...|++++|...|+++.+.. +.+...+..+...+.+.|++++|..+++.+.+.. +.+..
T Consensus       593 ~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~  670 (899)
T TIGR02917       593 AADAAPDSPEAWLMLGRAQLAAGDLNKAVSSFKKLLALQ-PDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTE  670 (899)
T ss_pred             HHHcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHH
Confidence            52   1234455555555555555555555555554432 2233344444555555555555555555555443 33444


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSH  317 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  317 (471)
                      .+..++..+...|++++|..+++.+..   .+...+..+...+...|++++|...|+++...  .|+..++..+..++.+
T Consensus       671 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~  748 (899)
T TIGR02917       671 AQIGLAQLLLAAKRTESAKKIAKSLQKQHPKAALGFELEGDLYLRQKDYPAAIQAYRKALKR--APSSQNAIKLHRALLA  748 (899)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhh--CCCchHHHHHHHHHHH
Confidence            555555555555555555555544433   13334444445555555555555555555443  2333444444455555


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHH
Q 012108          318 AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRV  395 (471)
Q Consensus       318 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~  395 (471)
                      .|++++|.+.++++.+  ..+.+...+..+...|.+.|++++|.+.|+++  ..++++.++..+...+...|+ .+|+..
T Consensus       749 ~g~~~~A~~~~~~~l~--~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~-~~A~~~  825 (899)
T TIGR02917       749 SGNTAEAVKTLEAWLK--THPNDAVLRTALAELYLAQKDYDKAIKHYRTVVKKAPDNAVVLNNLAWLYLELKD-PRALEY  825 (899)
T ss_pred             CCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCc-HHHHHH
Confidence            5555555555555544  23334444455555555555555555555544  122234444444444444444 445555


Q ss_pred             HHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          396 AKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ++++.+..|. ++..+..++.++...|++++|.++++++.+.++
T Consensus       826 ~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~~  868 (899)
T TIGR02917       826 AEKALKLAPN-IPAILDTLGWLLVEKGEADRALPLLRKAVNIAP  868 (899)
T ss_pred             HHHHHhhCCC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            5555444444 444444445555555555555555555544443

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

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

Probab=100.00  E-value=1.2e-29  Score=262.43  Aligned_cols=422  Identities=14%  Similarity=0.078  Sum_probs=355.8

Q ss_pred             CCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHH
Q 012108            6 VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSM   82 (471)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~l   82 (471)
                      .+++..++..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...|+++.+   .+..++..+
T Consensus       461 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l  539 (899)
T TIGR02917       461 QPDNASLHNLLGAIYLGKGDLAKAREAFEKALSIE-PDFFPAAANLARIDIQEGNPDDAIQRFEKVLTIDPKNLRAILAL  539 (899)
T ss_pred             CCCCcHHHHHHHHHHHhCCCHHHHHHHHHHHHhhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHH
Confidence            34566788888899999999999999999988765 34566788888899999999999999998764   356678888


Q ss_pred             HHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHH
Q 012108           83 LDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEK  156 (471)
Q Consensus        83 i~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~  156 (471)
                      ...+.+.|+.++|...++++...   +...+..++..+...|++++|..+++.+.   +.+...|..+..++...|++++
T Consensus       540 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  619 (899)
T TIGR02917       540 AGLYLRTGNEEEAVAWLEKAAELNPQEIEPALALAQYYLGKGQLKKALAILNEAADAAPDSPEAWLMLGRAQLAAGDLNK  619 (899)
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHhCccchhHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHcCCHHH
Confidence            89999999999999999887543   55677888899999999999999999884   3467788899999999999999


Q ss_pred             HHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 012108          157 AGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDN  233 (471)
Q Consensus       157 A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  233 (471)
                      |.+.|+++..   .+...+..+..++.+.|++++|...|+++.+.. +.+..++..+...+...|++++|..+++.+.+.
T Consensus       620 A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~  698 (899)
T TIGR02917       620 AVSSFKKLLALQPDSALALLLLADAYAVMKNYAKAITSLKRALELK-PDNTEAQIGLAQLLLAAKRTESAKKIAKSLQKQ  698 (899)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhh
Confidence            9999998833   366778888999999999999999999988753 345678888888999999999999999999887


Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 012108          234 GLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGL  311 (471)
Q Consensus       234 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  311 (471)
                      + +.+...+..+...+...|++++|.+.|+++..  |+..++..++..+.+.|++++|.+.++++.... +.+...+..+
T Consensus       699 ~-~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~-~~~~~~~~~l  776 (899)
T TIGR02917       699 H-PKAALGFELEGDLYLRQKDYPAAIQAYRKALKRAPSSQNAIKLHRALLASGNTAEAVKTLEAWLKTH-PNDAVLRTAL  776 (899)
T ss_pred             C-cCChHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence            6 66778888889999999999999999988654  455677788889999999999999999988763 5567788888


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCc
Q 012108          312 LSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDL  389 (471)
Q Consensus       312 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  389 (471)
                      ...|...|++++|.+.|+++.+  ..++++..+..+...+...|+ .+|+..++++ ...| +..++..+...+...|++
T Consensus       777 a~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~l~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~  853 (899)
T TIGR02917       777 AELYLAQKDYDKAIKHYRTVVK--KAPDNAVVLNNLAWLYLELKD-PRALEYAEKALKLAPNIPAILDTLGWLLVEKGEA  853 (899)
T ss_pred             HHHHHHCcCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCc-HHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCH
Confidence            8899999999999999999987  456678888999999999999 7899998887 3334 456777888888899999


Q ss_pred             hHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          390 EIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       390 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      ++|..+++++++.+|. ++.++..++.++.+.|++++|.+++++|+
T Consensus       854 ~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  898 (899)
T TIGR02917       854 DRALPLLRKAVNIAPE-AAAIRYHLALALLATGRKAEARKELDKLL  898 (899)
T ss_pred             HHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHcCCHHHHHHHHHHHh
Confidence            9999999999999998 89999999999999999999999999885

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

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=1.9e-22  Score=209.68  Aligned_cols=409  Identities=11%  Similarity=-0.025  Sum_probs=326.4

Q ss_pred             HHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCc---ccHH-----------
Q 012108           17 LKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDI---IAWN-----------   80 (471)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~---~~~~-----------   80 (471)
                      ...+...|++++|...+++.++.. +.+..++..+..++.+.|++++|+..|++..+  |+.   ..|.           
T Consensus       276 G~~~~~~g~~~~A~~~l~~aL~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        276 GLAAVDSGQGGKAIPELQQAVRAN-PKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            345667899999999999999875 34778889999999999999999999998764  322   1121           


Q ss_pred             -HHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCC
Q 012108           81 -SMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGE  153 (471)
Q Consensus        81 -~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~  153 (471)
                       .....+.+.|++++|...|+++...   +...+..+..++...|++++|++.|+++..   .+...+..+...|. .++
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~p~~~~a~~~L~~l~~-~~~  433 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVDNTDSYAVLGLGDVAMARKDYAAAERYYQQALRMDPGNTNAVRGLANLYR-QQS  433 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHH-hcC
Confidence             2244677899999999999988754   566788889999999999999999999854   34556666777764 567


Q ss_pred             HHHHHHHHHhccccC------------hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChH
Q 012108          154 MEKAGEMFKKMLVKN------------VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLE  221 (471)
Q Consensus       154 ~~~A~~~~~~~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~  221 (471)
                      .++|..+++.+....            ...+..+...+...|++++|++.|++.++.. +-+...+..+...+.+.|+++
T Consensus       434 ~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~~~  512 (1157)
T PRK11447        434 PEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQRS  512 (1157)
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            899999998874321            2235567778889999999999999998863 224556777888999999999


Q ss_pred             HHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC----h---------hhHHHHHHHHHhcCChHH
Q 012108          222 TGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD----V---------FCWNAMILGLALHGYGYA  288 (471)
Q Consensus       222 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~---------~~~~~l~~~~~~~~~~~~  288 (471)
                      +|...++.+.+.. +.++..+..+...+...++.++|+..++++....    .         ..+..+...+...|+.++
T Consensus       513 ~A~~~l~~al~~~-P~~~~~~~a~al~l~~~~~~~~Al~~l~~l~~~~~~~~~~~l~~~l~~~~~l~~a~~l~~~G~~~e  591 (1157)
T PRK11447        513 QADALMRRLAQQK-PNDPEQVYAYGLYLSGSDRDRAALAHLNTLPRAQWNSNIQELAQRLQSDQVLETANRLRDSGKEAE  591 (1157)
T ss_pred             HHHHHHHHHHHcC-CCCHHHHHHHHHHHHhCCCHHHHHHHHHhCCchhcChhHHHHHHHHhhhHHHHHHHHHHHCCCHHH
Confidence            9999999998765 5566666667777888999999999999876421    1         122345677889999999


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-
Q 012108          289 ALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-  367 (471)
Q Consensus       289 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  367 (471)
                      |..+++.     .+++...+..+...+.+.|++++|++.|+++.+  ..+.++..+..++..|...|++++|.+.++.+ 
T Consensus       592 A~~~l~~-----~p~~~~~~~~La~~~~~~g~~~~A~~~y~~al~--~~P~~~~a~~~la~~~~~~g~~~eA~~~l~~ll  664 (1157)
T PRK11447        592 AEALLRQ-----QPPSTRIDLTLADWAQQRGDYAAARAAYQRVLT--REPGNADARLGLIEVDIAQGDLAAARAQLAKLP  664 (1157)
T ss_pred             HHHHHHh-----CCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHh
Confidence            9999882     245666778888999999999999999999998  45567889999999999999999999999987 


Q ss_pred             CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc-----hhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          368 PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD-----GELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       368 ~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-----~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ...| +..++..+..++...|++++|.++++++.+..+...+     ..+..++..+.+.|++++|++.|++...
T Consensus       665 ~~~p~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~~~~~~~~~~~a~~~~~~a~~~~~~G~~~~A~~~y~~Al~  739 (1157)
T PRK11447        665 ATANDSLNTQRRVALAWAALGDTAAAQRTFNRLIPQAKSQPPSMESALVLRDAARFEAQTGQPQQALETYKDAMV  739 (1157)
T ss_pred             ccCCCChHHHHHHHHHHHhCCCHHHHHHHHHHHhhhCccCCcchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            3444 4556777888899999999999999999988765222     4666778999999999999999998864

>PRK11447 cellulose synthase subunit BcsC; Provisional

Probab=99.94  E-value=4.6e-22  Score=206.80  Aligned_cols=315  Identities=13%  Similarity=0.074  Sum_probs=192.3

Q ss_pred             HHHHHHHhhccchhHHHHHHHHHHHhccCCchh-HHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHHcC
Q 012108           14 PLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVY-VQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFASC   89 (471)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~   89 (471)
                      ..+.+.+...|++++|.+.++.+.+.++ |+.. ....+.......|+.++|+..++++.+  | +...+..+...+...
T Consensus       116 l~~A~ll~~~g~~~eA~~~~~~~l~~~p-~~~~la~~y~~~~~~~~g~~~~A~~~L~~ll~~~P~~~~~~~~LA~ll~~~  194 (1157)
T PRK11447        116 LQQARLLATTGRTEEALASYDKLFNGAP-PELDLAVEYWRLVAKLPAQRPEAINQLQRLNADYPGNTGLRNTLALLLFSS  194 (1157)
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHccCCC-CChHHHHHHHHHHhhCCccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHcc
Confidence            3344567788999999999999987653 3332 111222222346899999999998875  3 455677888888999


Q ss_pred             CCHHHHHHHHhcCCCCCh-----------------------hhH----------------------------------HH
Q 012108           90 GQMDHAMKLIDLMPLKDV-----------------------TSF----------------------------------NI  112 (471)
Q Consensus        90 g~~~~A~~~~~~~~~~~~-----------------------~~~----------------------------------~~  112 (471)
                      |+.++|+..++++.....                       ..+                                  ..
T Consensus       195 g~~~eAl~~l~~~~~~~~~~~~aa~~~~~~l~~~~~~~~~~~~l~~~l~~~p~~~~~~~A~~~L~~~~~~~~dp~~~~~~  274 (1157)
T PRK11447        195 GRRDEGFAVLEQMAKSPAGRDAAAQLWYGQIKDMPVSDASVAALQKYLQVFSDGDSVAAARSQLAEQQKQLADPAFRARA  274 (1157)
T ss_pred             CCHHHHHHHHHHHhhCCCchHHHHHHHHHHHhccCCChhhHHHHHHHHHHCCCchHHHHHHHHHHHHHHhccCcchHHHH
Confidence            999999998887632100                       000                                  01


Q ss_pred             HHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhccc--cCh---HHHH-----------
Q 012108          113 MISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKMLV--KNV---ITWN-----------  173 (471)
Q Consensus       113 l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~---~~~~-----------  173 (471)
                      ...++...|++++|+..|++...   .+...+..+..++.+.|++++|++.|++..+  |+.   ..|.           
T Consensus       275 ~G~~~~~~g~~~~A~~~l~~aL~~~P~~~~a~~~Lg~~~~~~g~~~eA~~~l~~Al~~~p~~~~~~~~~~ll~~~~~~~~  354 (1157)
T PRK11447        275 QGLAAVDSGQGGKAIPELQQAVRANPKDSEALGALGQAYSQQGDRARAVAQFEKALALDPHSSNRDKWESLLKVNRYWLL  354 (1157)
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccchhHHHHHHHhhhHHHH
Confidence            13345667888888888888743   3567788888888888999999888888743  211   1121           


Q ss_pred             -HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 012108          174 -TMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKC  252 (471)
Q Consensus       174 -~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  252 (471)
                       .....+.+.|++++|...|++..+.. +.+...+..+...+...|++++|.+.|+++.+.. +.+...+..+...|. .
T Consensus       355 ~~~g~~~~~~g~~~eA~~~~~~Al~~~-P~~~~a~~~Lg~~~~~~g~~~eA~~~y~~aL~~~-p~~~~a~~~L~~l~~-~  431 (1157)
T PRK11447        355 IQQGDAALKANNLAQAERLYQQARQVD-NTDSYAVLGLGDVAMARKDYAAAERYYQQALRMD-PGNTNAVRGLANLYR-Q  431 (1157)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH-h
Confidence             22345678888888988888888763 3345566677788888888999988888888764 444555555554443 2


Q ss_pred             CChHHHHHHHhcCCCCC------------hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 012108          253 GSIEQSLEVFYKSQVKD------------VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGL  320 (471)
Q Consensus       253 ~~~~~a~~~~~~~~~~~------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  320 (471)
                      ++.++|+.+++.+....            ...+..+...+...|++++|++.|++..+.. +-+...+..+...+.+.|+
T Consensus       432 ~~~~~A~~~l~~l~~~~~~~~~~~~~~l~~~~~~~~a~~~~~~g~~~eA~~~~~~Al~~~-P~~~~~~~~LA~~~~~~G~  510 (1157)
T PRK11447        432 QSPEKALAFIASLSASQRRSIDDIERSLQNDRLAQQAEALENQGKWAQAAELQRQRLALD-PGSVWLTYRLAQDLRQAGQ  510 (1157)
T ss_pred             cCHHHHHHHHHhCCHHHHHHHHHHHHHhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCC
Confidence            33444444444332210            1112223334444555555555555544431 1123334444444555555


Q ss_pred             HHHHHHHHHHhHH
Q 012108          321 VQEGCELFSRMEK  333 (471)
Q Consensus       321 ~~~a~~~~~~~~~  333 (471)
                      +++|...++++.+
T Consensus       511 ~~~A~~~l~~al~  523 (1157)
T PRK11447        511 RSQADALMRRLAQ  523 (1157)
T ss_pred             HHHHHHHHHHHHH
Confidence            5555555554443

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

Probab=99.94  E-value=4.5e-24  Score=189.94  Aligned_cols=364  Identities=12%  Similarity=0.096  Sum_probs=306.3

Q ss_pred             CcccHHHHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCCh--hh-HHHHHHHH
Q 012108           75 DIIAWNSMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPAKDV--VS-WNSLILAY  148 (471)
Q Consensus        75 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~-~~~l~~~~  148 (471)
                      ...+|+.+.+.+-..|++++|+.+++.+.+.   ....|..+..++...|+.+.|.+.|.+.+.-++  .. .+.+....
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLl  194 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLL  194 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHH
Confidence            4468999999999999999999999988755   567899999999999999999999998865444  32 33455566


Q ss_pred             HhCCCHHHHHHHHHhcccc---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHccCChHHHH
Q 012108          149 TNAGEMEKAGEMFKKMLVK---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD-YLTVTSVLSACANLGSLETGA  224 (471)
Q Consensus       149 ~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~  224 (471)
                      -..|++++|...|.+.+..   =..+|+.|...+..+|+...|+..|++..+.  .|+ ...|-.|...|...+.++.|.
T Consensus       195 ka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkl--dP~f~dAYiNLGnV~ke~~~~d~Av  272 (966)
T KOG4626|consen  195 KAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKL--DPNFLDAYINLGNVYKEARIFDRAV  272 (966)
T ss_pred             HhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcC--CCcchHHHhhHHHHHHHHhcchHHH
Confidence            6789999999988887443   3467899999999999999999999998874  454 356888888999999999999


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 012108          225 RIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-DVFCWNAMILGLALHGYGYAALKLLGEMNDSCV  301 (471)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  301 (471)
                      ..|..+.... +.....+..+...|...|.++-|+..|++...  | -+..|+.|..++-..|+..+|.+.+.+..... 
T Consensus       273 s~Y~rAl~lr-pn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~-  350 (966)
T KOG4626|consen  273 SCYLRALNLR-PNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQPNFPDAYNNLANALKDKGSVTEAVDCYNKALRLC-  350 (966)
T ss_pred             HHHHHHHhcC-CcchhhccceEEEEeccccHHHHHHHHHHHHhcCCCchHHHhHHHHHHHhccchHHHHHHHHHHHHhC-
Confidence            9998887764 55677888888899999999999999998765  3 35789999999999999999999999988752 


Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHH
Q 012108          302 KADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGAL  379 (471)
Q Consensus       302 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l  379 (471)
                      +-.....+.|...+...|.++.|..+|.+..+  -.+--....+.|...|.+.|++++|+..+++. .+.|+ ...|+.+
T Consensus       351 p~hadam~NLgni~~E~~~~e~A~~ly~~al~--v~p~~aaa~nNLa~i~kqqgnl~~Ai~~YkealrI~P~fAda~~Nm  428 (966)
T KOG4626|consen  351 PNHADAMNNLGNIYREQGKIEEATRLYLKALE--VFPEFAAAHNNLASIYKQQGNLDDAIMCYKEALRIKPTFADALSNM  428 (966)
T ss_pred             CccHHHHHHHHHHHHHhccchHHHHHHHHHHh--hChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHhcCchHHHHHHhc
Confidence            33456788899999999999999999999987  33334677889999999999999999999987 77886 4689999


Q ss_pred             HHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcc
Q 012108          380 LSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGS  445 (471)
Q Consensus       380 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~  445 (471)
                      ...|-..|+.+.|.+.+.+++..+|. -.+.+..|+..|...|+..+|+.-+++..+..+..+++.
T Consensus       429 Gnt~ke~g~v~~A~q~y~rAI~~nPt-~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPDfpdA~  493 (966)
T KOG4626|consen  429 GNTYKEMGDVSAAIQCYTRAIQINPT-FAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPDFPDAY  493 (966)
T ss_pred             chHHHHhhhHHHHHHHHHHHHhcCcH-HHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCCCchhh
Confidence            99999999999999999999999998 788999999999999999999999999999888877654

>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=99.92  E-value=1.6e-21  Score=190.59  Aligned_cols=418  Identities=13%  Similarity=0.006  Sum_probs=284.0

Q ss_pred             HHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHHcC
Q 012108           13 FPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFASC   89 (471)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~   89 (471)
                      +......+...|+++.|...|++.++.  .|+...|..+..+|.+.|++++|+..++...+  | +...|..+..++...
T Consensus       130 ~k~~G~~~~~~~~~~~Ai~~y~~al~~--~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~a~a~~~l  207 (615)
T TIGR00990       130 LKEKGNKAYRNKDFNKAIKLYSKAIEC--KPDPVYYSNRAACHNALGDWEKVVEDTTAALELDPDYSKALNRRANAYDGL  207 (615)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHc
Confidence            334556677788888888888888765  45667788888888888888888888887664  3 445777788888888


Q ss_pred             CCHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccc
Q 012108           90 GQMDHAMKLIDLMPLKD---VTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV  166 (471)
Q Consensus        90 g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  166 (471)
                      |++++|+..|......+   ......++..+........+...++.-. ++...+..+.. +......+.+..-+.....
T Consensus       208 g~~~eA~~~~~~~~~~~~~~~~~~~~~~~~~l~~~a~~~~~~~l~~~~-~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  285 (615)
T TIGR00990       208 GKYADALLDLTASCIIDGFRNEQSAQAVERLLKKFAESKAKEILETKP-ENLPSVTFVGN-YLQSFRPKPRPAGLEDSNE  285 (615)
T ss_pred             CCHHHHHHHHHHHHHhCCCccHHHHHHHHHHHHHHHHHHHHHHHhcCC-CCCCCHHHHHH-HHHHccCCcchhhhhcccc
Confidence            88888887775543221   1111111211111111233333333221 22222222222 2221111111111222111


Q ss_pred             cCh---HHHHHHHHH---HHhcCCHHHHHHHHHHHHhCC-CCC-CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc
Q 012108          167 KNV---ITWNTMVTG---YLRSQLYIEVVDLFDEMKAGN-VKP-DYLTVTSVLSACANLGSLETGARIHVYATDNGLASN  238 (471)
Q Consensus       167 ~~~---~~~~~l~~~---~~~~~~~~~a~~~~~~m~~~g-~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  238 (471)
                      .+.   ..+..+...   ....+++++|.+.|++..+.+ ..| ....+..+...+...|++++|...++...+.. +..
T Consensus       286 ~~~~~~~~~~~l~~~~~e~~~~~~y~~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l~-P~~  364 (615)
T TIGR00990       286 LDEETGNGQLQLGLKSPESKADESYEEAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIELD-PRV  364 (615)
T ss_pred             cccccccchHHHHHHHHHhhhhhhHHHHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCc
Confidence            111   111111111   123467899999999988764 233 34456777777888999999999999998875 445


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      ...+..+...+...|++++|+..|+++..   .+..+|..+...+...|++++|+..|++..... +.+...+..+...+
T Consensus       365 ~~~~~~la~~~~~~g~~~eA~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~-P~~~~~~~~la~~~  443 (615)
T TIGR00990       365 TQSYIKRASMNLELGDPDKAEEDFDKALKLNSEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLD-PDFIFSHIQLGVTQ  443 (615)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-ccCHHHHHHHHHHH
Confidence            67888888999999999999999887544   367788889999999999999999999988763 33456677788888


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH-h-------HHHHHHHHHhhc
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTE-S-------ILGALLSACVIH  386 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~-------~~~~l~~~~~~~  386 (471)
                      .+.|++++|+..|++..+  ..+.++..++.+...+...|++++|.+.|++. ...|+. .       .++.....+...
T Consensus       444 ~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~Al~l~p~~~~~~~~~~~l~~~a~~~~~~~  521 (615)
T TIGR00990       444 YKEGSIASSMATFRRCKK--NFPEAPDVYNYYGELLLDQNKFDEAIEKFDTAIELEKETKPMYMNVLPLINKALALFQWK  521 (615)
T ss_pred             HHCCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCccccccccHHHHHHHHHHHHHHh
Confidence            999999999999999887  45556788888999999999999999999886 333321 1       112222233346


Q ss_pred             CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      |++++|..+++++++.+|. +...+..++.++.+.|++++|+++|++..+...
T Consensus       522 ~~~~eA~~~~~kAl~l~p~-~~~a~~~la~~~~~~g~~~eAi~~~e~A~~l~~  573 (615)
T TIGR00990       522 QDFIEAENLCEKALIIDPE-CDIAVATMAQLLLQQGDVDEALKLFERAAELAR  573 (615)
T ss_pred             hhHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHhc
Confidence            8999999999999999888 777889999999999999999999998876543

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

Probab=99.92  E-value=2.4e-22  Score=179.05  Aligned_cols=374  Identities=12%  Similarity=0.112  Sum_probs=319.7

Q ss_pred             chhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhH---HHHHHHH
Q 012108           44 HVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSF---NIMISGY  117 (471)
Q Consensus        44 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~---~~l~~~~  117 (471)
                      -..+|..+...+-..|++++|+.+++.+.+  | .+..|..+..++...|+.+.|...|....+-++..|   ..+...+
T Consensus       115 ~ae~ysn~aN~~kerg~~~~al~~y~~aiel~p~fida~inla~al~~~~~~~~a~~~~~~alqlnP~l~ca~s~lgnLl  194 (966)
T KOG4626|consen  115 GAEAYSNLANILKERGQLQDALALYRAAIELKPKFIDAYINLAAALVTQGDLELAVQCFFEALQLNPDLYCARSDLGNLL  194 (966)
T ss_pred             HHHHHHHHHHHHHHhchHHHHHHHHHHHHhcCchhhHHHhhHHHHHHhcCCCcccHHHHHHHHhcCcchhhhhcchhHHH
Confidence            346788899999999999999999999875  3 567899999999999999999999988876655332   3345556


Q ss_pred             HhcCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHhccccC---hHHHHHHHHHHHhcCCHHHHHHH
Q 012108          118 ARIGKIHSARYIFDKVPAKD---VVSWNSLILAYTNAGEMEKAGEMFKKMLVKN---VITWNTMVTGYLRSQLYIEVVDL  191 (471)
Q Consensus       118 ~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~  191 (471)
                      ...|++++|...+.+.++.+   ...|+.|...+-.+|++-.|+..|++.++-|   ..+|-.|...|...+.+++|...
T Consensus       195 ka~Grl~ea~~cYlkAi~~qp~fAiawsnLg~~f~~~Gei~~aiq~y~eAvkldP~f~dAYiNLGnV~ke~~~~d~Avs~  274 (966)
T KOG4626|consen  195 KAEGRLEEAKACYLKAIETQPCFAIAWSNLGCVFNAQGEIWLAIQHYEEAVKLDPNFLDAYINLGNVYKEARIFDRAVSC  274 (966)
T ss_pred             HhhcccchhHHHHHHHHhhCCceeeeehhcchHHhhcchHHHHHHHHHHhhcCCCcchHHHhhHHHHHHHHhcchHHHHH
Confidence            67899999999999986543   3688999999999999999999999995543   36788899999999999999999


Q ss_pred             HHHHHhCCCCCC-HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---
Q 012108          192 FDEMKAGNVKPD-YLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---  267 (471)
Q Consensus       192 ~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---  267 (471)
                      |.+....  .|+ ...+..+...|...|.++.|+..|++.++.. +.-+..|+.|..++-..|++.+|...|.+...   
T Consensus       275 Y~rAl~l--rpn~A~a~gNla~iYyeqG~ldlAI~~Ykral~~~-P~F~~Ay~NlanALkd~G~V~ea~~cYnkaL~l~p  351 (966)
T KOG4626|consen  275 YLRALNL--RPNHAVAHGNLACIYYEQGLLDLAIDTYKRALELQ-PNFPDAYNNLANALKDKGSVTEAVDCYNKALRLCP  351 (966)
T ss_pred             HHHHHhc--CCcchhhccceEEEEeccccHHHHHHHHHHHHhcC-CCchHHHhHHHHHHHhccchHHHHHHHHHHHHhCC
Confidence            9988764  455 4567777778889999999999999999875 55688999999999999999999999998665   


Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC-hhHHH
Q 012108          268 KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK-LEHYG  345 (471)
Q Consensus       268 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~  345 (471)
                      ....+.+.|...+...|.+++|..+|....+-  .|. ...++.|...|-++|++++|+..++++.+   +.|+ ...|+
T Consensus       352 ~hadam~NLgni~~E~~~~e~A~~ly~~al~v--~p~~aaa~nNLa~i~kqqgnl~~Ai~~Ykealr---I~P~fAda~~  426 (966)
T KOG4626|consen  352 NHADAMNNLGNIYREQGKIEEATRLYLKALEV--FPEFAAAHNNLASIYKQQGNLDDAIMCYKEALR---IKPTFADALS  426 (966)
T ss_pred             ccHHHHHHHHHHHHHhccchHHHHHHHHHHhh--ChhhhhhhhhHHHHHHhcccHHHHHHHHHHHHh---cCchHHHHHH
Confidence            35678899999999999999999999998874  555 35788899999999999999999999986   4565 78899


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          346 CMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      .+...|...|+.+.|.+.+.+. .+.|. ....+.|.+.|-..|+..+|+..++..++..|+ .+..|..++.++.-..+
T Consensus       427 NmGnt~ke~g~v~~A~q~y~rAI~~nPt~AeAhsNLasi~kDsGni~~AI~sY~~aLklkPD-fpdA~cNllh~lq~vcd  505 (966)
T KOG4626|consen  427 NMGNTYKEMGDVSAAIQCYTRAIQINPTFAEAHSNLASIYKDSGNIPEAIQSYRTALKLKPD-FPDAYCNLLHCLQIVCD  505 (966)
T ss_pred             hcchHHHHhhhHHHHHHHHHHHHhcCcHHHHHHhhHHHHhhccCCcHHHHHHHHHHHccCCC-CchhhhHHHHHHHHHhc
Confidence            9999999999999999999887 66775 568899999999999999999999999999999 89999988887766555


Q ss_pred             HHH
Q 012108          424 WEE  426 (471)
Q Consensus       424 ~~~  426 (471)
                      |.+
T Consensus       506 w~D  508 (966)
T KOG4626|consen  506 WTD  508 (966)
T ss_pred             ccc
Confidence            544

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.92  E-value=8.6e-22  Score=183.11  Aligned_cols=293  Identities=12%  Similarity=0.062  Sum_probs=193.2

Q ss_pred             HHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHHccCCh
Q 012108          147 AYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD---YLTVTSVLSACANLGSL  220 (471)
Q Consensus       147 ~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~l~~~~~~~~~~  220 (471)
                      .+...|++++|...|+++..   .+..++..+...+...|++++|..+++.+...+..++   ...+..+...+.+.|++
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            34455566666666666532   1334555566666666666666666666655321111   13345555566666666


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC--------hhhHHHHHHHHHhcCChHHHHHH
Q 012108          221 ETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD--------VFCWNAMILGLALHGYGYAALKL  292 (471)
Q Consensus       221 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--------~~~~~~l~~~~~~~~~~~~a~~~  292 (471)
                      +.|..+|+.+.+.. +.+..++..++..+.+.|++++|++.++++...+        ...+..+...+.+.|++++|...
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            66666666665543 3445566666666666666666666666544311        11345566677778888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC
Q 012108          293 LGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP  371 (471)
Q Consensus       293 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  371 (471)
                      |+++.+.. +.+...+..+...+.+.|++++|.++++++.+. +.......+..++.+|...|++++|.+.++++ ...|
T Consensus       203 ~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~-~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~~p  280 (389)
T PRK11788        203 LKKALAAD-PQCVRASILLGDLALAQGDYAAAIEALERVEEQ-DPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEEYP  280 (389)
T ss_pred             HHHHHhHC-cCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH-ChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            88887652 234556777778888888888888888888762 21122456777888888888888888888887 4567


Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh---cCCHHHHHHHHHHhhhCCCcccCc
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS---CGQWEEANRWRNMMNDTGIVKTAG  444 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~g~~~~A~~~~~~m~~~~~~~~~~  444 (471)
                      +...+..++..+.+.|++++|..+++++.+..|+  ...+..++..+..   .|+.+++..++++|.+.++.++|.
T Consensus       281 ~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~--~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        281 GADLLLALAQLLEEQEGPEAAQALLREQLRRHPS--LRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcC--HHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            7666777888888889999999999888887665  5566666666554   458888888888888877776664

>PRK11788 tetratricopeptide repeat protein; Provisional

Probab=99.90  E-value=8.1e-21  Score=176.61  Aligned_cols=290  Identities=13%  Similarity=0.076  Sum_probs=209.4

Q ss_pred             HHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhcccc-------ChHHHHHHHHHHHhcCCH
Q 012108          116 GYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKMLVK-------NVITWNTMVTGYLRSQLY  185 (471)
Q Consensus       116 ~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~  185 (471)
                      .+...|++++|...|+++..   .+..++..+...+...|++++|..+++.+...       ....+..++..|.+.|++
T Consensus        44 ~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~La~~~~~~g~~  123 (389)
T PRK11788         44 NFLLNEQPDKAIDLFIEMLKVDPETVELHLALGNLFRRRGEVDRAIRIHQNLLSRPDLTREQRLLALQELGQDYLKAGLL  123 (389)
T ss_pred             HHHhcCChHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCcHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHHHHHCCCH
Confidence            34455555556666655532   23345566666666677777777766666321       123566677777777777


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc----hhHHHHHHHHHHhcCChHHHHHH
Q 012108          186 IEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASN----PHATTALIDMYAKCGSIEQSLEV  261 (471)
Q Consensus       186 ~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~  261 (471)
                      ++|..+|+++.+.. +++..++..++..+.+.|++++|.+.++.+.+.+..+.    ...+..+...+.+.|++++|...
T Consensus       124 ~~A~~~~~~~l~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~  202 (389)
T PRK11788        124 DRAEELFLQLVDEG-DFAEGALQQLLEIYQQEKDWQKAIDVAERLEKLGGDSLRVEIAHFYCELAQQALARGDLDAARAL  202 (389)
T ss_pred             HHHHHHHHHHHcCC-cchHHHHHHHHHHHHHhchHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHhCCCHHHHHHH
Confidence            77777777777642 34556677777777777888888877777776542221    12345567777788888888888


Q ss_pred             HhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCC
Q 012108          262 FYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVT  338 (471)
Q Consensus       262 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  338 (471)
                      |+++..   .+...+..+...+.+.|++++|.+.++++...+......++..++.+|...|++++|...++++.+.   .
T Consensus       203 ~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~---~  279 (389)
T PRK11788        203 LKKALAADPQCVRASILLGDLALAQGDYAAAIEALERVEEQDPEYLSEVLPKLMECYQALGDEAEGLEFLRRALEE---Y  279 (389)
T ss_pred             HHHHHhHCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHChhhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh---C
Confidence            877654   2455677788889999999999999999887532222456788889999999999999999999872   4


Q ss_pred             CChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhh---cCCchHHHHHHHHHHHcCCCCCch
Q 012108          339 RKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALLSACVI---HQDLEIGDRVAKMVCAKSNYLSDG  409 (471)
Q Consensus       339 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~  409 (471)
                      |+...+..++..+.+.|++++|..+++++ ...|+..++..++..+..   .|+.+++..+++++.+.++.|+|.
T Consensus       280 p~~~~~~~la~~~~~~g~~~~A~~~l~~~l~~~P~~~~~~~l~~~~~~~~~~g~~~~a~~~~~~~~~~~~~~~p~  354 (389)
T PRK11788        280 PGADLLLALAQLLEEQEGPEAAQALLREQLRRHPSLRGFHRLLDYHLAEAEEGRAKESLLLLRDLVGEQLKRKPR  354 (389)
T ss_pred             CCchHHHHHHHHHHHhCCHHHHHHHHHHHHHhCcCHHHHHHHHHHhhhccCCccchhHHHHHHHHHHHHHhCCCC
Confidence            66667788999999999999999999876 567888888888877664   568999999999999877665665

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=9.3e-20  Score=177.64  Aligned_cols=344  Identities=8%  Similarity=-0.049  Sum_probs=250.3

Q ss_pred             ccCCHhHHHHHhcccCC------CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHH
Q 012108           57 SLRCIDDAFKVFEKMPE------KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSAR  127 (471)
Q Consensus        57 ~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~  127 (471)
                      ++.+++.---.|..-.+      .+..-...++..+.+.|++++|+.+++.....   +...+..++.+....|++++|.
T Consensus        17 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~A~   96 (656)
T PRK15174         17 KQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDAVL   96 (656)
T ss_pred             hhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHHHH
Confidence            45566655555554432      12334555677778888888888888777543   5566677777777888888888


Q ss_pred             HHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhccc--c-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 012108          128 YIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKMLV--K-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVK  201 (471)
Q Consensus       128 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~  201 (471)
                      ..++++..   .+...+..+...+...|++++|.+.|++...  | +...+..+...+...|++++|...++.+......
T Consensus        97 ~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~~P~  176 (656)
T PRK15174         97 QVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAFSGNSQIFALHLRTLVLMDKELQAISLARTQAQEVPP  176 (656)
T ss_pred             HHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHhCCC
Confidence            88888833   3456777778888888888888888888733  3 5667778888888888888888888877665322


Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHH
Q 012108          202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMIL  278 (471)
Q Consensus       202 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~  278 (471)
                       +...+.. +..+...|++++|...++.+.+....++......+...+...|++++|+..+++...   .+...+..+..
T Consensus       177 -~~~a~~~-~~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~p~~~~~~~~Lg~  254 (656)
T PRK15174        177 -RGDMIAT-CLSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARGLDGAALRRSLGL  254 (656)
T ss_pred             -CHHHHHH-HHHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence             2222222 234677888888888888887765334444555566778888888888888877554   35667778888


Q ss_pred             HHHhcCChHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc
Q 012108          279 GLALHGYGYA----ALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA  354 (471)
Q Consensus       279 ~~~~~~~~~~----a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  354 (471)
                      .+...|++++    |...+++..... +.+...+..+...+...|++++|...++++.+  ..+.+...+..+..++.+.
T Consensus       255 ~l~~~G~~~eA~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~--l~P~~~~a~~~La~~l~~~  331 (656)
T PRK15174        255 AYYQSGRSREAKLQAAEHWRHALQFN-SDNVRIVTLYADALIRTGQNEKAIPLLQQSLA--THPDLPYVRAMYARALRQV  331 (656)
T ss_pred             HHHHcCCchhhHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHC
Confidence            8888888885    788888888752 33556788888888899999999999998887  3344566777788888899


Q ss_pred             CCHHHHHHHHHhC-CCCCCHhH-HHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          355 RLLDRAIELIEAM-PFEPTESI-LGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       355 g~~~~A~~~~~~~-~~~p~~~~-~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      |++++|...++++ ...|+... +..+..++...|+.++|...|+++.+..|+
T Consensus       332 G~~~eA~~~l~~al~~~P~~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~  384 (656)
T PRK15174        332 GQYTAASDEFVQLAREKGVTSKWNRYAAAALLQAGKTSEAESVFEHYIQARAS  384 (656)
T ss_pred             CCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChh
Confidence            9999999998887 34565433 344566788889999999999999888877

>PRK15174 Vi polysaccharide export protein VexE; Provisional

Probab=99.90  E-value=1e-19  Score=177.36  Aligned_cols=349  Identities=9%  Similarity=-0.022  Sum_probs=281.9

Q ss_pred             HHcCCCHHHHHHHHhcCCCC------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHH
Q 012108           86 FASCGQMDHAMKLIDLMPLK------DVTSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEK  156 (471)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  156 (471)
                      +.++.+++.-.-+|....++      +......++..+.+.|++++|..+++....   .+......++.+....|++++
T Consensus        15 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~l~~~~l~~~p~~~~~l~~l~~~~l~~g~~~~   94 (656)
T PRK15174         15 LLKQEDWEGLCLYFSQHPEKVRDSAGNEQNIILFAIACLRKDETDVGLTLLSDRVLTAKNGRDLLRRWVISPLASSQPDA   94 (656)
T ss_pred             hhhhhchhhHhHHhhcccHhhhhhcccccCHHHHHHHHHhcCCcchhHHHhHHHHHhCCCchhHHHHHhhhHhhcCCHHH
Confidence            34566676666666655433      444566788889999999999999998833   355666777778888999999


Q ss_pred             HHHHHHhccc--c-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 012108          157 AGEMFKKMLV--K-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDN  233 (471)
Q Consensus       157 A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  233 (471)
                      |.+.|+++..  | +...+..+...+...|++++|...+++..+.. +.+...+..+...+...|++++|...++.+...
T Consensus        95 A~~~l~~~l~~~P~~~~a~~~la~~l~~~g~~~~Ai~~l~~Al~l~-P~~~~a~~~la~~l~~~g~~~eA~~~~~~~~~~  173 (656)
T PRK15174         95 VLQVVNKLLAVNVCQPEDVLLVASVLLKSKQYATVADLAEQAWLAF-SGNSQIFALHLRTLVLMDKELQAISLARTQAQE  173 (656)
T ss_pred             HHHHHHHHHHhCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHCCChHHHHHHHHHHHHh
Confidence            9999999933  3 56788889999999999999999999998852 334567778888999999999999999988776


Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 012108          234 GLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK----DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFI  309 (471)
Q Consensus       234 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  309 (471)
                      . +.+...+..+ ..+...|++++|+..++.+...    +...+..+...+...|++++|+..++++.... +.+...+.
T Consensus       174 ~-P~~~~a~~~~-~~l~~~g~~~eA~~~~~~~l~~~~~~~~~~~~~l~~~l~~~g~~~eA~~~~~~al~~~-p~~~~~~~  250 (656)
T PRK15174        174 V-PPRGDMIATC-LSFLNKSRLPEDHDLARALLPFFALERQESAGLAVDTLCAVGKYQEAIQTGESALARG-LDGAALRR  250 (656)
T ss_pred             C-CCCHHHHHHH-HHHHHcCCHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHH
Confidence            5 3344444444 3478899999999999886553    23344556778899999999999999999864 34567788


Q ss_pred             HHHHHHhccCcHHH----HHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 012108          310 GLLSACSHAGLVQE----GCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSAC  383 (471)
Q Consensus       310 ~l~~~~~~~~~~~~----a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  383 (471)
                      .+...+...|++++    |...|+++.+  ..+.+...+..+...+.+.|++++|...+++. ...| +...+..+..++
T Consensus       251 ~Lg~~l~~~G~~~eA~~~A~~~~~~Al~--l~P~~~~a~~~lg~~l~~~g~~~eA~~~l~~al~l~P~~~~a~~~La~~l  328 (656)
T PRK15174        251 SLGLAYYQSGRSREAKLQAAEHWRHALQ--FNSDNVRIVTLYADALIRTGQNEKAIPLLQQSLATHPDLPYVRAMYARAL  328 (656)
T ss_pred             HHHHHHHHcCCchhhHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            88999999999986    8999999987  34557888999999999999999999999988 4445 456777888999


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ...|++++|...++++.+.+|. +...+..++.++...|++++|...|++..+..+..
T Consensus       329 ~~~G~~~eA~~~l~~al~~~P~-~~~~~~~~a~al~~~G~~deA~~~l~~al~~~P~~  385 (656)
T PRK15174        329 RQVGQYTAASDEFVQLAREKGV-TSKWNRYAAAALLQAGKTSEAESVFEHYIQARASH  385 (656)
T ss_pred             HHCCCHHHHHHHHHHHHHhCcc-chHHHHHHHHHHHHCCCHHHHHHHHHHHHHhChhh
Confidence            9999999999999999999888 66666667889999999999999999998876654

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=3.5e-19  Score=177.36  Aligned_cols=190  Identities=6%  Similarity=-0.084  Sum_probs=96.2

Q ss_pred             HhcCChHHHHHHHhcCCCCC---h-hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHhccCcHH
Q 012108          250 AKCGSIEQSLEVFYKSQVKD---V-FCWNAMILGLALHGYGYAALKLLGEMNDSCVKA---DDITFIGLLSACSHAGLVQ  322 (471)
Q Consensus       250 ~~~~~~~~a~~~~~~~~~~~---~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~  322 (471)
                      ...|++++|+..|+++...+   + ..-..+..+|...|++++|+..|+++.......   .......+..++...|+++
T Consensus       248 l~~g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~  327 (765)
T PRK10049        248 LARDRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYP  327 (765)
T ss_pred             HHhhhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHH
Confidence            34455555555555544321   1 111123445555555666666555554431100   0123334444555556666


Q ss_pred             HHHHHHHHhHHhcC----------CCCC---hhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcC
Q 012108          323 EGCELFSRMEKDFG----------VTRK---LEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQ  387 (471)
Q Consensus       323 ~a~~~~~~~~~~~~----------~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g  387 (471)
                      +|.++++.+.....          -.|+   ...+..+...+...|++++|++.++++ . .+.+...+..+...+...|
T Consensus       328 eA~~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~~~P~n~~l~~~lA~l~~~~g  407 (765)
T PRK10049        328 GALTVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAYNAPGNQGLRIDYASVLQARG  407 (765)
T ss_pred             HHHHHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcC
Confidence            66666555554100          0011   122334455555666666666666655 2 2223445555555666666


Q ss_pred             CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          388 DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ++++|++.++++++..|+ +...+..++..+.+.|++++|..+++++.+..+.
T Consensus       408 ~~~~A~~~l~~al~l~Pd-~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd  459 (765)
T PRK10049        408 WPRAAENELKKAEVLEPR-NINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQ  459 (765)
T ss_pred             CHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC
Confidence            666666666666666665 5556666666666666666666666666554443

>PRK10049 pgaA outer membrane protein PgaA; Provisional

Probab=99.89  E-value=8.3e-19  Score=174.70  Aligned_cols=397  Identities=12%  Similarity=0.004  Sum_probs=304.1

Q ss_pred             CcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHH
Q 012108            9 DNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDA   85 (471)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~   85 (471)
                      ++....-.+......|+.++|.+++....... +.+...+..+...+.+.|++++|..++++...  | +...+..+..+
T Consensus        14 ~~~~~~d~~~ia~~~g~~~~A~~~~~~~~~~~-~~~a~~~~~lA~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~   92 (765)
T PRK10049         14 SNNQIADWLQIALWAGQDAEVITVYNRYRVHM-QLPARGYAAVAVAYRNLKQWQNSLTLWQKALSLEPQNDDYQRGLILT   92 (765)
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHH
Confidence            44455566778889999999999999998643 44555789999999999999999999999653  3 45677888899


Q ss_pred             HHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhhHHHHHHHHHhCCCHHHHHH
Q 012108           86 FASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPA--K-DVVSWNSLILAYTNAGEMEKAGE  159 (471)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~A~~  159 (471)
                      +...|++++|+..+++....   +.. +..+..++...|+.++|...++++.+  | +...+..+..++...+..++|.+
T Consensus        93 l~~~g~~~eA~~~l~~~l~~~P~~~~-~~~la~~l~~~g~~~~Al~~l~~al~~~P~~~~~~~~la~~l~~~~~~e~Al~  171 (765)
T PRK10049         93 LADAGQYDEALVKAKQLVSGAPDKAN-LLALAYVYKRAGRHWDELRAMTQALPRAPQTQQYPTEYVQALRNNRLSAPALG  171 (765)
T ss_pred             HHHCCCHHHHHHHHHHHHHhCCCCHH-HHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCChHHHHH
Confidence            99999999999999998654   556 88889999999999999999999944  3 45566778888889999999999


Q ss_pred             HHHhccccChH--------HHHHHHHHHH-----hcCCH---HHHHHHHHHHHhC-CCCCCHH-HHH----HHHHHHHcc
Q 012108          160 MFKKMLVKNVI--------TWNTMVTGYL-----RSQLY---IEVVDLFDEMKAG-NVKPDYL-TVT----SVLSACANL  217 (471)
Q Consensus       160 ~~~~~~~~~~~--------~~~~l~~~~~-----~~~~~---~~a~~~~~~m~~~-g~~p~~~-~~~----~l~~~~~~~  217 (471)
                      .++.... ++.        ....++....     ..+++   ++|++.++.+.+. ...|+.. .+.    ..+..+...
T Consensus       172 ~l~~~~~-~p~~~~~l~~~~~~~~~r~~~~~~~~~~~r~~~ad~Al~~~~~ll~~~~~~p~~~~~~~~a~~d~l~~Ll~~  250 (765)
T PRK10049        172 AIDDANL-TPAEKRDLEADAAAELVRLSFMPTRSEKERYAIADRALAQYDALEALWHDNPDATADYQRARIDRLGALLAR  250 (765)
T ss_pred             HHHhCCC-CHHHHHHHHHHHHHHHHHhhcccccChhHHHHHHHHHHHHHHHHHhhcccCCccchHHHHHHHHHHHHHHHh
Confidence            9998754 211        2222333322     22334   7788899988854 2233322 111    113445677


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC-------hhhHHHHHHHHHhcCChHHHH
Q 012108          218 GSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD-------VFCWNAMILGLALHGYGYAAL  290 (471)
Q Consensus       218 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~  290 (471)
                      |+.++|...|+.+.+.+.+........+..+|...|++++|+..|+++...+       ......+..++...|++++|.
T Consensus       251 g~~~eA~~~~~~ll~~~~~~P~~a~~~la~~yl~~g~~e~A~~~l~~~l~~~p~~~~~~~~~~~~L~~a~~~~g~~~eA~  330 (765)
T PRK10049        251 DRYKDVISEYQRLKAEGQIIPPWAQRWVASAYLKLHQPEKAQSILTELFYHPETIADLSDEELADLFYSLLESENYPGAL  330 (765)
T ss_pred             hhHHHHHHHHHHhhccCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhcCCCCCCCChHHHHHHHHHHHhcccHHHHH
Confidence            9999999999999887632122233336789999999999999999865532       234566777889999999999


Q ss_pred             HHHHHHHhCCC-----------CCCH---HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC
Q 012108          291 KLLGEMNDSCV-----------KADD---ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL  356 (471)
Q Consensus       291 ~~~~~~~~~~~-----------~p~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  356 (471)
                      .+++.+.....           .|+.   ..+..+...+...|+.++|++.++++..  ..+.+...+..+...+...|+
T Consensus       331 ~~l~~~~~~~P~~~~~~~~~~~~p~~~~~~a~~~~a~~l~~~g~~~eA~~~l~~al~--~~P~n~~l~~~lA~l~~~~g~  408 (765)
T PRK10049        331 TVTAHTINNSPPFLRLYGSPTSIPNDDWLQGQSLLSQVAKYSNDLPQAEMRARELAY--NAPGNQGLRIDYASVLQARGW  408 (765)
T ss_pred             HHHHHHhhcCCceEeecCCCCCCCCchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCC
Confidence            99999987521           1232   2455677788899999999999999987  566678899999999999999


Q ss_pred             HHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhH
Q 012108          357 LDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGEL  411 (471)
Q Consensus       357 ~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  411 (471)
                      +++|++.+++. ...|+ ...+..++..+...|++++|+.+++++++..|+ ++.+.
T Consensus       409 ~~~A~~~l~~al~l~Pd~~~l~~~~a~~al~~~~~~~A~~~~~~ll~~~Pd-~~~~~  464 (765)
T PRK10049        409 PRAAENELKKAEVLEPRNINLEVEQAWTALDLQEWRQMDVLTDDVVAREPQ-DPGVQ  464 (765)
T ss_pred             HHHHHHHHHHHHhhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCC-CHHHH
Confidence            99999999988 45565 567777778889999999999999999999998 65433

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.89  E-value=3.2e-18  Score=170.82  Aligned_cols=422  Identities=10%  Similarity=0.020  Sum_probs=309.2

Q ss_pred             cccHHHH-HHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhc-cCCHhHHHHHhcccCCCCcccHHHHHHHHH
Q 012108           10 NYSFPLL-LKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGS-LRCIDDAFKVFEKMPEKDIIAWNSMLDAFA   87 (471)
Q Consensus        10 ~~~~~~l-l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~~~~~~~~~li~~~~   87 (471)
                      +...... .+.|...|++++|..++.++.+.++ .+......+...|.. .++ +++..+++...+.++..+..+...+.
T Consensus       181 ~~vL~L~~~rlY~~l~dw~~Ai~lL~~L~k~~p-l~~~~~~~L~~ay~q~l~~-~~a~al~~~~lk~d~~l~~ala~~yi  258 (987)
T PRK09782        181 GKTLRTDLLQRAIYLKQWSQADTLYNEARQQNT-LSAAERRQWFDVLLAGQLD-DRLLALQSQGIFTDPQSRITYATALA  258 (987)
T ss_pred             cHHHHHHHHHHHHHHhCHHHHHHHHHHHHhcCC-CCHHHHHHHHHHHHHhhCH-HHHHHHhchhcccCHHHHHHHHHHHH
Confidence            4434444 7889999999999999999999873 455557777778887 466 88888877655568888999999999


Q ss_pred             cCCCHHHHHHHHhcCCCC-----Chh------------------------------hHHHHHHHHHhcCCHHHHHHHHhh
Q 012108           88 SCGQMDHAMKLIDLMPLK-----DVT------------------------------SFNIMISGYARIGKIHSARYIFDK  132 (471)
Q Consensus        88 ~~g~~~~A~~~~~~~~~~-----~~~------------------------------~~~~l~~~~~~~g~~~~a~~~~~~  132 (471)
                      +.|+.++|.++++++...     +..                              .....+..+.+.++++.++++...
T Consensus       259 ~~G~~~~A~~~L~~~~~~~~~~~~~~~~~~~l~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  338 (987)
T PRK09782        259 YRGEKARLQHYLIENKPLFTTDAQEKSWLYLLSKYSANPVQALANYTVQFADNRQYVVGATLPVLLKEGQYDAAQKLLAT  338 (987)
T ss_pred             HCCCHHHHHHHHHhCcccccCCCccHHHHHHHHhccCchhhhccchhhhhHHHHHHHHHHHHHHHHhccHHHHHHHHhcC
Confidence            999999999999888622     111                              111225556677777766666432


Q ss_pred             cC--------------------------------CCChhhHHHHHHHHHhCCCHHHHHHHHHhccc-c-----ChHHHHH
Q 012108          133 VP--------------------------------AKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV-K-----NVITWNT  174 (471)
Q Consensus       133 ~~--------------------------------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~-----~~~~~~~  174 (471)
                      -+                                +.+......+.-...+.|+.++|.++|+.... +     +....+.
T Consensus       339 ~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~y~~~~~~~~~l~q~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~  418 (987)
T PRK09782        339 LPANEMLEERYAVSVATRNKAEALRLARLLYQQEPANLTRLDQLTWQLMQNGQSREAADLLLQRYPFQGDARLSQTLMAR  418 (987)
T ss_pred             CCcchHHHHHHhhccccCchhHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcccHHHHHHHHHHhcCCCcccccCHHHHHH
Confidence            20                                11222223333345678889999999988843 2     2334556


Q ss_pred             HHHHHHhcCC---HHHHHHH----------------------HHHHHhC-CC-CC--CHHHHHHHHHHHHccCChHHHHH
Q 012108          175 MVTGYLRSQL---YIEVVDL----------------------FDEMKAG-NV-KP--DYLTVTSVLSACANLGSLETGAR  225 (471)
Q Consensus       175 l~~~~~~~~~---~~~a~~~----------------------~~~m~~~-g~-~p--~~~~~~~l~~~~~~~~~~~~a~~  225 (471)
                      ++..|.+.+.   ..++..+                      ++..... +. ++  +...|..+..++.. ++.++|..
T Consensus       419 l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~al~~~p~~~~~~a~~~LG~~l~~-~~~~eAi~  497 (987)
T PRK09782        419 LASLLESHPYLATPAKVAILSKPLPLAEQRQWQSQLPGIADNCPAIVRLLGDMSPSYDAAAWNRLAKCYRD-TLPGVALY  497 (987)
T ss_pred             HHHHHHhCCcccchHHHHHhccccccchhHHHHhhhhhhhhhHHHHHHhcccCCCCCCHHHHHHHHHHHHh-CCcHHHHH
Confidence            7777777665   3333332                      1111111 11 23  45566666666665 78888999


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 012108          226 IHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKA  303 (471)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  303 (471)
                      .+.......  |+......+...+...|++++|+..|+++..  ++...+..+...+.+.|++++|...+++..+.+ ++
T Consensus       498 a~~~Al~~~--Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~~p~~~a~~~la~all~~Gd~~eA~~~l~qAL~l~-P~  574 (987)
T PRK09782        498 AWLQAEQRQ--PDAWQHRAVAYQAYQVEDYATALAAWQKISLHDMSNEDLLAAANTAQAAGNGAARDRWLQQAEQRG-LG  574 (987)
T ss_pred             HHHHHHHhC--CchHHHHHHHHHHHHCCCHHHHHHHHHHHhccCCCcHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-Cc
Confidence            888877664  5554444556666789999999999987654  344556777888899999999999999998764 22


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHH
Q 012108          304 DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLS  381 (471)
Q Consensus       304 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  381 (471)
                      +...+..+.......|++++|...+++..+   ..|+...+..+..++.+.|++++|...+++. ...| +...+..+..
T Consensus       575 ~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~---l~P~~~a~~~LA~~l~~lG~~deA~~~l~~AL~l~Pd~~~a~~nLG~  651 (987)
T PRK09782        575 DNALYWWLHAQRYIPGQPELALNDLTRSLN---IAPSANAYVARATIYRQRHNVPAAVSDLRAALELEPNNSNYQAALGY  651 (987)
T ss_pred             cHHHHHHHHHHHHhCCCHHHHHHHHHHHHH---hCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            333344444455567999999999999987   3457888999999999999999999999988 4455 5667888888


Q ss_pred             HHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ++...|++++|+..++++++..|. ++..+..++.++...|++++|...+++..+..+..
T Consensus       652 aL~~~G~~eeAi~~l~~AL~l~P~-~~~a~~nLA~al~~lGd~~eA~~~l~~Al~l~P~~  710 (987)
T PRK09782        652 ALWDSGDIAQSREMLERAHKGLPD-DPALIRQLAYVNQRLDDMAATQHYARLVIDDIDNQ  710 (987)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCC
Confidence            999999999999999999999999 99999999999999999999999999998877643

>PRK09782 bacteriophage N4 receptor, outer membrane subunit; Provisional

Probab=99.87  E-value=9.3e-18  Score=167.50  Aligned_cols=199  Identities=8%  Similarity=-0.026  Sum_probs=157.3

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHH--HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          238 NPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAM--ILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       238 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l--~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      +...+..+..++.. ++.++|+..+.+.....+..+..+  ...+...|++++|...|+++...  +|+...+..+..++
T Consensus       476 ~~~a~~~LG~~l~~-~~~~eAi~a~~~Al~~~Pd~~~~L~lA~al~~~Gr~eeAi~~~rka~~~--~p~~~a~~~la~al  552 (987)
T PRK09782        476 DAAAWNRLAKCYRD-TLPGVALYAWLQAEQRQPDAWQHRAVAYQAYQVEDYATALAAWQKISLH--DMSNEDLLAAANTA  552 (987)
T ss_pred             CHHHHHHHHHHHHh-CCcHHHHHHHHHHHHhCCchHHHHHHHHHHHHCCCHHHHHHHHHHHhcc--CCCcHHHHHHHHHH
Confidence            56667777777766 778888887766444222233344  44456899999999999997664  45555666777888


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDR  394 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~  394 (471)
                      .+.|+.++|...++.+.+  ..+++...+..+.....+.|++++|...+++. ...|+...+..+..++.+.|++++|+.
T Consensus       553 l~~Gd~~eA~~~l~qAL~--l~P~~~~l~~~La~~l~~~Gr~~eAl~~~~~AL~l~P~~~a~~~LA~~l~~lG~~deA~~  630 (987)
T PRK09782        553 QAAGNGAARDRWLQQAEQ--RGLGDNALYWWLHAQRYIPGQPELALNDLTRSLNIAPSANAYVARATIYRQRHNVPAAVS  630 (987)
T ss_pred             HHCCCHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHCCCHHHHHH
Confidence            899999999999999987  22334444444444555669999999999988 567888899999999999999999999


Q ss_pred             HHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          395 VAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       395 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      .++++++..|. ++..+..++.++...|++++|+..+++..+..+..+
T Consensus       631 ~l~~AL~l~Pd-~~~a~~nLG~aL~~~G~~eeAi~~l~~AL~l~P~~~  677 (987)
T PRK09782        631 DLRAALELEPN-NSNYQAALGYALWDSGDIAQSREMLERAHKGLPDDP  677 (987)
T ss_pred             HHHHHHHhCCC-CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCH
Confidence            99999999999 999999999999999999999999999988776544

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.87  E-value=3.2e-17  Score=160.43  Aligned_cols=421  Identities=11%  Similarity=0.004  Sum_probs=306.1

Q ss_pred             HHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHH-HH--HHHHHcCCCHHHH
Q 012108           19 AAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWN-SM--LDAFASCGQMDHA   95 (471)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~-~l--i~~~~~~g~~~~A   95 (471)
                      ...+.|+++.|...+.+.++..+.....++ .++..+...|+.++|+..+++...|+...+. .+  ...+...|++++|
T Consensus        43 i~~r~Gd~~~Al~~L~qaL~~~P~~~~av~-dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~A  121 (822)
T PRK14574         43 IRARAGDTAPVLDYLQEESKAGPLQSGQVD-DWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQA  121 (822)
T ss_pred             HHHhCCCHHHHHHHHHHHHhhCccchhhHH-HHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHH
Confidence            355889999999999999987633222344 8888888999999999999999877554443 33  4577888999999


Q ss_pred             HHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCCh--hhHHHHHHHHHhCCCHHHHHHHHHhccc--c-
Q 012108           96 MKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPAKDV--VSWNSLILAYTNAGEMEKAGEMFKKMLV--K-  167 (471)
Q Consensus        96 ~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-  167 (471)
                      +++|+++.+.   ++..+..++..+...++.++|++.++++.+.++  ..+..++..+...++..+|++.++++..  | 
T Consensus       122 iely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~P~  201 (822)
T PRK14574        122 LALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLAPT  201 (822)
T ss_pred             HHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhCCC
Confidence            9999999755   667777888899999999999999999976544  3444444444446667669999999933  4 


Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH------HHHHHHHH-H----ccCCh---HHHHHHHHHHHHc
Q 012108          168 NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLT------VTSVLSAC-A----NLGSL---ETGARIHVYATDN  233 (471)
Q Consensus       168 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~------~~~l~~~~-~----~~~~~---~~a~~~~~~~~~~  233 (471)
                      +...+..+..++.+.|-...|+++..+-... ..+...-      ....++.- .    ...++   +.|..-++.+...
T Consensus       202 n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~~~  280 (822)
T PRK14574        202 SEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLLTR  280 (822)
T ss_pred             CHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHHhh
Confidence            5677788888999999999998876653321 1111111      11111111 0    11223   3344445554442


Q ss_pred             -CC-CCchh----HHHHHHHHHHhcCChHHHHHHHhcCCCC----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC---
Q 012108          234 -GL-ASNPH----ATTALIDMYAKCGSIEQSLEVFYKSQVK----DVFCWNAMILGLALHGYGYAALKLLGEMNDSC---  300 (471)
Q Consensus       234 -~~-~~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---  300 (471)
                       +- |+...    ...-.+-++...|+..++++.|+.+..+    ...+-..+..+|...+++++|..++..+....   
T Consensus       281 ~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~~~  360 (822)
T PRK14574        281 WGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDGKT  360 (822)
T ss_pred             ccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccccc
Confidence             11 22211    2223455677889999999999998853    34566778899999999999999999986642   


Q ss_pred             --CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC----------CCC---hhHHHHHHHHHhhcCCHHHHHHHHH
Q 012108          301 --VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGV----------TRK---LEHYGCMVDLLGRARLLDRAIELIE  365 (471)
Q Consensus       301 --~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------~~~---~~~~~~l~~~~~~~g~~~~A~~~~~  365 (471)
                        ..++......|..++...+++++|..+++++.+....          .|+   ...+..++..+...|++.+|++.++
T Consensus       361 ~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~le  440 (822)
T PRK14574        361 FRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKKLE  440 (822)
T ss_pred             cCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence              1223344577889999999999999999999872110          122   2334556777889999999999999


Q ss_pred             hC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          366 AM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       366 ~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ++  .-+-|......+...+...|.+.+|+..++.+....|+ +..+....+.++...|+|.+|..+.+.+....+...
T Consensus       441 ~l~~~aP~n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~-~~~~~~~~~~~al~l~e~~~A~~~~~~l~~~~Pe~~  518 (822)
T PRK14574        441 DLSSTAPANQNLRIALASIYLARDLPRKAEQELKAVESLAPR-SLILERAQAETAMALQEWHQMELLTDDVISRSPEDI  518 (822)
T ss_pred             HHHHhCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCc-cHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhCCCch
Confidence            98  33447788889999999999999999999999999999 899999999999999999999988877766655443

>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=99.86  E-value=1.5e-17  Score=162.85  Aligned_cols=393  Identities=11%  Similarity=-0.005  Sum_probs=279.2

Q ss_pred             CCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCC---CcccHHH
Q 012108            5 GVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEK---DIIAWNS   81 (471)
Q Consensus         5 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~   81 (471)
                      .+.|+...|..+..++...|++++|.+.++..++.. +.+..++..+..+|...|++++|+.-|......   +......
T Consensus       155 ~~~p~~~~~~n~a~~~~~l~~~~~Ai~~~~~al~l~-p~~~~a~~~~a~a~~~lg~~~eA~~~~~~~~~~~~~~~~~~~~  233 (615)
T TIGR00990       155 ECKPDPVYYSNRAACHNALGDWEKVVEDTTAALELD-PDYSKALNRRANAYDGLGKYADALLDLTASCIIDGFRNEQSAQ  233 (615)
T ss_pred             hcCCchHHHHHHHHHHHHhCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCccHHHHH
Confidence            356788889999999999999999999999999875 346678888999999999999999887654321   1111112


Q ss_pred             HHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCCh---hhHHHHHHHH---HhCCCHH
Q 012108           82 MLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDV---VSWNSLILAY---TNAGEME  155 (471)
Q Consensus        82 li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~---~~~~~l~~~~---~~~~~~~  155 (471)
                      ++..+........+...++.-.. +...+..+.. +...........-+....+.+.   ..+..+...+   ...++++
T Consensus       234 ~~~~~l~~~a~~~~~~~l~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~e~~~~~~y~  311 (615)
T TIGR00990       234 AVERLLKKFAESKAKEILETKPE-NLPSVTFVGN-YLQSFRPKPRPAGLEDSNELDEETGNGQLQLGLKSPESKADESYE  311 (615)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCC-CCCCHHHHHH-HHHHccCCcchhhhhcccccccccccchHHHHHHHHHhhhhhhHH
Confidence            22211111122334444433222 2223333322 2222222222222222222111   1111111111   2347899


Q ss_pred             HHHHHHHhcccc------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHccCChHHHHHHHH
Q 012108          156 KAGEMFKKMLVK------NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD-YLTVTSVLSACANLGSLETGARIHV  228 (471)
Q Consensus       156 ~A~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~  228 (471)
                      +|.+.|++....      ....|+.+...+...|++++|+..|++.++.  .|+ ...|..+...+...|++++|...++
T Consensus       312 ~A~~~~~~al~~~~~~~~~a~a~~~lg~~~~~~g~~~eA~~~~~kal~l--~P~~~~~~~~la~~~~~~g~~~eA~~~~~  389 (615)
T TIGR00990       312 EAARAFEKALDLGKLGEKEAIALNLRGTFKCLKGKHLEALADLSKSIEL--DPRVTQSYIKRASMNLELGDPDKAEEDFD  389 (615)
T ss_pred             HHHHHHHHHHhcCCCChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCcHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            999999988532      4467888888999999999999999999875  454 5577788888899999999999999


Q ss_pred             HHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH
Q 012108          229 YATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD  305 (471)
Q Consensus       229 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~  305 (471)
                      .+.+.. +.+..++..+...+...|++++|+..|++...   .+...+..+...+.+.|++++|+..|++.... .+.+.
T Consensus       390 ~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~kal~l~P~~~~~~~~la~~~~~~g~~~eA~~~~~~al~~-~P~~~  467 (615)
T TIGR00990       390 KALKLN-SEDPDIYYHRAQLHFIKGEFAQAGKDYQKSIDLDPDFIFSHIQLGVTQYKEGSIASSMATFRRCKKN-FPEAP  467 (615)
T ss_pred             HHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCh
Confidence            998875 66788999999999999999999999988654   35677888889999999999999999999875 23356


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCCh------hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKL------EHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILG  377 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~  377 (471)
                      ..+..+...+...|++++|.+.|++..+. .-..+.      ..++.....+...|++++|.+++++. ...|+ ...+.
T Consensus       468 ~~~~~lg~~~~~~g~~~~A~~~~~~Al~l-~p~~~~~~~~~~~l~~~a~~~~~~~~~~~eA~~~~~kAl~l~p~~~~a~~  546 (615)
T TIGR00990       468 DVYNYYGELLLDQNKFDEAIEKFDTAIEL-EKETKPMYMNVLPLINKALALFQWKQDFIEAENLCEKALIIDPECDIAVA  546 (615)
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHhc-CCccccccccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCcHHHHH
Confidence            78888999999999999999999998872 111111      11222233344579999999999986 55554 45788


Q ss_pred             HHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          378 ALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       378 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+...+...|++++|.+.|+++.+..+.
T Consensus       547 ~la~~~~~~g~~~eAi~~~e~A~~l~~~  574 (615)
T TIGR00990       547 TMAQLLLQQGDVDEALKLFERAAELART  574 (615)
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHHhcc
Confidence            8999999999999999999999988765

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

Probab=99.84  E-value=2.5e-17  Score=154.77  Aligned_cols=433  Identities=11%  Similarity=0.042  Sum_probs=324.7

Q ss_pred             CCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCc--hhHHHHHHHHHhccCCHhHHHHHhcccCC--CCc--ccHH
Q 012108            7 HADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGH--VYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDI--IAWN   80 (471)
Q Consensus         7 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~--~~~~   80 (471)
                      +-|++..+.|.+.+.-.|+++.+..+.+-+......-.  ...|-.+.++|...|++++|...|....+  ++.  ..+-
T Consensus       267 ~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s~k~~~d~~~l~~~  346 (1018)
T KOG2002|consen  267 NENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMESLKADNDNFVLPLV  346 (1018)
T ss_pred             CCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHccCCCCcccccc
Confidence            34667888888888899999999999998887652211  23477788999999999999999988765  333  3455


Q ss_pred             HHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcC----CHHHHHHHHhhcCCC---ChhhHHHHHHHHHh
Q 012108           81 SMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIG----KIHSARYIFDKVPAK---DVVSWNSLILAYTN  150 (471)
Q Consensus        81 ~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g----~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~  150 (471)
                      -+...+.+.|+++.+.-.|+.+.+.   +..+...+...|+..+    ..+.|..++.+..++   |...|..+...+-.
T Consensus       347 GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~~~d~~a~l~laql~e~  426 (1018)
T KOG2002|consen  347 GLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQTPVDSEAWLELAQLLEQ  426 (1018)
T ss_pred             chhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHh
Confidence            6788999999999999999988654   5667777777777775    567788888887554   45566666655554


Q ss_pred             CCCHHHHHHHHHhc--------cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CCCCCH------HHHHHHHHH
Q 012108          151 AGEMEKAGEMFKKM--------LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAG---NVKPDY------LTVTSVLSA  213 (471)
Q Consensus       151 ~~~~~~A~~~~~~~--------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---g~~p~~------~~~~~l~~~  213 (471)
                      .+-+ .++..|...        ...-+...|.+.......|++..|...|...+..   ...+|.      .+-..+...
T Consensus       427 ~d~~-~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~~~~~lt~~YNlarl  505 (1018)
T KOG2002|consen  427 TDPW-ASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEGKSTNLTLKYNLARL  505 (1018)
T ss_pred             cChH-HHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCccccccchhHHHHHHHHH
Confidence            4433 335555443        2346788999999999999999999999988654   122333      122335556


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHH
Q 012108          214 CANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAAL  290 (471)
Q Consensus       214 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~  290 (471)
                      .-..++.+.|.+.|..+.+.. |.-+..|..++-.....+...+|...+..+..   .++..++.+...+.+...+..|.
T Consensus       506 ~E~l~~~~~A~e~Yk~Ilkeh-p~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~~d~~np~arsl~G~~~l~k~~~~~a~  584 (1018)
T KOG2002|consen  506 LEELHDTEVAEEMYKSILKEH-PGYIDAYLRLGCMARDKNNLYEASLLLKDALNIDSSNPNARSLLGNLHLKKSEWKPAK  584 (1018)
T ss_pred             HHhhhhhhHHHHHHHHHHHHC-chhHHHHHHhhHHHHhccCcHHHHHHHHHHHhcccCCcHHHHHHHHHHHhhhhhcccc
Confidence            667889999999999998864 33344444444334445778889888887655   57788888888999999999999


Q ss_pred             HHHHHHHhCC-CCCCHHHHHHHHHHHhc------------cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCH
Q 012108          291 KLLGEMNDSC-VKADDITFIGLLSACSH------------AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL  357 (471)
Q Consensus       291 ~~~~~~~~~~-~~p~~~~~~~l~~~~~~------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  357 (471)
                      +-|....+.- ..+|..+...|.+.|.+            .+..++|+++|.++.+  ..+.|...-|-+.-+++..|++
T Consensus       585 k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~--~dpkN~yAANGIgiVLA~kg~~  662 (1018)
T KOG2002|consen  585 KKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLR--NDPKNMYAANGIGIVLAEKGRF  662 (1018)
T ss_pred             cHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHh--cCcchhhhccchhhhhhhccCc
Confidence            8777766542 23566666667775543            2457889999999987  5677888889999999999999


Q ss_pred             HHHHHHHHhCC--CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC-CCCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          358 DRAIELIEAMP--FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS-NYLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       358 ~~A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      .+|..+|.+..  ......+|..+..+|...|++..|++.|+...+.. +.-++.+...|++++.+.|.+.+|.+.....
T Consensus       663 ~~A~dIFsqVrEa~~~~~dv~lNlah~~~e~~qy~~AIqmYe~~lkkf~~~~~~~vl~~Lara~y~~~~~~eak~~ll~a  742 (1018)
T KOG2002|consen  663 SEARDIFSQVREATSDFEDVWLNLAHCYVEQGQYRLAIQMYENCLKKFYKKNRSEVLHYLARAWYEAGKLQEAKEALLKA  742 (1018)
T ss_pred             hHHHHHHHHHHHHHhhCCceeeeHHHHHHHHHHHHHHHHHHHHHHHHhcccCCHHHHHHHHHHHHHhhhHHHHHHHHHHH
Confidence            99999999882  23456789999999999999999999999887653 4436888999999999999999999999888


Q ss_pred             hhCCCcccC
Q 012108          435 NDTGIVKTA  443 (471)
Q Consensus       435 ~~~~~~~~~  443 (471)
                      ....+..+.
T Consensus       743 ~~~~p~~~~  751 (1018)
T KOG2002|consen  743 RHLAPSNTS  751 (1018)
T ss_pred             HHhCCccch
Confidence            776665443

>PRK14574 hmsH outer membrane protein; Provisional

Probab=99.82  E-value=1.5e-15  Score=148.91  Aligned_cols=386  Identities=11%  Similarity=0.057  Sum_probs=281.8

Q ss_pred             HHHHhccCCHhHHHHHhcccCC--CCcc-cHHHHHHHHHcCCCHHHHHHHHhcCCCC-ChhhHHHH--HHHHHhcCCHHH
Q 012108           52 LKMYGSLRCIDDAFKVFEKMPE--KDII-AWNSMLDAFASCGQMDHAMKLIDLMPLK-DVTSFNIM--ISGYARIGKIHS  125 (471)
Q Consensus        52 ~~~~~~~g~~~~A~~~~~~~~~--~~~~-~~~~li~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~l--~~~~~~~g~~~~  125 (471)
                      +-...+.|+++.|+..|++..+  |+.. ....++..+...|+.++|+..+++...+ +...+..+  +..+...|++++
T Consensus        41 aii~~r~Gd~~~Al~~L~qaL~~~P~~~~av~dll~l~~~~G~~~~A~~~~eka~~p~n~~~~~llalA~ly~~~gdyd~  120 (822)
T PRK14574         41 LIIRARAGDTAPVLDYLQEESKAGPLQSGQVDDWLQIAGWAGRDQEVIDVYERYQSSMNISSRGLASAARAYRNEKRWDQ  120 (822)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHhhCccchhhHHHHHHHHHHcCCcHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHH
Confidence            3445688999999999999886  4321 2338888889999999999999999866 33334444  668888999999


Q ss_pred             HHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHh--cCCHHHHHHHHHHHHhCCC
Q 012108          126 ARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLR--SQLYIEVVDLFDEMKAGNV  200 (471)
Q Consensus       126 a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~--~~~~~~a~~~~~~m~~~g~  200 (471)
                      |.++|+++.+   .++..+..++..+...++.++|++.++++.+.++.....++.++..  .++..+|++.++++.+.. 
T Consensus       121 Aiely~kaL~~dP~n~~~l~gLa~~y~~~~q~~eAl~~l~~l~~~dp~~~~~l~layL~~~~~~~~~AL~~~ekll~~~-  199 (822)
T PRK14574        121 ALALWQSSLKKDPTNPDLISGMIMTQADAGRGGVVLKQATELAERDPTVQNYMTLSYLNRATDRNYDALQASSEAVRLA-  199 (822)
T ss_pred             HHHHHHHHHhhCCCCHHHHHHHHHHHhhcCCHHHHHHHHHHhcccCcchHHHHHHHHHHHhcchHHHHHHHHHHHHHhC-
Confidence            9999999954   3466777888899999999999999999965544333334444444  566666999999999874 


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhH------HHHHHHHH---H--hcCC---hHHHHHHHhcCC
Q 012108          201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHA------TTALIDMY---A--KCGS---IEQSLEVFYKSQ  266 (471)
Q Consensus       201 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~------~~~l~~~~---~--~~~~---~~~a~~~~~~~~  266 (471)
                      +-+...+..+..++.+.|-...|.++..+-.+. +.+....      ...+++.-   .  ...+   .+.|+.-++.+.
T Consensus       200 P~n~e~~~~~~~~l~~~~~~~~a~~l~~~~p~~-f~~~~~~~l~~~~~a~~vr~a~~~~~~~~~r~~~~d~ala~~~~l~  278 (822)
T PRK14574        200 PTSEEVLKNHLEILQRNRIVEPALRLAKENPNL-VSAEHYRQLERDAAAEQVRMAVLPTRSETERFDIADKALADYQNLL  278 (822)
T ss_pred             CCCHHHHHHHHHHHHHcCCcHHHHHHHHhCccc-cCHHHHHHHHHHHHHHHHhhcccccccchhhHHHHHHHHHHHHHHH
Confidence            335666777888889999988888776643211 1111100      01111100   0  1111   233444444433


Q ss_pred             C-----CCh-hh----HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcC
Q 012108          267 V-----KDV-FC----WNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFG  336 (471)
Q Consensus       267 ~-----~~~-~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  336 (471)
                      .     |.. ..    ..-.+-++...|++.++++.|+.+...|.+....+-..+..+|...+++++|+.+++.+....+
T Consensus       279 ~~~~~~p~~~~~~~~~~~Drl~aL~~r~r~~~vi~~y~~l~~~~~~~P~y~~~a~adayl~~~~P~kA~~l~~~~~~~~~  358 (822)
T PRK14574        279 TRWGKDPEAQADYQRARIDRLGALLVRHQTADLIKEYEAMEAEGYKMPDYARRWAASAYIDRRLPEKAAPILSSLYYSDG  358 (822)
T ss_pred             hhccCCCccchHHHHHHHHHHHHHHHhhhHHHHHHHHHHhhhcCCCCCHHHHHHHHHHHHhcCCcHHHHHHHHHHhhccc
Confidence            2     211 11    2234567888999999999999999988765667888899999999999999999999977322


Q ss_pred             ----CCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCC-CC---------------CH-hHHHHHHHHHhhcCCchHHHHH
Q 012108          337 ----VTRKLEHYGCMVDLLGRARLLDRAIELIEAMPF-EP---------------TE-SILGALLSACVIHQDLEIGDRV  395 (471)
Q Consensus       337 ----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~p---------------~~-~~~~~l~~~~~~~g~~~~a~~~  395 (471)
                          .+++......|.-+|...+++++|..+++++.- .|               |- ..+..++..+...|++.+|++.
T Consensus       359 ~~~~~~~~~~~~~~L~yA~ld~e~~~~A~~~l~~~~~~~p~~~~~~~~~~~~pn~d~~~~~~l~a~~~~~~gdl~~Ae~~  438 (822)
T PRK14574        359 KTFRNSDDLLDADDLYYSLNESEQLDKAYQFAVNYSEQTPYQVGVYGLPGKEPNDDWIEGQTLLVQSLVALNDLPTAQKK  438 (822)
T ss_pred             cccCCCcchHHHHHHHHHHHhcccHHHHHHHHHHHHhcCCcEEeccCCCCCCCCccHHHHHHHHHHHHHHcCCHHHHHHH
Confidence                123444457888999999999999999998821 22               21 2344566778899999999999


Q ss_pred             HHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          396 AKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ++++....|. |+.....++..+...|.+.+|...++......+.
T Consensus       439 le~l~~~aP~-n~~l~~~~A~v~~~Rg~p~~A~~~~k~a~~l~P~  482 (822)
T PRK14574        439 LEDLSSTAPA-NQNLRIALASIYLARDLPRKAEQELKAVESLAPR  482 (822)
T ss_pred             HHHHHHhCCC-CHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhCCc
Confidence            9999999999 9999999999999999999999999887766544

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

Probab=99.78  E-value=7.4e-14  Score=126.30  Aligned_cols=423  Identities=11%  Similarity=0.029  Sum_probs=308.7

Q ss_pred             HHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccC-----------------------
Q 012108           16 LLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMP-----------------------   72 (471)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----------------------   72 (471)
                      |.-++++...++.|..++....+. ++-+..+|.+-...--..|+.+...+++.+..                       
T Consensus       412 LwlAlarLetYenAkkvLNkaRe~-iptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e  490 (913)
T KOG0495|consen  412 LWLALARLETYENAKKVLNKAREI-IPTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACE  490 (913)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhh-CCCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHh
Confidence            444566666677777777776655 45566666666665566666666666655432                       


Q ss_pred             ----------------C------CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHH
Q 012108           73 ----------------E------KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSAR  127 (471)
Q Consensus        73 ----------------~------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~  127 (471)
                                      .      .-..+|..-...|.+.+.++-|..+|....+-   +...|...+..--..|..+...
T Consensus       491 ~agsv~TcQAIi~avigigvEeed~~~tw~~da~~~~k~~~~~carAVya~alqvfp~k~slWlra~~~ek~hgt~Esl~  570 (913)
T KOG0495|consen  491 DAGSVITCQAIIRAVIGIGVEEEDRKSTWLDDAQSCEKRPAIECARAVYAHALQVFPCKKSLWLRAAMFEKSHGTRESLE  570 (913)
T ss_pred             hcCChhhHHHHHHHHHhhccccchhHhHHhhhHHHHHhcchHHHHHHHHHHHHhhccchhHHHHHHHHHHHhcCcHHHHH
Confidence                            0      01124444445555555555555555555433   3344555555555566777777


Q ss_pred             HHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhcc---ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 012108          128 YIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKML---VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVK  201 (471)
Q Consensus       128 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~  201 (471)
                      .+|+++..   .....|.....-+...|++..|+.++....   ..+...|-.-+.....+.+++.|..+|.+....  .
T Consensus       571 Allqkav~~~pkae~lwlM~ake~w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--s  648 (913)
T KOG0495|consen  571 ALLQKAVEQCPKAEILWLMYAKEKWKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--S  648 (913)
T ss_pred             HHHHHHHHhCCcchhHHHHHHHHHHhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--C
Confidence            77777632   344556666677777888888888888873   235667877888888888888888888887663  5


Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-ChhhHHHHHH
Q 012108          202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-DVFCWNAMIL  278 (471)
Q Consensus       202 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~  278 (471)
                      |+...|.--+..---.++.++|.+++++.++.- +.-...|..+.+.+-+.++++.|.+.|....+  | .+..|-.|..
T Consensus       649 gTeRv~mKs~~~er~ld~~eeA~rllEe~lk~f-p~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLak  727 (913)
T KOG0495|consen  649 GTERVWMKSANLERYLDNVEEALRLLEEALKSF-PDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAK  727 (913)
T ss_pred             CcchhhHHHhHHHHHhhhHHHHHHHHHHHHHhC-CchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHH
Confidence            666666655555556788888999888888763 55567788888888888999999888877665  3 4567777777


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHH
Q 012108          279 GLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLD  358 (471)
Q Consensus       279 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  358 (471)
                      .--+.|.+-+|..+|++.+-.+ +-+...|...|+.-.+.|+.+.|..+..++.+  .++.+...|..-|.+..+.++-.
T Consensus       728 leEk~~~~~rAR~ildrarlkN-Pk~~~lwle~Ir~ElR~gn~~~a~~lmakALQ--ecp~sg~LWaEaI~le~~~~rkT  804 (913)
T KOG0495|consen  728 LEEKDGQLVRARSILDRARLKN-PKNALLWLESIRMELRAGNKEQAELLMAKALQ--ECPSSGLLWAEAIWLEPRPQRKT  804 (913)
T ss_pred             HHHHhcchhhHHHHHHHHHhcC-CCcchhHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCccchhHHHHHHhccCcccch
Confidence            7788889999999999888764 44677888888888899999999999888887  57777888888888888888877


Q ss_pred             HHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          359 RAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       359 ~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      +....+++..  .|+.+...+...+.....++.|.+.|.++.+.+|+ +..+|.-+...+.+.|.-++-.+++.+.....
T Consensus       805 ks~DALkkce--~dphVllaia~lfw~e~k~~kar~Wf~Ravk~d~d-~GD~wa~fykfel~hG~eed~kev~~~c~~~E  881 (913)
T KOG0495|consen  805 KSIDALKKCE--HDPHVLLAIAKLFWSEKKIEKAREWFERAVKKDPD-NGDAWAWFYKFELRHGTEEDQKEVLKKCETAE  881 (913)
T ss_pred             HHHHHHHhcc--CCchhHHHHHHHHHHHHHHHHHHHHHHHHHccCCc-cchHHHHHHHHHHHhCCHHHHHHHHHHHhccC
Confidence            7777777765  46666777788888899999999999999999999 99999999999999999999999999988776


Q ss_pred             CcccCcceEEEE
Q 012108          439 IVKTAGSSVIEV  450 (471)
Q Consensus       439 ~~~~~~~~~~~~  450 (471)
                      +.  .+..|..+
T Consensus       882 P~--hG~~W~av  891 (913)
T KOG0495|consen  882 PT--HGELWQAV  891 (913)
T ss_pred             CC--CCcHHHHH
Confidence            54  44455444

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.77  E-value=2.9e-14  Score=122.62  Aligned_cols=413  Identities=14%  Similarity=0.114  Sum_probs=291.9

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhc--cCCHh-HHHHHhcccCC---CCcccHHHHHHH
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGS--LRCID-DAFKVFEKMPE---KDIIAWNSMLDA   85 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~--~g~~~-~A~~~~~~~~~---~~~~~~~~li~~   85 (471)
                      +=+.|++. ..+|.+..+.-+|+.|.+.|.+.+..+...|++.-+-  ..+.- .-++-|-.|..   .+..+|      
T Consensus       118 ~E~nL~km-IS~~EvKDs~ilY~~m~~e~~~vS~kvq~~L~~LV~~~Ns~~~~~~E~~~Fv~~~~~~E~S~~sW------  190 (625)
T KOG4422|consen  118 TENNLLKM-ISSREVKDSCILYERMRSENVDVSEKVQLELFRLVTYYNSSNVPFAEWEEFVGMRNFGEDSTSSW------  190 (625)
T ss_pred             chhHHHHH-HhhcccchhHHHHHHHHhcCCCCCHHHHHHHHHHHHhhcCCCCcchhHHHHhhcccccccccccc------
Confidence            44555554 4568899999999999999988888887777664443  22222 11223333432   444555      


Q ss_pred             HHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhhHHHHHHHHHhCCCHHHHHHHH
Q 012108           86 FASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPA----KDVVSWNSLILAYTNAGEMEKAGEMF  161 (471)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~~~  161 (471)
                        +.|.+.+   ++-+...+.+.++..+|.++++--..+.|.+++++...    .+..+||.+|.+-.-..+    .+++
T Consensus       191 --K~G~vAd---L~~E~~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv  261 (625)
T KOG4422|consen  191 --KSGAVAD---LLFETLPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLV  261 (625)
T ss_pred             --ccccHHH---HHHhhcCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHH
Confidence              3555544   44444555778999999999999999999999998843    467788888876554444    4555


Q ss_pred             Hhc----cccChHHHHHHHHHHHhcCCHHH----HHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHH-HHHHHHHHHH
Q 012108          162 KKM----LVKNVITWNTMVTGYLRSQLYIE----VVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLET-GARIHVYATD  232 (471)
Q Consensus       162 ~~~----~~~~~~~~~~l~~~~~~~~~~~~----a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~-a~~~~~~~~~  232 (471)
                      .+|    ..||..++|+++.+..+.|+++.    |++++.+|++-|+.|.-.+|..+|..+++.++..+ +..++.++..
T Consensus       262 ~EMisqkm~Pnl~TfNalL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N  341 (625)
T KOG4422|consen  262 AEMISQKMTPNLFTFNALLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQN  341 (625)
T ss_pred             HHHHHhhcCCchHhHHHHHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHH
Confidence            565    77899999999999999998765    56788999999999999999999999999888755 4445554442


Q ss_pred             ----cCC----CCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--------C---ChhhHHHHHHHHHhcCChHHHHHHH
Q 012108          233 ----NGL----ASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--------K---DVFCWNAMILGLALHGYGYAALKLL  293 (471)
Q Consensus       233 ----~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------~---~~~~~~~l~~~~~~~~~~~~a~~~~  293 (471)
                          ..+    +.+...|..-+..|.+..+.+-|.++..-...        +   ...-|..+....|+....+.-...|
T Consensus       342 ~ltGK~fkp~~p~d~~FF~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y  421 (625)
T KOG4422|consen  342 SLTGKTFKPITPTDNKFFQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWY  421 (625)
T ss_pred             hhccCcccCCCCchhHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                112    33556677888888899998888876543322        1   2234667788889999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC-CH--------HH-----
Q 012108          294 GEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR-LL--------DR-----  359 (471)
Q Consensus       294 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~--------~~-----  359 (471)
                      +.|.-.-+-|+..+...++++....+.++-.-.+|..+.. +|...+......++..+++.. ++        ..     
T Consensus       422 ~~lVP~~y~p~~~~m~~~lrA~~v~~~~e~ipRiw~D~~~-~ght~r~~l~eeil~~L~~~k~hp~tp~r~Ql~~~~ak~  500 (625)
T KOG4422|consen  422 EDLVPSAYFPHSQTMIHLLRALDVANRLEVIPRIWKDSKE-YGHTFRSDLREEILMLLARDKLHPLTPEREQLQVAFAKC  500 (625)
T ss_pred             HHhccceecCCchhHHHHHHHHhhcCcchhHHHHHHHHHH-hhhhhhHHHHHHHHHHHhcCCCCCCChHHHHHHHHHHHH
Confidence            9999888889999999999999999999999899988887 676655555555555555443 11        11     


Q ss_pred             HHHHHHh-------C-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC-C---CchhHHHHHHHHHhcCCHHHH
Q 012108          360 AIELIEA-------M-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY-L---SDGELMMFANLYASCGQWEEA  427 (471)
Q Consensus       360 A~~~~~~-------~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~---~~~~~~~l~~~~~~~g~~~~A  427 (471)
                      |..+++.       + .........+..+-.+.+.|..++|.++|....+.+.+ |   .......+.+.-.+..+...|
T Consensus       501 aad~~e~~e~~~~R~r~~~~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA  580 (625)
T KOG4422|consen  501 AADIKEAYESQPIRQRAQDWPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQA  580 (625)
T ss_pred             HHHHHHHHHhhHHHHHhccCChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHH
Confidence            1112211       1 12334445556666678999999999999988665432 2   233344566667778889999


Q ss_pred             HHHHHHhhhCCCcc
Q 012108          428 NRWRNMMNDTGIVK  441 (471)
Q Consensus       428 ~~~~~~m~~~~~~~  441 (471)
                      ...++-|...+...
T Consensus       581 ~~~lQ~a~~~n~~~  594 (625)
T KOG4422|consen  581 IEVLQLASAFNLPI  594 (625)
T ss_pred             HHHHHHHHHcCchh
Confidence            99999887665543

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

Probab=99.77  E-value=2.7e-16  Score=135.96  Aligned_cols=404  Identities=14%  Similarity=0.102  Sum_probs=271.4

Q ss_pred             HHHHHHhhccchhHHHHHHHHHHHhccCCchhH-HHHHHHHHhccCCHhHHHHHhcccCC--CC------cccHHHHHHH
Q 012108           15 LLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYV-QTALLKMYGSLRCIDDAFKVFEKMPE--KD------IIAWNSMLDA   85 (471)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~-~~~l~~~~~~~g~~~~A~~~~~~~~~--~~------~~~~~~li~~   85 (471)
                      .|.+-|.......+|+..++.+.+...-|+... -..+...+.+.+.+.+|+++++...+  |+      ....+.+.-.
T Consensus       206 nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil~nigvt  285 (840)
T KOG2003|consen  206 NLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKILNNIGVT  285 (840)
T ss_pred             HHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHHhhcCee
Confidence            344556667778889988888888776665543 23455677788888888888876553  22      2234445556


Q ss_pred             HHcCCCHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC----------------CChhhHHH----
Q 012108           86 FASCGQMDHAMKLIDLMPLK--DVTSFNIMISGYARIGKIHSARYIFDKVPA----------------KDVVSWNS----  143 (471)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----------------~~~~~~~~----  143 (471)
                      +.+.|.++.|+..|+.....  +..+-..++-++..-|+.++..+.|.+++.                |+....+.    
T Consensus       286 fiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll~eai~n  365 (840)
T KOG2003|consen  286 FIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLLNEAIKN  365 (840)
T ss_pred             EEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHHHHHHhh
Confidence            78888888888888876543  444444455555567888888888887721                11111111    


Q ss_pred             -HHHHHHhCC--CHHHHHHHHHhc----cccCh-------------HHHH--------HHHHHHHhcCCHHHHHHHHHHH
Q 012108          144 -LILAYTNAG--EMEKAGEMFKKM----LVKNV-------------ITWN--------TMVTGYLRSQLYIEVVDLFDEM  195 (471)
Q Consensus       144 -l~~~~~~~~--~~~~A~~~~~~~----~~~~~-------------~~~~--------~l~~~~~~~~~~~~a~~~~~~m  195 (471)
                       .+.-+-+.+  +.++++-.--++    +.|+-             ..+.        .-...+.++|+++.|.++++-.
T Consensus       366 d~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~aieilkv~  445 (840)
T KOG2003|consen  366 DHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAIEILKVF  445 (840)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHHHHHHHH
Confidence             111111111  112222111111    11110             0011        1123466777777777776665


Q ss_pred             HhCCCCCCHHH-------------------------------HH-----HHHHHHHccCChHHHHHHHHHHHHcCCCCch
Q 012108          196 KAGNVKPDYLT-------------------------------VT-----SVLSACANLGSLETGARIHVYATDNGLASNP  239 (471)
Q Consensus       196 ~~~g~~p~~~~-------------------------------~~-----~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  239 (471)
                      .+..-+.-+..                               |+     .-.+.....|++++|.+.|++.+...-....
T Consensus       446 ~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~ndasc~e  525 (840)
T KOG2003|consen  446 EKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNNDASCTE  525 (840)
T ss_pred             HhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcCchHHHH
Confidence            44321111111                               11     0011112357888999999888766533333


Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 012108          240 HATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACS  316 (471)
Q Consensus       240 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  316 (471)
                      ..|+ +.-.+-..|++++|+++|-++..   .+..+...+...|-...++.+|++++.+.... ++.|+....-|...|-
T Consensus       526 alfn-iglt~e~~~~ldeald~f~klh~il~nn~evl~qianiye~led~aqaie~~~q~~sl-ip~dp~ilskl~dlyd  603 (840)
T KOG2003|consen  526 ALFN-IGLTAEALGNLDEALDCFLKLHAILLNNAEVLVQIANIYELLEDPAQAIELLMQANSL-IPNDPAILSKLADLYD  603 (840)
T ss_pred             HHHH-hcccHHHhcCHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhccc-CCCCHHHHHHHHHHhh
Confidence            3333 45567788999999999876543   56677777888888899999999999887765 5667788888999999


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHh-hcCCchHHHH
Q 012108          317 HAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALLSACV-IHQDLEIGDR  394 (471)
Q Consensus       317 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~-~~g~~~~a~~  394 (471)
                      +.|+-.+|.+.+-.--.  -++.+..+..-|...|....-+++|+.+|++. -++|+..-|..++..|. +.|++++|..
T Consensus       604 qegdksqafq~~ydsyr--yfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~~~kwqlmiasc~rrsgnyqka~d  681 (840)
T KOG2003|consen  604 QEGDKSQAFQCHYDSYR--YFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPNQSKWQLMIASCFRRSGNYQKAFD  681 (840)
T ss_pred             cccchhhhhhhhhhccc--ccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCccHHHHHHHHHHHHHhcccHHHHHH
Confidence            99999999887766655  56778888888999999999999999999998 58899999998887765 6899999999


Q ss_pred             HHHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          395 VAKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       395 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      +++.....-|. |..++.-|.+.+...|-
T Consensus       682 ~yk~~hrkfpe-dldclkflvri~~dlgl  709 (840)
T KOG2003|consen  682 LYKDIHRKFPE-DLDCLKFLVRIAGDLGL  709 (840)
T ss_pred             HHHHHHHhCcc-chHHHHHHHHHhccccc
Confidence            99999999999 99999999999888775

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

Probab=99.76  E-value=1.6e-14  Score=136.22  Aligned_cols=408  Identities=14%  Similarity=0.072  Sum_probs=201.7

Q ss_pred             hccchhHHHHHHHHHHHhcc--CCchhHHHHHHHHHhccCCHhHHHHHhcccCC--------------------------
Q 012108           22 ILSSSCIGLMLHGQTIKTGF--CGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--------------------------   73 (471)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--------------------------   73 (471)
                      ..|++..|+.+|...+...+  +||+.  -.+..++.+.|+.+.|+..|++..+                          
T Consensus       176 nkkdY~~al~yyk~al~inp~~~aD~r--Igig~Cf~kl~~~~~a~~a~~ralqLdp~~v~alv~L~~~~l~~~d~~s~~  253 (1018)
T KOG2002|consen  176 NKKDYRGALKYYKKALRINPACKADVR--IGIGHCFWKLGMSEKALLAFERALQLDPTCVSALVALGEVDLNFNDSDSYK  253 (1018)
T ss_pred             ccccHHHHHHHHHHHHhcCcccCCCcc--chhhhHHHhccchhhHHHHHHHHHhcChhhHHHHHHHHHHHHHccchHHHH
Confidence            45677777777777654432  23332  2222444455666665555555433                          


Q ss_pred             --------------CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC------ChhhHHHHHHHHHhcCCHHHHHHHHhhc
Q 012108           74 --------------KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK------DVTSFNIMISGYARIGKIHSARYIFDKV  133 (471)
Q Consensus        74 --------------~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~~  133 (471)
                                    .++...+.|.+-|.-.|+++.++.+...+...      -...|..+.++|-..|++++|...|-+.
T Consensus       254 ~~~~ll~~ay~~n~~nP~~l~~LAn~fyfK~dy~~v~~la~~ai~~t~~~~~~aes~Y~~gRs~Ha~Gd~ekA~~yY~~s  333 (1018)
T KOG2002|consen  254 KGVQLLQRAYKENNENPVALNHLANHFYFKKDYERVWHLAEHAIKNTENKSIKAESFYQLGRSYHAQGDFEKAFKYYMES  333 (1018)
T ss_pred             HHHHHHHHHHhhcCCCcHHHHHHHHHHhhcccHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHhhccHHHHHHHHHHH
Confidence                          24445555555556666666666665555433      1234666666666777777777666666


Q ss_pred             CCC--C--hhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcC----CHHHHHHHHHHHHhCCCCC
Q 012108          134 PAK--D--VVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQ----LYIEVVDLFDEMKAGNVKP  202 (471)
Q Consensus       134 ~~~--~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~----~~~~a~~~~~~m~~~g~~p  202 (471)
                      ...  |  ...+..+...|.+.|+++.+...|+.+.+   .+..+...|...|...+    ..+.|..++.+..+.- +.
T Consensus       334 ~k~~~d~~~l~~~GlgQm~i~~~dle~s~~~fEkv~k~~p~~~etm~iLG~Lya~~~~~~~~~d~a~~~l~K~~~~~-~~  412 (1018)
T KOG2002|consen  334 LKADNDNFVLPLVGLGQMYIKRGDLEESKFCFEKVLKQLPNNYETMKILGCLYAHSAKKQEKRDKASNVLGKVLEQT-PV  412 (1018)
T ss_pred             HccCCCCccccccchhHHHHHhchHHHHHHHHHHHHHhCcchHHHHHHHHhHHHhhhhhhHHHHHHHHHHHHHHhcc-cc
Confidence            432  2  22334456666677777777776666622   23444555555555443    3445555555544432 33


Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHH----HcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC-------Ch-
Q 012108          203 DYLTVTSVLSACANLGSLETGARIHVYAT----DNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK-------DV-  270 (471)
Q Consensus       203 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~----~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~-  270 (471)
                      |...|..+...+... +...+...|..+.    ..+-++.+...|.+...+...|++.+|...|......       +. 
T Consensus       413 d~~a~l~laql~e~~-d~~~sL~~~~~A~d~L~~~~~~ip~E~LNNvaslhf~~g~~~~A~~~f~~A~~~~~~~~n~de~  491 (1018)
T KOG2002|consen  413 DSEAWLELAQLLEQT-DPWASLDAYGNALDILESKGKQIPPEVLNNVASLHFRLGNIEKALEHFKSALGKLLEVANKDEG  491 (1018)
T ss_pred             cHHHHHHHHHHHHhc-ChHHHHHHHHHHHHHHHHcCCCCCHHHHHhHHHHHHHhcChHHHHHHHHHHhhhhhhhcCcccc
Confidence            444555554444333 3333344444432    3444566677777777777777777777776543321       11 


Q ss_pred             -----hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHH
Q 012108          271 -----FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDI-TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHY  344 (471)
Q Consensus       271 -----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  344 (471)
                           .+--.+...+-..++++.|.+.|......  .|.-. .|..++......++..+|...++.+..  ....++..+
T Consensus       492 ~~~~lt~~YNlarl~E~l~~~~~A~e~Yk~Ilke--hp~YId~ylRl~~ma~~k~~~~ea~~~lk~~l~--~d~~np~ar  567 (1018)
T KOG2002|consen  492 KSTNLTLKYNLARLLEELHDTEVAEEMYKSILKE--HPGYIDAYLRLGCMARDKNNLYEASLLLKDALN--IDSSNPNAR  567 (1018)
T ss_pred             ccchhHHHHHHHHHHHhhhhhhHHHHHHHHHHHH--CchhHHHHHHhhHHHHhccCcHHHHHHHHHHHh--cccCCcHHH
Confidence                 11222334444455566666666665553  33322 222232222233455555555555554  333334444


Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC----CCCCCHhHHHHHHHHHhh------------cCCchHHHHHHHHHHHcCCCCCc
Q 012108          345 GCMVDLLGRARLLDRAIELIEAM----PFEPTESILGALLSACVI------------HQDLEIGDRVAKMVCAKSNYLSD  408 (471)
Q Consensus       345 ~~l~~~~~~~g~~~~A~~~~~~~----~~~p~~~~~~~l~~~~~~------------~g~~~~a~~~~~~~~~~~~~~~~  408 (471)
                      ..+...+.+...+..|.+-|..+    ...+|..+..+|.+.|..            .+..++|+++|.+++..+|. |.
T Consensus       568 sl~G~~~l~k~~~~~a~k~f~~i~~~~~~~~D~YsliaLGN~~~~~l~~~~rn~ek~kk~~~KAlq~y~kvL~~dpk-N~  646 (1018)
T KOG2002|consen  568 SLLGNLHLKKSEWKPAKKKFETILKKTSTKTDAYSLIALGNVYIQALHNPSRNPEKEKKHQEKALQLYGKVLRNDPK-NM  646 (1018)
T ss_pred             HHHHHHHHhhhhhcccccHHHHHHhhhccCCchhHHHHhhHHHHHHhcccccChHHHHHHHHHHHHHHHHHHhcCcc-hh
Confidence            44444444444444444322221    122344444444443321            11233444455555555544 44


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          409 GELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      ..-+-++-+++..|++.+|..+|.++.+..
T Consensus       647 yAANGIgiVLA~kg~~~~A~dIFsqVrEa~  676 (1018)
T KOG2002|consen  647 YAANGIGIVLAEKGRFSEARDIFSQVREAT  676 (1018)
T ss_pred             hhccchhhhhhhccCchHHHHHHHHHHHHH
Confidence            444444444555555555555555444433

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

Probab=99.74  E-value=1.6e-17  Score=146.41  Aligned_cols=257  Identities=14%  Similarity=0.074  Sum_probs=112.8

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 012108          174 TMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVT-SVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKC  252 (471)
Q Consensus       174 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  252 (471)
                      .+...+.+.|++++|++++++......+|+...|. .+...+...++++.|...++.+...+ +-++..+..++.. ...
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~-~~~~~~~~~l~~l-~~~   90 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASD-KANPQDYERLIQL-LQD   90 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             cccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-ccccccccccccc-ccc
Confidence            34667778888888888886554433234444443 34445566788888888888888765 3466667777777 688


Q ss_pred             CChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 012108          253 GSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMNDSC-VKADDITFIGLLSACSHAGLVQEGCELFS  329 (471)
Q Consensus       253 ~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  329 (471)
                      +++++|.+++.+..+  +++..+..++..+.+.++++++..+++.+.... .+.+...|..+...+.+.|+.++|+..++
T Consensus        91 ~~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~  170 (280)
T PF13429_consen   91 GDPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYR  170 (280)
T ss_dssp             ---------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHH
T ss_pred             ccccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            888888888876544  456677788888889999999999999977542 34566778888889999999999999999


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC
Q 012108          330 RMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS  407 (471)
Q Consensus       330 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  407 (471)
                      ++.+  -.|.+......++..+...|+.+++.++++..  ..+.|+..+..+..++...|+.++|...+++..+.+|. |
T Consensus       171 ~al~--~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~p~-d  247 (280)
T PF13429_consen  171 KALE--LDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAAPDDPDLWDALAAAYLQLGRYEEALEYLEKALKLNPD-D  247 (280)
T ss_dssp             HHHH--H-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH-HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHSTT--
T ss_pred             HHHH--cCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCcCHHHHHHHHHHHhcccccccccccccccccccccc-c
Confidence            9998  34456888889999999999999988888776  22456677888999999999999999999999999999 9


Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          408 DGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       408 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      +.....++.++...|+.++|.++..+..
T Consensus       248 ~~~~~~~a~~l~~~g~~~~A~~~~~~~~  275 (280)
T PF13429_consen  248 PLWLLAYADALEQAGRKDEALRLRRQAL  275 (280)
T ss_dssp             HHHHHHHHHHHT----------------
T ss_pred             cccccccccccccccccccccccccccc
Confidence            9999999999999999999999988764

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

Probab=99.73  E-value=4.8e-14  Score=123.25  Aligned_cols=214  Identities=14%  Similarity=0.076  Sum_probs=172.8

Q ss_pred             HccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHH
Q 012108          215 ANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALK  291 (471)
Q Consensus       215 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  291 (471)
                      .-.|+.-.+..-|+..++.. +.+...|-.+...|....+.++....|++...   .|+.+|..-.+.+.-.+++++|..
T Consensus       337 fL~g~~~~a~~d~~~~I~l~-~~~~~lyI~~a~~y~d~~~~~~~~~~F~~A~~ldp~n~dvYyHRgQm~flL~q~e~A~a  415 (606)
T KOG0547|consen  337 FLKGDSLGAQEDFDAAIKLD-PAFNSLYIKRAAAYADENQSEKMWKDFNKAEDLDPENPDVYYHRGQMRFLLQQYEEAIA  415 (606)
T ss_pred             hhcCCchhhhhhHHHHHhcC-cccchHHHHHHHHHhhhhccHHHHHHHHHHHhcCCCCCchhHhHHHHHHHHHHHHHHHH
Confidence            34678888888888888876 33444477788889999999999999987654   577888888888888899999999


Q ss_pred             HHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 012108          292 LLGEMNDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF  369 (471)
Q Consensus       292 ~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  369 (471)
                      =|++.+..  .| +...|..+.-+..+.++++++...|++..+  .++.-+..|+.....+...+++++|.+.|+.. .+
T Consensus       416 DF~Kai~L--~pe~~~~~iQl~~a~Yr~~k~~~~m~~Fee~kk--kFP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~L  491 (606)
T KOG0547|consen  416 DFQKAISL--DPENAYAYIQLCCALYRQHKIAESMKTFEEAKK--KFPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIEL  491 (606)
T ss_pred             HHHHHhhc--ChhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHH--hCCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhh
Confidence            99998875  44 445666677777788999999999999998  67777889999999999999999999999876 33


Q ss_pred             CCC---------HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          370 EPT---------ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       370 ~p~---------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      .|.         +.+-..++..- -.+++..|+.+++++++.+|+ ....|..|+..-.+.|+.++|+++|++..
T Consensus       492 E~~~~~~~v~~~plV~Ka~l~~q-wk~d~~~a~~Ll~KA~e~Dpk-ce~A~~tlaq~~lQ~~~i~eAielFEksa  564 (606)
T KOG0547|consen  492 EPREHLIIVNAAPLVHKALLVLQ-WKEDINQAENLLRKAIELDPK-CEQAYETLAQFELQRGKIDEAIELFEKSA  564 (606)
T ss_pred             ccccccccccchhhhhhhHhhhc-hhhhHHHHHHHHHHHHccCch-HHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            333         22222233222 348999999999999999999 89999999999999999999999999764

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

Probab=99.72  E-value=1.1e-13  Score=120.40  Aligned_cols=327  Identities=9%  Similarity=0.000  Sum_probs=245.0

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHH-HHHHHHHhcCC
Q 012108          106 DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWN-TMVTGYLRSQL  184 (471)
Q Consensus       106 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~-~l~~~~~~~~~  184 (471)
                      |+..+-.....+.+.|....|...|...+..-+..|.+.+....-..+.+.+..+....+..+...-. -+..++....+
T Consensus       163 D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q  242 (559)
T KOG1155|consen  163 DEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQ  242 (559)
T ss_pred             hhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHH
Confidence            54445555556677788888888888877666677777666555555555555444444333222211 23455666667


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHHhcCChHHHHHHH
Q 012108          185 YIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA--SNPHATTALIDMYAKCGSIEQSLEVF  262 (471)
Q Consensus       185 ~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~  262 (471)
                      .+++..-.......|.+-+...-+....+.....++++|+.+|+++.+...-  .|..+|+.++-.-....++.---...
T Consensus       243 ~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~skLs~LA~~v  322 (559)
T KOG1155|consen  243 HEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSKLSYLAQNV  322 (559)
T ss_pred             HHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHHHHHHHHHH
Confidence            8888888888888876555555555555667888999999999999987521  25667776654333322222211222


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChh
Q 012108          263 YKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLE  342 (471)
Q Consensus       263 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  342 (471)
                      -.+.+--+.|+.++..-|.-.++.++|...|++..+.+ +-....|+.+.+-|....+...|.+-++.+.+  -.+.|-.
T Consensus       323 ~~idKyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLN-p~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvd--i~p~DyR  399 (559)
T KOG1155|consen  323 SNIDKYRPETCCIIANYYSLRSEHEKAVMYFKRALKLN-PKYLSAWTLMGHEYVEMKNTHAAIESYRRAVD--INPRDYR  399 (559)
T ss_pred             HHhccCCccceeeehhHHHHHHhHHHHHHHHHHHHhcC-cchhHHHHHhhHHHHHhcccHHHHHHHHHHHh--cCchhHH
Confidence            22333356677888888999999999999999999863 22345677777889999999999999999998  5677899


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      .|-.|.++|.-.+.+.=|+-.|++. ..+| |...|.+|..+|.+.++.++|++.|..+...+.. +...+..|+++|.+
T Consensus       400 AWYGLGQaYeim~Mh~YaLyYfqkA~~~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dt-e~~~l~~LakLye~  478 (559)
T KOG1155|consen  400 AWYGLGQAYEIMKMHFYALYYFQKALELKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDT-EGSALVRLAKLYEE  478 (559)
T ss_pred             HHhhhhHHHHHhcchHHHHHHHHHHHhcCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhcccc-chHHHHHHHHHHHH
Confidence            9999999999999999999999998 4555 7899999999999999999999999999999877 88999999999999


Q ss_pred             cCCHHHHHHHHHHhhh
Q 012108          421 CGQWEEANRWRNMMND  436 (471)
Q Consensus       421 ~g~~~~A~~~~~~m~~  436 (471)
                      .++.++|...|++..+
T Consensus       479 l~d~~eAa~~yek~v~  494 (559)
T KOG1155|consen  479 LKDLNEAAQYYEKYVE  494 (559)
T ss_pred             HHhHHHHHHHHHHHHH
Confidence            9999999999988765

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

Probab=99.72  E-value=6e-15  Score=127.73  Aligned_cols=391  Identities=13%  Similarity=0.107  Sum_probs=272.5

Q ss_pred             chhHHHHHHHHHhccCCHhHHHHHhcccCC----CCc-ccHHHHHHHHHcCCCHHHHHHHHhcCCCC--------ChhhH
Q 012108           44 HVYVQTALLKMYGSLRCIDDAFKVFEKMPE----KDI-IAWNSMLDAFASCGQMDHAMKLIDLMPLK--------DVTSF  110 (471)
Q Consensus        44 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~----~~~-~~~~~li~~~~~~g~~~~A~~~~~~~~~~--------~~~~~  110 (471)
                      +-.+...|...|.....+.+|+..++-+.+    |+. ..-..+.+.+.+.+++.+|+++++.....        .....
T Consensus       200 tfsvl~nlaqqy~~ndm~~ealntyeiivknkmf~nag~lkmnigni~~kkr~fskaikfyrmaldqvpsink~~rikil  279 (840)
T KOG2003|consen  200 TFSVLFNLAQQYEANDMTAEALNTYEIIVKNKMFPNAGILKMNIGNIHFKKREFSKAIKFYRMALDQVPSINKDMRIKIL  279 (840)
T ss_pred             hHHHHHHHHHHhhhhHHHHHHhhhhhhhhcccccCCCceeeeeecceeeehhhHHHHHHHHHHHHhhccccchhhHHHHH
Confidence            445566677788888888999999887765    332 23344667889999999999998776533        23456


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCC--CChhhHHHHHHHHHhCCCHHHHHHHHHhccc----------------cChHHH
Q 012108          111 NIMISGYARIGKIHSARYIFDKVPA--KDVVSWNSLILAYTNAGEMEKAGEMFKKMLV----------------KNVITW  172 (471)
Q Consensus       111 ~~l~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~----------------~~~~~~  172 (471)
                      +.+...+.+.|+++.|+..|++..+  |+..+-..|+-++..-|+-++..+.|.+|+.                |+....
T Consensus       280 ~nigvtfiq~gqy~dainsfdh~m~~~pn~~a~~nl~i~~f~i~d~ekmkeaf~kli~ip~~~dddkyi~~~ddp~~~ll  359 (840)
T KOG2003|consen  280 NNIGVTFIQAGQYDDAINSFDHCMEEAPNFIAALNLIICAFAIGDAEKMKEAFQKLIDIPGEIDDDKYIKEKDDPDDNLL  359 (840)
T ss_pred             hhcCeeEEecccchhhHhhHHHHHHhCccHHhhhhhhhhheecCcHHHHHHHHHHHhcCCCCCCcccccCCcCCcchHHH
Confidence            6666778999999999999999854  6777777777788889999999999999821                111222


Q ss_pred             H-----HHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHH-------------HHHH--------HHHHHHccCChHHHH
Q 012108          173 N-----TMVTGYLRSQL--YIEVVDLFDEMKAGNVKPDYL-------------TVTS--------VLSACANLGSLETGA  224 (471)
Q Consensus       173 ~-----~l~~~~~~~~~--~~~a~~~~~~m~~~g~~p~~~-------------~~~~--------l~~~~~~~~~~~~a~  224 (471)
                      |     -.+.-.-+.+.  .++++-.--++..--+.|+-.             .+..        -...+.+.|+++.|.
T Consensus       360 ~eai~nd~lk~~ek~~ka~aek~i~ta~kiiapvi~~~fa~g~dwcle~lk~s~~~~la~dlei~ka~~~lk~~d~~~ai  439 (840)
T KOG2003|consen  360 NEAIKNDHLKNMEKENKADAEKAIITAAKIIAPVIAPDFAAGCDWCLESLKASQHAELAIDLEINKAGELLKNGDIEGAI  439 (840)
T ss_pred             HHHHhhHHHHHHHHhhhhhHHHHHHHHHHHhccccccchhcccHHHHHHHHHhhhhhhhhhhhhhHHHHHHhccCHHHHH
Confidence            2     22222222222  122222222222222233321             0111        122456789999999


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHH------------------------------------HhcCChHHHHHHHhcCCCC
Q 012108          225 RIHVYATDNGLASNPHATTALIDMY------------------------------------AKCGSIEQSLEVFYKSQVK  268 (471)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~l~~~~------------------------------------~~~~~~~~a~~~~~~~~~~  268 (471)
                      ++++.+.+..-..-...-+.|...+                                    ...|++++|.+.|++....
T Consensus       440 eilkv~~~kdnk~~saaa~nl~~l~flqggk~~~~aqqyad~aln~dryn~~a~~nkgn~~f~ngd~dka~~~ykeal~n  519 (840)
T KOG2003|consen  440 EILKVFEKKDNKTASAAANNLCALRFLQGGKDFADAQQYADIALNIDRYNAAALTNKGNIAFANGDLDKAAEFYKEALNN  519 (840)
T ss_pred             HHHHHHHhccchhhHHHhhhhHHHHHHhcccchhHHHHHHHHHhcccccCHHHhhcCCceeeecCcHHHHHHHHHHHHcC
Confidence            9998887654322222222221111                                    1347788888888888777


Q ss_pred             ChhhHHHHHH---HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHH
Q 012108          269 DVFCWNAMIL---GLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG  345 (471)
Q Consensus       269 ~~~~~~~l~~---~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  345 (471)
                      |..+-.+|..   .+-..|+.++|++.|-++... +.-+......+...|-...+..+|++++.+...  -++.|+....
T Consensus       520 dasc~ealfniglt~e~~~~ldeald~f~klh~i-l~nn~evl~qianiye~led~aqaie~~~q~~s--lip~dp~ils  596 (840)
T KOG2003|consen  520 DASCTEALFNIGLTAEALGNLDEALDCFLKLHAI-LLNNAEVLVQIANIYELLEDPAQAIELLMQANS--LIPNDPAILS  596 (840)
T ss_pred             chHHHHHHHHhcccHHHhcCHHHHHHHHHHHHHH-HHhhHHHHHHHHHHHHHhhCHHHHHHHHHHhcc--cCCCCHHHHH
Confidence            7665555443   466789999999999887654 344667777888889999999999999998876  6777899999


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHH-HHHHhcC
Q 012108          346 CMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFA-NLYASCG  422 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~g  422 (471)
                      .|.+.|-+.|+-..|++.+-+- . ++-+..+..-|..-|....-+++++..|+++.-..|.  ..-|..++ .++.+.|
T Consensus       597 kl~dlydqegdksqafq~~ydsyryfp~nie~iewl~ayyidtqf~ekai~y~ekaaliqp~--~~kwqlmiasc~rrsg  674 (840)
T KOG2003|consen  597 KLADLYDQEGDKSQAFQCHYDSYRYFPCNIETIEWLAAYYIDTQFSEKAINYFEKAALIQPN--QSKWQLMIASCFRRSG  674 (840)
T ss_pred             HHHHHhhcccchhhhhhhhhhcccccCcchHHHHHHHHHHHhhHHHHHHHHHHHHHHhcCcc--HHHHHHHHHHHHHhcc
Confidence            9999999999999999886554 4 3446777777888888888999999999998776665  77777655 5666789


Q ss_pred             CHHHHHHHHHHhhhCCC
Q 012108          423 QWEEANRWRNMMNDTGI  439 (471)
Q Consensus       423 ~~~~A~~~~~~m~~~~~  439 (471)
                      ++.+|.++++...+.-+
T Consensus       675 nyqka~d~yk~~hrkfp  691 (840)
T KOG2003|consen  675 NYQKAFDLYKDIHRKFP  691 (840)
T ss_pred             cHHHHHHHHHHHHHhCc
Confidence            99999999998876544

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

Probab=99.72  E-value=1e-12  Score=119.12  Aligned_cols=399  Identities=11%  Similarity=-0.016  Sum_probs=310.0

Q ss_pred             hHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC-
Q 012108           27 CIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK-  105 (471)
Q Consensus        27 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-  105 (471)
                      ..=.+++...++. ++.++..|...+.    ..+.+.|+.++.+..+--+ +-..|.-++++..-++.|.+++++.++. 
T Consensus       363 ~~K~RVlRKALe~-iP~sv~LWKaAVe----lE~~~darilL~rAveccp-~s~dLwlAlarLetYenAkkvLNkaRe~i  436 (913)
T KOG0495|consen  363 KNKKRVLRKALEH-IPRSVRLWKAAVE----LEEPEDARILLERAVECCP-QSMDLWLALARLETYENAKKVLNKAREII  436 (913)
T ss_pred             HHHHHHHHHHHHh-CCchHHHHHHHHh----ccChHHHHHHHHHHHHhcc-chHHHHHHHHHHHHHHHHHHHHHHHHhhC
Confidence            3334566666655 3456666665544    3455557777776654111 1122334556666778888888777654 


Q ss_pred             --ChhhHHHHHHHHHhcCCHHHHHHHHhhcC--------CCChhhHHHHHHHHHhCCCHHHHHHHHHhccc------cCh
Q 012108          106 --DVTSFNIMISGYARIGKIHSARYIFDKVP--------AKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV------KNV  169 (471)
Q Consensus       106 --~~~~~~~l~~~~~~~g~~~~a~~~~~~~~--------~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~------~~~  169 (471)
                        +...|.+....--.+|+.+...+++++.+        +.+...|..=...+-+.|..-.+..+...++.      .-.
T Consensus       437 ptd~~IWitaa~LEE~ngn~~mv~kii~rgl~~L~~ngv~i~rdqWl~eAe~~e~agsv~TcQAIi~avigigvEeed~~  516 (913)
T KOG0495|consen  437 PTDREIWITAAKLEEANGNVDMVEKIIDRGLSELQANGVEINRDQWLKEAEACEDAGSVITCQAIIRAVIGIGVEEEDRK  516 (913)
T ss_pred             CCChhHHHHHHHHHHhcCCHHHHHHHHHHHHHHHhhcceeecHHHHHHHHHHHhhcCChhhHHHHHHHHHhhccccchhH
Confidence              88888888888889999999988888762        23555666666677777888888777777622      234


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMY  249 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  249 (471)
                      .+|+.-...|.+.+.++-|..+|...++- .+-+...|......--..|..+....+++++...- +.....+......+
T Consensus       517 ~tw~~da~~~~k~~~~~carAVya~alqv-fp~k~slWlra~~~ek~hgt~Esl~Allqkav~~~-pkae~lwlM~ake~  594 (913)
T KOG0495|consen  517 STWLDDAQSCEKRPAIECARAVYAHALQV-FPCKKSLWLRAAMFEKSHGTRESLEALLQKAVEQC-PKAEILWLMYAKEK  594 (913)
T ss_pred             hHHhhhHHHHHhcchHHHHHHHHHHHHhh-ccchhHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC-CcchhHHHHHHHHH
Confidence            67888889999999999999999988874 23345566666655566788999999999998874 56677788888888


Q ss_pred             HhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 012108          250 AKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       250 ~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                      -..|+...|..++....+   .+...|.+-+.......+++.|..+|.+....  .|+...|.--+...--.++.++|.+
T Consensus       595 w~agdv~~ar~il~~af~~~pnseeiwlaavKle~en~e~eraR~llakar~~--sgTeRv~mKs~~~er~ld~~eeA~r  672 (913)
T KOG0495|consen  595 WKAGDVPAARVILDQAFEANPNSEEIWLAAVKLEFENDELERARDLLAKARSI--SGTERVWMKSANLERYLDNVEEALR  672 (913)
T ss_pred             HhcCCcHHHHHHHHHHHHhCCCcHHHHHHHHHHhhccccHHHHHHHHHHHhcc--CCcchhhHHHhHHHHHhhhHHHHHH
Confidence            999999999999887655   35678888899999999999999999998874  6787888777777777899999999


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          327 LFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      ++++..+  .++.-...|..+.+.+-+.++.+.|.+.|..- ...| .+..|..|...--+.|.+-+|..++++..-.+|
T Consensus       673 llEe~lk--~fp~f~Kl~lmlGQi~e~~~~ie~aR~aY~~G~k~cP~~ipLWllLakleEk~~~~~rAR~ildrarlkNP  750 (913)
T KOG0495|consen  673 LLEEALK--SFPDFHKLWLMLGQIEEQMENIEMAREAYLQGTKKCPNSIPLWLLLAKLEEKDGQLVRARSILDRARLKNP  750 (913)
T ss_pred             HHHHHHH--hCCchHHHHHHHhHHHHHHHHHHHHHHHHHhccccCCCCchHHHHHHHHHHHhcchhhHHHHHHHHHhcCC
Confidence            9999998  56666888999999999999999999988765 4455 467888888888889999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          405 YLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       405 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      + +...|...++.-.+.|+.+.|..++.+.++.=
T Consensus       751 k-~~~lwle~Ir~ElR~gn~~~a~~lmakALQec  783 (913)
T KOG0495|consen  751 K-NALLWLESIRMELRAGNKEQAELLMAKALQEC  783 (913)
T ss_pred             C-cchhHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            9 99999999999999999999999888876643

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

Probab=99.72  E-value=2.8e-13  Score=118.10  Aligned_cols=388  Identities=14%  Similarity=0.083  Sum_probs=270.1

Q ss_pred             chhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHH
Q 012108           44 HVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGY  117 (471)
Q Consensus        44 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~  117 (471)
                      +...|......=..++++..|+++|++...   .+...|--.+.+-.++..+..|..+++.....   -...|..-+..-
T Consensus        72 ~~~~WikYaqwEesq~e~~RARSv~ERALdvd~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymE  151 (677)
T KOG1915|consen   72 NMQVWIKYAQWEESQKEIQRARSVFERALDVDYRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYME  151 (677)
T ss_pred             HHHHHHHHHHHHHhHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHH
Confidence            334444444444556777888899988775   46667777888888888999999988887543   223455555566


Q ss_pred             HhcCCHHHHHHHHhhcC--CCChhhHHHHHHHHHhCCCHHHHHHHHHhc--cccChHHHHHHHHHHHhcCCHHHHHHHHH
Q 012108          118 ARIGKIHSARYIFDKVP--AKDVVSWNSLILAYTNAGEMEKAGEMFKKM--LVKNVITWNTMVTGYLRSQLYIEVVDLFD  193 (471)
Q Consensus       118 ~~~g~~~~a~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  193 (471)
                      -..|++..|.++|+...  +|+...|.+.++.-.+-+.++.|..+|++.  ..|++.+|-.....-.+.|+...|..+|+
T Consensus       152 E~LgNi~gaRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~Vye  231 (677)
T KOG1915|consen  152 EMLGNIAGARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYE  231 (677)
T ss_pred             HHhcccHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHH
Confidence            67889999999998874  588999999999999999999999999987  67888888888888888999999999998


Q ss_pred             HHHhCCCCCCHH----HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc--hhHHHHHHHHHHhcCChHHHHHHH-----
Q 012108          194 EMKAGNVKPDYL----TVTSVLSACANLGSLETGARIHVYATDNGLASN--PHATTALIDMYAKCGSIEQSLEVF-----  262 (471)
Q Consensus       194 ~m~~~g~~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~~~~~~a~~~~-----  262 (471)
                      ...+.  ..|..    .+.+....-.+...++.|..+|+-+++.- +.+  ...|..+...--+-|+........     
T Consensus       232 rAie~--~~~d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~-pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk  308 (677)
T KOG1915|consen  232 RAIEF--LGDDEEAEILFVAFAEFEERQKEYERARFIYKYALDHI-PKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRK  308 (677)
T ss_pred             HHHHH--hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc-CcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhh
Confidence            87664  12222    23333333345667788888888887763 333  455666655555566654444332     


Q ss_pred             ---hcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-------HHHHHHHHH---hccCcHHHHHH
Q 012108          263 ---YKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDI-------TFIGLLSAC---SHAGLVQEGCE  326 (471)
Q Consensus       263 ---~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-------~~~~l~~~~---~~~~~~~~a~~  326 (471)
                         ++....   |-.+|--.+..-...|+.+...++|++.+.. ++|-..       .|.-+=-+|   ....+.+.+.+
T Consensus       309 ~qYE~~v~~np~nYDsWfdylrL~e~~g~~~~Ire~yErAIan-vpp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~  387 (677)
T KOG1915|consen  309 FQYEKEVSKNPYNYDSWFDYLRLEESVGDKDRIRETYERAIAN-VPPASEKRYWRRYIYLWINYALYEELEAEDVERTRQ  387 (677)
T ss_pred             hHHHHHHHhCCCCchHHHHHHHHHHhcCCHHHHHHHHHHHHcc-CCchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Confidence               222222   5566767777777788888888888888875 555321       121111122   24677888888


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHH----hhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          327 LFSRMEKDFGVTRKLEHYGCMVDLL----GRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~~~~~~l~~~~----~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      +++...+  -++....+|.-+--+|    .++.++..|.+++... |..|-..+|...|..-.+.++++....++++.++
T Consensus       388 vyq~~l~--lIPHkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AIG~cPK~KlFk~YIelElqL~efDRcRkLYEkfle  465 (677)
T KOG1915|consen  388 VYQACLD--LIPHKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAIGKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE  465 (677)
T ss_pred             HHHHHHh--hcCcccchHHHHHHHHHHHHHHHcccHHHHHHHHHHhccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            8888877  4555555555544444    4667788888887765 7778888888888777788888888888888888


Q ss_pred             cCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          402 KSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       402 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      -+|. +..+|...+..-...|+++.|..+|+-..+..
T Consensus       466 ~~Pe-~c~~W~kyaElE~~LgdtdRaRaifelAi~qp  501 (677)
T KOG1915|consen  466 FSPE-NCYAWSKYAELETSLGDTDRARAIFELAISQP  501 (677)
T ss_pred             cChH-hhHHHHHHHHHHHHhhhHHHHHHHHHHHhcCc
Confidence            8887 77778777777777777777777777665544

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

Probab=99.71  E-value=4.2e-13  Score=119.64  Aligned_cols=422  Identities=11%  Similarity=0.006  Sum_probs=312.9

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcc--cCCCCcccHHHHHHHHHcC
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEK--MPEKDIIAWNSMLDAFASC   89 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~--~~~~~~~~~~~li~~~~~~   89 (471)
                      -+..+++-+..+.++..|.-+-++....+..|+  ----+.+++.-.|.++.|..+...  +.+.|..+.......+.+.
T Consensus        18 ~~~~~~r~~l~q~~y~~a~f~adkV~~l~~dp~--d~~~~aq~l~~~~~y~ra~~lit~~~le~~d~~cryL~~~~l~~l   95 (611)
T KOG1173|consen   18 KYRRLVRDALMQHRYKTALFWADKVAGLTNDPA--DIYWLAQVLYLGRQYERAAHLITTYKLEKRDIACRYLAAKCLVKL   95 (611)
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHhccCChH--HHHHHHHHHHhhhHHHHHHHHHHHhhhhhhhHHHHHHHHHHHHHH
Confidence            345566666667778888888888776664444  344467888888889888887775  4457888888889999999


Q ss_pred             CCHHHHHHHHhcCCCC------Chhh---------------HHH-------HHHHHHhcCCHHHHHHHHhhcCCCChhhH
Q 012108           90 GQMDHAMKLIDLMPLK------DVTS---------------FNI-------MISGYARIGKIHSARYIFDKVPAKDVVSW  141 (471)
Q Consensus        90 g~~~~A~~~~~~~~~~------~~~~---------------~~~-------l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  141 (471)
                      .+++.|+.++......      ++.+               -+.       -.+.|....++++|...|.+....|+..+
T Consensus        96 k~~~~al~vl~~~~~~~~~f~yy~~~~~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~c~  175 (611)
T KOG1173|consen   96 KEWDQALLVLGRGHVETNPFSYYEKDAANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADAKCF  175 (611)
T ss_pred             HHHHHHHHHhcccchhhcchhhcchhhhceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchhhH
Confidence            9999999999833100      1111               011       11235556678888888888877777666


Q ss_pred             HHHHHHHHh--------------------CC-CHHHHHHHHHhc--------------------cccChHHHHHHHHHHH
Q 012108          142 NSLILAYTN--------------------AG-EMEKAGEMFKKM--------------------LVKNVITWNTMVTGYL  180 (471)
Q Consensus       142 ~~l~~~~~~--------------------~~-~~~~A~~~~~~~--------------------~~~~~~~~~~l~~~~~  180 (471)
                      .++...-..                    .+ +.+.-..+|+-.                    .+.++.....-..-+.
T Consensus       176 Ea~~~lvs~~mlt~~Ee~~ll~~l~~a~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y  255 (611)
T KOG1173|consen  176 EAFEKLVSAHMLTAQEEFELLESLDLAMLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLY  255 (611)
T ss_pred             HHHHHHHHHHhcchhHHHHHHhcccHHhhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHH
Confidence            554322111                    00 111112222211                    0113334444555677


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHH
Q 012108          181 RSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLE  260 (471)
Q Consensus       181 ~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  260 (471)
                      ..+++.+..++.+...+.. ++....+..-|.++...|+..+-..+=.++.+.- |..+.+|-++.-.|...|+.++|.+
T Consensus       256 ~~c~f~~c~kit~~lle~d-pfh~~~~~~~ia~l~el~~~n~Lf~lsh~LV~~y-P~~a~sW~aVg~YYl~i~k~seARr  333 (611)
T KOG1173|consen  256 YGCRFKECLKITEELLEKD-PFHLPCLPLHIACLYELGKSNKLFLLSHKLVDLY-PSKALSWFAVGCYYLMIGKYSEARR  333 (611)
T ss_pred             HcChHHHHHHHhHHHHhhC-CCCcchHHHHHHHHHHhcccchHHHHHHHHHHhC-CCCCcchhhHHHHHHHhcCcHHHHH
Confidence            8899999999999988763 5566666666778889999988888888888774 7788899999999999999999999


Q ss_pred             HHhcCCCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC
Q 012108          261 VFYKSQVKD---VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGV  337 (471)
Q Consensus       261 ~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  337 (471)
                      .|.+...-|   ...|-.+...|+-.|..++|+..+...-+. ++-....+.-+.--|.+.++.+.|.++|.++..  -.
T Consensus       334 y~SKat~lD~~fgpaWl~fghsfa~e~EhdQAmaaY~tAarl-~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~a--i~  410 (611)
T KOG1173|consen  334 YFSKATTLDPTFGPAWLAFGHSFAGEGEHDQAMAAYFTAARL-MPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALA--IA  410 (611)
T ss_pred             HHHHHhhcCccccHHHHHHhHHhhhcchHHHHHHHHHHHHHh-ccCCcchHHHHHHHHHHhccHHHHHHHHHHHHh--cC
Confidence            998866543   468999999999999999999999887654 122222333445567889999999999999987  56


Q ss_pred             CCChhHHHHHHHHHhhcCCHHHHHHHHHhCC--------CC-CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc
Q 012108          338 TRKLEHYGCMVDLLGRARLLDRAIELIEAMP--------FE-PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD  408 (471)
Q Consensus       338 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--------~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  408 (471)
                      |.|+...+.+.-.....+.+.+|..+|+...        .. .-..+++.|..+|.+.+.+++|+..+++.+...|. +.
T Consensus       411 P~Dplv~~Elgvvay~~~~y~~A~~~f~~~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k-~~  489 (611)
T KOG1173|consen  411 PSDPLVLHELGVVAYTYEEYPEALKYFQKALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPK-DA  489 (611)
T ss_pred             CCcchhhhhhhheeehHhhhHHHHHHHHHHHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCC-ch
Confidence            6688888888888888899999999998751        11 24567899999999999999999999999999999 99


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          409 GELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      .++.+++-.|...|+++.|++.|.+.+...+..
T Consensus       490 ~~~asig~iy~llgnld~Aid~fhKaL~l~p~n  522 (611)
T KOG1173|consen  490 STHASIGYIYHLLGNLDKAIDHFHKALALKPDN  522 (611)
T ss_pred             hHHHHHHHHHHHhcChHHHHHHHHHHHhcCCcc
Confidence            999999999999999999999999987666543

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.68  E-value=3.7e-13  Score=124.08  Aligned_cols=125  Identities=7%  Similarity=-0.079  Sum_probs=65.0

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHH
Q 012108          304 DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLS  381 (471)
Q Consensus       304 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  381 (471)
                      ++.....+...+...|+.++|.+++++..+   .+|++...  ++.+....++.+++.+..+.. ...| |+..+..+..
T Consensus       262 ~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~---~~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk~~P~~~~l~l~lgr  336 (398)
T PRK10747        262 QVALQVAMAEHLIECDDHDTAQQIILDGLK---RQYDERLV--LLIPRLKTNNPEQLEKVLRQQIKQHGDTPLLWSTLGQ  336 (398)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCCCHHHH--HHHhhccCCChHHHHHHHHHHHhhCCCCHHHHHHHHH
Confidence            444555555555555555555555555544   12333211  122222335555555555544 2223 3344555555


Q ss_pred             HHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      .|...+++++|.+.|+++.+..|+  ...+..++.++.+.|+.++|.+++++-.
T Consensus       337 l~~~~~~~~~A~~~le~al~~~P~--~~~~~~La~~~~~~g~~~~A~~~~~~~l  388 (398)
T PRK10747        337 LLMKHGEWQEASLAFRAALKQRPD--AYDYAWLADALDRLHKPEEAAAMRRDGL  388 (398)
T ss_pred             HHHHCCCHHHHHHHHHHHHhcCCC--HHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            666666666666666666655543  4555556666666666666666665553

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

Probab=99.68  E-value=1.1e-12  Score=123.19  Aligned_cols=345  Identities=13%  Similarity=0.084  Sum_probs=255.6

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccC---CCCcccHHHHHHHHHc
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMP---EKDIIAWNSMLDAFAS   88 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~~~~~~~~li~~~~~   88 (471)
                      ..-...+.+...|+.+.|.+++.++++.. +.....|..|..+|-..|+.+++...+--..   ..|...|..+.....+
T Consensus       141 ~ll~eAN~lfarg~~eeA~~i~~EvIkqd-p~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~  219 (895)
T KOG2076|consen  141 QLLGEANNLFARGDLEEAEEILMEVIKQD-PRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQ  219 (895)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHHhC-ccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHh
Confidence            33344445556699999999999999986 4577889999999999999999988765432   3577889999999999


Q ss_pred             CCCHHHHHHHHhcCCCCCh---hhHHHHHHHHHhcCCHHHHHHHHhhcCCCCh----hhHH----HHHHHHHhCCCHHHH
Q 012108           89 CGQMDHAMKLIDLMPLKDV---TSFNIMISGYARIGKIHSARYIFDKVPAKDV----VSWN----SLILAYTNAGEMEKA  157 (471)
Q Consensus        89 ~g~~~~A~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~----~~~~----~l~~~~~~~~~~~~A  157 (471)
                      .|++++|.-+|.+..+.++   ..+---+..|-+.|+...|.+-|.++...++    .-+.    ..+..+...++-+.|
T Consensus       220 ~~~i~qA~~cy~rAI~~~p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a  299 (895)
T KOG2076|consen  220 LGNINQARYCYSRAIQANPSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERA  299 (895)
T ss_pred             cccHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            9999999999999876543   4444556788999999999999988844322    2222    334567777888999


Q ss_pred             HHHHHhcccc-----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH----------------------HHH--
Q 012108          158 GEMFKKMLVK-----NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYL----------------------TVT--  208 (471)
Q Consensus       158 ~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~----------------------~~~--  208 (471)
                      .+.++..+..     +...++.++..+.+..+++.+......+......+|..                      .|.  
T Consensus       300 ~~~le~~~s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~  379 (895)
T KOG2076|consen  300 AKALEGALSKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLR  379 (895)
T ss_pred             HHHHHHHHhhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccch
Confidence            9988887542     45678899999999999999999888887622222211                      111  


Q ss_pred             --HHHHHHHccCChHHHHHHHHHHHHcCCC--CchhHHHHHHHHHHhcCChHHHHHHHhcCCC----CChhhHHHHHHHH
Q 012108          209 --SVLSACANLGSLETGARIHVYATDNGLA--SNPHATTALIDMYAKCGSIEQSLEVFYKSQV----KDVFCWNAMILGL  280 (471)
Q Consensus       209 --~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~  280 (471)
                        -+.-++...+..+....+.....+..+.  -+...|.-+..+|...|++.+|+.+|..+..    .+...|-.+..+|
T Consensus       380 v~rl~icL~~L~~~e~~e~ll~~l~~~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~  459 (895)
T KOG2076|consen  380 VIRLMICLVHLKERELLEALLHFLVEDNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCY  459 (895)
T ss_pred             hHhHhhhhhcccccchHHHHHHHHHHhcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHH
Confidence              1222344555556666666666666633  4567888899999999999999999988776    2567899999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHH-------hcCCCCChhHHHHHHHHHh
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEK-------DFGVTRKLEHYGCMVDLLG  352 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~~~~~~~~~~~~~l~~~~~  352 (471)
                      ...|.++.|.+.|+.....  .|+ ...-..|...+.+.|+.++|.+.+..+..       ..+..|+........+.+.
T Consensus       460 ~~l~e~e~A~e~y~kvl~~--~p~~~D~Ri~Lasl~~~~g~~EkalEtL~~~~~~D~~~~e~~a~~~e~ri~~~r~d~l~  537 (895)
T KOG2076|consen  460 MELGEYEEAIEFYEKVLIL--APDNLDARITLASLYQQLGNHEKALETLEQIINPDGRNAEACAWEPERRILAHRCDILF  537 (895)
T ss_pred             HHHhhHHHHHHHHHHHHhc--CCCchhhhhhHHHHHHhcCCHHHHHHHHhcccCCCccchhhccccHHHHHHHHHHHHHH
Confidence            9999999999999999875  444 44556677788899999999999988542       1234455555555566677


Q ss_pred             hcCCHHH
Q 012108          353 RARLLDR  359 (471)
Q Consensus       353 ~~g~~~~  359 (471)
                      +.|+.++
T Consensus       538 ~~gk~E~  544 (895)
T KOG2076|consen  538 QVGKREE  544 (895)
T ss_pred             HhhhHHH
Confidence            7777665

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

Probab=99.68  E-value=4.5e-14  Score=131.82  Aligned_cols=425  Identities=12%  Similarity=0.041  Sum_probs=268.1

Q ss_pred             CcccCCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHH
Q 012108            1 MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWN   80 (471)
Q Consensus         1 m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~   80 (471)
                      |+..|+.||.+||..+|..||..|+.+.|- +|..|.-...+.+...++.++......++.+.+.       +|.+.+|.
T Consensus        16 ~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~aDtyt   87 (1088)
T KOG4318|consen   16 HEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPLADTYT   87 (1088)
T ss_pred             HHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCchhHHH
Confidence            467899999999999999999999999999 9999998888888999999999999889887776       78899999


Q ss_pred             HHHHHHHcCCCHHH---HHHHHhcCCCC----------------------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC
Q 012108           81 SMLDAFASCGQMDH---AMKLIDLMPLK----------------------DVTSFNIMISGYARIGKIHSARYIFDKVPA  135 (471)
Q Consensus        81 ~li~~~~~~g~~~~---A~~~~~~~~~~----------------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  135 (471)
                      .|..+|.+.|++..   +.+.++.+...                      ....-..++......|-++.+.+++..++.
T Consensus        88 ~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll~~~Pv  167 (1088)
T KOG4318|consen   88 NLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLLAKVPV  167 (1088)
T ss_pred             HHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHHhhCCc
Confidence            99999999998654   33322222111                      111122344445556667777777766633


Q ss_pred             CCh-hhHHHHHHHHHh-CCCHHHHHHHHHhccc-cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012108          136 KDV-VSWNSLILAYTN-AGEMEKAGEMFKKMLV-KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLS  212 (471)
Q Consensus       136 ~~~-~~~~~l~~~~~~-~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~  212 (471)
                      ... ..+..+++-+.. ...+++-..+.+.... +++.+|..++.+-..+|+.+.|..++.+|.+.|.+.+.+-|..++-
T Consensus       168 sa~~~p~~vfLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir~HyFwpLl~  247 (1088)
T KOG4318|consen  168 SAWNAPFQVFLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIRAHYFWPLLL  247 (1088)
T ss_pred             ccccchHHHHHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcccccchhhhh
Confidence            111 011112332222 2334444444444444 7888999999999999999999999999999998888887777664


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHH------------------------Hhc----
Q 012108          213 ACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEV------------------------FYK----  264 (471)
Q Consensus       213 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~------------------------~~~----  264 (471)
                      +   .++...+..++.-|.+.|+.|+..|+...+-.+.++|....+.+.                        +++    
T Consensus       248 g---~~~~q~~e~vlrgmqe~gv~p~seT~adyvip~l~N~~t~~~~e~sq~~hg~tAavrsaa~rg~~a~k~l~~nl~~  324 (1088)
T KOG4318|consen  248 G---INAAQVFEFVLRGMQEKGVQPGSETQADYVIPQLSNGQTKYGEEGSQLAHGFTAAVRSAACRGLLANKRLRQNLRK  324 (1088)
T ss_pred             c---CccchHHHHHHHHHHHhcCCCCcchhHHHHHhhhcchhhhhcccccchhhhhhHHHHHHHhcccHhHHHHHHHHHH
Confidence            4   788888888899999999999988888777666554332211110                        000    


Q ss_pred             -----CCC-------CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCCC-HHHH---------------------
Q 012108          265 -----SQV-------KDVFCWNAMILGLALHGYGYAALKLLGEMNDSC--VKAD-DITF---------------------  308 (471)
Q Consensus       265 -----~~~-------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~p~-~~~~---------------------  308 (471)
                           ..+       ....+|...+. ...+|+-++..++...+..-.  ..++ ...|                     
T Consensus       325 ~v~~s~k~~fLlg~d~~~aiws~c~~-l~hQgk~e~veqlvg~l~npt~r~s~~~V~a~~~~lrqyFrr~e~~~~~~i~~  403 (1088)
T KOG4318|consen  325 SVIGSTKKLFLLGTDILEAIWSMCEK-LRHQGKGEEVEQLVGQLLNPTLRDSGQNVDAFGALLRQYFRRIERHICSRIYY  403 (1088)
T ss_pred             HHHHHhhHHHHhccccchHHHHHHHH-HHHcCCCchHHHHHhhhcCCccccCcchHHHHHHHHHHHHHHHHhhHHHHHHH
Confidence                 000       00111211111 111333333333333222110  0010 0111                     


Q ss_pred             -----------------------------------------------------------HHHHHHHhccCcHHHHHHHHH
Q 012108          309 -----------------------------------------------------------IGLLSACSHAGLVQEGCELFS  329 (471)
Q Consensus       309 -----------------------------------------------------------~~l~~~~~~~~~~~~a~~~~~  329 (471)
                                                                                 +.++..|+..-+..+++..-+
T Consensus       404 ~~qgls~~l~se~tp~vsell~~lrkns~lr~lv~Lss~Eler~he~~~~~~h~irdi~~ql~l~l~se~n~lK~l~~~e  483 (1088)
T KOG4318|consen  404 AGQGLSLNLNSEDTPRVSELLENLRKNSFLRQLVGLSSTELERSHEPWPLIAHLIRDIANQLHLTLNSEYNKLKILCDEE  483 (1088)
T ss_pred             HHHHHHhhhchhhhHHHHHHHHHhCcchHHHHHhhhhHHHHhcccccchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                                                                       111112222222222222222


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC-----CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          330 RMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMP-----FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       330 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      +... .   .-+..|..||+.+....+.+.|..+.++..     +..|...+..+.+.+.+.+....+..+++++.+.-.
T Consensus       484 kye~-~---lf~g~ya~Li~l~~~hdkle~Al~~~~e~d~~d~s~~Ld~~~m~~l~dLL~r~~~l~dl~tiL~e~ks~a~  559 (1088)
T KOG4318|consen  484 KYED-L---LFAGLYALLIKLMDLHDKLEYALSFVDEIDTRDESIHLDLPLMTSLQDLLQRLAILYDLSTILYEDKSSAE  559 (1088)
T ss_pred             HHHH-H---HhhhHHHHHhhhHHHHHHHHHHHhchhhhcccchhhhcccHhHHHHHHHHHHhHHHHHHHHHHhhhhHHhh
Confidence            2222 1   112567788888888888888888888873     344556677788888888999999999988877432


Q ss_pred             CC--CchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          405 YL--SDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       405 ~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      .-  ...++..+.......|+.+...++.+-+...|+..
T Consensus       560 n~~~~a~~~f~~lns~a~agqqe~Lkkl~d~lvslgl~e  598 (1088)
T KOG4318|consen  560 NEPLVAIILFPLLNSGAPAGQQEKLKKLADILVSLGLSE  598 (1088)
T ss_pred             CCchHHHHHHHHHhhhhhccCHHHHHHHHHHHHHhhhhh
Confidence            20  23445556666777899888888888888888765

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

Probab=99.68  E-value=5.5e-13  Score=125.23  Aligned_cols=315  Identities=13%  Similarity=0.063  Sum_probs=222.7

Q ss_pred             HHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHhc---cccChHHHHHHHHHHHhcCCHHHHHH
Q 012108          117 YARIGKIHSARYIFDKVPAK---DVVSWNSLILAYTNAGEMEKAGEMFKKM---LVKNVITWNTMVTGYLRSQLYIEVVD  190 (471)
Q Consensus       117 ~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~  190 (471)
                      +...|++++|.+++.++++.   ....|..|..+|-..|+.+++...+-..   .+.|...|-.+.....+.|++++|.-
T Consensus       149 lfarg~~eeA~~i~~EvIkqdp~~~~ay~tL~~IyEqrGd~eK~l~~~llAAHL~p~d~e~W~~ladls~~~~~i~qA~~  228 (895)
T KOG2076|consen  149 LFARGDLEEAEEILMEVIKQDPRNPIAYYTLGEIYEQRGDIEKALNFWLLAAHLNPKDYELWKRLADLSEQLGNINQARY  228 (895)
T ss_pred             HHHhCCHHHHHHHHHHHHHhCccchhhHHHHHHHHHHcccHHHHHHHHHHHHhcCCCChHHHHHHHHHHHhcccHHHHHH
Confidence            33347788888877777543   4467777777888888888777766554   33466777777777777888888888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhH----HHHHHHHHHhcCChHHHHHHHhcCC
Q 012108          191 LFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHA----TTALIDMYAKCGSIEQSLEVFYKSQ  266 (471)
Q Consensus       191 ~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~  266 (471)
                      .|.+.++.. +++...+---...|-+.|+...|..-|.++.....+.+..-    ....++.+...++-+.|.+.++...
T Consensus       229 cy~rAI~~~-p~n~~~~~ers~L~~~~G~~~~Am~~f~~l~~~~p~~d~er~~d~i~~~~~~~~~~~~~e~a~~~le~~~  307 (895)
T KOG2076|consen  229 CYSRAIQAN-PSNWELIYERSSLYQKTGDLKRAMETFLQLLQLDPPVDIERIEDLIRRVAHYFITHNERERAAKALEGAL  307 (895)
T ss_pred             HHHHHHhcC-CcchHHHHHHHHHHHHhChHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            888777764 34444444555666777888888877777777653223222    2234455666666677777766544


Q ss_pred             C-----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC---------------------------CCCHHHHHHHHHH
Q 012108          267 V-----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCV---------------------------KADDITFIGLLSA  314 (471)
Q Consensus       267 ~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------------------------~p~~~~~~~l~~~  314 (471)
                      .     -+...++.++..|.+..+++.|......+.....                           .++... .-+.-+
T Consensus       308 s~~~~~~~~ed~ni~ael~l~~~q~d~~~~~i~~~~~r~~e~d~~e~~~~~~~~~~~~~~~~~~~~~s~~l~v-~rl~ic  386 (895)
T KOG2076|consen  308 SKEKDEASLEDLNILAELFLKNKQSDKALMKIVDDRNRESEKDDSEWDTDERRREEPNALCEVGKELSYDLRV-IRLMIC  386 (895)
T ss_pred             hhccccccccHHHHHHHHHHHhHHHHHhhHHHHHHhccccCCChhhhhhhhhccccccccccCCCCCCccchh-HhHhhh
Confidence            3     1345667777777777778877777776665211                           222222 122333


Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHhhcCCHHHHHHHHHhCCC-C--CCHhHHHHHHHHHhhcCCc
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTR--KLEHYGCMVDLLGRARLLDRAIELIEAMPF-E--PTESILGALLSACVIHQDL  389 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~--p~~~~~~~l~~~~~~~g~~  389 (471)
                      +.+....+....+.....+ ..+.|  +...|.-+.++|...|++.+|+.+|..+.. +  .+...|..+..+|...|.+
T Consensus       387 L~~L~~~e~~e~ll~~l~~-~n~~~~d~~dL~~d~a~al~~~~~~~~Al~~l~~i~~~~~~~~~~vw~~~a~c~~~l~e~  465 (895)
T KOG2076|consen  387 LVHLKERELLEALLHFLVE-DNVWVSDDVDLYLDLADALTNIGKYKEALRLLSPITNREGYQNAFVWYKLARCYMELGEY  465 (895)
T ss_pred             hhcccccchHHHHHHHHHH-hcCChhhhHHHHHHHHHHHHhcccHHHHHHHHHHHhcCccccchhhhHHHHHHHHHHhhH
Confidence            4445555555555555555 35333  578899999999999999999999999832 2  2466899999999999999


Q ss_pred             hHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          390 EIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       390 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      ++|.+.+++++...|. +...-.+|...+.+.|+.++|.+.++.+.
T Consensus       466 e~A~e~y~kvl~~~p~-~~D~Ri~Lasl~~~~g~~EkalEtL~~~~  510 (895)
T KOG2076|consen  466 EEAIEFYEKVLILAPD-NLDARITLASLYQQLGNHEKALETLEQII  510 (895)
T ss_pred             HHHHHHHHHHHhcCCC-chhhhhhHHHHHHhcCCHHHHHHHHhccc
Confidence            9999999999999999 99999999999999999999999999986

>PRK10747 putative protoheme IX biogenesis protein; Provisional

Probab=99.68  E-value=2.2e-13  Score=125.55  Aligned_cols=278  Identities=13%  Similarity=-0.024  Sum_probs=219.5

Q ss_pred             hcCCHHHHHHHHhhcCCC--Chhh-HHHHHHHHHhCCCHHHHHHHHHhccc--cChHHHH--HHHHHHHhcCCHHHHHHH
Q 012108          119 RIGKIHSARYIFDKVPAK--DVVS-WNSLILAYTNAGEMEKAGEMFKKMLV--KNVITWN--TMVTGYLRSQLYIEVVDL  191 (471)
Q Consensus       119 ~~g~~~~a~~~~~~~~~~--~~~~-~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~--~l~~~~~~~~~~~~a~~~  191 (471)
                      ..|+++.|++.+....+.  .+.. |........+.|+++.|.+.+.++.+  |+.....  .....+...|++++|.+.
T Consensus        96 ~eGd~~~A~k~l~~~~~~~~~p~l~~llaA~aA~~~g~~~~A~~~l~~A~~~~~~~~~~~~l~~a~l~l~~g~~~~Al~~  175 (398)
T PRK10747         96 AEGDYQQVEKLMTRNADHAEQPVVNYLLAAEAAQQRGDEARANQHLERAAELADNDQLPVEITRVRIQLARNENHAARHG  175 (398)
T ss_pred             hCCCHHHHHHHHHHHHhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHCCCHHHHHHH
Confidence            369999999999887553  2333 33345556899999999999999844  3433222  336788999999999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchh-------HHHHHHHHHHhcCChHHHHHHHhc
Q 012108          192 FDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH-------ATTALIDMYAKCGSIEQSLEVFYK  264 (471)
Q Consensus       192 ~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~~~~~~a~~~~~~  264 (471)
                      ++++.+.. +-+......+...+.+.|++++|.+++..+.+.+..++..       +|..++.......+.+...++++.
T Consensus       176 l~~~~~~~-P~~~~al~ll~~~~~~~gdw~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~l~~~~~~~~~~~~l~~~w~~  254 (398)
T PRK10747        176 VDKLLEVA-PRHPEVLRLAEQAYIRTGAWSSLLDILPSMAKAHVGDEEHRAMLEQQAWIGLMDQAMADQGSEGLKRWWKN  254 (398)
T ss_pred             HHHHHhcC-CCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHh
Confidence            99998875 3356677788899999999999999999999987543321       333344444455566777788877


Q ss_pred             CCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCCh
Q 012108          265 SQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKL  341 (471)
Q Consensus       265 ~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  341 (471)
                      +..   .++.....+...+...|+.++|.+++++..+.  +|+....  ++.+....++.+++.+..+...+  ..+.|+
T Consensus       255 lp~~~~~~~~~~~~~A~~l~~~g~~~~A~~~L~~~l~~--~~~~~l~--~l~~~l~~~~~~~al~~~e~~lk--~~P~~~  328 (398)
T PRK10747        255 QSRKTRHQVALQVAMAEHLIECDDHDTAQQIILDGLKR--QYDERLV--LLIPRLKTNNPEQLEKVLRQQIK--QHGDTP  328 (398)
T ss_pred             CCHHHhCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCHHHH--HHHhhccCCChHHHHHHHHHHHh--hCCCCH
Confidence            765   47788899999999999999999999999874  5555322  23344456999999999999998  566678


Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          342 EHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       342 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      ..+..+...+.+.|++++|.+.|+.. ...|+...+..+...+.+.|+.++|..++++....-
T Consensus       329 ~l~l~lgrl~~~~~~~~~A~~~le~al~~~P~~~~~~~La~~~~~~g~~~~A~~~~~~~l~~~  391 (398)
T PRK10747        329 LLWSTLGQLLMKHGEWQEASLAFRAALKQRPDAYDYAWLADALDRLHKPEEAAAMRRDGLMLT  391 (398)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhh
Confidence            88899999999999999999999998 678999999999999999999999999999887653

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

Probab=99.66  E-value=1e-11  Score=108.53  Aligned_cols=409  Identities=12%  Similarity=0.074  Sum_probs=222.3

Q ss_pred             HHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCc-ccHHHHHHHHHcCCCHHH
Q 012108           18 KAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDI-IAWNSMLDAFASCGQMDH   94 (471)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~-~~~~~li~~~~~~g~~~~   94 (471)
                      +.-..++++..|..+|++.+... ..+...|-..+.+=.+...+..|+.++++...  |-+ ..|--.+..--..|++..
T Consensus        81 qwEesq~e~~RARSv~ERALdvd-~r~itLWlkYae~Emknk~vNhARNv~dRAvt~lPRVdqlWyKY~ymEE~LgNi~g  159 (677)
T KOG1915|consen   81 QWEESQKEIQRARSVFERALDVD-YRNITLWLKYAEFEMKNKQVNHARNVWDRAVTILPRVDQLWYKYIYMEEMLGNIAG  159 (677)
T ss_pred             HHHHhHHHHHHHHHHHHHHHhcc-cccchHHHHHHHHHHhhhhHhHHHHHHHHHHHhcchHHHHHHHHHHHHHHhcccHH
Confidence            33334555566666666665543 23444555555555555555555555555432  211 112222222223444555


Q ss_pred             HHHHHhcCC--CCChhhHHHHHHHHHhcCCHHHHHHHHhhc--CCCChhhHHHHHHHHHhCCCHHHHHHHHHhcccc---
Q 012108           95 AMKLIDLMP--LKDVTSFNIMISGYARIGKIHSARYIFDKV--PAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVK---  167 (471)
Q Consensus        95 A~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~--~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---  167 (471)
                      |..+|+...  .|+...|.+.++.-.+.+.++.|..+++..  ..|++..|......-.+.|+...|..+|+..+..   
T Consensus       160 aRqiferW~~w~P~eqaW~sfI~fElRykeieraR~IYerfV~~HP~v~~wikyarFE~k~g~~~~aR~VyerAie~~~~  239 (677)
T KOG1915|consen  160 ARQIFERWMEWEPDEQAWLSFIKFELRYKEIERARSIYERFVLVHPKVSNWIKYARFEEKHGNVALARSVYERAIEFLGD  239 (677)
T ss_pred             HHHHHHHHHcCCCcHHHHHHHHHHHHHhhHHHHHHHHHHHHheecccHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhh
Confidence            555554432  234444555555555555555555555444  2244444444444444444444444444443211   


Q ss_pred             ---C------------------------------------hHHHHHHHHHHHhcCCHHHHHHH--------HHHHHhCCC
Q 012108          168 ---N------------------------------------VITWNTMVTGYLRSQLYIEVVDL--------FDEMKAGNV  200 (471)
Q Consensus       168 ---~------------------------------------~~~~~~l~~~~~~~~~~~~a~~~--------~~~m~~~g~  200 (471)
                         +                                    ...|......--+-|+.......        |+.+++.+ 
T Consensus       240 d~~~e~lfvaFA~fEe~qkE~ERar~iykyAld~~pk~raeeL~k~~~~fEKqfGd~~gIEd~Iv~KRk~qYE~~v~~n-  318 (677)
T KOG1915|consen  240 DEEAEILFVAFAEFEERQKEYERARFIYKYALDHIPKGRAEELYKKYTAFEKQFGDKEGIEDAIVGKRKFQYEKEVSKN-  318 (677)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHhcchhhhHHHHhhhhhhHHHHHHHhC-
Confidence               1                                    22233333322333333322221        22223222 


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCch--hHHHHHHHH--------HHhcCChHHHHHHHhcCCC---
Q 012108          201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNP--HATTALIDM--------YAKCGSIEQSLEVFYKSQV---  267 (471)
Q Consensus       201 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~--------~~~~~~~~~a~~~~~~~~~---  267 (471)
                      +-|-.+|--.++.-...|+.+...++|+.++..- +|-.  ..+...+-.        -....+.+.+.++|+....   
T Consensus       319 p~nYDsWfdylrL~e~~g~~~~Ire~yErAIanv-pp~~ekr~W~RYIYLWinYalyeEle~ed~ertr~vyq~~l~lIP  397 (677)
T KOG1915|consen  319 PYNYDSWFDYLRLEESVGDKDRIRETYERAIANV-PPASEKRYWRRYIYLWINYALYEELEAEDVERTRQVYQACLDLIP  397 (677)
T ss_pred             CCCchHHHHHHHHHHhcCCHHHHHHHHHHHHccC-CchhHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhcC
Confidence            3445556556666666677777777777776552 4421  112222211        1234566666666655333   


Q ss_pred             CChhhHHH----HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhH
Q 012108          268 KDVFCWNA----MILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEH  343 (471)
Q Consensus       268 ~~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  343 (471)
                      +...+|..    ......++.+...|.+++...+  |.-|...+|...|..-.+.++++.+..++++..+  -.|-+..+
T Consensus       398 HkkFtFaKiWlmyA~feIRq~~l~~ARkiLG~AI--G~cPK~KlFk~YIelElqL~efDRcRkLYEkfle--~~Pe~c~~  473 (677)
T KOG1915|consen  398 HKKFTFAKIWLMYAQFEIRQLNLTGARKILGNAI--GKCPKDKLFKGYIELELQLREFDRCRKLYEKFLE--FSPENCYA  473 (677)
T ss_pred             cccchHHHHHHHHHHHHHHHcccHHHHHHHHHHh--ccCCchhHHHHHHHHHHHHhhHHHHHHHHHHHHh--cChHhhHH
Confidence            33333333    3334446677778887777655  4577777888888877788888888888888877  33446777


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCCCCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHH
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAMPFEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYA  419 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  419 (471)
                      |......=...|+.+.|..+|.-.-.+|.    ...|.+.|.--...|.++.|..+++++++..+.  ..+|.+++..-.
T Consensus       474 W~kyaElE~~LgdtdRaRaifelAi~qp~ldmpellwkaYIdFEi~~~E~ekaR~LYerlL~rt~h--~kvWisFA~fe~  551 (677)
T KOG1915|consen  474 WSKYAELETSLGDTDRARAIFELAISQPALDMPELLWKAYIDFEIEEGEFEKARALYERLLDRTQH--VKVWISFAKFEA  551 (677)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHhcCcccccHHHHHHHhhhhhhhcchHHHHHHHHHHHHHhccc--chHHHhHHHHhc
Confidence            77777777778888888888877744553    335556666666778888888888888877766  447776666444


Q ss_pred             -----hcC-----------CHHHHHHHHHHhh
Q 012108          420 -----SCG-----------QWEEANRWRNMMN  435 (471)
Q Consensus       420 -----~~g-----------~~~~A~~~~~~m~  435 (471)
                           +.|           ....|..+|++..
T Consensus       552 s~~~~~~~~~~~~~e~~~~~~~~AR~iferAn  583 (677)
T KOG1915|consen  552 SASEGQEDEDLAELEITDENIKRARKIFERAN  583 (677)
T ss_pred             cccccccccchhhhhcchhHHHHHHHHHHHHH
Confidence                 334           4556777777653

>TIGR00540 hemY_coli hemY protein

Probab=99.66  E-value=1e-12  Score=121.87  Aligned_cols=115  Identities=11%  Similarity=0.014  Sum_probs=61.1

Q ss_pred             hcCCHHHHHHHHhhcCC--CCh-hhHHHHHHHHHhCCCHHHHHHHHHhcc--ccCh--HHHHHHHHHHHhcCCHHHHHHH
Q 012108          119 RIGKIHSARYIFDKVPA--KDV-VSWNSLILAYTNAGEMEKAGEMFKKML--VKNV--ITWNTMVTGYLRSQLYIEVVDL  191 (471)
Q Consensus       119 ~~g~~~~a~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~--~~~~~l~~~~~~~~~~~~a~~~  191 (471)
                      ..|+++.|.+.+.+..+  |++ ..+.....++.+.|+.+.|.+.+.+..  .|+.  ..--.....+...|+++.|...
T Consensus        96 ~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~~p~~~l~~~~~~a~l~l~~~~~~~Al~~  175 (409)
T TIGR00540        96 AEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAELAGNDNILVEIARTRILLAQNELHAARHG  175 (409)
T ss_pred             hCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCcCchHHHHHHHHHHHHCCCHHHHHHH
Confidence            34556666555555532  221 222333455556666666666666652  1222  1222235555666666666666


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 012108          192 FDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNG  234 (471)
Q Consensus       192 ~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  234 (471)
                      ++.+.+.. +-+......+...+...|+++.|.+.+..+.+.+
T Consensus       176 l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~  217 (409)
T TIGR00540       176 VDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAG  217 (409)
T ss_pred             HHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcC
Confidence            66666553 2233445555566666666666666666666665

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

>TIGR00540 hemY_coli hemY protein

Probab=99.65  E-value=9e-13  Score=122.26  Aligned_cols=284  Identities=12%  Similarity=-0.015  Sum_probs=206.4

Q ss_pred             HHhCCCHHHHHHHHHhccc--cCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHHHHccCChHH
Q 012108          148 YTNAGEMEKAGEMFKKMLV--KNV-ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYL--TVTSVLSACANLGSLET  222 (471)
Q Consensus       148 ~~~~~~~~~A~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~l~~~~~~~~~~~~  222 (471)
                      ....|+++.|.+.+.+..+  |++ ..+-....+....|+++.|.+.+.+..+.  .|+..  .-......+...|+++.
T Consensus        94 a~~~g~~~~A~~~l~~~~~~~~~~~~~~llaA~aa~~~g~~~~A~~~l~~a~~~--~p~~~l~~~~~~a~l~l~~~~~~~  171 (409)
T TIGR00540        94 KLAEGDYAKAEKLIAKNADHAAEPVLNLIKAAEAAQQRGDEARANQHLEEAAEL--AGNDNILVEIARTRILLAQNELHA  171 (409)
T ss_pred             HHhCCCHHHHHHHHHHHhhcCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCcCchHHHHHHHHHHHHCCCHHH
Confidence            4578999999999988843  333 33444567788899999999999998765  34443  33335777888999999


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC---ChhhHH----HHHHHHHhcCChHHHHHHHHH
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWN----AMILGLALHGYGYAALKLLGE  295 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~----~l~~~~~~~~~~~~a~~~~~~  295 (471)
                      |...++.+.+.. |.++.+...+...+...|++++|.+.+....+.   +...+.    .........+..+++.+.+..
T Consensus       172 Al~~l~~l~~~~-P~~~~~l~ll~~~~~~~~d~~~a~~~l~~l~k~~~~~~~~~~~l~~~a~~~~l~~~~~~~~~~~L~~  250 (409)
T TIGR00540       172 ARHGVDKLLEMA-PRHKEVLKLAEEAYIRSGAWQALDDIIDNMAKAGLFDDEEFADLEQKAEIGLLDEAMADEGIDGLLN  250 (409)
T ss_pred             HHHHHHHHHHhC-CCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            999999999986 667889999999999999999999999887643   333232    111222333333444445555


Q ss_pred             HHhCCC---CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH--HHhhcCCHHHHHHHHHhC-CC
Q 012108          296 MNDSCV---KADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD--LLGRARLLDRAIELIEAM-PF  369 (471)
Q Consensus       296 ~~~~~~---~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~--~~~~~g~~~~A~~~~~~~-~~  369 (471)
                      +.....   +.+...+..+...+...|+.++|.+++++..+.  .+++......++.  .....++.+.+.+.+++. ..
T Consensus       251 ~~~~~p~~~~~~~~l~~~~a~~l~~~g~~~~A~~~l~~~l~~--~pd~~~~~~~~l~~~~~l~~~~~~~~~~~~e~~lk~  328 (409)
T TIGR00540       251 WWKNQPRHRRHNIALKIALAEHLIDCDDHDSAQEIIFDGLKK--LGDDRAISLPLCLPIPRLKPEDNEKLEKLIEKQAKN  328 (409)
T ss_pred             HHHHCCHHHhCCHHHHHHHHHHHHHCCChHHHHHHHHHHHhh--CCCcccchhHHHHHhhhcCCCChHHHHHHHHHHHHh
Confidence            554311   237788888999999999999999999999983  3333321101222  223457888888888776 33


Q ss_pred             CCC-H--hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          370 EPT-E--SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       370 ~p~-~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      .|+ +  ....++...+.+.|++++|.+.|+........|++..+..++..+.+.|+.++|.+++++...
T Consensus       329 ~p~~~~~~ll~sLg~l~~~~~~~~~A~~~le~a~a~~~~p~~~~~~~La~ll~~~g~~~~A~~~~~~~l~  398 (409)
T TIGR00540       329 VDDKPKCCINRALGQLLMKHGEFIEAADAFKNVAACKEQLDANDLAMAADAFDQAGDKAEAAAMRQDSLG  398 (409)
T ss_pred             CCCChhHHHHHHHHHHHHHcccHHHHHHHHHHhHHhhcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            443 4  566788999999999999999999644444445677788999999999999999999998754

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.

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

Probab=99.65  E-value=1e-15  Score=134.95  Aligned_cols=247  Identities=17%  Similarity=0.145  Sum_probs=75.3

Q ss_pred             HHHHHHhhccchhHHHHHHHHHHHhc-cCCchhHHHHHHHHHhccCCHhHHHHHhcccCCC---CcccHHHHHHHHHcCC
Q 012108           15 LLLKAAGILSSSCIGLMLHGQTIKTG-FCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEK---DIIAWNSMLDAFASCG   90 (471)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~~~~~g   90 (471)
                      .+...+...|++++|.++++...... .+.+...|..+.......++++.|+..++++...   ++..+..++.. ...+
T Consensus        13 ~~A~~~~~~~~~~~Al~~L~~~~~~~~~~~~~~~~~~~a~La~~~~~~~~A~~ay~~l~~~~~~~~~~~~~l~~l-~~~~   91 (280)
T PF13429_consen   13 RLARLLYQRGDYEKALEVLKKAAQKIAPPDDPEYWRLLADLAWSLGDYDEAIEAYEKLLASDKANPQDYERLIQL-LQDG   91 (280)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc-cccc
Confidence            44555666777777777775544333 2334445555555555667777777777776642   33345555555 5667


Q ss_pred             CHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHhhcC-----CCChhhHHHHHHHHHhCCCHHHHHHHHHh
Q 012108           91 QMDHAMKLIDLMPLK--DVTSFNIMISGYARIGKIHSARYIFDKVP-----AKDVVSWNSLILAYTNAGEMEKAGEMFKK  163 (471)
Q Consensus        91 ~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  163 (471)
                      ++++|.++++..-+.  ++..+...+..+...++++++.++++.+.     +.+...|..+...+.+.|+.++|++.+++
T Consensus        92 ~~~~A~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~  171 (280)
T PF13429_consen   92 DPEEALKLAEKAYERDGDPRYLLSALQLYYRLGDYDEAEELLEKLEELPAAPDSARFWLALAEIYEQLGDPDKALRDYRK  171 (280)
T ss_dssp             --------------------------H-HHHTT-HHHHHHHHHHHHH-T---T-HHHHHHHHHHHHHCCHHHHHHHHHHH
T ss_pred             cccccccccccccccccccchhhHHHHHHHHHhHHHHHHHHHHHHHhccCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            777777766655322  45555566666666666666666666641     23455566666666666666666666666


Q ss_pred             cc--cc-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchh
Q 012108          164 ML--VK-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH  240 (471)
Q Consensus       164 ~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  240 (471)
                      ..  .| |....+.++..+...|+.+++.++++...+.. +.|...+..+..++...|+.++|..+++...+.. +.|+.
T Consensus       172 al~~~P~~~~~~~~l~~~li~~~~~~~~~~~l~~~~~~~-~~~~~~~~~la~~~~~lg~~~~Al~~~~~~~~~~-p~d~~  249 (280)
T PF13429_consen  172 ALELDPDDPDARNALAWLLIDMGDYDEAREALKRLLKAA-PDDPDLWDALAAAYLQLGRYEEALEYLEKALKLN-PDDPL  249 (280)
T ss_dssp             HHHH-TT-HHHHHHHHHHHCTTCHHHHHHHHHHHHHHH--HTSCCHCHHHHHHHHHHT-HHHHHHHHHHHHHHS-TT-HH
T ss_pred             HHHcCCCCHHHHHHHHHHHHHCCChHHHHHHHHHHHHHC-cCHHHHHHHHHHHhcccccccccccccccccccc-ccccc
Confidence            62  23 34556666666666666666666665555432 2333444555666666666666666666666554 45566


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhc
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYK  264 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~  264 (471)
                      +...+..++...|+.++|.++.++
T Consensus       250 ~~~~~a~~l~~~g~~~~A~~~~~~  273 (280)
T PF13429_consen  250 WLLAYADALEQAGRKDEALRLRRQ  273 (280)
T ss_dssp             HHHHHHHHHT--------------
T ss_pred             cccccccccccccccccccccccc
Confidence            666666666666666666665544

>KOG4422 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.61  E-value=1.1e-11  Score=107.00  Aligned_cols=344  Identities=12%  Similarity=0.079  Sum_probs=225.4

Q ss_pred             CCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccC----CCCcccHHH
Q 012108            6 VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMP----EKDIIAWNS   81 (471)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~~~~~~~~   81 (471)
                      .+-+..+|..+|.++|+-...+.|.+++.+..+...+.+..++|.+|.+-.-..+    .+++.+|.    .||..|+|+
T Consensus       203 ~PKT~et~s~mI~Gl~K~~~~ERA~~L~kE~~~~k~kv~~~aFN~lI~~~S~~~~----K~Lv~EMisqkm~Pnl~TfNa  278 (625)
T KOG4422|consen  203 LPKTDETVSIMIAGLCKFSSLERARELYKEHRAAKGKVYREAFNGLIGASSYSVG----KKLVAEMISQKMTPNLFTFNA  278 (625)
T ss_pred             cCCCchhHHHHHHHHHHHHhHHHHHHHHHHHHHhhheeeHHhhhhhhhHHHhhcc----HHHHHHHHHhhcCCchHhHHH
Confidence            3556789999999999999999999999999888888999999999886554333    55666665    499999999


Q ss_pred             HHHHHHcCCCHHHHHH----HHhcCC----CCChhhHHHHHHHHHhcCCHHH-HHHHHhhc------------CCCChhh
Q 012108           82 MLDAFASCGQMDHAMK----LIDLMP----LKDVTSFNIMISGYARIGKIHS-ARYIFDKV------------PAKDVVS  140 (471)
Q Consensus        82 li~~~~~~g~~~~A~~----~~~~~~----~~~~~~~~~l~~~~~~~g~~~~-a~~~~~~~------------~~~~~~~  140 (471)
                      ++.+..+.|+++.|.+    ++.+|+    .|...+|..++..+.+.++..+ +..++..+            .+.|...
T Consensus       279 lL~c~akfg~F~~ar~aalqil~EmKeiGVePsLsSyh~iik~f~re~dp~k~as~~i~dI~N~ltGK~fkp~~p~d~~F  358 (625)
T KOG4422|consen  279 LLSCAAKFGKFEDARKAALQILGEMKEIGVEPSLSSYHLIIKNFKRESDPQKVASSWINDIQNSLTGKTFKPITPTDNKF  358 (625)
T ss_pred             HHHHHHHhcchHHHHHHHHHHHHHHHHhCCCcchhhHHHHHHHhcccCCchhhhHHHHHHHHHhhccCcccCCCCchhHH
Confidence            9999999998876654    445554    4467799999999999888754 44444443            1235567


Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHhcc--------ccC---hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 012108          141 WNSLILAYTNAGEMEKAGEMFKKML--------VKN---VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTS  209 (471)
Q Consensus       141 ~~~l~~~~~~~~~~~~A~~~~~~~~--------~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  209 (471)
                      |...++.|.+..+.+.|.++..-..        .++   ..-|..+....++....+.....|+.|.-.-.-|+..+...
T Consensus       359 F~~AM~Ic~~l~d~~LA~~v~~ll~tg~N~~~ig~~~~~~fYyr~~~~licq~es~~~~~~~Y~~lVP~~y~p~~~~m~~  438 (625)
T KOG4422|consen  359 FQSAMSICSSLRDLELAYQVHGLLKTGDNWKFIGPDQHRNFYYRKFFDLICQMESIDVTLKWYEDLVPSAYFPHSQTMIH  438 (625)
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHcCCchhhcChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccceecCCchhHHH
Confidence            7888888889999999988776652        122   23456677788888889999999999987777788889999


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-ChH-HHHHHHhcCCCCChhhHHHHHHHHHhcCChH
Q 012108          210 VLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG-SIE-QSLEVFYKSQVKDVFCWNAMILGLALHGYGY  287 (471)
Q Consensus       210 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~-~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  287 (471)
                      ++++..-.|.++-.-++|.+++..|...+.....-++..+++.. +.. -+.+           -+.....-++ ..-.+
T Consensus       439 ~lrA~~v~~~~e~ipRiw~D~~~~ght~r~~l~eeil~~L~~~k~hp~tp~r~-----------Ql~~~~ak~a-ad~~e  506 (625)
T KOG4422|consen  439 LLRALDVANRLEVIPRIWKDSKEYGHTFRSDLREEILMLLARDKLHPLTPERE-----------QLQVAFAKCA-ADIKE  506 (625)
T ss_pred             HHHHHhhcCcchhHHHHHHHHHHhhhhhhHHHHHHHHHHHhcCCCCCCChHHH-----------HHHHHHHHHH-HHHHH
Confidence            99999999999999999999998885555544444444444433 110 0000           0111111000 00011


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHH---HHHHHHhhcCCHHHHHHHH
Q 012108          288 AALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG---CMVDLLGRARLLDRAIELI  364 (471)
Q Consensus       288 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~l~~~~~~~g~~~~A~~~~  364 (471)
                      .....-.+|.+..  .+....+.++-.+.+.|..++|.+++..+.+...--|-....+   .+++.-.+.+++..|...+
T Consensus       507 ~~e~~~~R~r~~~--~~~t~l~~ia~Ll~R~G~~qkA~e~l~l~~~~~~~ip~~p~lnAm~El~d~a~~~~spsqA~~~l  584 (625)
T KOG4422|consen  507 AYESQPIRQRAQD--WPATSLNCIAILLLRAGRTQKAWEMLGLFLRKHNKIPRSPLLNAMAELMDSAKVSNSPSQAIEVL  584 (625)
T ss_pred             HHHhhHHHHHhcc--CChhHHHHHHHHHHHcchHHHHHHHHHHHHhcCCcCCCCcchhhHHHHHHHHHhcCCHHHHHHHH
Confidence            1112222333332  2333444455555666666666666666644222223333333   3344445556666666666


Q ss_pred             HhC
Q 012108          365 EAM  367 (471)
Q Consensus       365 ~~~  367 (471)
                      +-+
T Consensus       585 Q~a  587 (625)
T KOG4422|consen  585 QLA  587 (625)
T ss_pred             HHH
Confidence            555

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

Probab=99.61  E-value=1.8e-13  Score=124.48  Aligned_cols=267  Identities=15%  Similarity=0.086  Sum_probs=114.7

Q ss_pred             hHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC------CCcccHHHHHHHHHcCCCHH-HHHHHH
Q 012108           27 CIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE------KDIIAWNSMLDAFASCGQMD-HAMKLI   99 (471)
Q Consensus        27 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~-~A~~~~   99 (471)
                      ++|..+|+.+.+. ...+..+...+...|...+++++|+++|+.+.+      .+.+.|++.+.-+-+.=.+. -|..+.
T Consensus       336 ~~A~~~~~klp~h-~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq~~v~Ls~Laq~Li  414 (638)
T KOG1126|consen  336 REALNLFEKLPSH-HYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQDEVALSYLAQDLI  414 (638)
T ss_pred             HHHHHHHHhhHHh-cCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHHhhHHHHHHHHHHH
Confidence            4455555553322 233334555555555555555555555555443      23444544443332111110 111111


Q ss_pred             hcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCC---hhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHH--
Q 012108          100 DLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKD---VVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNT--  174 (471)
Q Consensus       100 ~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~--  174 (471)
                      +. -+..+.+|.++..+|.-.++.+.|++.|++.+..|   ..+|+.+..-+....++|.|...|+..+..|+..||+  
T Consensus       415 ~~-~~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~~~rhYnAwY  493 (638)
T KOG1126|consen  415 DT-DPNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGVDPRHYNAWY  493 (638)
T ss_pred             hh-CCCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcCCchhhHHHH
Confidence            11 11244555555555555555555555555553322   2344444444444555555555555554444443332  


Q ss_pred             -HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 012108          175 -MVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG  253 (471)
Q Consensus       175 -l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  253 (471)
                       +...|.++++++.|+-.|++..+-+ +-+.+....+...+.+.|+.++|+++++++.... +.|+..-...+..+...+
T Consensus       494 GlG~vy~Kqek~e~Ae~~fqkA~~IN-P~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld-~kn~l~~~~~~~il~~~~  571 (638)
T KOG1126|consen  494 GLGTVYLKQEKLEFAEFHFQKAVEIN-PSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLD-PKNPLCKYHRASILFSLG  571 (638)
T ss_pred             hhhhheeccchhhHHHHHHHhhhcCC-ccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcC-CCCchhHHHHHHHHHhhc
Confidence             3334555555555555555544432 1122333333444444455555555555544443 223322222333344444


Q ss_pred             ChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 012108          254 SIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMN  297 (471)
Q Consensus       254 ~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  297 (471)
                      ++++|+..++++..   .+...+..+...|.+.|+.+.|+.-|.-+.
T Consensus       572 ~~~eal~~LEeLk~~vP~es~v~~llgki~k~~~~~~~Al~~f~~A~  618 (638)
T KOG1126|consen  572 RYVEALQELEELKELVPQESSVFALLGKIYKRLGNTDLALLHFSWAL  618 (638)
T ss_pred             chHHHHHHHHHHHHhCcchHHHHHHHHHHHHHHccchHHHHhhHHHh
Confidence            44444444443322   123333444444444444444444444333

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

Probab=99.61  E-value=3.1e-13  Score=122.99  Aligned_cols=281  Identities=10%  Similarity=0.021  Sum_probs=201.2

Q ss_pred             CHHHHHHHHHhcccc---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHccCChHHHHH-H
Q 012108          153 EMEKAGEMFKKMLVK---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV--KPDYLTVTSVLSACANLGSLETGAR-I  226 (471)
Q Consensus       153 ~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~l~~~~~~~~~~~~a~~-~  226 (471)
                      +..+|...|.+.+..   .......+..+|...+++++|.++|+...+...  .-+...|.+.+.-+-   + +-+.. +
T Consensus       334 ~~~~A~~~~~klp~h~~nt~wvl~q~GrayFEl~~Y~~a~~~F~~~r~~~p~rv~~meiyST~LWHLq---~-~v~Ls~L  409 (638)
T KOG1126|consen  334 NCREALNLFEKLPSHHYNTGWVLSQLGRAYFELIEYDQAERIFSLVRRIEPYRVKGMEIYSTTLWHLQ---D-EVALSYL  409 (638)
T ss_pred             HHHHHHHHHHhhHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHHHHH---h-hHHHHHH
Confidence            456777777775322   334455677788888888888888888766421  123445665554321   1 11222 2


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 012108          227 HVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKA  303 (471)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  303 (471)
                      -+.+.+.. +..+.+|.++...|.-+++.+.|++.|++..+-   ...+|+.+..-+.....+|.|...|+..+..  .|
T Consensus       410 aq~Li~~~-~~sPesWca~GNcfSLQkdh~~Aik~f~RAiQldp~faYayTLlGhE~~~~ee~d~a~~~fr~Al~~--~~  486 (638)
T KOG1126|consen  410 AQDLIDTD-PNSPESWCALGNCFSLQKDHDTAIKCFKRAIQLDPRFAYAYTLLGHESIATEEFDKAMKSFRKALGV--DP  486 (638)
T ss_pred             HHHHHhhC-CCCcHHHHHhcchhhhhhHHHHHHHHHHHhhccCCccchhhhhcCChhhhhHHHHhHHHHHHhhhcC--Cc
Confidence            23344443 667888888888888888888888888887663   3467777777778888888888888887753  23


Q ss_pred             -CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHH
Q 012108          304 -DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALL  380 (471)
Q Consensus       304 -~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  380 (471)
                       +-..|..+...|.++++++.|+-.|+++.+  --+.+......+...+.+.|+.++|+.+++++ ...| |+..--..+
T Consensus       487 rhYnAwYGlG~vy~Kqek~e~Ae~~fqkA~~--INP~nsvi~~~~g~~~~~~k~~d~AL~~~~~A~~ld~kn~l~~~~~~  564 (638)
T KOG1126|consen  487 RHYNAWYGLGTVYLKQEKLEFAEFHFQKAVE--INPSNSVILCHIGRIQHQLKRKDKALQLYEKAIHLDPKNPLCKYHRA  564 (638)
T ss_pred             hhhHHHHhhhhheeccchhhHHHHHHHhhhc--CCccchhHHhhhhHHHHHhhhhhHHHHHHHHHHhcCCCCchhHHHHH
Confidence             233555677788888999999888888886  34446677777778888889999999999887 3333 444444556


Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccC
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTA  443 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  443 (471)
                      ..+...+++++|+..++++.+.-|+ +..++..+++.|.+.|+.+.|..-|.-+.+.++....
T Consensus       565 ~il~~~~~~~eal~~LEeLk~~vP~-es~v~~llgki~k~~~~~~~Al~~f~~A~~ldpkg~~  626 (638)
T KOG1126|consen  565 SILFSLGRYVEALQELEELKELVPQ-ESSVFALLGKIYKRLGNTDLALLHFSWALDLDPKGAQ  626 (638)
T ss_pred             HHHHhhcchHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHHccchHHHHhhHHHhcCCCccch
Confidence            6677888999999999999999998 8889999999999999999998888888777766544

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.59  E-value=1.7e-10  Score=103.91  Aligned_cols=413  Identities=10%  Similarity=0.036  Sum_probs=244.9

Q ss_pred             HHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcc-cH-HHHHHHHHcCCC
Q 012108           14 PLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDII-AW-NSMLDAFASCGQ   91 (471)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~-~~li~~~~~~g~   91 (471)
                      -+=++.+...|++++|.+...+++..+ +.+..++.+-+-++.+.+++++|.++.+.-...... .+ -.-.-++.+.+.
T Consensus        16 ~t~ln~~~~~~e~e~a~k~~~Kil~~~-pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk   94 (652)
T KOG2376|consen   16 LTDLNRHGKNGEYEEAVKTANKILSIV-PDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNK   94 (652)
T ss_pred             HHHHHHhccchHHHHHHHHHHHHHhcC-CCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHccc
Confidence            344566778899999999999999887 557778888888999999999999877664421111 11 112334457899


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHh-CCCHHHHHHHHHhccccChH
Q 012108           92 MDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTN-AGEMEKAGEMFKKMLVKNVI  170 (471)
Q Consensus        92 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~A~~~~~~~~~~~~~  170 (471)
                      .++|+..++-..+.+..+...-...|.+.|++++|..+|+.+.+.+...+...+.+-+- .+-.-.+. +.+..+.....
T Consensus        95 ~Dealk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-~~q~v~~v~e~  173 (652)
T KOG2376|consen   95 LDEALKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-LLQSVPEVPED  173 (652)
T ss_pred             HHHHHHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-HHHhccCCCcc
Confidence            99999999966666777888888999999999999999999955443333322221110 01001111 22222111111


Q ss_pred             HHH---HHHHHHHhcCCHHHHHHHHHHHHhCC-------CCCCH------H-HHHHHHHHHHccCChHHHHHHHHHHHHc
Q 012108          171 TWN---TMVTGYLRSQLYIEVVDLFDEMKAGN-------VKPDY------L-TVTSVLSACANLGSLETGARIHVYATDN  233 (471)
Q Consensus       171 ~~~---~l~~~~~~~~~~~~a~~~~~~m~~~g-------~~p~~------~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~  233 (471)
                      +|.   .....+...|++.+|+++++...+.+       -.-+.      . .-..+...+-..|+-++|..++...++.
T Consensus       174 syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~  253 (652)
T KOG2376|consen  174 SYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKR  253 (652)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh
Confidence            221   22334445566666666665552110       00000      0 1112223334456666666666665555


Q ss_pred             CCCCchhH----HHHHHH---------------------------------------------HHHhcCChHHHHHHHhc
Q 012108          234 GLASNPHA----TTALID---------------------------------------------MYAKCGSIEQSLEVFYK  264 (471)
Q Consensus       234 ~~~~~~~~----~~~l~~---------------------------------------------~~~~~~~~~~a~~~~~~  264 (471)
                      . ++|...    .|.|+.                                             ...-.+..+.+.++...
T Consensus       254 ~-~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~  332 (652)
T KOG2376|consen  254 N-PADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSAS  332 (652)
T ss_pred             c-CCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHh
Confidence            4 222211    111111                                             11111222333333333


Q ss_pred             CCCCC-hhhHHHHHHHHHh--cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH--------HhHH
Q 012108          265 SQVKD-VFCWNAMILGLAL--HGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFS--------RMEK  333 (471)
Q Consensus       265 ~~~~~-~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~--------~~~~  333 (471)
                      ..... ...+.+++....+  ...+..+.+++...-+....-........+......|+++.|.+++.        .+.+
T Consensus       333 lp~~~p~~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~ss~~~  412 (652)
T KOG2376|consen  333 LPGMSPESLFPILLQEATKVREKKHKKAIELLLQFADGHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKSSILE  412 (652)
T ss_pred             CCccCchHHHHHHHHHHHHHHHHHHhhhHHHHHHHhccCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhhhhhh
Confidence            33222 3344555544332  33567777777777665222223455556677788999999999999        4443


Q ss_pred             hcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-----CCCCCHhH----HHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          334 DFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-----PFEPTESI----LGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       334 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~~~p~~~~----~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                       .+  ..+.+..+++..+.+.++.+.|..++.+.     ...+....    +.-+...-.+.|+-++|..+++++.+.+|
T Consensus       413 -~~--~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n~  489 (652)
T KOG2376|consen  413 -AK--HLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFNP  489 (652)
T ss_pred             -hc--cChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhCC
Confidence             23  34556667888888888877777776655     11222233    33333344577999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          405 YLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       405 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      . |..+...++.+|++. +.+.|..+-..+
T Consensus       490 ~-d~~~l~~lV~a~~~~-d~eka~~l~k~L  517 (652)
T KOG2376|consen  490 N-DTDLLVQLVTAYARL-DPEKAESLSKKL  517 (652)
T ss_pred             c-hHHHHHHHHHHHHhc-CHHHHHHHhhcC
Confidence            9 999999999999887 678887776655

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

Probab=99.58  E-value=4.6e-12  Score=105.39  Aligned_cols=285  Identities=13%  Similarity=0.103  Sum_probs=124.5

Q ss_pred             CCCHHHHHHHHhcCCCCChhhH---HHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhcc
Q 012108           89 CGQMDHAMKLIDLMPLKDVTSF---NIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKML  165 (471)
Q Consensus        89 ~g~~~~A~~~~~~~~~~~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~  165 (471)
                      +++.++|.++|-+|.+.|+.|+   .++.+.|.+.|..+.|+.+...+......|+..                      
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~q----------------------  105 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQ----------------------  105 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHH----------------------
Confidence            4456666666666655544333   234445555555555555555553321111110                      


Q ss_pred             ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc----hhH
Q 012108          166 VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASN----PHA  241 (471)
Q Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~  241 (471)
                        -..+.-.|..-|...|-+|.|..+|..+.+.| ..-......|+..|-...+|++|..+-+++.+.+-.+.    ...
T Consensus       106 --r~lAl~qL~~Dym~aGl~DRAE~~f~~L~de~-efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqf  182 (389)
T COG2956         106 --RLLALQQLGRDYMAAGLLDRAEDIFNQLVDEG-EFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQF  182 (389)
T ss_pred             --HHHHHHHHHHHHHHhhhhhHHHHHHHHHhcch-hhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHH
Confidence              00112223333444444444444444444322 11222333444444444444444444444444332221    122


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 012108          242 TTALIDMYAKCGSIEQSLEVFYKSQVKD---VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHA  318 (471)
Q Consensus       242 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  318 (471)
                      |..|...+....+.+.|..++.+..+.|   +.+--.+.......|+++.|.+.++...+++..--+.+...|..+|.+.
T Consensus       183 yCELAq~~~~~~~~d~A~~~l~kAlqa~~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~l  262 (389)
T COG2956         183 YCELAQQALASSDVDRARELLKKALQADKKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQL  262 (389)
T ss_pred             HHHHHHHHhhhhhHHHHHHHHHHHHhhCccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHh
Confidence            3333333333444444444444433321   2222333444555555556666665555553333334455555666666


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHH-HHHhCCCCCCHhHHHHHHHHHhh---cCCchHHHH
Q 012108          319 GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIE-LIEAMPFEPTESILGALLSACVI---HQDLEIGDR  394 (471)
Q Consensus       319 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~~~~~p~~~~~~~l~~~~~~---~g~~~~a~~  394 (471)
                      |+.++....+..+.+.   .+.+..-..+.+.-....-.+.|.. +.+.+.-+|+...+..++.....   .|..++...
T Consensus       263 g~~~~~~~fL~~~~~~---~~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r~Pt~~gf~rl~~~~l~daeeg~~k~sL~  339 (389)
T COG2956         263 GKPAEGLNFLRRAMET---NTGADAELMLADLIELQEGIDAAQAYLTRQLRRKPTMRGFHRLMDYHLADAEEGRAKESLD  339 (389)
T ss_pred             CCHHHHHHHHHHHHHc---cCCccHHHHHHHHHHHhhChHHHHHHHHHHHhhCCcHHHHHHHHHhhhccccccchhhhHH
Confidence            6666666666655551   2222223333333322222333332 33344455666666666655332   223444444


Q ss_pred             HHHHHHH
Q 012108          395 VAKMVCA  401 (471)
Q Consensus       395 ~~~~~~~  401 (471)
                      .++.|..
T Consensus       340 ~lr~mvg  346 (389)
T COG2956         340 LLRDMVG  346 (389)
T ss_pred             HHHHHHH
Confidence            4454443

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

Probab=99.57  E-value=3.2e-11  Score=103.57  Aligned_cols=127  Identities=16%  Similarity=0.031  Sum_probs=68.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMV  348 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  348 (471)
                      ++..-.+++.-+.+.|+.++|.++..+..+++..|+    ....-.+.+.++...-++..++..+.  .+.++..+..|.
T Consensus       262 ~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk~~~D~~----L~~~~~~l~~~d~~~l~k~~e~~l~~--h~~~p~L~~tLG  335 (400)
T COG3071         262 DPELVVAYAERLIRLGDHDEAQEIIEDALKRQWDPR----LCRLIPRLRPGDPEPLIKAAEKWLKQ--HPEDPLLLSTLG  335 (400)
T ss_pred             ChhHHHHHHHHHHHcCChHHHHHHHHHHHHhccChh----HHHHHhhcCCCCchHHHHHHHHHHHh--CCCChhHHHHHH
Confidence            444555555555566666666666666555544443    11122234455555555555555542  223334555566


Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          349 DLLGRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      ..|.+.+.+.+|.+.|+.. ...|+..+|+-+..++.+.|+..+|..+.++.+.
T Consensus       336 ~L~~k~~~w~kA~~~leaAl~~~~s~~~~~~la~~~~~~g~~~~A~~~r~e~L~  389 (400)
T COG3071         336 RLALKNKLWGKASEALEAALKLRPSASDYAELADALDQLGEPEEAEQVRREALL  389 (400)
T ss_pred             HHHHHhhHHHHHHHHHHHHHhcCCChhhHHHHHHHHHHcCChHHHHHHHHHHHH
Confidence            6666666666666666544 4555666666666666666666666665555543

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

Probab=99.56  E-value=1.5e-10  Score=101.16  Aligned_cols=354  Identities=12%  Similarity=0.065  Sum_probs=245.2

Q ss_pred             CcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhH-HHHHHHHHhCCC
Q 012108           75 DIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSW-NSLILAYTNAGE  153 (471)
Q Consensus        75 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~l~~~~~~~~~  153 (471)
                      |+..+-.....+-+.|....|.+.|......-+..|.+.+....-..+.+.+..+...+...+...- --+..++....+
T Consensus       163 D~fllYL~Gvv~k~~~~~s~A~~sfv~~v~~~P~~W~AWleL~~lit~~e~~~~l~~~l~~~~h~M~~~F~~~a~~el~q  242 (559)
T KOG1155|consen  163 DEFLLYLYGVVLKELGLLSLAIDSFVEVVNRYPWFWSAWLELSELITDIEILSILVVGLPSDMHWMKKFFLKKAYQELHQ  242 (559)
T ss_pred             hhHHHHHHHHHHHhhchHHHHHHHHHHHHhcCCcchHHHHHHHHhhchHHHHHHHHhcCcccchHHHHHHHHHHHHHHHH
Confidence            3333333444566778888999988887765455555555544444444444443333322211111 123345556666


Q ss_pred             HHHHHHHHHhccc----cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHccCChHHHHHHH
Q 012108          154 MEKAGEMFKKMLV----KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV--KPDYLTVTSVLSACANLGSLETGARIH  227 (471)
Q Consensus       154 ~~~A~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~l~~~~~~~~~~~~a~~~~  227 (471)
                      .+++..-......    .+...-+....+.....++++|+.+|+++.+...  --|..+|+.++..-.....    ..++
T Consensus       243 ~~e~~~k~e~l~~~gf~~~~~i~~~~A~~~y~~rDfD~a~s~Feei~knDPYRl~dmdlySN~LYv~~~~sk----Ls~L  318 (559)
T KOG1155|consen  243 HEEALQKKERLSSVGFPNSMYIKTQIAAASYNQRDFDQAESVFEEIRKNDPYRLDDMDLYSNVLYVKNDKSK----LSYL  318 (559)
T ss_pred             HHHHHHHHHHHHhccCCccHHHHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcchhHHHHhHHHHHHhhhHH----HHHH
Confidence            6776665555522    2444445555667778899999999999988732  1255677776644322111    1222


Q ss_pred             HH-HHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 012108          228 VY-ATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKA  303 (471)
Q Consensus       228 ~~-~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  303 (471)
                      .+ ..+.+ +--+.|...+.+.|+-.++.++|...|++..+-   ...+|+.+..-|...++...|++.++..++-+ +-
T Consensus       319 A~~v~~id-KyR~ETCCiIaNYYSlr~eHEKAv~YFkRALkLNp~~~~aWTLmGHEyvEmKNt~AAi~sYRrAvdi~-p~  396 (559)
T KOG1155|consen  319 AQNVSNID-KYRPETCCIIANYYSLRSEHEKAVMYFKRALKLNPKYLSAWTLMGHEYVEMKNTHAAIESYRRAVDIN-PR  396 (559)
T ss_pred             HHHHHHhc-cCCccceeeehhHHHHHHhHHHHHHHHHHHHhcCcchhHHHHHhhHHHHHhcccHHHHHHHHHHHhcC-ch
Confidence            22 11111 445667888889999999999999999987663   45789999999999999999999999999863 45


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCHhHHHHHHH
Q 012108          304 DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMP--FEPTESILGALLS  381 (471)
Q Consensus       304 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~~~~l~~  381 (471)
                      |-..|..|.++|.-.+...=|+-+|+++.+  -.+.|...|.+|.++|.+.++.++|++.|.+.-  ...+...+..|..
T Consensus       397 DyRAWYGLGQaYeim~Mh~YaLyYfqkA~~--~kPnDsRlw~aLG~CY~kl~~~~eAiKCykrai~~~dte~~~l~~Lak  474 (559)
T KOG1155|consen  397 DYRAWYGLGQAYEIMKMHFYALYYFQKALE--LKPNDSRLWVALGECYEKLNRLEEAIKCYKRAILLGDTEGSALVRLAK  474 (559)
T ss_pred             hHHHHhhhhHHHHHhcchHHHHHHHHHHHh--cCCCchHHHHHHHHHHHHhccHHHHHHHHHHHHhccccchHHHHHHHH
Confidence            778999999999999999999999999987  345579999999999999999999999999882  2334578889999


Q ss_pred             HHhhcCCchHHHHHHHHHHHcC----CCCCc---hhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKS----NYLSD---GELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~----~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      .|-+.++.++|...+++.++..    .. ++   ....-|+.-+.+.+++++|..+-......
T Consensus       475 Lye~l~d~~eAa~~yek~v~~~~~eg~~-~~~t~ka~~fLA~~f~k~~~~~~As~Ya~~~~~~  536 (559)
T KOG1155|consen  475 LYEELKDLNEAAQYYEKYVEVSELEGEI-DDETIKARLFLAEYFKKMKDFDEASYYATLVLKG  536 (559)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHHhhccc-chHHHHHHHHHHHHHHhhcchHHHHHHHHHHhcC
Confidence            9999999999999998887632    22 23   23334667788889999988766655443

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

Probab=99.55  E-value=3e-11  Score=103.73  Aligned_cols=282  Identities=10%  Similarity=0.014  Sum_probs=198.6

Q ss_pred             hCCCHHHHHHHHHhcccc---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHH
Q 012108          150 NAGEMEKAGEMFKKMLVK---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARI  226 (471)
Q Consensus       150 ~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~  226 (471)
                      ..|++.+|++...+-.+.   ....|..-+.+--..|+.+.+-.++.+.-+.--.++...+-+..+.....|+.+.|..-
T Consensus        96 ~eG~~~qAEkl~~rnae~~e~p~l~~l~aA~AA~qrgd~~~an~yL~eaae~~~~~~l~v~ltrarlll~~~d~~aA~~~  175 (400)
T COG3071          96 FEGDFQQAEKLLRRNAEHGEQPVLAYLLAAEAAQQRGDEDRANRYLAEAAELAGDDTLAVELTRARLLLNRRDYPAAREN  175 (400)
T ss_pred             hcCcHHHHHHHHHHhhhcCcchHHHHHHHHHHHHhcccHHHHHHHHHHHhccCCCchHHHHHHHHHHHHhCCCchhHHHH
Confidence            357777777777665222   23334444556666777777777777776642234444555556666777777777777


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC-----------hhhHHHHHHHHHhcCChHHHHHHHHH
Q 012108          227 HVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD-----------VFCWNAMILGLALHGYGYAALKLLGE  295 (471)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~  295 (471)
                      ..++.+.+ +.++.+.....++|.+.|++.....++.++.+..           ..+|..+++-....+..+.-...++.
T Consensus       176 v~~ll~~~-pr~~~vlrLa~r~y~~~g~~~~ll~~l~~L~ka~~l~~~e~~~le~~a~~glL~q~~~~~~~~gL~~~W~~  254 (400)
T COG3071         176 VDQLLEMT-PRHPEVLRLALRAYIRLGAWQALLAILPKLRKAGLLSDEEAARLEQQAWEGLLQQARDDNGSEGLKTWWKN  254 (400)
T ss_pred             HHHHHHhC-cCChHHHHHHHHHHHHhccHHHHHHHHHHHHHccCCChHHHHHHHHHHHHHHHHHHhccccchHHHHHHHh
Confidence            77777765 5566777777777777777777777777666531           24677777766666666666667776


Q ss_pred             HHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCH
Q 012108          296 MNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTE  373 (471)
Q Consensus       296 ~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~  373 (471)
                      ...+ .+-++..-..++.-+.+.|+.++|.++..+..+ .+..|+   ...++ .+.+-++.+.-.+..++-  ..+.++
T Consensus       255 ~pr~-lr~~p~l~~~~a~~li~l~~~~~A~~~i~~~Lk-~~~D~~---L~~~~-~~l~~~d~~~l~k~~e~~l~~h~~~p  328 (400)
T COG3071         255 QPRK-LRNDPELVVAYAERLIRLGDHDEAQEIIEDALK-RQWDPR---LCRLI-PRLRPGDPEPLIKAAEKWLKQHPEDP  328 (400)
T ss_pred             ccHH-hhcChhHHHHHHHHHHHcCChHHHHHHHHHHHH-hccChh---HHHHH-hhcCCCCchHHHHHHHHHHHhCCCCh
Confidence            6544 455677778888889999999999999999988 466666   22222 344556666555554443  222345


Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ..+.+|...|.+.+.+.+|...|+.+++..|.  ..+|..++.++.+.|+..+|.+..++....-..
T Consensus       329 ~L~~tLG~L~~k~~~w~kA~~~leaAl~~~~s--~~~~~~la~~~~~~g~~~~A~~~r~e~L~~~~~  393 (400)
T COG3071         329 LLLSTLGRLALKNKLWGKASEALEAALKLRPS--ASDYAELADALDQLGEPEEAEQVRREALLLTRQ  393 (400)
T ss_pred             hHHHHHHHHHHHhhHHHHHHHHHHHHHhcCCC--hhhHHHHHHHHHHcCChHHHHHHHHHHHHHhcC
Confidence            78888999999999999999999988887765  999999999999999999999999888644333

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

Probab=99.54  E-value=1.7e-11  Score=102.13  Aligned_cols=264  Identities=11%  Similarity=0.127  Sum_probs=143.6

Q ss_pred             cCCHhHHHHHhcccCCCCcccH---HHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcC
Q 012108           58 LRCIDDAFKVFEKMPEKDIIAW---NSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVP  134 (471)
Q Consensus        58 ~g~~~~A~~~~~~~~~~~~~~~---~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  134 (471)
                      +.+.++|..+|-+|.+-|+.++   -+|.+.|-+.|..++|+++-..+......|++.-..+.                 
T Consensus        48 s~Q~dKAvdlF~e~l~~d~~t~e~~ltLGnLfRsRGEvDRAIRiHQ~L~~spdlT~~qr~lAl-----------------  110 (389)
T COG2956          48 SNQPDKAVDLFLEMLQEDPETFEAHLTLGNLFRSRGEVDRAIRIHQTLLESPDLTFEQRLLAL-----------------  110 (389)
T ss_pred             hcCcchHHHHHHHHHhcCchhhHHHHHHHHHHHhcchHHHHHHHHHHHhcCCCCchHHHHHHH-----------------
Confidence            4789999999999988665554   56889999999999999999988766333433322221                 


Q ss_pred             CCChhhHHHHHHHHHhCCCHHHHHHHHHhcccc---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHH
Q 012108          135 AKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVK---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDY----LTV  207 (471)
Q Consensus       135 ~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~  207 (471)
                             ..|..-|...|-+|.|+++|..+...   -..+...|+..|-...+|++|++.-+++.+.+-.+..    ..|
T Consensus       111 -------~qL~~Dym~aGl~DRAE~~f~~L~de~efa~~AlqqLl~IYQ~treW~KAId~A~~L~k~~~q~~~~eIAqfy  183 (389)
T COG2956         111 -------QQLGRDYMAAGLLDRAEDIFNQLVDEGEFAEGALQQLLNIYQATREWEKAIDVAERLVKLGGQTYRVEIAQFY  183 (389)
T ss_pred             -------HHHHHHHHHhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHHHHhhHHHHHHHHHHHHHHcCCccchhHHHHHH
Confidence                   12333344444444444444444331   1223344455555555555555555555444322221    123


Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCCh----hhHHHHHHHHHhc
Q 012108          208 TSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDV----FCWNAMILGLALH  283 (471)
Q Consensus       208 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~~~~~l~~~~~~~  283 (471)
                      ..+...+....+.+.|..++++..+.+ +..+..-..+.+.+...|+++.|.+.++.+.+.|+    .+...|..+|.+.
T Consensus       184 CELAq~~~~~~~~d~A~~~l~kAlqa~-~~cvRAsi~lG~v~~~~g~y~~AV~~~e~v~eQn~~yl~evl~~L~~~Y~~l  262 (389)
T COG2956         184 CELAQQALASSDVDRARELLKKALQAD-KKCVRASIILGRVELAKGDYQKAVEALERVLEQNPEYLSEVLEMLYECYAQL  262 (389)
T ss_pred             HHHHHHHhhhhhHHHHHHHHHHHHhhC-ccceehhhhhhHHHHhccchHHHHHHHHHHHHhChHHHHHHHHHHHHHHHHh
Confidence            334444444555666666666655554 33444444555666666666666666666555443    2445555666666


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH-HhHHhcCCCCChhHHHHHHHHHh
Q 012108          284 GYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFS-RMEKDFGVTRKLEHYGCMVDLLG  352 (471)
Q Consensus       284 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~-~~~~~~~~~~~~~~~~~l~~~~~  352 (471)
                      |+.++....+.++.+..  +....-..+........-.+.|..++. .+.+    .|+...+..+++.-.
T Consensus       263 g~~~~~~~fL~~~~~~~--~g~~~~l~l~~lie~~~G~~~Aq~~l~~Ql~r----~Pt~~gf~rl~~~~l  326 (389)
T COG2956         263 GKPAEGLNFLRRAMETN--TGADAELMLADLIELQEGIDAAQAYLTRQLRR----KPTMRGFHRLMDYHL  326 (389)
T ss_pred             CCHHHHHHHHHHHHHcc--CCccHHHHHHHHHHHhhChHHHHHHHHHHHhh----CCcHHHHHHHHHhhh
Confidence            66666666666665542  222222333333223333344443333 3333    466666666666543

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

Probab=99.49  E-value=5.3e-09  Score=95.40  Aligned_cols=411  Identities=14%  Similarity=0.170  Sum_probs=260.3

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC-----------------
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE-----------------   73 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------------   73 (471)
                      ..|...+......|-++.+..++++.++..    +..-.-.+..++..+++++|.+.+.....                 
T Consensus       139 rIW~lyl~Fv~~~~lPets~rvyrRYLk~~----P~~~eeyie~L~~~d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~  214 (835)
T KOG2047|consen  139 RIWDLYLKFVESHGLPETSIRVYRRYLKVA----PEAREEYIEYLAKSDRLDEAAQRLATVLNQDEFVSKKGKSNHQLWL  214 (835)
T ss_pred             cchHHHHHHHHhCCChHHHHHHHHHHHhcC----HHHHHHHHHHHHhccchHHHHHHHHHhcCchhhhhhcccchhhHHH
Confidence            456667777777777888888888887653    22356677888889999999998887642                 


Q ss_pred             ---------CCc----------------------ccHHHHHHHHHcCCCHHHHHHHHhcCCCC--ChhhHHHHHHHHHhc
Q 012108           74 ---------KDI----------------------IAWNSMLDAFASCGQMDHAMKLIDLMPLK--DVTSFNIMISGYARI  120 (471)
Q Consensus        74 ---------~~~----------------------~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~  120 (471)
                               |+.                      ..|+.|.+-|++.|.+++|..+|++....  ....|..+.++|+.-
T Consensus       215 elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g~~ekarDvyeeai~~v~tvrDFt~ifd~Ya~F  294 (835)
T KOG2047|consen  215 ELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSGLFEKARDVYEEAIQTVMTVRDFTQIFDAYAQF  294 (835)
T ss_pred             HHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhheehhhHHHHHHHHHHH
Confidence                     110                      25888889999999999999998876544  333344444433321


Q ss_pred             C----------------------CHHHHHHHHhhc---------------------------------------------
Q 012108          121 G----------------------KIHSARYIFDKV---------------------------------------------  133 (471)
Q Consensus       121 g----------------------~~~~a~~~~~~~---------------------------------------------  133 (471)
                      .                      +++-...-|+.+                                             
T Consensus       295 EE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsVlLRQn~~nV~eW~kRV~l~e~~~~~~i~tyteAv  374 (835)
T KOG2047|consen  295 EESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSVLLRQNPHNVEEWHKRVKLYEGNAAEQINTYTEAV  374 (835)
T ss_pred             HHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHHHHhcCCccHHHHHhhhhhhcCChHHHHHHHHHHH
Confidence            1                      011111122222                                             


Q ss_pred             --CCC------ChhhHHHHHHHHHhCCCHHHHHHHHHhccccC-------hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012108          134 --PAK------DVVSWNSLILAYTNAGEMEKAGEMFKKMLVKN-------VITWNTMVTGYLRSQLYIEVVDLFDEMKAG  198 (471)
Q Consensus       134 --~~~------~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  198 (471)
                        ..|      -...|..+.+.|-..|+++.|..+|++..+-+       ..+|..-...-.+..+++.|+++++.....
T Consensus       375 ~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~v  454 (835)
T KOG2047|consen  375 KTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPYKTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHV  454 (835)
T ss_pred             HccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCccchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcC
Confidence              001      11245667778888889999999998874321       234555556666777888888888776542


Q ss_pred             CCCC-----------------CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHH
Q 012108          199 NVKP-----------------DYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEV  261 (471)
Q Consensus       199 g~~p-----------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  261 (471)
                      .-.|                 +...|...++.--..|-++....+|+.+.+..+ .++.+.......+-...-++++.++
T Consensus       455 P~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk~vYdriidLri-aTPqii~NyAmfLEeh~yfeesFk~  533 (835)
T KOG2047|consen  455 PTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTKAVYDRIIDLRI-ATPQIIINYAMFLEEHKYFEESFKA  533 (835)
T ss_pred             CCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhc-CCHHHHHHHHHHHHhhHHHHHHHHH
Confidence            1111                 112344444444556788888888888888763 3445555556666667778899999


Q ss_pred             HhcCCC----CCh-hhHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH--HhccCcHHHHHHHHHHh
Q 012108          262 FYKSQV----KDV-FCWNAMILGLAL---HGYGYAALKLLGEMNDSCVKADDITFIGLLSA--CSHAGLVQEGCELFSRM  331 (471)
Q Consensus       262 ~~~~~~----~~~-~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~~~  331 (471)
                      |++...    |+. ..|+..+.-+.+   ...++.|..+|++..+ |++|...-+.-|+-+  =-+.|-...|..+++++
T Consensus       534 YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL~-~Cpp~~aKtiyLlYA~lEEe~GLar~amsiyera  612 (835)
T KOG2047|consen  534 YERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQALD-GCPPEHAKTIYLLYAKLEEEHGLARHAMSIYERA  612 (835)
T ss_pred             HHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHh-cCCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHH
Confidence            988765    333 466666655544   3468999999999998 677654333223322  23468888999999998


Q ss_pred             HHhcCCCCC--hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHH---HHHHHHHhhcCCchHHHHHHHHHHHc-CC
Q 012108          332 EKDFGVTRK--LEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESIL---GALLSACVIHQDLEIGDRVAKMVCAK-SN  404 (471)
Q Consensus       332 ~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~---~~l~~~~~~~g~~~~a~~~~~~~~~~-~~  404 (471)
                      ..  ++++.  ...|+..|.-....--+....++|++. ..-|+...-   .-....-.+.|..++|..++....+. +|
T Consensus       613 t~--~v~~a~~l~myni~I~kaae~yGv~~TR~iYekaIe~Lp~~~~r~mclrFAdlEtklGEidRARaIya~~sq~~dP  690 (835)
T KOG2047|consen  613 TS--AVKEAQRLDMYNIYIKKAAEIYGVPRTREIYEKAIESLPDSKAREMCLRFADLETKLGEIDRARAIYAHGSQICDP  690 (835)
T ss_pred             Hh--cCCHHHHHHHHHHHHHHHHHHhCCcccHHHHHHHHHhCChHHHHHHHHHHHHHhhhhhhHHHHHHHHHhhhhcCCC
Confidence            76  56553  556777776444332233334444444 223444332   22334456789999999998877654 57


Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHH
Q 012108          405 YLSDGELMMFANLYASCGQWEEANR  429 (471)
Q Consensus       405 ~~~~~~~~~l~~~~~~~g~~~~A~~  429 (471)
                      ..+...|.+.=..-.+.|+-+...+
T Consensus       691 r~~~~fW~twk~FEvrHGnedT~ke  715 (835)
T KOG2047|consen  691 RVTTEFWDTWKEFEVRHGNEDTYKE  715 (835)
T ss_pred             cCChHHHHHHHHHHHhcCCHHHHHH
Confidence            6677788888777888888444433

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.49  E-value=1.9e-09  Score=91.21  Aligned_cols=426  Identities=12%  Similarity=0.034  Sum_probs=260.9

Q ss_pred             HHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHH
Q 012108           17 LKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMD   93 (471)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~   93 (471)
                      +.-+....++..|..+++.-...+-+....+-.-+..++.+.|++++|...+..+.+   ++...+..|.-++.-.|.+.
T Consensus        29 Ledfls~rDytGAislLefk~~~~~EEE~~~~lWia~C~fhLgdY~~Al~~Y~~~~~~~~~~~el~vnLAcc~FyLg~Y~  108 (557)
T KOG3785|consen   29 LEDFLSNRDYTGAISLLEFKLNLDREEEDSLQLWIAHCYFHLGDYEEALNVYTFLMNKDDAPAELGVNLACCKFYLGQYI  108 (557)
T ss_pred             HHHHHhcccchhHHHHHHHhhccchhhhHHHHHHHHHHHHhhccHHHHHHHHHHHhccCCCCcccchhHHHHHHHHHHHH
Confidence            445556778899999888776554332223444456677789999999999887653   56667777777777788999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccCh--HH
Q 012108           94 HAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNV--IT  171 (471)
Q Consensus        94 ~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~--~~  171 (471)
                      +|..+-.+..+ ++-.-..+....-+.++-++-....+.+... ...-.+|.......-.+.+|+++++++...+.  ..
T Consensus       109 eA~~~~~ka~k-~pL~~RLlfhlahklndEk~~~~fh~~LqD~-~EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~a  186 (557)
T KOG3785|consen  109 EAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKRILTFHSSLQDT-LEDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIA  186 (557)
T ss_pred             HHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHHHHHHHHHHhhh-HHHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhh
Confidence            99988877653 3444445555666677766666665555332 24445566666666789999999999965443  33


Q ss_pred             HHH-HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHcc--CChHHH------------HHHHHHHHHcCC
Q 012108          172 WNT-MVTGYLRSQLYIEVVDLFDEMKAGNVKPDYL-TVTSVLSACANL--GSLETG------------ARIHVYATDNGL  235 (471)
Q Consensus       172 ~~~-l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~--~~~~~a------------~~~~~~~~~~~~  235 (471)
                      .|. +.-+|.+..-++-+.+++.-.++.  .||+. ..+.......+.  |+..+.            ....+.+.++++
T Consensus       187 lNVy~ALCyyKlDYydvsqevl~vYL~q--~pdStiA~NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNL  264 (557)
T KOG3785|consen  187 LNVYMALCYYKLDYYDVSQEVLKVYLRQ--FPDSTIAKNLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNL  264 (557)
T ss_pred             hHHHHHHHHHhcchhhhHHHHHHHHHHh--CCCcHHHHHHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCe
Confidence            443 455778888888888888877764  35443 233222222221  111111            111222222211


Q ss_pred             ------------CC-----chhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcC-------ChHHHHH
Q 012108          236 ------------AS-----NPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHG-------YGYAALK  291 (471)
Q Consensus       236 ------------~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~  291 (471)
                                  -|     -+..-..|+-.|.+.+++++|..+.+...+..+.-|-.-.-.++..|       ...-|.+
T Consensus       265 VvFrngEgALqVLP~L~~~IPEARlNL~iYyL~q~dVqeA~~L~Kdl~PttP~EyilKgvv~aalGQe~gSreHlKiAqq  344 (557)
T KOG3785|consen  265 VVFRNGEGALQVLPSLMKHIPEARLNLIIYYLNQNDVQEAISLCKDLDPTTPYEYILKGVVFAALGQETGSREHLKIAQQ  344 (557)
T ss_pred             EEEeCCccHHHhchHHHhhChHhhhhheeeecccccHHHHHHHHhhcCCCChHHHHHHHHHHHHhhhhcCcHHHHHHHHH
Confidence                        01     12233446667889999999999999888765544433333333333       2444555


Q ss_pred             HHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 012108          292 LLGEMNDSCVKADDI-TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFE  370 (471)
Q Consensus       292 ~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  370 (471)
                      .|+-.-..+..-|.. .-.++...+.-..++++.+-+++.+.. +-...|...+ .+.++++..|++.+|+++|-.+..+
T Consensus       345 ffqlVG~Sa~ecDTIpGRQsmAs~fFL~~qFddVl~YlnSi~s-YF~NdD~Fn~-N~AQAk~atgny~eaEelf~~is~~  422 (557)
T KOG3785|consen  345 FFQLVGESALECDTIPGRQSMASYFFLSFQFDDVLTYLNSIES-YFTNDDDFNL-NLAQAKLATGNYVEAEELFIRISGP  422 (557)
T ss_pred             HHHHhcccccccccccchHHHHHHHHHHHHHHHHHHHHHHHHH-HhcCcchhhh-HHHHHHHHhcChHHHHHHHhhhcCh
Confidence            555444444333322 223344445556678888888888887 4444444444 4778888999999999999887311


Q ss_pred             --CCHhHHH-HHHHHHhhcCCchHHHHHHHHHHHcCCCCCc-hhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcce
Q 012108          371 --PTESILG-ALLSACVIHQDLEIGDRVAKMVCAKSNYLSD-GELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSS  446 (471)
Q Consensus       371 --p~~~~~~-~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  446 (471)
                        .+..+|. .|.++|.+.+.++.|..++-   +.+...+. .....++.-|.+.+.+=-|-+.|+.+...+|.|.   .
T Consensus       423 ~ikn~~~Y~s~LArCyi~nkkP~lAW~~~l---k~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~pE---n  496 (557)
T KOG3785|consen  423 EIKNKILYKSMLARCYIRNKKPQLAWDMML---KTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTPE---N  496 (557)
T ss_pred             hhhhhHHHHHHHHHHHHhcCCchHHHHHHH---hcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCcc---c
Confidence              3455664 45567788889888866543   33322122 2333456678888888888888888877777655   4


Q ss_pred             EEEEcCeE
Q 012108          447 VIEVNGSY  454 (471)
Q Consensus       447 ~~~~~~~~  454 (471)
                      |-.=+++|
T Consensus       497 WeGKRGAC  504 (557)
T KOG3785|consen  497 WEGKRGAC  504 (557)
T ss_pred             cCCccchH
Confidence            44444444

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.48  E-value=1.7e-11  Score=105.45  Aligned_cols=197  Identities=13%  Similarity=0.043  Sum_probs=143.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      ...+..+...+...|++++|.+.+++...   .+...+..+...+...|++++|.+.+++..... +.+...+..+...+
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~~  109 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHDPDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTFL  109 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHH
Confidence            44555566666666666666666665432   234566666777777778888888887777653 33455667777778


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      ...|++++|.+.++++......+.....+..+..++...|++++|...+++. ...| +...+..+...+...|++++|.
T Consensus       110 ~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  189 (234)
T TIGR02521       110 CQQGKYEQAMQQFEQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKYLTRALQIDPQRPESLLELAELYYLRGQYKDAR  189 (234)
T ss_pred             HHcccHHHHHHHHHHHHhccccccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCChHHHHHHHHHHHHcCCHHHHH
Confidence            8888888888888888763222334556677778888888888888888877 3333 4567778888888999999999


Q ss_pred             HHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          394 RVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       394 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      ..++++.+..+. ++..+..++..+...|+.++|..+.+.+...
T Consensus       190 ~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~  232 (234)
T TIGR02521       190 AYLERYQQTYNQ-TAESLWLGIRIARALGDVAAAQRYGAQLQKL  232 (234)
T ss_pred             HHHHHHHHhCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhh
Confidence            999999888665 7788888889999999999999988877543

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.

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

Probab=99.46  E-value=1.6e-09  Score=95.60  Aligned_cols=382  Identities=12%  Similarity=-0.011  Sum_probs=258.7

Q ss_pred             HHHHHHHHhhccchhHHHHHHHHHHHhccCCc-hhHHHHHHHHHhccCCHhHHHHHhcccCCCCc---ccHHHHHHHHHc
Q 012108           13 FPLLLKAAGILSSSCIGLMLHGQTIKTGFCGH-VYVQTALLKMYGSLRCIDDAFKVFEKMPEKDI---IAWNSMLDAFAS   88 (471)
Q Consensus        13 ~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~   88 (471)
                      +...-+-|.++|.+++|.+.+.+.++.  .|| +..|.....+|...|+|+++.+---...+-++   ..+..-..++-.
T Consensus       118 lK~~GN~~f~~kkY~eAIkyY~~AI~l--~p~epiFYsNraAcY~~lgd~~~Vied~TkALEl~P~Y~KAl~RRA~A~E~  195 (606)
T KOG0547|consen  118 LKTKGNKFFRNKKYDEAIKYYTQAIEL--CPDEPIFYSNRAACYESLGDWEKVIEDCTKALELNPDYVKALLRRASAHEQ  195 (606)
T ss_pred             HHhhhhhhhhcccHHHHHHHHHHHHhc--CCCCchhhhhHHHHHHHHhhHHHHHHHHHHHhhcCcHHHHHHHHHHHHHHh
Confidence            344556788999999999999999987  467 78899999999999999999887766665333   345555667777


Q ss_pred             CCCHHHHHHH------HhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChh--------------------
Q 012108           89 CGQMDHAMKL------IDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPA---KDVV--------------------  139 (471)
Q Consensus        89 ~g~~~~A~~~------~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~--------------------  139 (471)
                      .|++++|+.=      ++.....  .+ ..++.-..+.--..++.+-+..-.+   |+..                    
T Consensus       196 lg~~~eal~D~tv~ci~~~F~n~--s~-~~~~eR~Lkk~a~~ka~e~~k~nr~p~lPS~~fi~syf~sF~~~~~~~~~~~  272 (606)
T KOG0547|consen  196 LGKFDEALFDVTVLCILEGFQNA--SI-EPMAERVLKKQAMKKAKEKLKENRPPVLPSATFIASYFGSFHADPKPLFDNK  272 (606)
T ss_pred             hccHHHHHHhhhHHHHhhhcccc--hh-HHHHHHHHHHHHHHHHHHhhcccCCCCCCcHHHHHHHHhhccccccccccCC
Confidence            8888887642      2221111  11 1111111111111222223321100   1111                    


Q ss_pred             ---hHHHHHHHH----Hh-CCCHHHHHHHHHhc-------cccC---------hHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 012108          140 ---SWNSLILAY----TN-AGEMEKAGEMFKKM-------LVKN---------VITWNTMVTGYLRSQLYIEVVDLFDEM  195 (471)
Q Consensus       140 ---~~~~l~~~~----~~-~~~~~~A~~~~~~~-------~~~~---------~~~~~~l~~~~~~~~~~~~a~~~~~~m  195 (471)
                         ....+...+    .. ...+.+|.+.+.+-       ...+         ..+...-...+.-.|+...|..-|+..
T Consensus       273 ~~ksDa~l~~~l~~l~~~~~e~Y~~a~~~~te~~~~~~~~~~~n~~d~~le~~A~al~~~gtF~fL~g~~~~a~~d~~~~  352 (606)
T KOG0547|consen  273 SDKSDAALAEALEALEKGLEEGYLKAYDKATEECLGSESSLSVNEIDAELEYMAEALLLRGTFHFLKGDSLGAQEDFDAA  352 (606)
T ss_pred             CccchhhHHHHHHHHHhhCchhHHHHHHHHHHHhhhhhhhccccccchhHHHHHHHHHHhhhhhhhcCCchhhhhhHHHH
Confidence               111122111    11 11344444444332       1111         122222223345578899999999999


Q ss_pred             HhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC---Chhh
Q 012108          196 KAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK---DVFC  272 (471)
Q Consensus       196 ~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~  272 (471)
                      ++....++. .|--+...|....+.++..+.|..+.+.+ +.++.+|..-.+.+.-.+++++|..-|++...-   +...
T Consensus       353 I~l~~~~~~-lyI~~a~~y~d~~~~~~~~~~F~~A~~ld-p~n~dvYyHRgQm~flL~q~e~A~aDF~Kai~L~pe~~~~  430 (606)
T KOG0547|consen  353 IKLDPAFNS-LYIKRAAAYADENQSEKMWKDFNKAEDLD-PENPDVYYHRGQMRFLLQQYEEAIADFQKAISLDPENAYA  430 (606)
T ss_pred             HhcCcccch-HHHHHHHHHhhhhccHHHHHHHHHHHhcC-CCCCchhHhHHHHHHHHHHHHHHHHHHHHHhhcChhhhHH
Confidence            886533333 27677778899999999999999999987 778888888889999999999999999987763   5566


Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC------CCChhHHHH
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGV------TRKLEHYGC  346 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------~~~~~~~~~  346 (471)
                      |-.+..+..+.+++++++..|++.+.+ ++-.+..|+.....+..+++++.|.+.|+...+--..      .+.+...-+
T Consensus       431 ~iQl~~a~Yr~~k~~~~m~~Fee~kkk-FP~~~Evy~~fAeiLtDqqqFd~A~k~YD~ai~LE~~~~~~~v~~~plV~Ka  509 (606)
T KOG0547|consen  431 YIQLCCALYRQHKIAESMKTFEEAKKK-FPNCPEVYNLFAEILTDQQQFDKAVKQYDKAIELEPREHLIIVNAAPLVHKA  509 (606)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHHh-CCCCchHHHHHHHHHhhHHhHHHHHHHHHHHHhhccccccccccchhhhhhh
Confidence            777777777899999999999999987 5556788999999999999999999999999871111      122223333


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          347 MVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       347 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      ++..-. .+++..|.+++++. .+.| ....|..|...-.+.|+.++|+++|++.....
T Consensus       510 ~l~~qw-k~d~~~a~~Ll~KA~e~Dpkce~A~~tlaq~~lQ~~~i~eAielFEksa~lA  567 (606)
T KOG0547|consen  510 LLVLQW-KEDINQAENLLRKAIELDPKCEQAYETLAQFELQRGKIDEAIELFEKSAQLA  567 (606)
T ss_pred             Hhhhch-hhhHHHHHHHHHHHHccCchHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHH
Confidence            333333 38999999999988 5555 45789999999999999999999999987654

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

Probab=99.45  E-value=1.8e-09  Score=97.05  Aligned_cols=407  Identities=10%  Similarity=-0.035  Sum_probs=284.0

Q ss_pred             CCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---------CC-
Q 012108            6 VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---------KD-   75 (471)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------~~-   75 (471)
                      +.-|+.-.--+.+.+.-.|+++.|..+...-.-  .+.|..+......++.+..+++.|..++.....         .+ 
T Consensus        45 l~~dp~d~~~~aq~l~~~~~y~ra~~lit~~~l--e~~d~~cryL~~~~l~~lk~~~~al~vl~~~~~~~~~f~yy~~~~  122 (611)
T KOG1173|consen   45 LTNDPADIYWLAQVLYLGRQYERAAHLITTYKL--EKRDIACRYLAAKCLVKLKEWDQALLVLGRGHVETNPFSYYEKDA  122 (611)
T ss_pred             ccCChHHHHHHHHHHHhhhHHHHHHHHHHHhhh--hhhhHHHHHHHHHHHHHHHHHHHHHHHhcccchhhcchhhcchhh
Confidence            333444444566777777888888776655422  134777777778888889999999999983320         11 


Q ss_pred             -------ccc----HHHH-------HHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHh------------------
Q 012108           76 -------IIA----WNSM-------LDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYAR------------------  119 (471)
Q Consensus        76 -------~~~----~~~l-------i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~------------------  119 (471)
                             ..-    -+.-       ...|....+.++|...+.+....|+..|..+...-..                  
T Consensus       123 ~~~l~~n~~~~~~~~~~essic~lRgk~y~al~n~~~ar~~Y~~Al~~D~~c~Ea~~~lvs~~mlt~~Ee~~ll~~l~~a  202 (611)
T KOG1173|consen  123 ANTLELNSAGEDLMINLESSICYLRGKVYVALDNREEARDKYKEALLADAKCFEAFEKLVSAHMLTAQEEFELLESLDLA  202 (611)
T ss_pred             hceeccCcccccccccchhceeeeeeehhhhhccHHHHHHHHHHHHhcchhhHHHHHHHHHHHhcchhHHHHHHhcccHH
Confidence                   100    0111       1234445567777777777665555544433222110                  


Q ss_pred             ---cCCHHHHHHHHhhc--------------------CCCChhhHHHHHHHHHhCCCHHHHHHHHHhcccc---ChHHHH
Q 012108          120 ---IGKIHSARYIFDKV--------------------PAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVK---NVITWN  173 (471)
Q Consensus       120 ---~g~~~~a~~~~~~~--------------------~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~  173 (471)
                         ..+.+.-+.+|+-.                    ...+........+-+...+++.+..++++.+.+.   +...+-
T Consensus       203 ~~~~ed~e~l~~lyel~~~k~~n~~~~~r~~~~sl~~l~~~~dll~~~ad~~y~~c~f~~c~kit~~lle~dpfh~~~~~  282 (611)
T KOG1173|consen  203 MLTKEDVERLEILYELKLCKNRNEESLTRNEDESLIGLAENLDLLAEKADRLYYGCRFKECLKITEELLEKDPFHLPCLP  282 (611)
T ss_pred             hhhhhHHHHHHHHHHhhhhhhccccccccCchhhhhhhhhcHHHHHHHHHHHHHcChHHHHHHHhHHHHhhCCCCcchHH
Confidence               01111222222211                    1123344455566778889999999999998443   445566


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 012108          174 TMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG  253 (471)
Q Consensus       174 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  253 (471)
                      .-|.++...|+..+-..+=.++.+. .+-...+|-.+.--|.-.|+..+|.++|.+....+ +.-...|-.+...|.-.|
T Consensus       283 ~~ia~l~el~~~n~Lf~lsh~LV~~-yP~~a~sW~aVg~YYl~i~k~seARry~SKat~lD-~~fgpaWl~fghsfa~e~  360 (611)
T KOG1173|consen  283 LHIACLYELGKSNKLFLLSHKLVDL-YPSKALSWFAVGCYYLMIGKYSEARRYFSKATTLD-PTFGPAWLAFGHSFAGEG  360 (611)
T ss_pred             HHHHHHHHhcccchHHHHHHHHHHh-CCCCCcchhhHHHHHHHhcCcHHHHHHHHHHhhcC-ccccHHHHHHhHHhhhcc
Confidence            6677899999988888888888775 24456788888888888899999999999987765 444668889999999999


Q ss_pred             ChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 012108          254 SIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSR  330 (471)
Q Consensus       254 ~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  330 (471)
                      .-++|+..+....+   .....+--+.--|.+.+..+-|.+.|.+.... .+-|+...+-+.-.....+.+.+|..+|+.
T Consensus       361 EhdQAmaaY~tAarl~~G~hlP~LYlgmey~~t~n~kLAe~Ff~~A~ai-~P~Dplv~~Elgvvay~~~~y~~A~~~f~~  439 (611)
T KOG1173|consen  361 EHDQAMAAYFTAARLMPGCHLPSLYLGMEYMRTNNLKLAEKFFKQALAI-APSDPLVLHELGVVAYTYEEYPEALKYFQK  439 (611)
T ss_pred             hHHHHHHHHHHHHHhccCCcchHHHHHHHHHHhccHHHHHHHHHHHHhc-CCCcchhhhhhhheeehHhhhHHHHHHHHH
Confidence            99999998876544   22233344555688899999999999998875 345677778787777788999999999998


Q ss_pred             hHHhc-CCC----CChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          331 MEKDF-GVT----RKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       331 ~~~~~-~~~----~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      ..... .+.    ....+++.|..+|.+.+.+++|+..+++.  ..+.+..++.++.-.|...|+++.|...|.+.+...
T Consensus       440 ~l~~ik~~~~e~~~w~p~~~NLGH~~Rkl~~~~eAI~~~q~aL~l~~k~~~~~asig~iy~llgnld~Aid~fhKaL~l~  519 (611)
T KOG1173|consen  440 ALEVIKSVLNEKIFWEPTLNNLGHAYRKLNKYEEAIDYYQKALLLSPKDASTHASIGYIYHLLGNLDKAIDHFHKALALK  519 (611)
T ss_pred             HHHHhhhccccccchhHHHHhHHHHHHHHhhHHHHHHHHHHHHHcCCCchhHHHHHHHHHHHhcChHHHHHHHHHHHhcC
Confidence            87411 011    13556889999999999999999999987  345588899999999999999999999999999998


Q ss_pred             CCCCchhHHHHHHHH
Q 012108          404 NYLSDGELMMFANLY  418 (471)
Q Consensus       404 ~~~~~~~~~~l~~~~  418 (471)
                      |. +..+-..|..+.
T Consensus       520 p~-n~~~~~lL~~ai  533 (611)
T KOG1173|consen  520 PD-NIFISELLKLAI  533 (611)
T ss_pred             Cc-cHHHHHHHHHHH
Confidence            88 655555554443

>PRK12370 invasion protein regulator; Provisional

Probab=99.43  E-value=8.1e-11  Score=113.52  Aligned_cols=260  Identities=12%  Similarity=0.031  Sum_probs=187.8

Q ss_pred             ChHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHH---------ccCChHHHHHHHHHHHH
Q 012108          168 NVITWNTMVTGYLR-----SQLYIEVVDLFDEMKAGNVKPDY-LTVTSVLSACA---------NLGSLETGARIHVYATD  232 (471)
Q Consensus       168 ~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~-~~~~~l~~~~~---------~~~~~~~a~~~~~~~~~  232 (471)
                      +...|...+.+...     .+++++|...|++..+.  .|+. ..|..+..++.         ..+++++|...++++.+
T Consensus       255 ~~da~~~~lrg~~~~~~~~~~~~~~A~~~~~~Al~l--dP~~a~a~~~La~~~~~~~~~g~~~~~~~~~~A~~~~~~Al~  332 (553)
T PRK12370        255 SIDSTMVYLRGKHELNQYTPYSLQQALKLLTQCVNM--SPNSIAPYCALAECYLSMAQMGIFDKQNAMIKAKEHAIKATE  332 (553)
T ss_pred             ChHHHHHHHHhHHHHHccCHHHHHHHHHHHHHHHhc--CCccHHHHHHHHHHHHHHHHcCCcccchHHHHHHHHHHHHHh
Confidence            45556566655322     23467899999999875  4543 44544444433         23457899999999998


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHH
Q 012108          233 NGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD-ITF  308 (471)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~  308 (471)
                      .+ +.+...+..+...+...|++++|+..|++...   .+...+..+...+...|++++|...+++....  .|+. ..+
T Consensus       333 ld-P~~~~a~~~lg~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l--~P~~~~~~  409 (553)
T PRK12370        333 LD-HNNPQALGLLGLINTIHSEYIVGSLLFKQANLLSPISADIKYYYGWNLFMAGQLEEALQTINECLKL--DPTRAAAG  409 (553)
T ss_pred             cC-CCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCCChhhH
Confidence            86 67888899999999999999999999998655   35668888999999999999999999999886  4443 233


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHh-HHHHHHHHHhh
Q 012108          309 IGLLSACSHAGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTES-ILGALLSACVI  385 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~-~~~~l~~~~~~  385 (471)
                      ..++..+...|++++|...++++.+  ..+| ++..+..+..++...|++++|...+.++ ...|+.. ..+.+...+..
T Consensus       410 ~~~~~~~~~~g~~eeA~~~~~~~l~--~~~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~~~~~~~~~~~~l~~~~~~  487 (553)
T PRK12370        410 ITKLWITYYHTGIDDAIRLGDELRS--QHLQDNPILLSMQVMFLSLKGKHELARKLTKEISTQEITGLIAVNLLYAEYCQ  487 (553)
T ss_pred             HHHHHHHHhccCHHHHHHHHHHHHH--hccccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhhccchhHHHHHHHHHHHhc
Confidence            3445556678999999999999886  2334 4556777888899999999999999987 4455544 44555556677


Q ss_pred             cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          386 HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       386 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      .|  ++|...++++.+..-. .+.....+...|.-.|+.+.+..+ +++.+.+
T Consensus       488 ~g--~~a~~~l~~ll~~~~~-~~~~~~~~~~~~~~~g~~~~~~~~-~~~~~~~  536 (553)
T PRK12370        488 NS--ERALPTIREFLESEQR-IDNNPGLLPLVLVAHGEAIAEKMW-NKFKNED  536 (553)
T ss_pred             cH--HHHHHHHHHHHHHhhH-hhcCchHHHHHHHHHhhhHHHHHH-HHhhccc
Confidence            77  4787777776664332 222233366677778888877776 8776654

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

Probab=99.43  E-value=3.2e-09  Score=98.88  Aligned_cols=398  Identities=12%  Similarity=0.025  Sum_probs=251.6

Q ss_pred             HHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC-----Ch
Q 012108           36 TIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK-----DV  107 (471)
Q Consensus        36 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~  107 (471)
                      +.-..++.|..+|..+.-++.+.|+++.+-+.|++...   .....|+.+...+...|.-..|+.+++.-...     |+
T Consensus       314 ~r~~~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~  393 (799)
T KOG4162|consen  314 LRLKKFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSFGEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDI  393 (799)
T ss_pred             HHHhhhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhhhhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcc
Confidence            33344566778888888888888888888888887654   34567888888888888888888888776543     34


Q ss_pred             hhHHHHHHHHHh-cCCHHHHHHHHhhcCC--------CChhhHHHHHHHHHhC-----------CCHHHHHHHHHhcccc
Q 012108          108 TSFNIMISGYAR-IGKIHSARYIFDKVPA--------KDVVSWNSLILAYTNA-----------GEMEKAGEMFKKMLVK  167 (471)
Q Consensus       108 ~~~~~l~~~~~~-~g~~~~a~~~~~~~~~--------~~~~~~~~l~~~~~~~-----------~~~~~A~~~~~~~~~~  167 (471)
                      ..+-...+.|.. .+.+++++.+-.+++.        ..+..|..+.-+|...           ....++.+.+++..+.
T Consensus       394 s~~Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~  473 (799)
T KOG4162|consen  394 SVLLMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQF  473 (799)
T ss_pred             hHHHHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhc
Confidence            444444455543 4555555555444422        1333444444444322           1234566666666332


Q ss_pred             ---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHH
Q 012108          168 ---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTA  244 (471)
Q Consensus       168 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  244 (471)
                         |+.....+.--|...++.+.|.+..++..+.+-.-+...|..+.-.+...+++..|+.+.+...+.- +.|-.....
T Consensus       474 d~~dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E~-~~N~~l~~~  552 (799)
T KOG4162|consen  474 DPTDPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEEF-GDNHVLMDG  552 (799)
T ss_pred             CCCCchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHh-hhhhhhchh
Confidence               3333333444566778888888888888877656677778877777888888888888877765431 111111111


Q ss_pred             HHHHHHhcCChHHHHHH-------Hh-------------------cCCC-----CC-hhhHHHHHHHHHhcCChHHHHHH
Q 012108          245 LIDMYAKCGSIEQSLEV-------FY-------------------KSQV-----KD-VFCWNAMILGLALHGYGYAALKL  292 (471)
Q Consensus       245 l~~~~~~~~~~~~a~~~-------~~-------------------~~~~-----~~-~~~~~~l~~~~~~~~~~~~a~~~  292 (471)
                      -++.-...++.+++...       |+                   .+.-     .+ +.++..+..-....+.  .+..-
T Consensus       553 ~~~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~--~~~se  630 (799)
T KOG4162|consen  553 KIHIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLK--SAGSE  630 (799)
T ss_pred             hhhhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhh--hcccc
Confidence            11111223333333222       11                   1100     01 1122222211111110  00000


Q ss_pred             HHHHHhCCCCCCH--------HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHH
Q 012108          293 LGEMNDSCVKADD--------ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELI  364 (471)
Q Consensus       293 ~~~~~~~~~~p~~--------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  364 (471)
                      .. +....+.|..        ..+......+.+.++.++|...+.++.+  ..+-.+..|......+...|+.++|.+.|
T Consensus       631 ~~-Lp~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~--~~~l~~~~~~~~G~~~~~~~~~~EA~~af  707 (799)
T KOG4162|consen  631 LK-LPSSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASK--IDPLSASVYYLRGLLLEVKGQLEEAKEAF  707 (799)
T ss_pred             cc-cCcccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHh--cchhhHHHHHHhhHHHHHHHhhHHHHHHH
Confidence            00 1111122221        2344455667788999999988888887  55667778888888899999999999999


Q ss_pred             HhC-CCCC-CHhHHHHHHHHHhhcCCchHHHH--HHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          365 EAM-PFEP-TESILGALLSACVIHQDLEIGDR--VAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       365 ~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~--~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ... -+.| ++....++...+.+.|+..-|..  ++..+.+.+|. ++..|..++..+.+.|+.++|.+-|....+....
T Consensus       708 ~~Al~ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~-n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S  786 (799)
T KOG4162|consen  708 LVALALDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPL-NHEAWYYLGEVFKKLGDSKQAAECFQAALQLEES  786 (799)
T ss_pred             HHHHhcCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCC-CHHHHHHHHHHHHHccchHHHHHHHHHHHhhccC
Confidence            877 4556 46788999999999999888888  99999999999 9999999999999999999999999988775543

>TIGR02521 type_IV_pilW type IV pilus biogenesis/stability protein PilW

Probab=99.40  E-value=1.9e-10  Score=98.79  Aligned_cols=198  Identities=14%  Similarity=0.083  Sum_probs=98.2

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 012108          169 VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDM  248 (471)
Q Consensus       169 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  248 (471)
                      ...+..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.++...+.. +.+...+..+...
T Consensus        31 ~~~~~~la~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~~~~  108 (234)
T TIGR02521        31 AKIRVQLALGYLEQGDLEVAKENLDKALEHD-PDDYLAYLALALYYQQLGELEKAEDSFRRALTLN-PNNGDVLNNYGTF  108 (234)
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHH
Confidence            3445555566666666666666666655432 2233444455555555666666666666555543 3334444445555


Q ss_pred             HHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHhccCcHHHHHHH
Q 012108          249 YAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVK-ADDITFIGLLSACSHAGLVQEGCEL  327 (471)
Q Consensus       249 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~  327 (471)
                      +...|++++|.+.+                               ++....... .....+..+...+...|++++|.+.
T Consensus       109 ~~~~g~~~~A~~~~-------------------------------~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  157 (234)
T TIGR02521       109 LCQQGKYEQAMQQF-------------------------------EQAIEDPLYPQPARSLENAGLCALKAGDFDKAEKY  157 (234)
T ss_pred             HHHcccHHHHHHHH-------------------------------HHHHhccccccchHHHHHHHHHHHHcCCHHHHHHH
Confidence            55555555555554                               444432111 1222334444455555555555555


Q ss_pred             HHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          328 FSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       328 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      +.+..+  ..+.+...+..+...+...|++++|.+.+++. .. +.+...+..+...+...|+.++|..+.+.+..
T Consensus       158 ~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~  231 (234)
T TIGR02521       158 LTRALQ--IDPQRPESLLELAELYYLRGQYKDARAYLERYQQTYNQTAESLWLGIRIARALGDVAAAQRYGAQLQK  231 (234)
T ss_pred             HHHHHH--hCcCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHh
Confidence            555554  22223444555555555555555555555544 11 22333444444555555566666555555443

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.

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

Probab=99.40  E-value=3.8e-11  Score=100.16  Aligned_cols=237  Identities=13%  Similarity=0.042  Sum_probs=157.4

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-ChhhHHHHHHHHHhcC
Q 012108          208 TSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-DVFCWNAMILGLALHG  284 (471)
Q Consensus       208 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~  284 (471)
                      +.+.++|.+.|.+.+|.+.++...+.  .|-+.||..|.++|.+..++..|+.+|.+...  | |+.-..-+.+.+-..+
T Consensus       227 ~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~fP~~VT~l~g~ARi~eam~  304 (478)
T KOG1129|consen  227 QQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSFPFDVTYLLGQARIHEAME  304 (478)
T ss_pred             HHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcCCchhhhhhhhHHHHHHHH
Confidence            34555666666666666666655554  34455566666666666666666666655443  2 2222333445555566


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELI  364 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  364 (471)
                      +.++|.++++...+.. +.+......+...|.-.++.+.|+.+++++.+ .|. -++..|+.+.-+|.-.++++-++..|
T Consensus       305 ~~~~a~~lYk~vlk~~-~~nvEaiAcia~~yfY~~~PE~AlryYRRiLq-mG~-~speLf~NigLCC~yaqQ~D~~L~sf  381 (478)
T KOG1129|consen  305 QQEDALQLYKLVLKLH-PINVEAIACIAVGYFYDNNPEMALRYYRRILQ-MGA-QSPELFCNIGLCCLYAQQIDLVLPSF  381 (478)
T ss_pred             hHHHHHHHHHHHHhcC-CccceeeeeeeeccccCCChHHHHHHHHHHHH-hcC-CChHHHhhHHHHHHhhcchhhhHHHH
Confidence            6677777777666542 33444555555566666777777777777776 344 35566677777777777777777666


Q ss_pred             HhC---CCCCC--HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          365 EAM---PFEPT--ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       365 ~~~---~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ++.   --+|+  ..+|..+.......||+..|.+.|+-.+..+++ +...++.|+-.-.+.|++++|..+++......+
T Consensus       382 ~RAlstat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~-h~ealnNLavL~~r~G~i~~Arsll~~A~s~~P  460 (478)
T KOG1129|consen  382 QRALSTATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQ-HGEALNNLAVLAARSGDILGARSLLNAAKSVMP  460 (478)
T ss_pred             HHHHhhccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcc-hHHHHHhHHHHHhhcCchHHHHHHHHHhhhhCc
Confidence            665   11233  457777887788889999999999999999988 899999999999999999999999998887776


Q ss_pred             cccCcceEEEE
Q 012108          440 VKTAGSSVIEV  450 (471)
Q Consensus       440 ~~~~~~~~~~~  450 (471)
                      .--..++++.+
T Consensus       461 ~m~E~~~Nl~~  471 (478)
T KOG1129|consen  461 DMAEVTTNLQF  471 (478)
T ss_pred             cccccccceeE
Confidence            65555554443

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

Probab=99.40  E-value=7.3e-11  Score=98.53  Aligned_cols=230  Identities=10%  Similarity=-0.034  Sum_probs=197.5

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYA  250 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  250 (471)
                      --+.+.++|.+.|.+.+|.+.++..++.  .|-..||..|-+.|.+..+...|..++.+-.+.- |-++.......+.+-
T Consensus       225 Wk~Q~gkCylrLgm~r~AekqlqssL~q--~~~~dTfllLskvY~ridQP~~AL~~~~~gld~f-P~~VT~l~g~ARi~e  301 (478)
T KOG1129|consen  225 WKQQMGKCYLRLGMPRRAEKQLQSSLTQ--FPHPDTFLLLSKVYQRIDQPERALLVIGEGLDSF-PFDVTYLLGQARIHE  301 (478)
T ss_pred             HHHHHHHHHHHhcChhhhHHHHHHHhhc--CCchhHHHHHHHHHHHhccHHHHHHHHhhhhhcC-CchhhhhhhhHHHHH
Confidence            3467889999999999999999998875  5777889899999999999999999999988763 667767777888999


Q ss_pred             hcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 012108          251 KCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCEL  327 (471)
Q Consensus       251 ~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  327 (471)
                      ..++.++|.++|+...+   .++.+..++...|.-.++++-|+..++++...|+. ++..|+.+.-+|.-.+++|-++.-
T Consensus       302 am~~~~~a~~lYk~vlk~~~~nvEaiAcia~~yfY~~~PE~AlryYRRiLqmG~~-speLf~NigLCC~yaqQ~D~~L~s  380 (478)
T KOG1129|consen  302 AMEQQEDALQLYKLVLKLHPINVEAIACIAVGYFYDNNPEMALRYYRRILQMGAQ-SPELFCNIGLCCLYAQQIDLVLPS  380 (478)
T ss_pred             HHHhHHHHHHHHHHHHhcCCccceeeeeeeeccccCCChHHHHHHHHHHHHhcCC-ChHHHhhHHHHHHhhcchhhhHHH
Confidence            99999999999987665   35666777788899999999999999999999966 788999999999999999999999


Q ss_pred             HHHhHHhcCCCCC--hhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          328 FSRMEKDFGVTRK--LEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       328 ~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      |+++.. .--.|+  ...|-.|.......|++.-|.+.|+-.  ....+...++.|.-.-.+.|++++|..++..+....
T Consensus       381 f~RAls-tat~~~~aaDvWYNlg~vaV~iGD~nlA~rcfrlaL~~d~~h~ealnNLavL~~r~G~i~~Arsll~~A~s~~  459 (478)
T KOG1129|consen  381 FQRALS-TATQPGQAADVWYNLGFVAVTIGDFNLAKRCFRLALTSDAQHGEALNNLAVLAARSGDILGARSLLNAAKSVM  459 (478)
T ss_pred             HHHHHh-hccCcchhhhhhhccceeEEeccchHHHHHHHHHHhccCcchHHHHHhHHHHHhhcCchHHHHHHHHHhhhhC
Confidence            999887 233343  567888888889999999999999987  333456789999988899999999999999999888


Q ss_pred             CC
Q 012108          404 NY  405 (471)
Q Consensus       404 ~~  405 (471)
                      |.
T Consensus       460 P~  461 (478)
T KOG1129|consen  460 PD  461 (478)
T ss_pred             cc
Confidence            77

>PRK12370 invasion protein regulator; Provisional

Probab=99.37  E-value=2.2e-10  Score=110.57  Aligned_cols=243  Identities=11%  Similarity=0.002  Sum_probs=175.1

Q ss_pred             CCHHHHHHHHHhccc--c-ChHHHHHHHHHHH---------hcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCC
Q 012108          152 GEMEKAGEMFKKMLV--K-NVITWNTMVTGYL---------RSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGS  219 (471)
Q Consensus       152 ~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~---------~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~  219 (471)
                      +++++|.+.|++...  | +...|..+..++.         ..+++++|...+++..+.+ +-+...+..+...+...|+
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            457899999999844  3 3455666655544         2345889999999998864 3356677777778889999


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 012108          220 LETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEM  296 (471)
Q Consensus       220 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~  296 (471)
                      +++|...++++.+.+ |.+...+..+...+...|++++|+..+++...-   +...+..++..+...|++++|...++++
T Consensus       354 ~~~A~~~~~~Al~l~-P~~~~a~~~lg~~l~~~G~~~eAi~~~~~Al~l~P~~~~~~~~~~~~~~~~g~~eeA~~~~~~~  432 (553)
T PRK12370        354 YIVGSLLFKQANLLS-PISADIKYYYGWNLFMAGQLEEALQTINECLKLDPTRAAAGITKLWITYYHTGIDDAIRLGDEL  432 (553)
T ss_pred             HHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCChhhHHHHHHHHHhccCHHHHHHHHHHH
Confidence            999999999999986 667788889999999999999999999987653   2233444555677789999999999998


Q ss_pred             HhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCC
Q 012108          297 NDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM----PFEP  371 (471)
Q Consensus       297 ~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p  371 (471)
                      .... +| +...+..+..++...|+.++|.+.+.++..  ..+.+....+.+...|...|  ++|...++.+    ...|
T Consensus       433 l~~~-~p~~~~~~~~la~~l~~~G~~~eA~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g--~~a~~~l~~ll~~~~~~~  507 (553)
T PRK12370        433 RSQH-LQDNPILLSMQVMFLSLKGKHELARKLTKEIST--QEITGLIAVNLLYAEYCQNS--ERALPTIREFLESEQRID  507 (553)
T ss_pred             HHhc-cccCHHHHHHHHHHHHhCCCHHHHHHHHHHhhh--ccchhHHHHHHHHHHHhccH--HHHHHHHHHHHHHhhHhh
Confidence            7653 34 445567778888899999999999998876  33334555566666777777  4666666655    2233


Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      ....+..+  .+.-.|+.+.+..+ +++.+.+.
T Consensus       508 ~~~~~~~~--~~~~~g~~~~~~~~-~~~~~~~~  537 (553)
T PRK12370        508 NNPGLLPL--VLVAHGEAIAEKMW-NKFKNEDN  537 (553)
T ss_pred             cCchHHHH--HHHHHhhhHHHHHH-HHhhccch
Confidence            33333333  35556777777666 77776553

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.37  E-value=3.5e-10  Score=104.16  Aligned_cols=241  Identities=14%  Similarity=0.087  Sum_probs=159.6

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhC-----CC-CCCHHH-HHHHHHHHHccCChHHHHHHHHHHHHc-----C--C
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAG-----NV-KPDYLT-VTSVLSACANLGSLETGARIHVYATDN-----G--L  235 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----g~-~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~  235 (471)
                      .+...+...|...|+++.|..+++..++.     |. .|...+ .+.+...|...+++++|..+|+.+...     |  .
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34555888899999999999998887653     21 233222 233555667777788877777776542     2  1


Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHH
Q 012108          236 ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDI-TFIGLLSA  314 (471)
Q Consensus       236 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~  314 (471)
                      +.-..+++.|..+|.+.|++++|...+                        +.|++++++.... ..|... .++.+...
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~------------------------e~Al~I~~~~~~~-~~~~v~~~l~~~~~~  334 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYC------------------------ERALEIYEKLLGA-SHPEVAAQLSELAAI  334 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHH------------------------HHHHHHHHHhhcc-ChHHHHHHHHHHHHH
Confidence            112345556666677777777766664                        3445555552111 122222 35556677


Q ss_pred             HhccCcHHHHHHHHHHhHHhcC--CCC----ChhHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HhHHHH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFG--VTR----KLEHYGCMVDLLGRARLLDRAIELIEAM---------PFEPT-ESILGA  378 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~--~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~~  378 (471)
                      |...+++++|..++++..+...  ..+    -..+++.|...|.+.|++++|.++++++         +..+. ...++.
T Consensus       335 ~~~~~~~Eea~~l~q~al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~  414 (508)
T KOG1840|consen  335 LQSMNEYEEAKKLLQKALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQ  414 (508)
T ss_pred             HHHhcchhHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHH
Confidence            7888888888888877665222  112    2467888888899999999998888876         11222 446778


Q ss_pred             HHHHHhhcCCchHHHHHHHHHHH----cCCCC--CchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCA----KSNYL--SDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~----~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      +...|.+.+.+.+|.++|.+...    .||.-  ...+|..|+.+|.+.|+++.|.++.+.+.
T Consensus       415 la~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~  477 (508)
T KOG1840|consen  415 LAEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVL  477 (508)
T ss_pred             HHHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHH
Confidence            88888888999988888876554    35441  23567789999999999999999988775

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

Probab=99.36  E-value=1.2e-08  Score=88.25  Aligned_cols=268  Identities=10%  Similarity=-0.020  Sum_probs=169.5

Q ss_pred             cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH-HHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHH
Q 012108          165 LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLT-VTSVLSACANLGSLETGARIHVYATDNGLASNPHATT  243 (471)
Q Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  243 (471)
                      ...|+.....+..++...|+.++|...|++.+..  .|+..+ .......+.+.|+.+....+...+.... .-+...|.
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~--dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wf  304 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCA--NPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWF  304 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhC--ChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhh
Confidence            3347777777888888888888888888776653  343322 1112223345666666666655554432 22233333


Q ss_pred             HHHHHHHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 012108          244 ALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGL  320 (471)
Q Consensus       244 ~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  320 (471)
                      .-+.......++..|+.+-++..+-   +...+-.-...+...|++++|.-.|+..+.. -+-+...|..|+.+|...|+
T Consensus       305 V~~~~l~~~K~~~rAL~~~eK~I~~~~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~L-ap~rL~~Y~GL~hsYLA~~~  383 (564)
T KOG1174|consen  305 VHAQLLYDEKKFERALNFVEKCIDSEPRNHEALILKGRLLIALERHTQAVIAFRTAQML-APYRLEIYRGLFHSYLAQKR  383 (564)
T ss_pred             hhhhhhhhhhhHHHHHHHHHHHhccCcccchHHHhccHHHHhccchHHHHHHHHHHHhc-chhhHHHHHHHHHHHHhhch
Confidence            3334445566777777777765553   3344444445677778888888888877664 13356678888888888888


Q ss_pred             HHHHHHHHHHhHHhcCCCCChhHHHHHH-HHHh-hcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHhhcCCchHHHHHH
Q 012108          321 VQEGCELFSRMEKDFGVTRKLEHYGCMV-DLLG-RARLLDRAIELIEAM-PFEPTE-SILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~-~~~~-~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      +.+|...-+...+  -++.+..+...+. ..+. .-.--++|.+++++. .+.|+- ...+.+...|...|..+.++.++
T Consensus       384 ~kEA~~~An~~~~--~~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  384 FKEANALANWTIR--LFQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLKINPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHHH--HhhcchhhhhhhcceeeccCchhHHHHHHHHHhhhccCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            8888777666665  3444455544442 2222 222346777777765 566653 45566666777788888888888


Q ss_pred             HHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          397 KMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       397 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ++.+...+  |......|++.+...+.+++|++.|......+|.
T Consensus       462 e~~L~~~~--D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~  503 (564)
T KOG1174|consen  462 EKHLIIFP--DVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK  503 (564)
T ss_pred             HHHHhhcc--ccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc
Confidence            88776655  4777788888888888888888888777766654

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.34  E-value=3.4e-09  Score=87.63  Aligned_cols=414  Identities=12%  Similarity=0.075  Sum_probs=265.8

Q ss_pred             CcccCCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCccc
Q 012108            1 MQELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIA   78 (471)
Q Consensus         1 m~~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~   78 (471)
                      |...|+.....-+.+++..+.+-.+++.|.+++..-.+.. +.+....+.+..+|-+..++..|-..++++..  |...-
T Consensus         1 M~~~g~~i~EGeftaviy~lI~d~ry~DaI~~l~s~~Er~-p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~q   79 (459)
T KOG4340|consen    1 MAGSGAQIPEGEFTAVVYRLIRDARYADAIQLLGSELERS-PRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQ   79 (459)
T ss_pred             CCcccccCCCCchHHHHHHHHHHhhHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHH
Confidence            6778888888889999999999999999999999888775 33777888889999999999999999999865  55555


Q ss_pred             HHH-HHHHHHcCCCHHHHHHHHhcCCCCChhhHHH----HHHHHHhcCCHHHHHHHHhhcC-CCChhhHHHHHHHHHhCC
Q 012108           79 WNS-MLDAFASCGQMDHAMKLIDLMPLKDVTSFNI----MISGYARIGKIHSARYIFDKVP-AKDVVSWNSLILAYTNAG  152 (471)
Q Consensus        79 ~~~-li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~----l~~~~~~~g~~~~a~~~~~~~~-~~~~~~~~~l~~~~~~~~  152 (471)
                      |.. -...+-+.+.+..|+++...|... +...+.    -.......+++..+..+.++.. +.+..+.+.......+.|
T Consensus        80 YrlY~AQSLY~A~i~ADALrV~~~~~D~-~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~en~Ad~~in~gCllykeg  158 (459)
T KOG4340|consen   80 YRLYQAQSLYKACIYADALRVAFLLLDN-PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSENEADGQINLGCLLYKEG  158 (459)
T ss_pred             HHHHHHHHHHHhcccHHHHHHHHHhcCC-HHHHHHHHHHHHHHhcccccCcchHHHHHhccCCCccchhccchheeeccc
Confidence            543 256677889999999999988864 222222    2223446788888999999887 466777777777778899


Q ss_pred             CHHHHHHHHHhcccc----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH-----HHHHHHccCChHHH
Q 012108          153 EMEKAGEMFKKMLVK----NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTS-----VLSACANLGSLETG  223 (471)
Q Consensus       153 ~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-----l~~~~~~~~~~~~a  223 (471)
                      +++.|.+-|+...+-    ....||.-+ +..+.|+++.|++...++.++|++-... +++     .+.+ ...|+.   
T Consensus       159 qyEaAvqkFqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPE-lgIGm~tegiDv-rsvgNt---  232 (459)
T KOG4340|consen  159 QYEAAVQKFQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPE-LGIGMTTEGIDV-RSVGNT---  232 (459)
T ss_pred             cHHHHHHHHHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCc-cCccceeccCch-hcccch---
Confidence            999999999887432    345666544 4556788999999999998887642211 110     0000 000110   


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC-----ChhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 012108          224 ARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK-----DVFCWNAMILGLALHGYGYAALKLLGEMND  298 (471)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  298 (471)
                      ..+.    .++   -...+|.-...+.+.|+++.|.+.+-.|+++     |+++...+.-.= ..+++.+..+-+.-+..
T Consensus       233 ~~lh----~Sa---l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~  304 (459)
T KOG4340|consen  233 LVLH----QSA---LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQ  304 (459)
T ss_pred             HHHH----HHH---HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHh
Confidence            0000    000   1234454555677889999999999998874     667766554322 24556666666666666


Q ss_pred             CCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCC-CChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHH
Q 012108          299 SCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVT-RKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILG  377 (471)
Q Consensus       299 ~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~  377 (471)
                      .+ +-...||..++-.||+..-++.|-.++.+-.. ..+. .+...|+.|=..-...-.+++|++-++.+...-....-.
T Consensus       305 ~n-PfP~ETFANlLllyCKNeyf~lAADvLAEn~~-lTyk~L~~Yly~LLdaLIt~qT~pEea~KKL~~La~~l~~kLRk  382 (459)
T KOG4340|consen  305 QN-PFPPETFANLLLLYCKNEYFDLAADVLAENAH-LTYKFLTPYLYDLLDALITCQTAPEEAFKKLDGLAGMLTEKLRK  382 (459)
T ss_pred             cC-CCChHHHHHHHHHHhhhHHHhHHHHHHhhCcc-hhHHHhhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            54 34567899999999999999999888765443 1111 234445443333334466777776665541000011111


Q ss_pred             HHHHHHh-hcCC----chHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          378 ALLSACV-IHQD----LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       378 ~l~~~~~-~~g~----~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ..+..-. +..+    ...+++-+++.++.-    -.+....++.|.+..++..+.++|..-.+
T Consensus       383 lAi~vQe~r~~~dd~a~R~ai~~Yd~~LE~Y----LPVlMa~AkiyW~~~Dy~~vEk~Fr~Sve  442 (459)
T KOG4340|consen  383 LAIQVQEARHNRDDEAIRKAVNEYDETLEKY----LPVLMAQAKIYWNLEDYPMVEKIFRKSVE  442 (459)
T ss_pred             HHHHHHHHHhcccHHHHHHHHHHHHHHHHHH----HHHHHHHHHhhccccccHHHHHHHHHHHh
Confidence            1111111 1111    122333344444332    23555667788899999999999987654

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

Probab=99.33  E-value=4.8e-08  Score=89.49  Aligned_cols=417  Identities=13%  Similarity=0.041  Sum_probs=271.6

Q ss_pred             HHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCC
Q 012108           14 PLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCG   90 (471)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g   90 (471)
                      ..++. |-..+++...+.+.+.+++.- +-...+.....-.+...|+.++|.........   .+.++|+.+.-.+-...
T Consensus        12 ~~~lk-~yE~kQYkkgLK~~~~iL~k~-~eHgeslAmkGL~L~~lg~~~ea~~~vr~glr~d~~S~vCwHv~gl~~R~dK   89 (700)
T KOG1156|consen   12 RRALK-CYETKQYKKGLKLIKQILKKF-PEHGESLAMKGLTLNCLGKKEEAYELVRLGLRNDLKSHVCWHVLGLLQRSDK   89 (700)
T ss_pred             HHHHH-HHHHHHHHhHHHHHHHHHHhC-CccchhHHhccchhhcccchHHHHHHHHHHhccCcccchhHHHHHHHHhhhh
Confidence            33444 445688899999999988853 33444444444445567999999988887665   45678999888888889


Q ss_pred             CHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhc
Q 012108           91 QMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKM  164 (471)
Q Consensus        91 ~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  164 (471)
                      ++++|++.|.....-   |...+.-+.-.-++.|+++.....-.+..+   .....|..++.++.-.|+...|..+++..
T Consensus        90 ~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~~~tr~~LLql~~~~ra~w~~~Avs~~L~g~y~~A~~il~ef  169 (700)
T KOG1156|consen   90 KYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGYLETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEF  169 (700)
T ss_pred             hHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            999999999887643   667777777777888888877776666643   34567888888888999999999998887


Q ss_pred             cc-----cChHHHHHH------HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHccCChHHHHHHHHHHHH
Q 012108          165 LV-----KNVITWNTM------VTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTV-TSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       165 ~~-----~~~~~~~~l------~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      .+     ++...+...      .......|.++.|++.+..-...  ..|...+ ..-...+.+.++.++|..++..++.
T Consensus       170 ~~t~~~~~s~~~~e~se~~Ly~n~i~~E~g~~q~ale~L~~~e~~--i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~  247 (700)
T KOG1156|consen  170 EKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHLLDNEKQ--IVDKLAFEETKADLLMKLGQLEEAVKVYRRLLE  247 (700)
T ss_pred             HHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHHHhhhhH--HHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHh
Confidence            22     344333322      23456678888888887665432  2233333 2344567789999999999999998


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHH-HHHhcCCCC-C-hhhHHHH-HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH
Q 012108          233 NGLASNPHATTALIDMYAKCGSIEQSL-EVFYKSQVK-D-VFCWNAM-ILGLALHGYGYAALKLLGEMNDSCVKADDITF  308 (471)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~-~-~~~~~~l-~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~  308 (471)
                      .+ |.+...|..+..++.+-.+.-++. .+|...... . ...-..+ +.......-.+..-.++..+...|+++-   +
T Consensus       248 rn-Pdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~y~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~v---f  323 (700)
T KOG1156|consen  248 RN-PDNLDYYEGLEKALGKIKDMLEALKALYAILSEKYPRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSV---F  323 (700)
T ss_pred             hC-chhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhcCcccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCch---h
Confidence            85 444555555556665333333333 556554431 0 0000000 1111112223444556677777787653   3


Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhc-C------------CCCChhHH--HHHHHHHhhcCCHHHHHHHHHhC-CCCCC
Q 012108          309 IGLLSACSHAGLVQEGCELFSRMEKDF-G------------VTRKLEHY--GCMVDLLGRARLLDRAIELIEAM-PFEPT  372 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~a~~~~~~~~~~~-~------------~~~~~~~~--~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  372 (471)
                      ..+...|-.....+-..++.-.+.... |            -+|++..|  -.+++.+-+.|+++.|...++.. +..|+
T Consensus       324 ~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~E~PttllWt~y~laqh~D~~g~~~~A~~yId~AIdHTPT  403 (700)
T KOG1156|consen  324 KDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQEPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAIDHTPT  403 (700)
T ss_pred             hhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCcccccccCCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCch
Confidence            333333333222221111111111100 1            14555444  35667788999999999999987 66776


Q ss_pred             H-hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          373 E-SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       373 ~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      . ..|..=.+.+...|++++|..+++++.+.+.. |...-..-+.-..+..+.++|.++.....+.|.
T Consensus       404 liEly~~KaRI~kH~G~l~eAa~~l~ea~elD~a-DR~INsKcAKYmLrAn~i~eA~~~~skFTr~~~  470 (700)
T KOG1156|consen  404 LIELYLVKARIFKHAGLLDEAAAWLDEAQELDTA-DRAINSKCAKYMLRANEIEEAEEVLSKFTREGF  470 (700)
T ss_pred             HHHHHHHHHHHHHhcCChHHHHHHHHHHHhccch-hHHHHHHHHHHHHHccccHHHHHHHHHhhhccc
Confidence            4 45666667788899999999999999998876 666666788888899999999999998877764

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

Probab=99.33  E-value=2.5e-08  Score=86.41  Aligned_cols=272  Identities=10%  Similarity=-0.047  Sum_probs=208.9

Q ss_pred             CCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHH---HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 012108          134 PAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVIT---WNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSV  210 (471)
Q Consensus       134 ~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  210 (471)
                      .+.++.....+.+++...|+.++|+..|++...-|+.+   .......+.+.|++++...+...+.... .-+...|..-
T Consensus       228 lr~NvhLl~~lak~~~~~Gdn~~a~~~Fe~~~~~dpy~i~~MD~Ya~LL~~eg~~e~~~~L~~~Lf~~~-~~ta~~wfV~  306 (564)
T KOG1174|consen  228 LRCNEHLMMALGKCLYYNGDYFQAEDIFSSTLCANPDNVEAMDLYAVLLGQEGGCEQDSALMDYLFAKV-KYTASHWFVH  306 (564)
T ss_pred             CCccHHHHHHHhhhhhhhcCchHHHHHHHHHhhCChhhhhhHHHHHHHHHhccCHhhHHHHHHHHHhhh-hcchhhhhhh
Confidence            44578888999999999999999999999985444433   2333445567888988888888776532 1233334444


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChH
Q 012108          211 LSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGY  287 (471)
Q Consensus       211 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  287 (471)
                      +......+++..|..+-++.++.. +.+...+-.-..++...++.++|.-.|+....   -+..+|.-|+..|...|++.
T Consensus       307 ~~~l~~~K~~~rAL~~~eK~I~~~-~r~~~alilKG~lL~~~~R~~~A~IaFR~Aq~Lap~rL~~Y~GL~hsYLA~~~~k  385 (564)
T KOG1174|consen  307 AQLLYDEKKFERALNFVEKCIDSE-PRNHEALILKGRLLIALERHTQAVIAFRTAQMLAPYRLEIYRGLFHSYLAQKRFK  385 (564)
T ss_pred             hhhhhhhhhHHHHHHHHHHHhccC-cccchHHHhccHHHHhccchHHHHHHHHHHHhcchhhHHHHHHHHHHHHhhchHH
Confidence            445556788999999999888776 56677777777889999999999999987554   37889999999999999999


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHH-HHHh-ccCcHHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHHH
Q 012108          288 AALKLLGEMNDSCVKADDITFIGLL-SACS-HAGLVQEGCELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLDRAIELI  364 (471)
Q Consensus       288 ~a~~~~~~~~~~~~~p~~~~~~~l~-~~~~-~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~  364 (471)
                      +|.-+-+..... ++.+..+...+. ..|. ...--++|..++++..+   ..|+ ....+.+...+...|..+.+..++
T Consensus       386 EA~~~An~~~~~-~~~sA~~LtL~g~~V~~~dp~~rEKAKkf~ek~L~---~~P~Y~~AV~~~AEL~~~Eg~~~D~i~LL  461 (564)
T KOG1174|consen  386 EANALANWTIRL-FQNSARSLTLFGTLVLFPDPRMREKAKKFAEKSLK---INPIYTPAVNLIAELCQVEGPTKDIIKLL  461 (564)
T ss_pred             HHHHHHHHHHHH-hhcchhhhhhhcceeeccCchhHHHHHHHHHhhhc---cCCccHHHHHHHHHHHHhhCccchHHHHH
Confidence            999887776554 344555665553 3333 33445778888888775   3454 666778888999999999999999


Q ss_pred             HhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHH
Q 012108          365 EAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELM  412 (471)
Q Consensus       365 ~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  412 (471)
                      ++. ...||....+.|...+...+.+++|...|..++..+|+ +..+..
T Consensus       462 e~~L~~~~D~~LH~~Lgd~~~A~Ne~Q~am~~y~~ALr~dP~-~~~sl~  509 (564)
T KOG1174|consen  462 EKHLIIFPDVNLHNHLGDIMRAQNEPQKAMEYYYKALRQDPK-SKRTLR  509 (564)
T ss_pred             HHHHhhccccHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCcc-chHHHH
Confidence            987 67899999999999999999999999999999999998 555443

>KOG1840 consensus Kinesin light chain [Cytoskeleton]

Probab=99.33  E-value=1.8e-09  Score=99.59  Aligned_cols=239  Identities=16%  Similarity=0.140  Sum_probs=148.6

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHhcccc----------ChH-HHHHHHHHHHhcCCHHHHHHHHHHHHhC-----C-CC
Q 012108          139 VSWNSLILAYTNAGEMEKAGEMFKKMLVK----------NVI-TWNTMVTGYLRSQLYIEVVDLFDEMKAG-----N-VK  201 (471)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~~----------~~~-~~~~l~~~~~~~~~~~~a~~~~~~m~~~-----g-~~  201 (471)
                      .+...+...|...|++++|+.+++.....          .+. ..+.+...|...+++++|..+|+++..-     | ..
T Consensus       200 ~~~~~La~~y~~~g~~e~A~~l~k~Al~~l~k~~G~~hl~va~~l~~~a~~y~~~~k~~eAv~ly~~AL~i~e~~~G~~h  279 (508)
T KOG1840|consen  200 RTLRNLAEMYAVQGRLEKAEPLCKQALRILEKTSGLKHLVVASMLNILALVYRSLGKYDEAVNLYEEALTIREEVFGEDH  279 (508)
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHccCccCHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHhcCCCC
Confidence            34555777888888888888888776322          222 2345777888999999999999998652     2 12


Q ss_pred             CC-HHHHHHHHHHHHccCChHHHHHHHHHHHHcC------CCCc-hhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhH
Q 012108          202 PD-YLTVTSVLSACANLGSLETGARIHVYATDNG------LASN-PHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCW  273 (471)
Q Consensus       202 p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  273 (471)
                      |. ..+++.|..+|.+.|++++|...++.+.+.-      ..|. ...++.+...++..+++++|..++++         
T Consensus       280 ~~va~~l~nLa~ly~~~GKf~EA~~~~e~Al~I~~~~~~~~~~~v~~~l~~~~~~~~~~~~~Eea~~l~q~---------  350 (508)
T KOG1840|consen  280 PAVAATLNNLAVLYYKQGKFAEAEEYCERALEIYEKLLGASHPEVAAQLSELAAILQSMNEYEEAKKLLQK---------  350 (508)
T ss_pred             HHHHHHHHHHHHHHhccCChHHHHHHHHHHHHHHHHhhccChHHHHHHHHHHHHHHHHhcchhHHHHHHHH---------
Confidence            22 2456677778999999999998888765421      0111 12233344444455555555544431         


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc---CC--CC-ChhHHHHH
Q 012108          274 NAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDF---GV--TR-KLEHYGCM  347 (471)
Q Consensus       274 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~--~~-~~~~~~~l  347 (471)
                                     +.+++.......-.--..+++.+...|...|++++|.++++++....   +.  .+ .-..++.|
T Consensus       351 ---------------al~i~~~~~g~~~~~~a~~~~nl~~l~~~~gk~~ea~~~~k~ai~~~~~~~~~~~~~~~~~l~~l  415 (508)
T KOG1840|consen  351 ---------------ALKIYLDAPGEDNVNLAKIYANLAELYLKMGKYKEAEELYKKAIQILRELLGKKDYGVGKPLNQL  415 (508)
T ss_pred             ---------------HHHHHHhhccccchHHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHHHhcccCcChhhhHHHHHH
Confidence                           12222211111001123467777778888888888888877776522   11  11 23455667


Q ss_pred             HHHHhhcCCHHHHHHHHHhC--------CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          348 VDLLGRARLLDRAIELIEAM--------PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       348 ~~~~~~~g~~~~A~~~~~~~--------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      ...|.+.+++++|.++|.+.        +..|+ ..+|..|...|...|+++.|+++.+.+..
T Consensus       416 a~~~~~~k~~~~a~~l~~~~~~i~~~~g~~~~~~~~~~~nL~~~Y~~~g~~e~a~~~~~~~~~  478 (508)
T KOG1840|consen  416 AEAYEELKKYEEAEQLFEEAKDIMKLCGPDHPDVTYTYLNLAALYRAQGNYEAAEELEEKVLN  478 (508)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHHHcccHHHHHHHHHHHHH
Confidence            77777777777777777664        23344 35888899999999999999998887763

>PF13041 PPR_2: PPR repeat family

Probab=99.33  E-value=5.3e-12  Score=78.08  Aligned_cols=50  Identities=32%  Similarity=0.631  Sum_probs=42.8

Q ss_pred             cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc
Q 012108          167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACAN  216 (471)
Q Consensus       167 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~  216 (471)
                      ||+.+||.++.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            67888888888888888888888888888888888888888888888764

>KOG3785 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.29  E-value=4.4e-08  Score=83.23  Aligned_cols=375  Identities=12%  Similarity=0.033  Sum_probs=239.6

Q ss_pred             HHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHH
Q 012108           19 AAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKL   98 (471)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~   98 (471)
                      .+.+.|++++|...+..+.+.. .++...+-.+.-.+.-.|.+.+|..+-.+..+ ++..-..|.....+.|+-++-..+
T Consensus        66 C~fhLgdY~~Al~~Y~~~~~~~-~~~~el~vnLAcc~FyLg~Y~eA~~~~~ka~k-~pL~~RLlfhlahklndEk~~~~f  143 (557)
T KOG3785|consen   66 CYFHLGDYEEALNVYTFLMNKD-DAPAELGVNLACCKFYLGQYIEAKSIAEKAPK-TPLCIRLLFHLAHKLNDEKRILTF  143 (557)
T ss_pred             HHHhhccHHHHHHHHHHHhccC-CCCcccchhHHHHHHHHHHHHHHHHHHhhCCC-ChHHHHHHHHHHHHhCcHHHHHHH
Confidence            3557899999999999988755 45666666677777778999999998776543 333445566666777877776666


Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCCh--hhHHH-HHHHHHhCCCHHHHHHHHHhcc---ccChHHH
Q 012108           99 IDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDV--VSWNS-LILAYTNAGEMEKAGEMFKKML---VKNVITW  172 (471)
Q Consensus        99 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~-l~~~~~~~~~~~~A~~~~~~~~---~~~~~~~  172 (471)
                      -..+.... +.-.++.......-.+.+|+.++..+...++  ...+. +.-+|.+..-++-+.++++--.   ..++.+.
T Consensus       144 h~~LqD~~-EdqLSLAsvhYmR~HYQeAIdvYkrvL~dn~ey~alNVy~ALCyyKlDYydvsqevl~vYL~q~pdStiA~  222 (557)
T KOG3785|consen  144 HSSLQDTL-EDQLSLASVHYMRMHYQEAIDVYKRVLQDNPEYIALNVYMALCYYKLDYYDVSQEVLKVYLRQFPDSTIAK  222 (557)
T ss_pred             HHHHhhhH-HHHHhHHHHHHHHHHHHHHHHHHHHHHhcChhhhhhHHHHHHHHHhcchhhhHHHHHHHHHHhCCCcHHHH
Confidence            55554332 3334455555555678889999988855433  23332 3345667777777766665552   2234444


Q ss_pred             HHHHHHHHhc--CC---------------------------------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc
Q 012108          173 NTMVTGYLRS--QL---------------------------------YIEVVDLFDEMKAGNVKPDYLTVTSVLSACANL  217 (471)
Q Consensus       173 ~~l~~~~~~~--~~---------------------------------~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  217 (471)
                      |..+....+.  |+                                 -+.|++++-.+.+  +-|.  .-..++--|.+.
T Consensus       223 NLkacn~fRl~ngr~ae~E~k~ladN~~~~~~f~~~l~rHNLVvFrngEgALqVLP~L~~--~IPE--ARlNL~iYyL~q  298 (557)
T KOG3785|consen  223 NLKACNLFRLINGRTAEDEKKELADNIDQEYPFIEYLCRHNLVVFRNGEGALQVLPSLMK--HIPE--ARLNLIIYYLNQ  298 (557)
T ss_pred             HHHHHHHhhhhccchhHHHHHHHHhcccccchhHHHHHHcCeEEEeCCccHHHhchHHHh--hChH--hhhhheeeeccc
Confidence            4443333221  11                                 1222222222221  1111  222344456788


Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-------ChHHHHHHHhcCCC-----CChhhHHHHHHHHHhcCC
Q 012108          218 GSLETGARIHVYATDNGLASNPHATTALIDMYAKCG-------SIEQSLEVFYKSQV-----KDVFCWNAMILGLALHGY  285 (471)
Q Consensus       218 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~-----~~~~~~~~l~~~~~~~~~  285 (471)
                      +++++|..+.+++.    |.++.-|-.-.-.+...|       ++.-|.+.|+-...     ..+.--.++.+.+.-..+
T Consensus       299 ~dVqeA~~L~Kdl~----PttP~EyilKgvv~aalGQe~gSreHlKiAqqffqlVG~Sa~ecDTIpGRQsmAs~fFL~~q  374 (557)
T KOG3785|consen  299 NDVQEAISLCKDLD----PTTPYEYILKGVVFAALGQETGSREHLKIAQQFFQLVGESALECDTIPGRQSMASYFFLSFQ  374 (557)
T ss_pred             ccHHHHHHHHhhcC----CCChHHHHHHHHHHHHhhhhcCcHHHHHHHHHHHHHhcccccccccccchHHHHHHHHHHHH
Confidence            99999988876652    333333332222233333       35556666664433     234456677788888889


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHH
Q 012108          286 GYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIE  365 (471)
Q Consensus       286 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  365 (471)
                      +++++..++....- ..-|......+.++.+..|++.+|+++|-.+.. ..++.+......|.++|.++++++-|.+++-
T Consensus       375 FddVl~YlnSi~sY-F~NdD~Fn~N~AQAk~atgny~eaEelf~~is~-~~ikn~~~Y~s~LArCyi~nkkP~lAW~~~l  452 (557)
T KOG3785|consen  375 FDDVLTYLNSIESY-FTNDDDFNLNLAQAKLATGNYVEAEELFIRISG-PEIKNKILYKSMLARCYIRNKKPQLAWDMML  452 (557)
T ss_pred             HHHHHHHHHHHHHH-hcCcchhhhHHHHHHHHhcChHHHHHHHhhhcC-hhhhhhHHHHHHHHHHHHhcCCchHHHHHHH
Confidence            99999999988875 333444445588999999999999999988876 2333344444566789999999999999999


Q ss_pred             hCCCCCCHhHHHHH-HHHHhhcCCchHHHHHHHHHHHcCCCC
Q 012108          366 AMPFEPTESILGAL-LSACVIHQDLEIGDRVAKMVCAKSNYL  406 (471)
Q Consensus       366 ~~~~~p~~~~~~~l-~~~~~~~g~~~~a~~~~~~~~~~~~~~  406 (471)
                      ++.-+.+..+...+ ...|-+.+.+=-|-+.|+.+...+|.|
T Consensus       453 k~~t~~e~fsLLqlIAn~CYk~~eFyyaaKAFd~lE~lDP~p  494 (557)
T KOG3785|consen  453 KTNTPSERFSLLQLIANDCYKANEFYYAAKAFDELEILDPTP  494 (557)
T ss_pred             hcCCchhHHHHHHHHHHHHHHHHHHHHHHHhhhHHHccCCCc
Confidence            98655555555444 456889999988999999988888763

>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=99.29  E-value=3.5e-08  Score=92.32  Aligned_cols=410  Identities=11%  Similarity=0.047  Sum_probs=245.3

Q ss_pred             HHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCcccH-HHHHHHHHcC---
Q 012108           16 LLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIAW-NSMLDAFASC---   89 (471)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~-~~li~~~~~~---   89 (471)
                      -...+...|++++|++.++.-.+. +.............+.+.|+.++|..++..+.+  |+-..| ..+..+..-.   
T Consensus        10 ~~~il~e~g~~~~AL~~L~~~~~~-I~Dk~~~~E~rA~ll~kLg~~~eA~~~y~~Li~rNPdn~~Yy~~L~~~~g~~~~~   88 (517)
T PF12569_consen   10 KNSILEEAGDYEEALEHLEKNEKQ-ILDKLAVLEKRAELLLKLGRKEEAEKIYRELIDRNPDNYDYYRGLEEALGLQLQL   88 (517)
T ss_pred             HHHHHHHCCCHHHHHHHHHhhhhh-CCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHhhhccc
Confidence            345567889999999999876544 444566778889999999999999999999986  544444 4444444222   


Q ss_pred             --CCHHHHHHHHhcCCCCChh--hHHHHHHHHHhcCCHH-HHHHHHhhcCCCC-hhhHHHHHHHHHhCCCHHHHHHHHHh
Q 012108           90 --GQMDHAMKLIDLMPLKDVT--SFNIMISGYARIGKIH-SARYIFDKVPAKD-VVSWNSLILAYTNAGEMEKAGEMFKK  163 (471)
Q Consensus        90 --g~~~~A~~~~~~~~~~~~~--~~~~l~~~~~~~g~~~-~a~~~~~~~~~~~-~~~~~~l~~~~~~~~~~~~A~~~~~~  163 (471)
                        .+.+...++++++...-+.  ....+.-.+.....+. .+...+....... +.+|+.+-..|....+.+-..+++..
T Consensus        89 ~~~~~~~~~~~y~~l~~~yp~s~~~~rl~L~~~~g~~F~~~~~~yl~~~l~KgvPslF~~lk~Ly~d~~K~~~i~~l~~~  168 (517)
T PF12569_consen   89 SDEDVEKLLELYDELAEKYPRSDAPRRLPLDFLEGDEFKERLDEYLRPQLRKGVPSLFSNLKPLYKDPEKAAIIESLVEE  168 (517)
T ss_pred             ccccHHHHHHHHHHHHHhCccccchhHhhcccCCHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHcChhHHHHHHHHHHH
Confidence              2567777777776433111  1111111111111111 1222222222222 34566666666655555444555544


Q ss_pred             cc------------------ccCh--HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHccCChHH
Q 012108          164 ML------------------VKNV--ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD-YLTVTSVLSACANLGSLET  222 (471)
Q Consensus       164 ~~------------------~~~~--~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~  222 (471)
                      ..                  .|+.  .++..+...|...|++++|++++++.++.  .|+ ...|..-.+.+-+.|++++
T Consensus       169 ~~~~l~~~~~~~~~~~~~~~~p~~~lw~~~~lAqhyd~~g~~~~Al~~Id~aI~h--tPt~~ely~~KarilKh~G~~~~  246 (517)
T PF12569_consen  169 YVNSLESNGSFSNGDDEEKEPPSTLLWTLYFLAQHYDYLGDYEKALEYIDKAIEH--TPTLVELYMTKARILKHAGDLKE  246 (517)
T ss_pred             HHHhhcccCCCCCccccccCCchHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHhc--CCCcHHHHHHHHHHHHHCCCHHH
Confidence            31                  1222  34566788899999999999999999886  465 5567778889999999999


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChh----------hH--HHHHHHHHhcCChHHHH
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVF----------CW--NAMILGLALHGYGYAAL  290 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------~~--~~l~~~~~~~~~~~~a~  290 (471)
                      |.+.++...+.. .-|..+-+..+..+.+.|++++|.+++.....++..          .|  .....+|.+.|++..|+
T Consensus       247 Aa~~~~~Ar~LD-~~DRyiNsK~aKy~LRa~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~AL  325 (517)
T PF12569_consen  247 AAEAMDEARELD-LADRYINSKCAKYLLRAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLAL  325 (517)
T ss_pred             HHHHHHHHHhCC-hhhHHHHHHHHHHHHHCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHH
Confidence            999999999887 677788888889999999999999998776654311          22  34567889999998888


Q ss_pred             HHHHHHHhC--CC---CCCH----------HHHHHHHHHHhccC---c----HHHHHHHHHHhHHhcCCCCC--------
Q 012108          291 KLLGEMNDS--CV---KADD----------ITFIGLLSACSHAG---L----VQEGCELFSRMEKDFGVTRK--------  340 (471)
Q Consensus       291 ~~~~~~~~~--~~---~p~~----------~~~~~l~~~~~~~~---~----~~~a~~~~~~~~~~~~~~~~--------  340 (471)
                      +.|....+.  .+   .-|-          .+|..+++..-+..   .    ...|.+++-.+.........        
T Consensus       326 k~~~~v~k~f~~~~~DQfDFH~Yc~RK~t~r~Y~~~L~~ed~l~~~~~y~raa~~ai~iYl~l~d~~~~~~~~~~~~~~~  405 (517)
T PF12569_consen  326 KRFHAVLKHFDDFEEDQFDFHSYCLRKMTLRAYVDMLRWEDKLRSHPFYRRAAKGAIRIYLELHDKPEAKQGEEQEADNE  405 (517)
T ss_pred             HHHHHHHHHHHHHhcccccHHHHHHhhccHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHhcCcccccccccccccc
Confidence            877665432  01   2222          23333333221111   1    23344555444441110000        


Q ss_pred             ---hhHHHHHHHHH---hhcCCHHHHHHHH-H----------hC----CCCCCHhHHHHHHHHHhh-cCCchHHHHHHHH
Q 012108          341 ---LEHYGCMVDLL---GRARLLDRAIELI-E----------AM----PFEPTESILGALLSACVI-HQDLEIGDRVAKM  398 (471)
Q Consensus       341 ---~~~~~~l~~~~---~~~g~~~~A~~~~-~----------~~----~~~p~~~~~~~l~~~~~~-~g~~~~a~~~~~~  398 (471)
                         ..--..+..-.   .+...-+++...- +          +.    +.+.|...   +...+.+ ..-+++|.++++-
T Consensus       406 ~~~~~e~Kk~~kK~kK~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~Dp---~GekL~~t~dPLe~A~kfl~p  482 (517)
T PF12569_consen  406 NMSAAERKKAKKKAKKAAKKAKKEEAEKAAKKEPKKQQNKSKKKEKVEPKKKDDDP---LGEKLLKTEDPLEEAMKFLKP  482 (517)
T ss_pred             cCChHHHHHHHHHHHHHHHHHhHHHHHHHHhhhhhhhhccccccccccCCcCCCCc---cHHHHhcCCcHHHHHHHHHHH
Confidence               00000111000   0111111111110 0          00    11112111   1122223 3457889999999


Q ss_pred             HHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHH
Q 012108          399 VCAKSNYLSDGELMMFANLYASCGQWEEANRWRNM  433 (471)
Q Consensus       399 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  433 (471)
                      +.+..++ +..+|..-...|.+.|++--|.+.+.+
T Consensus       483 L~~~a~~-~~et~~laFeVy~Rk~K~LLaLqaL~k  516 (517)
T PF12569_consen  483 LLELAPD-NIETHLLAFEVYLRKGKYLLALQALKK  516 (517)
T ss_pred             HHHhCcc-chhhHHHHhHHHHhcCcHHHHHHHHHh
Confidence            9999999 999999999999999999998887654

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 [], [].

>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=99.29  E-value=7.6e-09  Score=96.67  Aligned_cols=128  Identities=14%  Similarity=0.079  Sum_probs=79.1

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHh
Q 012108          307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACV  384 (471)
Q Consensus       307 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~  384 (471)
                      ++..+...|...|++++|++++++..+  ..|..+..|..-...|-+.|++++|.+.++.. ... -|..+-+-....+.
T Consensus       196 ~~~~lAqhyd~~g~~~~Al~~Id~aI~--htPt~~ely~~KarilKh~G~~~~Aa~~~~~Ar~LD~~DRyiNsK~aKy~L  273 (517)
T PF12569_consen  196 TLYFLAQHYDYLGDYEKALEYIDKAIE--HTPTLVELYMTKARILKHAGDLKEAAEAMDEARELDLADRYINSKCAKYLL  273 (517)
T ss_pred             HHHHHHHHHHHhCCHHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCChhhHHHHHHHHHHHH
Confidence            344455666677777777777777776  22223666666677777777777777777666 222 34455555556666


Q ss_pred             hcCCchHHHHHHHHHHHcCCCCCchhH--------HHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          385 IHQDLEIGDRVAKMVCAKSNYLSDGEL--------MMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       385 ~~g~~~~a~~~~~~~~~~~~~~~~~~~--------~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      +.|++++|.+++......+..|....+        ...+.+|.+.|++..|+..|..+.+
T Consensus       274 Ra~~~e~A~~~~~~Ftr~~~~~~~~L~~mQc~Wf~~e~a~a~~r~~~~~~ALk~~~~v~k  333 (517)
T PF12569_consen  274 RAGRIEEAEKTASLFTREDVDPLSNLNDMQCMWFETECAEAYLRQGDYGLALKRFHAVLK  333 (517)
T ss_pred             HCCCHHHHHHHHHhhcCCCCCcccCHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHH
Confidence            777777777777766655533222211        2456677778887777776655543

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 [], [].

>PF13041 PPR_2: PPR repeat family

Probab=99.28  E-value=1.3e-11  Score=76.28  Aligned_cols=50  Identities=32%  Similarity=0.410  Sum_probs=41.6

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 012108          268 KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSH  317 (471)
Q Consensus       268 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  317 (471)
                      ||..+||+++.+|++.|++++|.++|++|.+.|+.||..||+.++++|++
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            57778888888888888888888888888888888888888888888764

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.27  E-value=1.4e-09  Score=96.06  Aligned_cols=217  Identities=12%  Similarity=-0.002  Sum_probs=131.2

Q ss_pred             hcCCHHHHHHHHHHHHhCC-CCCC--HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 012108          181 RSQLYIEVVDLFDEMKAGN-VKPD--YLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQ  257 (471)
Q Consensus       181 ~~~~~~~a~~~~~~m~~~g-~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  257 (471)
                      ..++.+.++.-+.+++... ..|+  ...|..+...+...|+.++|...|++..+.. +.++..|+.+...+...|++++
T Consensus        38 ~~~~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~-P~~~~a~~~lg~~~~~~g~~~~  116 (296)
T PRK11189         38 PTLQQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALR-PDMADAYNYLGIYLTQAGNFDA  116 (296)
T ss_pred             CchHHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHCCCHHH
Confidence            3455667777777776532 1222  2345666667777788888888888877765 5567777888888888888888


Q ss_pred             HHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 012108          258 SLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKD  334 (471)
Q Consensus       258 a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  334 (471)
                      |...|++..+   .+..+|..+...+...|++++|.+.+++..+.  .|+..........+...++.++|...|.+... 
T Consensus       117 A~~~~~~Al~l~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~--~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~-  193 (296)
T PRK11189        117 AYEAFDSVLELDPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD--DPNDPYRALWLYLAESKLDPKQAKENLKQRYE-  193 (296)
T ss_pred             HHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHh-
Confidence            8887776544   24566777777777778888888888777764  34332111222223445677788777766554 


Q ss_pred             cCCCCChhHHHHHHHHHhhcCCH--HHHHHHHHhC-CC----CC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          335 FGVTRKLEHYGCMVDLLGRARLL--DRAIELIEAM-PF----EP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       335 ~~~~~~~~~~~~l~~~~~~~g~~--~~A~~~~~~~-~~----~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                       ...|+...+ .+...+  .|+.  +++.+.+.+. ..    .| ....|..+...+.+.|++++|+..|+++.+.+|.
T Consensus       194 -~~~~~~~~~-~~~~~~--lg~~~~~~~~~~~~~~~~~~~~l~~~~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~  268 (296)
T PRK11189        194 -KLDKEQWGW-NIVEFY--LGKISEETLMERLKAGATDNTELAERLCETYFYLAKYYLSLGDLDEAAALFKLALANNVY  268 (296)
T ss_pred             -hCCccccHH-HHHHHH--ccCCCHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence             223332222 222222  3333  2233222221 11    11 2346777777777778888888888777777764

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

Probab=99.27  E-value=9.9e-08  Score=87.34  Aligned_cols=389  Identities=11%  Similarity=0.079  Sum_probs=248.5

Q ss_pred             hHHHHHHHHHhccCCHhHHHHHhcccCC-----CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 012108           46 YVQTALLKMYGSLRCIDDAFKVFEKMPE-----KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI  120 (471)
Q Consensus        46 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~  120 (471)
                      ..|...+..+..+|++...+..|++...     .....|...+......|-++-+..+++...+-++..-+--+..++..
T Consensus       103 RIwl~Ylq~l~~Q~~iT~tR~tfdrALraLpvtqH~rIW~lyl~Fv~~~~lPets~rvyrRYLk~~P~~~eeyie~L~~~  182 (835)
T KOG2047|consen  103 RIWLDYLQFLIKQGLITRTRRTFDRALRALPVTQHDRIWDLYLKFVESHGLPETSIRVYRRYLKVAPEAREEYIEYLAKS  182 (835)
T ss_pred             HHHHHHHHHHHhcchHHHHHHHHHHHHHhCchHhhccchHHHHHHHHhCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhc
Confidence            3556666777788888888888887553     34567888888888888888999999988888888888888889999


Q ss_pred             CCHHHHHHHHhhcCCC----------ChhhHHHHHHHHHhCCC---HHHHHHHHHhcccc----ChHHHHHHHHHHHhcC
Q 012108          121 GKIHSARYIFDKVPAK----------DVVSWNSLILAYTNAGE---MEKAGEMFKKMLVK----NVITWNTMVTGYLRSQ  183 (471)
Q Consensus       121 g~~~~a~~~~~~~~~~----------~~~~~~~l~~~~~~~~~---~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~~  183 (471)
                      +++++|.+.+......          +...|..+-+..++.-+   --...++++.+...    -...|++|...|.+.|
T Consensus       183 d~~~eaa~~la~vln~d~f~sk~gkSn~qlw~elcdlis~~p~~~~slnvdaiiR~gi~rftDq~g~Lw~SLAdYYIr~g  262 (835)
T KOG2047|consen  183 DRLDEAAQRLATVLNQDEFVSKKGKSNHQLWLELCDLISQNPDKVQSLNVDAIIRGGIRRFTDQLGFLWCSLADYYIRSG  262 (835)
T ss_pred             cchHHHHHHHHHhcCchhhhhhcccchhhHHHHHHHHHHhCcchhcccCHHHHHHhhcccCcHHHHHHHHHHHHHHHHhh
Confidence            9999998888888543          23345555444444322   12233445554332    3357889999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc----------------C------ChHHHHHHHHHHHHcC-------
Q 012108          184 LYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANL----------------G------SLETGARIHVYATDNG-------  234 (471)
Q Consensus       184 ~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~----------------~------~~~~a~~~~~~~~~~~-------  234 (471)
                      .++.|..+|++....  ..+..-|..+.++|+.-                +      +++-...-|+.+...+       
T Consensus       263 ~~ekarDvyeeai~~--v~tvrDFt~ifd~Ya~FEE~~~~~~me~a~~~~~n~ed~~dl~~~~a~~e~lm~rr~~~lNsV  340 (835)
T KOG2047|consen  263 LFEKARDVYEEAIQT--VMTVRDFTQIFDAYAQFEESCVAAKMELADEESGNEEDDVDLELHMARFESLMNRRPLLLNSV  340 (835)
T ss_pred             hhHHHHHHHHHHHHh--heehhhHHHHHHHHHHHHHHHHHHHHhhhhhcccChhhhhhHHHHHHHHHHHHhccchHHHHH
Confidence            999999999987764  23444444444444321                1      1222333344433322       


Q ss_pred             ----CCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-------C--ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 012108          235 ----LASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-------K--DVFCWNAMILGLALHGYGYAALKLLGEMNDSCV  301 (471)
Q Consensus       235 ----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  301 (471)
                          -+.++..|..-+.  +..|+..+-...|.+...       +  -...|..+...|-..|+.+.|..+|++......
T Consensus       341 lLRQn~~nV~eW~kRV~--l~e~~~~~~i~tyteAv~~vdP~ka~Gs~~~Lw~~faklYe~~~~l~~aRvifeka~~V~y  418 (835)
T KOG2047|consen  341 LLRQNPHNVEEWHKRVK--LYEGNAAEQINTYTEAVKTVDPKKAVGSPGTLWVEFAKLYENNGDLDDARVIFEKATKVPY  418 (835)
T ss_pred             HHhcCCccHHHHHhhhh--hhcCChHHHHHHHHHHHHccCcccCCCChhhHHHHHHHHHHhcCcHHHHHHHHHHhhcCCc
Confidence                1222333333222  223555555555544332       1  235688888999999999999999999887543


Q ss_pred             CCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-----------------ChhHHHHHHHHHhhcCCHHHHH
Q 012108          302 KAD---DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-----------------KLEHYGCMVDLLGRARLLDRAI  361 (471)
Q Consensus       302 ~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----------------~~~~~~~l~~~~~~~g~~~~A~  361 (471)
                      +--   ..+|..-...=.+..+++.|+.+.+.+... .-.|                 +...|..+++.--..|-++...
T Consensus       419 ~~v~dLa~vw~~waemElrh~~~~~Al~lm~~A~~v-P~~~~~~~yd~~~pvQ~rlhrSlkiWs~y~DleEs~gtfestk  497 (835)
T KOG2047|consen  419 KTVEDLAEVWCAWAEMELRHENFEAALKLMRRATHV-PTNPELEYYDNSEPVQARLHRSLKIWSMYADLEESLGTFESTK  497 (835)
T ss_pred             cchHHHHHHHHHHHHHHHhhhhHHHHHHHHHhhhcC-CCchhhhhhcCCCcHHHHHHHhHHHHHHHHHHHHHhccHHHHH
Confidence            211   233444445555778888998888887751 1111                 2334556666666778888888


Q ss_pred             HHHHhC-CCC-CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc-hhHHHHHHHHHh---cCCHHHHHHHHHHhh
Q 012108          362 ELIEAM-PFE-PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD-GELMMFANLYAS---CGQWEEANRWRNMMN  435 (471)
Q Consensus       362 ~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~---~g~~~~A~~~~~~m~  435 (471)
                      .+++++ .++ -++.........+-.+.-++++.+++++-+.+-+.|+. ..|+..+..+.+   ..+.+.|..+|++.+
T Consensus       498 ~vYdriidLriaTPqii~NyAmfLEeh~yfeesFk~YErgI~LFk~p~v~diW~tYLtkfi~rygg~klEraRdLFEqaL  577 (835)
T KOG2047|consen  498 AVYDRIIDLRIATPQIIINYAMFLEEHKYFEESFKAYERGISLFKWPNVYDIWNTYLTKFIKRYGGTKLERARDLFEQAL  577 (835)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhhHHHHHHHHHHHcCCccCCCccHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHH
Confidence            888877 111 12333333333455677889999999998888777554 466665555443   346899999999999


Q ss_pred             hCCC
Q 012108          436 DTGI  439 (471)
Q Consensus       436 ~~~~  439 (471)
                      +.-+
T Consensus       578 ~~Cp  581 (835)
T KOG2047|consen  578 DGCP  581 (835)
T ss_pred             hcCC
Confidence            8433

>KOG2376 consensus Signal recognition particle, subunit Srp72 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.25  E-value=1.3e-07  Score=85.71  Aligned_cols=379  Identities=13%  Similarity=0.042  Sum_probs=233.1

Q ss_pred             HHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHH
Q 012108           52 LKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK--DVTSFNIMISGYARIGKIHSA  126 (471)
Q Consensus        52 ~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a  126 (471)
                      ++.+...|++++|.+...++..   .+...+..-+-++++.+++++|+.+.+.-...  +...+..-+.+..+.+..++|
T Consensus        19 ln~~~~~~e~e~a~k~~~Kil~~~pdd~~a~~cKvValIq~~ky~~ALk~ikk~~~~~~~~~~~fEKAYc~Yrlnk~Dea   98 (652)
T KOG2376|consen   19 LNRHGKNGEYEEAVKTANKILSIVPDDEDAIRCKVVALIQLDKYEDALKLIKKNGALLVINSFFFEKAYCEYRLNKLDEA   98 (652)
T ss_pred             HHHhccchHHHHHHHHHHHHHhcCCCcHhhHhhhHhhhhhhhHHHHHHHHHHhcchhhhcchhhHHHHHHHHHcccHHHH
Confidence            5667788999999999998775   35566777788889999999999887765532  222222335566789999999


Q ss_pred             HHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhc-CCHHHHHHHHHHHHhCCCCCCHH
Q 012108          127 RYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRS-QLYIEVVDLFDEMKAGNVKPDYL  205 (471)
Q Consensus       127 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~m~~~g~~p~~~  205 (471)
                      ...++-....|..+...-...+.+.|++++|.++|+.+.+.+...+...+.+-+.. +--..+. +   +......| ..
T Consensus        99 lk~~~~~~~~~~~ll~L~AQvlYrl~~ydealdiY~~L~kn~~dd~d~~~r~nl~a~~a~l~~~-~---~q~v~~v~-e~  173 (652)
T KOG2376|consen   99 LKTLKGLDRLDDKLLELRAQVLYRLERYDEALDIYQHLAKNNSDDQDEERRANLLAVAAALQVQ-L---LQSVPEVP-ED  173 (652)
T ss_pred             HHHHhcccccchHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHhhhHH-H---HHhccCCC-cc
Confidence            99999666666667777778899999999999999999777666655544432211 1111111 1   22222334 33


Q ss_pred             HHHHHHH---HHHccCChHHHHHHHHHHHHcCC-------CC--c-----hhHHHHHHHHHHhcCChHHHHHHHhcCCCC
Q 012108          206 TVTSVLS---ACANLGSLETGARIHVYATDNGL-------AS--N-----PHATTALIDMYAKCGSIEQSLEVFYKSQVK  268 (471)
Q Consensus       206 ~~~~l~~---~~~~~~~~~~a~~~~~~~~~~~~-------~~--~-----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  268 (471)
                      +|..+.+   .+...|++.+|+++++...+.+.       ..  +     ..+-..|.-++-..|+.++|.+++..+...
T Consensus       174 syel~yN~Ac~~i~~gky~qA~elL~kA~~~~~e~l~~~d~~eEeie~el~~IrvQlayVlQ~~Gqt~ea~~iy~~~i~~  253 (652)
T KOG2376|consen  174 SYELLYNTACILIENGKYNQAIELLEKALRICREKLEDEDTNEEEIEEELNPIRVQLAYVLQLQGQTAEASSIYVDIIKR  253 (652)
T ss_pred             hHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHhcchHHHHHHHHHHHHh
Confidence            5555444   34578999999999999832210       01  0     112334556677899999999988765431


Q ss_pred             ---Ch----hhHHHHHHH-----------------------------H----------------HhcCChHHHHHHHHHH
Q 012108          269 ---DV----FCWNAMILG-----------------------------L----------------ALHGYGYAALKLLGEM  296 (471)
Q Consensus       269 ---~~----~~~~~l~~~-----------------------------~----------------~~~~~~~~a~~~~~~~  296 (471)
                         |.    ++-|.++..                             +                .-.+..+.+.++....
T Consensus       254 ~~~D~~~~Av~~NNLva~~~d~~~~d~~~l~~k~~~~~~l~~~~l~~Ls~~qk~~i~~N~~lL~l~tnk~~q~r~~~a~l  333 (652)
T KOG2376|consen  254 NPADEPSLAVAVNNLVALSKDQNYFDGDLLKSKKSQVFKLAEFLLSKLSKKQKQAIYRNNALLALFTNKMDQVRELSASL  333 (652)
T ss_pred             cCCCchHHHHHhcchhhhccccccCchHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhC
Confidence               11    011111110                             0                0001111111111111


Q ss_pred             HhCCCCCCHHHHHHHHHHHh--ccCcHHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHHHH--------
Q 012108          297 NDSCVKADDITFIGLLSACS--HAGLVQEGCELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLDRAIELIE--------  365 (471)
Q Consensus       297 ~~~~~~p~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~--------  365 (471)
                      .  +..|. ..+..++..+.  +...+..+.+++....+  +.+.+ ......+++.....|+++.|.+++.        
T Consensus       334 p--~~~p~-~~~~~ll~~~t~~~~~~~~ka~e~L~~~~~--~~p~~s~~v~L~~aQl~is~gn~~~A~~il~~~~~~~~s  408 (652)
T KOG2376|consen  334 P--GMSPE-SLFPILLQEATKVREKKHKKAIELLLQFAD--GHPEKSKVVLLLRAQLKISQGNPEVALEILSLFLESWKS  408 (652)
T ss_pred             C--ccCch-HHHHHHHHHHHHHHHHHHhhhHHHHHHHhc--cCCchhHHHHHHHHHHHHhcCCHHHHHHHHHHHhhhhhh
Confidence            1  12233 23344443332  22357778888887776  44444 5566677888899999999999998        


Q ss_pred             hC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC----CC--CCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          366 AM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS----NY--LSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       366 ~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      .+ .+.-.+.+...+...+.+.++.+.|..++.+++.--    +.  --..++..++..-.+.|+-++|..+++++.+.+
T Consensus       409 s~~~~~~~P~~V~aiv~l~~~~~~~~~a~~vl~~Ai~~~~~~~t~s~~l~~~~~~aa~f~lr~G~~~ea~s~leel~k~n  488 (652)
T KOG2376|consen  409 SILEAKHLPGTVGAIVALYYKIKDNDSASAVLDSAIKWWRKQQTGSIALLSLMREAAEFKLRHGNEEEASSLLEELVKFN  488 (652)
T ss_pred             hhhhhccChhHHHHHHHHHHhccCCccHHHHHHHHHHHHHHhcccchHHHhHHHHHhHHHHhcCchHHHHHHHHHHHHhC
Confidence            33 233444555566667778887777777776665421    11  012233344455567899999999999998866


Q ss_pred             Cc
Q 012108          439 IV  440 (471)
Q Consensus       439 ~~  440 (471)
                      +.
T Consensus       489 ~~  490 (652)
T KOG2376|consen  489 PN  490 (652)
T ss_pred             Cc
Confidence            54

>PRK11189 lipoprotein NlpI; Provisional

Probab=99.25  E-value=8.9e-09  Score=91.03  Aligned_cols=212  Identities=10%  Similarity=-0.022  Sum_probs=120.6

Q ss_pred             ChHHHHHHHHHHHHcC-CCC--chhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHH
Q 012108          219 SLETGARIHVYATDNG-LAS--NPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKL  292 (471)
Q Consensus       219 ~~~~a~~~~~~~~~~~-~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~  292 (471)
                      ..+.+..-+.+++... ..|  ....|..+...|...|+.++|...|++...   .+...|+.+...+...|++++|...
T Consensus        41 ~~e~~i~~~~~~l~~~~~~~~~~a~~~~~~g~~~~~~g~~~~A~~~~~~Al~l~P~~~~a~~~lg~~~~~~g~~~~A~~~  120 (296)
T PRK11189         41 QQEVILARLNQILASRDLTDEERAQLHYERGVLYDSLGLRALARNDFSQALALRPDMADAYNYLGIYLTQAGNFDAAYEA  120 (296)
T ss_pred             HHHHHHHHHHHHHccccCCcHhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHHHHH
Confidence            4445555555555432 111  234566666777777777777777766443   3556777777777777777777777


Q ss_pred             HHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CC
Q 012108          293 LGEMNDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PF  369 (471)
Q Consensus       293 ~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~  369 (471)
                      |++..+.  .| +...+..+..++...|++++|.+.|++..+.   .|+..........+...+++++|.+.|.+.  ..
T Consensus       121 ~~~Al~l--~P~~~~a~~~lg~~l~~~g~~~eA~~~~~~al~~---~P~~~~~~~~~~l~~~~~~~~~A~~~l~~~~~~~  195 (296)
T PRK11189        121 FDSVLEL--DPTYNYAYLNRGIALYYGGRYELAQDDLLAFYQD---DPNDPYRALWLYLAESKLDPKQAKENLKQRYEKL  195 (296)
T ss_pred             HHHHHHh--CCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHh---CCCCHHHHHHHHHHHccCCHHHHHHHHHHHHhhC
Confidence            7777764  33 3455666666677777777777777777662   232211112222234456677777777554  22


Q ss_pred             CCCHhHHHHHHHHHhhcCCchHHHHHHHHHH-------HcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          370 EPTESILGALLSACVIHQDLEIGDRVAKMVC-------AKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       370 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-------~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      .|+...+   .......|+...+ ..++.+.       +.+|+ ....|..++..+.+.|++++|...|++..+.++.
T Consensus       196 ~~~~~~~---~~~~~~lg~~~~~-~~~~~~~~~~~~~~~l~~~-~~ea~~~Lg~~~~~~g~~~~A~~~~~~Al~~~~~  268 (296)
T PRK11189        196 DKEQWGW---NIVEFYLGKISEE-TLMERLKAGATDNTELAER-LCETYFYLAKYYLSLGDLDEAAALFKLALANNVY  268 (296)
T ss_pred             CccccHH---HHHHHHccCCCHH-HHHHHHHhcCCCcHHHHHH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCc
Confidence            2222221   1222234554443 2333333       22333 4456777777777777777777777777766543

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

Probab=99.25  E-value=4.9e-10  Score=89.27  Aligned_cols=197  Identities=13%  Similarity=0.017  Sum_probs=147.8

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 012108          240 HATTALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACS  316 (471)
Q Consensus       240 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  316 (471)
                      .+...|.-.|...|+...|..-+++..+.   +..+|..+...|.+.|+.+.|.+.|++..+.. +-+....|....-+|
T Consensus        36 ~arlqLal~YL~~gd~~~A~~nlekAL~~DPs~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~-p~~GdVLNNYG~FLC  114 (250)
T COG3063          36 KARLQLALGYLQQGDYAQAKKNLEKALEHDPSYYLAHLVRAHYYQKLGENDLADESYRKALSLA-PNNGDVLNNYGAFLC  114 (250)
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcC-CCccchhhhhhHHHH
Confidence            35566777888888888888888877664   34577778888888888888888888887752 224456777777778


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHH
Q 012108          317 HAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDR  394 (471)
Q Consensus       317 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~  394 (471)
                      ..|++++|.+.|+++.......--..+|..+.-+..+.|+++.|.+.|++. ...| .+.+...+.....+.|++-.|..
T Consensus       115 ~qg~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~~dp~~~~~~l~~a~~~~~~~~y~~Ar~  194 (250)
T COG3063         115 AQGRPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALELDPQFPPALLELARLHYKAGDYAPARL  194 (250)
T ss_pred             hCCChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHHhCcCCChHHHHHHHHHHhcccchHHHH
Confidence            888888888888888875444445677888888888888888888888876 3334 35567777777888888888888


Q ss_pred             HHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          395 VAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       395 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      .++.....++ ++...+...++.-.+.|+.+.+-++=.++.+.-
T Consensus       195 ~~~~~~~~~~-~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~f  237 (250)
T COG3063         195 YLERYQQRGG-AQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLF  237 (250)
T ss_pred             HHHHHHhccc-ccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC
Confidence            8888887777 478888778888888888887777666665443

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

Probab=99.25  E-value=3.9e-10  Score=106.19  Aligned_cols=245  Identities=11%  Similarity=0.083  Sum_probs=170.1

Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC
Q 012108          190 DLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD  269 (471)
Q Consensus       190 ~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  269 (471)
                      .++..+...|+.|+.+||..+|..||..|+++.|- +|.-|.-...+.+...++.++.+....++.+.+.       .|.
T Consensus        11 nfla~~e~~gi~PnRvtyqsLiarYc~~gdieaat-if~fm~~ksLpv~e~vf~~lv~sh~~And~Enpk-------ep~   82 (1088)
T KOG4318|consen   11 NFLALHEISGILPNRVTYQSLIARYCTKGDIEAAT-IFPFMEIKSLPVREGVFRGLVASHKEANDAENPK-------EPL   82 (1088)
T ss_pred             hHHHHHHHhcCCCchhhHHHHHHHHcccCCCcccc-chhhhhcccccccchhHHHHHhcccccccccCCC-------CCc
Confidence            35667888899999999999999999999999999 9999988888889999999999998888877665       678


Q ss_pred             hhhHHHHHHHHHhcCChHH---HHHHHHHH----HhCCCCCCHHHHHHHHHH--------------HhccCcHHHHHHHH
Q 012108          270 VFCWNAMILGLALHGYGYA---ALKLLGEM----NDSCVKADDITFIGLLSA--------------CSHAGLVQEGCELF  328 (471)
Q Consensus       270 ~~~~~~l~~~~~~~~~~~~---a~~~~~~~----~~~~~~p~~~~~~~l~~~--------------~~~~~~~~~a~~~~  328 (471)
                      ..+|+.|..+|...|+...   +.+.+...    ...|+.....-+-..+.+              ....|-++.+++++
T Consensus        83 aDtyt~Ll~ayr~hGDli~fe~veqdLe~i~~sfs~~Gvgs~e~~fl~k~~c~p~~lpda~n~illlv~eglwaqllkll  162 (1088)
T KOG4318|consen   83 ADTYTNLLKAYRIHGDLILFEVVEQDLESINQSFSDHGVGSPERWFLMKIHCCPHSLPDAENAILLLVLEGLWAQLLKLL  162 (1088)
T ss_pred             hhHHHHHHHHHHhccchHHHHHHHHHHHHHHhhhhhhccCcHHHHHHhhcccCcccchhHHHHHHHHHHHHHHHHHHHHH
Confidence            8999999999999998654   33322222    122332222222222222              12223344444444


Q ss_pred             HHhHHhcCCCCChhHHHHHHHHHh-hcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC
Q 012108          329 SRMEKDFGVTRKLEHYGCMVDLLG-RARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS  407 (471)
Q Consensus       329 ~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~  407 (471)
                      ..+-......|...    .++-.. ....+++-..+.+.....|++.+|..++.+-...|+.+.|..++..|.+.|...+
T Consensus       163 ~~~Pvsa~~~p~~v----fLrqnv~~ntpvekLl~~cksl~e~~~s~~l~a~l~~alaag~~d~Ak~ll~emke~gfpir  238 (1088)
T KOG4318|consen  163 AKVPVSAWNAPFQV----FLRQNVVDNTPVEKLLNMCKSLVEAPTSETLHAVLKRALAAGDVDGAKNLLYEMKEKGFPIR  238 (1088)
T ss_pred             hhCCcccccchHHH----HHHHhccCCchHHHHHHHHHHhhcCCChHHHHHHHHHHHhcCchhhHHHHHHHHHHcCCCcc
Confidence            33322111111111    122222 2234455555555554479999999999999999999999999999999998767


Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcceEEE
Q 012108          408 DGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIE  449 (471)
Q Consensus       408 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~  449 (471)
                      +..|..|+..   .|+..-+..++.-|...|+.|+..+.-..
T Consensus       239 ~HyFwpLl~g---~~~~q~~e~vlrgmqe~gv~p~seT~ady  277 (1088)
T KOG4318|consen  239 AHYFWPLLLG---INAAQVFEFVLRGMQEKGVQPGSETQADY  277 (1088)
T ss_pred             cccchhhhhc---CccchHHHHHHHHHHHhcCCCCcchhHHH
Confidence            7766666655   78888888999999999999998775433

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.22  E-value=8.9e-08  Score=90.03  Aligned_cols=276  Identities=16%  Similarity=0.182  Sum_probs=152.4

Q ss_pred             hccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC-CCcccHHHHHHHHHcCCCHHHHHHHHh
Q 012108           22 ILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE-KDIIAWNSMLDAFASCGQMDHAMKLID  100 (471)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~~g~~~~A~~~~~  100 (471)
                      ..|.+++|+.+|.+.++..         .|=..|...|.+++|.++-+.-.+ .-..||.....-+-..++.+.|++.|+
T Consensus       812 eLgMlEeA~~lYr~ckR~D---------LlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~~AleyyE  882 (1416)
T KOG3617|consen  812 ELGMLEEALILYRQCKRYD---------LLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIEAALEYYE  882 (1416)
T ss_pred             HHhhHHHHHHHHHHHHHHH---------HHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHHHHHHHHH
Confidence            4566666766666665432         233445556777777766554222 112345555555555667777777776


Q ss_pred             cCCCC-----------------------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHH
Q 012108          101 LMPLK-----------------------DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKA  157 (471)
Q Consensus       101 ~~~~~-----------------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  157 (471)
                      +...+                       |+..|.....-+...|+.+.|+.+|...     .-|-++++..|-.|+.++|
T Consensus       883 K~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A-----~D~fs~VrI~C~qGk~~kA  957 (1416)
T KOG3617|consen  883 KAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSA-----KDYFSMVRIKCIQGKTDKA  957 (1416)
T ss_pred             hcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHh-----hhhhhheeeEeeccCchHH
Confidence            65422                       4444555555555666666666666543     2345556666666777776


Q ss_pred             HHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH-------------H--ccCChHH
Q 012108          158 GEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSAC-------------A--NLGSLET  222 (471)
Q Consensus       158 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~-------------~--~~~~~~~  222 (471)
                      -++-++  ..|..+...+.+.|-..|++.+|...|.+.+.         +...|+.|             .  ...+.-.
T Consensus       958 a~iA~e--sgd~AAcYhlaR~YEn~g~v~~Av~FfTrAqa---------fsnAIRlcKEnd~~d~L~nlal~s~~~d~v~ 1026 (1416)
T KOG3617|consen  958 ARIAEE--SGDKAACYHLARMYENDGDVVKAVKFFTRAQA---------FSNAIRLCKENDMKDRLANLALMSGGSDLVS 1026 (1416)
T ss_pred             HHHHHh--cccHHHHHHHHHHhhhhHHHHHHHHHHHHHHH---------HHHHHHHHHhcCHHHHHHHHHhhcCchhHHH
Confidence            666655  33566677788888889999999888877643         22222222             1  1222333


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--------------CChhhHHHHHHHHHhcCChHH
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--------------KDVFCWNAMILGLALHGYGYA  288 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--------------~~~~~~~~l~~~~~~~~~~~~  288 (471)
                      |.++|++.   |.     -+..-+..|-+.|.+.+|+++--+-.+              .|+...+.-...++...++++
T Consensus      1027 aArYyEe~---g~-----~~~~AVmLYHkAGm~~kALelAF~tqQf~aL~lIa~DLd~~sDp~ll~RcadFF~~~~qyek 1098 (1416)
T KOG3617|consen 1027 AARYYEEL---GG-----YAHKAVMLYHKAGMIGKALELAFRTQQFSALDLIAKDLDAGSDPKLLRRCADFFENNQQYEK 1098 (1416)
T ss_pred             HHHHHHHc---ch-----hhhHHHHHHHhhcchHHHHHHHHhhcccHHHHHHHHhcCCCCCHHHHHHHHHHHHhHHHHHH
Confidence            34444432   11     122234566777777777765322211              245555555555566666666


Q ss_pred             HHHHHHHHH----------hCCC----------------CCCH----HHHHHHHHHHhccCcHHHHHHHHHH
Q 012108          289 ALKLLGEMN----------DSCV----------------KADD----ITFIGLLSACSHAGLVQEGCELFSR  330 (471)
Q Consensus       289 a~~~~~~~~----------~~~~----------------~p~~----~~~~~l~~~~~~~~~~~~a~~~~~~  330 (471)
                      |..++-..+          .+|+                .|+.    .....+...|.++|.+..|-+-|-+
T Consensus      1099 AV~lL~~ar~~~~AlqlC~~~nv~vtee~aE~mTp~Kd~~~~e~~R~~vLeqvae~c~qQG~Yh~AtKKfTQ 1170 (1416)
T KOG3617|consen 1099 AVNLLCLAREFSGALQLCKNRNVRVTEEFAELMTPTKDDMPNEQERKQVLEQVAELCLQQGAYHAATKKFTQ 1170 (1416)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCchhHHHHHhcCcCcCCCccHHHHHHHHHHHHHHHHhccchHHHHHHHhh
Confidence            655543221          1111                2222    3355667788888888777655443

>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=99.21  E-value=2.8e-10  Score=98.96  Aligned_cols=249  Identities=13%  Similarity=0.043  Sum_probs=137.3

Q ss_pred             HHHHhCCCHHHHHHHHHhc---cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHH
Q 012108          146 LAYTNAGEMEKAGEMFKKM---LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLET  222 (471)
Q Consensus       146 ~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~  222 (471)
                      +-+.-.|++..++.-.+.-   ...+......+.+++...|+++.++.   ++.... .|.......+...+...++.+.
T Consensus         9 rn~fy~G~Y~~~i~e~~~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl~---ei~~~~-~~~l~av~~la~y~~~~~~~e~   84 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEASLKSFSPENKLERDFYQYRSYIALGQYDSVLS---EIKKSS-SPELQAVRLLAEYLSSPSDKES   84 (290)
T ss_dssp             HHHHCTT-HHHHCHHHHCHTSTCHHHHHHHHHHHHHHHHTT-HHHHHH---HS-TTS-SCCCHHHHHHHHHHCTSTTHHC
T ss_pred             HHHHHhhhHHHHHHHhhccCCCchhHHHHHHHHHHHHHHcCChhHHHH---HhccCC-ChhHHHHHHHHHHHhCccchHH
Confidence            3455667777777555411   11123344556677778887765543   332222 5555555444444443344444


Q ss_pred             HHHHHHHHHHcCCC-CchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC
Q 012108          223 GARIHVYATDNGLA-SNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCV  301 (471)
Q Consensus       223 a~~~~~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~  301 (471)
                      +..-++........ .+..........+...|++++|++++.+.  .+.......+..|.+.++++.|.+.++.|.+.  
T Consensus        85 ~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~--~~lE~~al~Vqi~L~~~R~dlA~k~l~~~~~~--  160 (290)
T PF04733_consen   85 ALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG--GSLELLALAVQILLKMNRPDLAEKELKNMQQI--  160 (290)
T ss_dssp             HHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT--TCHHHHHHHHHHHHHTT-HHHHHHHHHHHHCC--
T ss_pred             HHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc--CcccHHHHHHHHHHHcCCHHHHHHHHHHHHhc--
Confidence            44444333322222 23333333335556677788887777665  45555666677777778888888777777764  


Q ss_pred             CCCHHHHHHHHHHHh----ccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhH
Q 012108          302 KADDITFIGLLSACS----HAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESI  375 (471)
Q Consensus       302 ~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~  375 (471)
                      ..| .+...+..++.    ..+++..|..+|+++..  .+++++.+.+.+..++...|++++|.+++.+. . .+.++.+
T Consensus       161 ~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~--~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~~~d~  237 (290)
T PF04733_consen  161 DED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSD--KFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPNDPDT  237 (290)
T ss_dssp             SCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHC--CS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CCHHHH
T ss_pred             CCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHh--ccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccCCHHH
Confidence            223 33444444432    23357777777777765  45566677777777777777777777777665 2 2234556


Q ss_pred             HHHHHHHHhhcCCc-hHHHHHHHHHHHcCCC
Q 012108          376 LGALLSACVIHQDL-EIGDRVAKMVCAKSNY  405 (471)
Q Consensus       376 ~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~  405 (471)
                      +..++.+....|+. +.+.+.+.++....|.
T Consensus       238 LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~  268 (290)
T PF04733_consen  238 LANLIVCSLHLGKPTEAAERYLSQLKQSNPN  268 (290)
T ss_dssp             HHHHHHHHHHTT-TCHHHHHHHHHCHHHTTT
T ss_pred             HHHHHHHHHHhCCChhHHHHHHHHHHHhCCC
Confidence            66666666666665 5566677776666654

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.

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

Probab=99.21  E-value=1.6e-07  Score=87.86  Aligned_cols=395  Identities=12%  Similarity=0.010  Sum_probs=260.9

Q ss_pred             CCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCC--c---ccH
Q 012108            5 GVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKD--I---IAW   79 (471)
Q Consensus         5 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~--~---~~~   79 (471)
                      .++-|+..|-.|--++...|+++.+.+.|++....-+ .....|..+...|...|.-..|..+++.-..+.  +   ..+
T Consensus       318 ~~qnd~ai~d~Lt~al~~~g~f~~lae~fE~~~~~~~-~~~e~w~~~als~saag~~s~Av~ll~~~~~~~~~ps~~s~~  396 (799)
T KOG4162|consen  318 KFQNDAAIFDHLTFALSRCGQFEVLAEQFEQALPFSF-GEHERWYQLALSYSAAGSDSKAVNLLRESLKKSEQPSDISVL  396 (799)
T ss_pred             hhcchHHHHHHHHHHHHHHHHHHHHHHHHHHHhHhhh-hhHHHHHHHHHHHHHhccchHHHHHHHhhcccccCCCcchHH
Confidence            3566788899999999999999999999999876543 355678888999999999999999999865422  3   233


Q ss_pred             HHHHHHHH-cCCCHHHHHHHHhcCCCC--------ChhhHHHHHHHHHhcC-----------CHHHHHHHHhhcCC---C
Q 012108           80 NSMLDAFA-SCGQMDHAMKLIDLMPLK--------DVTSFNIMISGYARIG-----------KIHSARYIFDKVPA---K  136 (471)
Q Consensus        80 ~~li~~~~-~~g~~~~A~~~~~~~~~~--------~~~~~~~l~~~~~~~g-----------~~~~a~~~~~~~~~---~  136 (471)
                      -..-..|. +.|..++++++-.+....        .+..|..+.-+|...-           ...++.+.+++..+   .
T Consensus       397 Lmasklc~e~l~~~eegldYA~kai~~~~~~~~~l~~~~~l~lGi~y~~~A~~a~~~seR~~~h~kslqale~av~~d~~  476 (799)
T KOG4162|consen  397 LMASKLCIERLKLVEEGLDYAQKAISLLGGQRSHLKPRGYLFLGIAYGFQARQANLKSERDALHKKSLQALEEAVQFDPT  476 (799)
T ss_pred             HHHHHHHHhchhhhhhHHHHHHHHHHHhhhhhhhhhhhHHHHHHHHHHhHhhcCCChHHHHHHHHHHHHHHHHHHhcCCC
Confidence            33333343 346677766665554431        4556666666655331           24566777777733   3


Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHhcc----ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHH
Q 012108          137 DVVSWNSLILAYTNAGEMEKAGEMFKKML----VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD-YLTVTSVL  211 (471)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~  211 (471)
                      |+.+...+.--|+..++++.|.+..++..    ..++..|..+.-.+...+++.+|+.+.+...+.  .|+ ......-+
T Consensus       477 dp~~if~lalq~A~~R~l~sAl~~~~eaL~l~~~~~~~~whLLALvlSa~kr~~~Al~vvd~al~E--~~~N~~l~~~~~  554 (799)
T KOG4162|consen  477 DPLVIFYLALQYAEQRQLTSALDYAREALALNRGDSAKAWHLLALVLSAQKRLKEALDVVDAALEE--FGDNHVLMDGKI  554 (799)
T ss_pred             CchHHHHHHHHHHHHHhHHHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhhHHHHHHHHHHHHH--hhhhhhhchhhh
Confidence            44444444556788899999999988873    347889999999999999999999999887653  111 11000111


Q ss_pred             HHHHccCChHHHHHHHHHHHH---------------------cC-------CCCchhHHHHHHHHHHhcCC---hHHHHH
Q 012108          212 SACANLGSLETGARIHVYATD---------------------NG-------LASNPHATTALIDMYAKCGS---IEQSLE  260 (471)
Q Consensus       212 ~~~~~~~~~~~a~~~~~~~~~---------------------~~-------~~~~~~~~~~l~~~~~~~~~---~~~a~~  260 (471)
                      ..-...++.+++......+..                     .|       ....+.++..+.......+.   .+..+.
T Consensus       555 ~i~~~~~~~e~~l~t~~~~L~~we~~~~~q~~~~~g~~~~lk~~l~la~~q~~~a~s~sr~ls~l~a~~~~~~~se~~Lp  634 (799)
T KOG4162|consen  555 HIELTFNDREEALDTCIHKLALWEAEYGVQQTLDEGKLLRLKAGLHLALSQPTDAISTSRYLSSLVASQLKSAGSELKLP  634 (799)
T ss_pred             hhhhhcccHHHHHHHHHHHHHHHHhhhhHhhhhhhhhhhhhhcccccCcccccccchhhHHHHHHHHhhhhhcccccccC
Confidence            111123333333332222110                     11       01112233322222221111   111111


Q ss_pred             HHhcCCCCC------hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 012108          261 VFYKSQVKD------VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKD  334 (471)
Q Consensus       261 ~~~~~~~~~------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  334 (471)
                      .+.....++      ...|......+.+.+..++|...+.+.... .+.....|......+...|++.+|.+.|..... 
T Consensus       635 ~s~~~~~~~~~~~~~~~lwllaa~~~~~~~~~~~a~~CL~Ea~~~-~~l~~~~~~~~G~~~~~~~~~~EA~~af~~Al~-  712 (799)
T KOG4162|consen  635 SSTVLPGPDSLWYLLQKLWLLAADLFLLSGNDDEARSCLLEASKI-DPLSASVYYLRGLLLEVKGQLEEAKEAFLVALA-  712 (799)
T ss_pred             cccccCCCCchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHhc-chhhHHHHHHhhHHHHHHHhhHHHHHHHHHHHh-
Confidence            111111122      234666677888999999999988888765 344556777777888889999999999998886 


Q ss_pred             cCCCCChhHHHHHHHHHhhcCCHHHHHH--HHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          335 FGVTRKLEHYGCMVDLLGRARLLDRAIE--LIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       335 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~--~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                       -.|.++.+..++..++...|+..-|..  ++.++ .+.| +...|..+...+.+.|+.+.|...|....+..+.
T Consensus       713 -ldP~hv~s~~Ala~~lle~G~~~la~~~~~L~dalr~dp~n~eaW~~LG~v~k~~Gd~~~Aaecf~aa~qLe~S  786 (799)
T KOG4162|consen  713 -LDPDHVPSMTALAELLLELGSPRLAEKRSLLSDALRLDPLNHEAWYYLGEVFKKLGDSKQAAECFQAALQLEES  786 (799)
T ss_pred             -cCCCCcHHHHHHHHHHHHhCCcchHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHccchHHHHHHHHHHHhhccC
Confidence             344458888999999999998888877  88777 5556 5789999999999999999999999999998766

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

Probab=99.20  E-value=1.4e-08  Score=81.16  Aligned_cols=195  Identities=14%  Similarity=-0.022  Sum_probs=118.8

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcC
Q 012108          208 TSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHG  284 (471)
Q Consensus       208 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~  284 (471)
                      ..+.-.|...|+...|..-+++.++.. +.+..++..+...|.+.|+.+.|.+.|++...   .+..+.|.....+|..|
T Consensus        39 lqLal~YL~~gd~~~A~~nlekAL~~D-Ps~~~a~~~~A~~Yq~~Ge~~~A~e~YrkAlsl~p~~GdVLNNYG~FLC~qg  117 (250)
T COG3063          39 LQLALGYLQQGDYAQAKKNLEKALEHD-PSYYLAHLVRAHYYQKLGENDLADESYRKALSLAPNNGDVLNNYGAFLCAQG  117 (250)
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHcCChhhHHHHHHHHHhcCCCccchhhhhhHHHHhCC
Confidence            344455666666666666666666654 44555666666666666666666666665333   34556666666666666


Q ss_pred             ChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIEL  363 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  363 (471)
                      ++++|...|++....-.-| ...+|..+.-+..+.|+.+.|...|++..+  -.+..+.....+.......|++-.|..+
T Consensus       118 ~~~eA~q~F~~Al~~P~Y~~~s~t~eN~G~Cal~~gq~~~A~~~l~raL~--~dp~~~~~~l~~a~~~~~~~~y~~Ar~~  195 (250)
T COG3063         118 RPEEAMQQFERALADPAYGEPSDTLENLGLCALKAGQFDQAEEYLKRALE--LDPQFPPALLELARLHYKAGDYAPARLY  195 (250)
T ss_pred             ChHHHHHHHHHHHhCCCCCCcchhhhhhHHHHhhcCCchhHHHHHHHHHH--hCcCCChHHHHHHHHHHhcccchHHHHH
Confidence            6677776666666542222 234566666666667777777777776665  3333455566666666667777777666


Q ss_pred             HHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          364 IEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       364 ~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ++..  +..++...+...|..-...|+.+.+-+.=.++...-|.
T Consensus       196 ~~~~~~~~~~~A~sL~L~iriak~~gd~~~a~~Y~~qL~r~fP~  239 (250)
T COG3063         196 LERYQQRGGAQAESLLLGIRIAKRLGDRAAAQRYQAQLQRLFPY  239 (250)
T ss_pred             HHHHHhcccccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            6665  33456666656666666667776666666666655554

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

Probab=99.19  E-value=6.3e-07  Score=82.39  Aligned_cols=408  Identities=11%  Similarity=0.015  Sum_probs=252.9

Q ss_pred             HHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHHHH
Q 012108           19 AAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHA   95 (471)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A   95 (471)
                      .+...|+.++|......-++.. ..+.+.|..+.-.+....++++|++.|.....   .|...|..+.-.-++.|+++..
T Consensus        50 ~L~~lg~~~ea~~~vr~glr~d-~~S~vCwHv~gl~~R~dK~Y~eaiKcy~nAl~~~~dN~qilrDlslLQ~QmRd~~~~  128 (700)
T KOG1156|consen   50 TLNCLGKKEEAYELVRLGLRND-LKSHVCWHVLGLLQRSDKKYDEAIKCYRNALKIEKDNLQILRDLSLLQIQMRDYEGY  128 (700)
T ss_pred             hhhcccchHHHHHHHHHHhccC-cccchhHHHHHHHHhhhhhHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHhhhhH
Confidence            3556788899999988888765 34777888888888888999999999998764   4666777777777788888877


Q ss_pred             HHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcC-----CCChhhHHHHH------HHHHhCCCHHHHHHHH
Q 012108           96 MKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVP-----AKDVVSWNSLI------LAYTNAGEMEKAGEMF  161 (471)
Q Consensus        96 ~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~-----~~~~~~~~~l~------~~~~~~~~~~~A~~~~  161 (471)
                      ...-....+.   ....|...+.+.--.|+...|..+++...     .++...+....      ....+.|.+++|.+.+
T Consensus       129 ~~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  129 LETRNQLLQLRPSQRASWIGFAVAQHLLGEYKMALEILEEFEKTQNTSPSKEDYEHSELLLYQNQILIEAGSLQKALEHL  208 (700)
T ss_pred             HHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccCCCHHHHHHHHHHHHHHHHHHHcccHHHHHHHH
Confidence            7766555443   45678888888888999999998887772     24444443322      3456778888888877


Q ss_pred             Hhcccc--C-hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-ccCChHHH-HHHHHHHHHcCCC
Q 012108          162 KKMLVK--N-VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACA-NLGSLETG-ARIHVYATDNGLA  236 (471)
Q Consensus       162 ~~~~~~--~-~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~-~~~~~~~a-~~~~~~~~~~~~~  236 (471)
                      ..-...  | ...-..-...+.+.++.++|..++..++..  .||...|...+..+. +..+.-++ ..+|....+.  .
T Consensus       209 ~~~e~~i~Dkla~~e~ka~l~~kl~~lEeA~~~y~~Ll~r--nPdn~~Yy~~l~~~lgk~~d~~~~lk~ly~~ls~~--y  284 (700)
T KOG1156|consen  209 LDNEKQIVDKLAFEETKADLLMKLGQLEEAVKVYRRLLER--NPDNLDYYEGLEKALGKIKDMLEALKALYAILSEK--Y  284 (700)
T ss_pred             HhhhhHHHHHHHHhhhHHHHHHHHhhHHhHHHHHHHHHhh--CchhHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhc--C
Confidence            665332  2 222334556788899999999999999886  577777766555443 33333333 3566555443  2


Q ss_pred             CchhHHHHHHHHHHhcCChHHH-HHHHhcCCC-CChhhHHHHHHHHHhcCChHHHHHHHHHHHh----CC----------
Q 012108          237 SNPHATTALIDMYAKCGSIEQS-LEVFYKSQV-KDVFCWNAMILGLALHGYGYAALKLLGEMND----SC----------  300 (471)
Q Consensus       237 ~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~----------  300 (471)
                      |....-..+--......++.+. -+++....+ .-+.++..+.+.|-.....+-..++.-.+..    .|          
T Consensus       285 ~r~e~p~Rlplsvl~~eel~~~vdkyL~~~l~Kg~p~vf~dl~SLyk~p~k~~~le~Lvt~y~~~L~~~~~f~~~D~~~~  364 (700)
T KOG1156|consen  285 PRHECPRRLPLSVLNGEELKEIVDKYLRPLLSKGVPSVFKDLRSLYKDPEKVAFLEKLVTSYQHSLSGTGMFNFLDDGKQ  364 (700)
T ss_pred             cccccchhccHHHhCcchhHHHHHHHHHHHhhcCCCchhhhhHHHHhchhHhHHHHHHHHHHHhhcccccCCCccccccc
Confidence            2111111111111111222222 222222222 2233444444444332222211112111111    11          


Q ss_pred             CCCCHH--HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHHHHhCC--CCCCHhH
Q 012108          301 VKADDI--TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLDRAIELIEAMP--FEPTESI  375 (471)
Q Consensus       301 ~~p~~~--~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p~~~~  375 (471)
                      -+|+..  ++..++..+-..|+++.|..+++.+..   ..|+ +..|..-.+.+...|++++|...+++..  ..||..+
T Consensus       365 E~PttllWt~y~laqh~D~~g~~~~A~~yId~AId---HTPTliEly~~KaRI~kH~G~l~eAa~~l~ea~elD~aDR~I  441 (700)
T KOG1156|consen  365 EPPTTLLWTLYFLAQHYDKLGDYEVALEYIDLAID---HTPTLIELYLVKARIFKHAGLLDEAAAWLDEAQELDTADRAI  441 (700)
T ss_pred             CCchHHHHHHHHHHHHHHHcccHHHHHHHHHHHhc---cCchHHHHHHHHHHHHHhcCChHHHHHHHHHHHhccchhHHH
Confidence            144543  344567778888999999999998876   3444 6666666788888999999999998872  3455554


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-----Cch-hHH--HHHHHHHhcCCHHHHHHHHHHh
Q 012108          376 LGALLSACVIHQDLEIGDRVAKMVCAKSNYL-----SDG-ELM--MFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       376 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~-~~~--~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      -.--..-..+..+.++|.+++....+.+...     +.. +|.  .=+.+|.++|++..|.+-|..+
T Consensus       442 NsKcAKYmLrAn~i~eA~~~~skFTr~~~~~~~~L~~mqcmWf~~E~g~ay~r~~k~g~ALKkfh~i  508 (700)
T KOG1156|consen  442 NSKCAKYMLRANEIEEAEEVLSKFTREGFGAVNNLAEMQCMWFQLEDGEAYLRQNKLGLALKKFHEI  508 (700)
T ss_pred             HHHHHHHHHHccccHHHHHHHHHhhhcccchhhhHHHhhhHHHhHhhhHHHHHHHHHHHHHHHHhhH
Confidence            4455666678888999998888887766320     011 122  2345788888888887655544

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

Probab=99.14  E-value=1.1e-07  Score=80.60  Aligned_cols=307  Identities=12%  Similarity=0.086  Sum_probs=189.6

Q ss_pred             HHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHH---HHHHhcCCHHHHHHHHhhcCCCChhhHHH---HHHHHHhCCC
Q 012108           80 NSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMI---SGYARIGKIHSARYIFDKVPAKDVVSWNS---LILAYTNAGE  153 (471)
Q Consensus        80 ~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~---~~~~~~g~~~~a~~~~~~~~~~~~~~~~~---l~~~~~~~~~  153 (471)
                      -.+...+...|++..|+.-|......|+..|.++.   ..|...|+-..|+.=+..+++..+..+.+   -...+.+.|.
T Consensus        42 lElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vllK~Ge  121 (504)
T KOG0624|consen   42 LELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVLLKQGE  121 (504)
T ss_pred             HHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhhhhccc
Confidence            34566666677777777777777666666555543   34666666666666666654322222222   2245666777


Q ss_pred             HHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 012108          154 MEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDN  233 (471)
Q Consensus       154 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  233 (471)
                      ++.|..-|+.+++.++.           +|...+|.+-+....+      .......+..+...|+...|+.....+++.
T Consensus       122 le~A~~DF~~vl~~~~s-----------~~~~~eaqskl~~~~e------~~~l~~ql~s~~~~GD~~~ai~~i~~llEi  184 (504)
T KOG0624|consen  122 LEQAEADFDQVLQHEPS-----------NGLVLEAQSKLALIQE------HWVLVQQLKSASGSGDCQNAIEMITHLLEI  184 (504)
T ss_pred             HHHHHHHHHHHHhcCCC-----------cchhHHHHHHHHhHHH------HHHHHHHHHHHhcCCchhhHHHHHHHHHhc
Confidence            77777777666443221           1111111111110000      001122334455677788888888887776


Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHHhc---CCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH---
Q 012108          234 GLASNPHATTALIDMYAKCGSIEQSLEVFYK---SQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDIT---  307 (471)
Q Consensus       234 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~---  307 (471)
                      . +.+...+..-..+|...|++..|+.-++.   +...+...+-.+-..+...|+.+.++...++..+.  .||...   
T Consensus       185 ~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKl--dpdHK~Cf~  261 (504)
T KOG0624|consen  185 Q-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLSQDNTEGHYKISQLLYTVGDAENSLKEIRECLKL--DPDHKLCFP  261 (504)
T ss_pred             C-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhccccchHHHHHHHHHHHhhhhHHHHHHHHHHHHcc--CcchhhHHH
Confidence            4 66777777778888888888888766554   33456666666777777788888888877777764  555422   


Q ss_pred             -HHHH---------HHHHhccCcHHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC
Q 012108          308 -FIGL---------LSACSHAGLVQEGCELFSRMEKDFGVTRK-----LEHYGCMVDLLGRARLLDRAIELIEAM-PFEP  371 (471)
Q Consensus       308 -~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p  371 (471)
                       |..+         +......++|.++++-.+...+.   .|.     ...+..+-.++...|++.+|++...+. .+.|
T Consensus       262 ~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~---ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~~d~  338 (504)
T KOG0624|consen  262 FYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKN---EPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLDIDP  338 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhc---CCcccceeeeeeheeeecccccCCHHHHHHHHHHHHhcCc
Confidence             1111         12234567778888777777761   232     334455666777788888888888776 5556


Q ss_pred             C-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchh
Q 012108          372 T-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGE  410 (471)
Q Consensus       372 ~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  410 (471)
                      | +.++.--..+|.-...++.|+.-|+++.+.++. +...
T Consensus       339 ~dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~s-n~~~  377 (504)
T KOG0624|consen  339 DDVQVLCDRAEAYLGDEMYDDAIHDYEKALELNES-NTRA  377 (504)
T ss_pred             hHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcc-cHHH
Confidence            5 778888888888888899999999988888877 4443

>KOG3617 consensus WD40 and TPR repeat-containing protein [General function prediction only]

Probab=99.14  E-value=7e-08  Score=90.69  Aligned_cols=229  Identities=14%  Similarity=0.065  Sum_probs=144.5

Q ss_pred             ccHHHHHHH--HhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC-----------CCc-
Q 012108           11 YSFPLLLKA--AGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE-----------KDI-   76 (471)
Q Consensus        11 ~~~~~ll~~--~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~~~-   76 (471)
                      .|-..+++.  |...|+.+.|.+-...+.      +..+|..+.+.+.+.++++-|.-.+-.|..           .+. 
T Consensus       727 ~TRkaml~FSfyvtiG~MD~AfksI~~Ik------S~~vW~nmA~McVkT~RLDVAkVClGhm~~aRgaRAlR~a~q~~~  800 (1416)
T KOG3617|consen  727 STRKAMLDFSFYVTIGSMDAAFKSIQFIK------SDSVWDNMASMCVKTRRLDVAKVCLGHMKNARGARALRRAQQNGE  800 (1416)
T ss_pred             HHHHhhhceeEEEEeccHHHHHHHHHHHh------hhHHHHHHHHHhhhhccccHHHHhhhhhhhhhhHHHHHHHHhCCc
Confidence            344444443  557788888887777665      446789999999999999988888777753           121 


Q ss_pred             ccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHhCCCHH
Q 012108           77 IAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAK-DVVSWNSLILAYTNAGEME  155 (471)
Q Consensus        77 ~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~~~~~~  155 (471)
                      ..-..+.-.....|-+++|+.++++..+     |..+=+.|-..|.+++|.++-+.--.. =..+|......+-..+|.+
T Consensus       801 e~eakvAvLAieLgMlEeA~~lYr~ckR-----~DLlNKlyQs~g~w~eA~eiAE~~DRiHLr~Tyy~yA~~Lear~Di~  875 (1416)
T KOG3617|consen  801 EDEAKVAVLAIELGMLEEALILYRQCKR-----YDLLNKLYQSQGMWSEAFEIAETKDRIHLRNTYYNYAKYLEARRDIE  875 (1416)
T ss_pred             chhhHHHHHHHHHhhHHHHHHHHHHHHH-----HHHHHHHHHhcccHHHHHHHHhhccceehhhhHHHHHHHHHhhccHH
Confidence            2223333344677888899888887654     444556677788888888876553211 1245666666677778888


Q ss_pred             HHHHHHHhcccc-----------------------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012108          156 KAGEMFKKMLVK-----------------------NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLS  212 (471)
Q Consensus       156 ~A~~~~~~~~~~-----------------------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~  212 (471)
                      .|++.|++...+                       |...|.-.....-..|+.+.|+.+|.....         |-.+++
T Consensus       876 ~AleyyEK~~~hafev~rmL~e~p~~~e~Yv~~~~d~~L~~WWgqYlES~GemdaAl~~Y~~A~D---------~fs~Vr  946 (1416)
T KOG3617|consen  876 AALEYYEKAGVHAFEVFRMLKEYPKQIEQYVRRKRDESLYSWWGQYLESVGEMDAALSFYSSAKD---------YFSMVR  946 (1416)
T ss_pred             HHHHHHHhcCChHHHHHHHHHhChHHHHHHHHhccchHHHHHHHHHHhcccchHHHHHHHHHhhh---------hhhhee
Confidence            888888776322                       222333333334445666666666655432         444555


Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcC
Q 012108          213 ACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKS  265 (471)
Q Consensus       213 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  265 (471)
                      ..|-.|+.++|.++-++      ..|......|.+.|-..|++.+|..+|-+.
T Consensus       947 I~C~qGk~~kAa~iA~e------sgd~AAcYhlaR~YEn~g~v~~Av~FfTrA  993 (1416)
T KOG3617|consen  947 IKCIQGKTDKAARIAEE------SGDKAACYHLARMYENDGDVVKAVKFFTRA  993 (1416)
T ss_pred             eEeeccCchHHHHHHHh------cccHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            56666777777666543      224444555777777777777777777543

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.13  E-value=1.8e-07  Score=87.06  Aligned_cols=282  Identities=15%  Similarity=0.124  Sum_probs=132.6

Q ss_pred             HHHHHHcCCCHHHHHHHHhcC--CCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHH
Q 012108           82 MLDAFASCGQMDHAMKLIDLM--PLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGE  159 (471)
Q Consensus        82 li~~~~~~g~~~~A~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  159 (471)
                      .|..|.+.|.+.+|.+....-  ...|......+..++.+..-+++|-.+|+++..++.     .+.+|-+-+-+-+|.+
T Consensus       621 aiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d~dk-----ale~fkkgdaf~kaie  695 (1636)
T KOG3616|consen  621 AIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFDK-----ALECFKKGDAFGKAIE  695 (1636)
T ss_pred             HHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHHH-----HHHHHHcccHHHHHHH
Confidence            355556666655555433211  111444555555555555555555555555433322     1122222222333333


Q ss_pred             HHHhccccChHH-HHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc
Q 012108          160 MFKKMLVKNVIT-WNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASN  238 (471)
Q Consensus       160 ~~~~~~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  238 (471)
                      +-+-..+..++. -......+...|+++.|...|-+...         ..-.+.+......|.+|..+++.+++..  .-
T Consensus       696 larfafp~evv~lee~wg~hl~~~~q~daainhfiea~~---------~~kaieaai~akew~kai~ildniqdqk--~~  764 (1636)
T KOG3616|consen  696 LARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANC---------LIKAIEAAIGAKEWKKAISILDNIQDQK--TA  764 (1636)
T ss_pred             HHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhh---------HHHHHHHHhhhhhhhhhHhHHHHhhhhc--cc
Confidence            322221111111 11112233344555555544433211         1122334445566666666666665543  22


Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHA  318 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  318 (471)
                      ..-|..+.+.|...|+++.|.++|-+.     ..++-.|..|.+.|++++|.++-.+..  |.......|..-..-+-+.
T Consensus       765 s~yy~~iadhyan~~dfe~ae~lf~e~-----~~~~dai~my~k~~kw~da~kla~e~~--~~e~t~~~yiakaedldeh  837 (1636)
T KOG3616|consen  765 SGYYGEIADHYANKGDFEIAEELFTEA-----DLFKDAIDMYGKAGKWEDAFKLAEECH--GPEATISLYIAKAEDLDEH  837 (1636)
T ss_pred             cccchHHHHHhccchhHHHHHHHHHhc-----chhHHHHHHHhccccHHHHHHHHHHhc--CchhHHHHHHHhHHhHHhh
Confidence            334555666666667777777666543     234455666667777777666655543  2233344454444555566


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          319 GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       319 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      |++.+|+++|-.+..     |+.     -|.+|-+.|..+..+++..+..-..-..|...+..-+-..|+.+.|+..|
T Consensus       838 gkf~eaeqlyiti~~-----p~~-----aiqmydk~~~~ddmirlv~k~h~d~l~dt~~~f~~e~e~~g~lkaae~~f  905 (1636)
T KOG3616|consen  838 GKFAEAEQLYITIGE-----PDK-----AIQMYDKHGLDDDMIRLVEKHHGDHLHDTHKHFAKELEAEGDLKAAEEHF  905 (1636)
T ss_pred             cchhhhhheeEEccC-----chH-----HHHHHHhhCcchHHHHHHHHhChhhhhHHHHHHHHHHHhccChhHHHHHH
Confidence            666666665544433     332     34556666666666655555421111223334444445555555555444

>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=99.12  E-value=6e-09  Score=90.71  Aligned_cols=248  Identities=12%  Similarity=0.047  Sum_probs=151.1

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 012108          177 TGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIE  256 (471)
Q Consensus       177 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  256 (471)
                      +-+.-.|++..++.-.+ .....-..+......+.+++...|+.+.+.   .++.+.. .|.......+...+...++-+
T Consensus         9 rn~fy~G~Y~~~i~e~~-~~~~~~~~~~e~~~~~~Rs~iAlg~~~~vl---~ei~~~~-~~~l~av~~la~y~~~~~~~e   83 (290)
T PF04733_consen    9 RNQFYLGNYQQCINEAS-LKSFSPENKLERDFYQYRSYIALGQYDSVL---SEIKKSS-SPELQAVRLLAEYLSSPSDKE   83 (290)
T ss_dssp             HHHHCTT-HHHHCHHHH-CHTSTCHHHHHHHHHHHHHHHHTT-HHHHH---HHS-TTS-SCCCHHHHHHHHHHCTSTTHH
T ss_pred             HHHHHhhhHHHHHHHhh-ccCCCchhHHHHHHHHHHHHHHcCChhHHH---HHhccCC-ChhHHHHHHHHHHHhCccchH
Confidence            44556788888876555 222211122334455667777777766433   3333333 566666665655554445555


Q ss_pred             HHHHHHhcCC-CC----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHh
Q 012108          257 QSLEVFYKSQ-VK----DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRM  331 (471)
Q Consensus       257 ~a~~~~~~~~-~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  331 (471)
                      .++.-+++.. .+    +..........+...|++++|++++...      .+.......+..+.+.++++.|.+.++.|
T Consensus        84 ~~l~~l~~~~~~~~~~~~~~~~~~~A~i~~~~~~~~~AL~~l~~~------~~lE~~al~Vqi~L~~~R~dlA~k~l~~~  157 (290)
T PF04733_consen   84 SALEELKELLADQAGESNEIVQLLAATILFHEGDYEEALKLLHKG------GSLELLALAVQILLKMNRPDLAEKELKNM  157 (290)
T ss_dssp             CHHHHHHHCCCTS---CHHHHHHHHHHHHCCCCHHHHHHCCCTTT------TCHHHHHHHHHHHHHTT-HHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccHHHHHHHHHHHHHcCCHHHHHHHHHcc------CcccHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            6665554433 22    1222222233455678888888777642      34566667778888888888888888888


Q ss_pred             HHhcCCCCChhHHHHHHHHHh----hcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          332 EKDFGVTRKLEHYGCMVDLLG----RARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       332 ~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+   ...| .+...+..++.    -.+++.+|..+|+++  ...+++.+.+.+..++...|++++|.++++++.+.+|.
T Consensus       158 ~~---~~eD-~~l~qLa~awv~l~~g~e~~~~A~y~f~El~~~~~~t~~~lng~A~~~l~~~~~~eAe~~L~~al~~~~~  233 (290)
T PF04733_consen  158 QQ---IDED-SILTQLAEAWVNLATGGEKYQDAFYIFEELSDKFGSTPKLLNGLAVCHLQLGHYEEAEELLEEALEKDPN  233 (290)
T ss_dssp             HC---CSCC-HHHHHHHHHHHHHHHTTTCCCHHHHHHHHHHCCS--SHHHHHHHHHHHHHCT-HHHHHHHHHHHCCC-CC
T ss_pred             Hh---cCCc-HHHHHHHHHHHHHHhCchhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhccC
Confidence            76   2233 22333444332    234688888888888  44567778888888888888888888888888888888


Q ss_pred             CCchhHHHHHHHHHhcCCH-HHHHHHHHHhhhCCCc
Q 012108          406 LSDGELMMFANLYASCGQW-EEANRWRNMMNDTGIV  440 (471)
Q Consensus       406 ~~~~~~~~l~~~~~~~g~~-~~A~~~~~~m~~~~~~  440 (471)
                       ++.+...++.+....|+. +.+.+++.++.+..+.
T Consensus       234 -~~d~LaNliv~~~~~gk~~~~~~~~l~qL~~~~p~  268 (290)
T PF04733_consen  234 -DPDTLANLIVCSLHLGKPTEAAERYLSQLKQSNPN  268 (290)
T ss_dssp             -HHHHHHHHHHHHHHTT-TCHHHHHHHHHCHHHTTT
T ss_pred             -CHHHHHHHHHHHHHhCCChhHHHHHHHHHHHhCCC
Confidence             888888888888888877 5677788887766554

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.

>KOG3616 consensus Selective LIM binding factor [Transcription]

Probab=99.08  E-value=5.4e-07  Score=83.98  Aligned_cols=352  Identities=13%  Similarity=0.105  Sum_probs=204.4

Q ss_pred             HHHHHhccCCHhHHHHHhcccC--CCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHH
Q 012108           51 LLKMYGSLRCIDDAFKVFEKMP--EKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARY  128 (471)
Q Consensus        51 l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~  128 (471)
                      -|..|.+.|...+|.+....-.  -.|......+..++.+..-+++|-.+|+++..++     ..+.+|-+..-+.+|.+
T Consensus       621 aiqlyika~~p~~a~~~a~n~~~l~~de~il~~ia~alik~elydkagdlfeki~d~d-----kale~fkkgdaf~kaie  695 (1636)
T KOG3616|consen  621 AIQLYIKAGKPAKAARAALNDEELLADEEILEHIAAALIKGELYDKAGDLFEKIHDFD-----KALECFKKGDAFGKAIE  695 (1636)
T ss_pred             HHHHHHHcCCchHHHHhhcCHHHhhccHHHHHHHHHHHHhhHHHHhhhhHHHHhhCHH-----HHHHHHHcccHHHHHHH
Confidence            3556666666655554433211  1344445555555555555666666666655331     12223333333444444


Q ss_pred             HHhhcCCCChh---------------------------hHHHHHHHHHhCCCHHHHHHHHHhccccChH--HHHHHHHHH
Q 012108          129 IFDKVPAKDVV---------------------------SWNSLILAYTNAGEMEKAGEMFKKMLVKNVI--TWNTMVTGY  179 (471)
Q Consensus       129 ~~~~~~~~~~~---------------------------~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~l~~~~  179 (471)
                      +-+-..+..++                           ..-..+.+......|.+|+.+++.+..+++.  -|..+...|
T Consensus       696 larfafp~evv~lee~wg~hl~~~~q~daainhfiea~~~~kaieaai~akew~kai~ildniqdqk~~s~yy~~iadhy  775 (1636)
T KOG3616|consen  696 LARFAFPEEVVKLEEAWGDHLEQIGQLDAAINHFIEANCLIKAIEAAIGAKEWKKAISILDNIQDQKTASGYYGEIADHY  775 (1636)
T ss_pred             HHHhhCcHHHhhHHHHHhHHHHHHHhHHHHHHHHHHhhhHHHHHHHHhhhhhhhhhHhHHHHhhhhccccccchHHHHHh
Confidence            43333221111                           1112234455566777777777777555433  466777888


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 012108          180 LRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSL  259 (471)
Q Consensus       180 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  259 (471)
                      ...|+++.|.++|-+.-         .++-.|..|.+.|+|..|.++-++.  .|.......|.+-..-+-+.|++.+|.
T Consensus       776 an~~dfe~ae~lf~e~~---------~~~dai~my~k~~kw~da~kla~e~--~~~e~t~~~yiakaedldehgkf~eae  844 (1636)
T KOG3616|consen  776 ANKGDFEIAEELFTEAD---------LFKDAIDMYGKAGKWEDAFKLAEEC--HGPEATISLYIAKAEDLDEHGKFAEAE  844 (1636)
T ss_pred             ccchhHHHHHHHHHhcc---------hhHHHHHHHhccccHHHHHHHHHHh--cCchhHHHHHHHhHHhHHhhcchhhhh
Confidence            88888888888876531         2445677788888888888776554  333445666766677777888888888


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC
Q 012108          260 EVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR  339 (471)
Q Consensus       260 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  339 (471)
                      ++|-.+..|+.     .|+.|-+.|..++.+++..+-....   -..|-..+..-+-..|+...|+.-|-+...      
T Consensus       845 qlyiti~~p~~-----aiqmydk~~~~ddmirlv~k~h~d~---l~dt~~~f~~e~e~~g~lkaae~~flea~d------  910 (1636)
T KOG3616|consen  845 QLYITIGEPDK-----AIQMYDKHGLDDDMIRLVEKHHGDH---LHDTHKHFAKELEAEGDLKAAEEHFLEAGD------  910 (1636)
T ss_pred             heeEEccCchH-----HHHHHHhhCcchHHHHHHHHhChhh---hhHHHHHHHHHHHhccChhHHHHHHHhhhh------
Confidence            88887777763     4667888888888888777643221   224555666777778888888877766655      


Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhCCC---------------CCCH--hH------HHHHHHHHhhcCCchHHHHHH
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAMPF---------------EPTE--SI------LGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---------------~p~~--~~------~~~l~~~~~~~g~~~~a~~~~  396 (471)
                          |.+-+.+|...+-+++|.++-+.-+-               ..+.  ..      +..-+.-.+..+.++-|..+-
T Consensus       911 ----~kaavnmyk~s~lw~dayriaktegg~n~~k~v~flwaksiggdaavkllnk~gll~~~id~a~d~~afd~afdla  986 (1636)
T KOG3616|consen  911 ----FKAAVNMYKASELWEDAYRIAKTEGGANAEKHVAFLWAKSIGGDAAVKLLNKHGLLEAAIDFAADNCAFDFAFDLA  986 (1636)
T ss_pred             ----HHHHHHHhhhhhhHHHHHHHHhccccccHHHHHHHHHHHhhCcHHHHHHHHhhhhHHHHhhhhhcccchhhHHHHH
Confidence                55556666666777776666554320               0010  00      111112222334444444443


Q ss_pred             HHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          397 KMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       397 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      +-..+. .  .+.+...++..+...|++++|-+-+-+..+.+.
T Consensus       987 ri~~k~-k--~~~vhlk~a~~ledegk~edaskhyveaiklnt 1026 (1636)
T KOG3616|consen  987 RIAAKD-K--MGEVHLKLAMFLEDEGKFEDASKHYVEAIKLNT 1026 (1636)
T ss_pred             HHhhhc-c--CccchhHHhhhhhhccchhhhhHhhHHHhhccc
Confidence            333221 1  345566677778888999998777766665543

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

Probab=99.07  E-value=1.1e-06  Score=80.77  Aligned_cols=258  Identities=11%  Similarity=-0.027  Sum_probs=128.5

Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH----ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 012108          178 GYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACA----NLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG  253 (471)
Q Consensus       178 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  253 (471)
                      .+...|++++|.+++++..+.. +.+...+.. ...+.    ..+..+.+.+.+... ....+........+...+...|
T Consensus        52 ~~~~~g~~~~A~~~~~~~l~~~-P~~~~a~~~-~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~~~~~~a~~~~~~G  128 (355)
T cd05804          52 SAWIAGDLPKALALLEQLLDDY-PRDLLALKL-HLGAFGLGDFSGMRDHVARVLPLW-APENPDYWYLLGMLAFGLEEAG  128 (355)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHC-CCcHHHHHH-hHHHHHhcccccCchhHHHHHhcc-CcCCCCcHHHHHHHHHHHHHcC
Confidence            4455666666666666665542 122222221 11111    223333343333331 1111222333444555666667


Q ss_pred             ChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCH--HHHHHHHHHHhccCcHHHHHHH
Q 012108          254 SIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCV-KADD--ITFIGLLSACSHAGLVQEGCEL  327 (471)
Q Consensus       254 ~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~~--~~~~~l~~~~~~~~~~~~a~~~  327 (471)
                      ++++|.+.+++...   .+...+..+...+...|++++|...+++...... .|+.  ..+..+...+...|++++|..+
T Consensus       129 ~~~~A~~~~~~al~~~p~~~~~~~~la~i~~~~g~~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~  208 (355)
T cd05804         129 QYDRAEEAARRALELNPDDAWAVHAVAHVLEMQGRFKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAI  208 (355)
T ss_pred             CHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHcCCHHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHH
Confidence            77777666665443   2445566666666777777777777766655321 1222  2344566666777777777777


Q ss_pred             HHHhHHhcCCCCChhHH-H--HHHHHHhhcCCHHHHHHH---HHh---C-CCCCCHhHHHHHHHHHhhcCCchHHHHHHH
Q 012108          328 FSRMEKDFGVTRKLEHY-G--CMVDLLGRARLLDRAIEL---IEA---M-PFEPTESILGALLSACVIHQDLEIGDRVAK  397 (471)
Q Consensus       328 ~~~~~~~~~~~~~~~~~-~--~l~~~~~~~g~~~~A~~~---~~~---~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  397 (471)
                      ++++.......+..... +  .++..+...|....+.+.   ...   . ..............++...|+.+.|..+++
T Consensus       209 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~  288 (355)
T cd05804         209 YDTHIAPSAESDPALDLLDAASLLWRLELAGHVDVGDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLA  288 (355)
T ss_pred             HHHHhccccCCChHHHHhhHHHHHHHHHhcCCCChHHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            77765311111111111 1  222222333322222211   111   1 101111222245566777888888888888


Q ss_pred             HHHHcCCC--------CCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          398 MVCAKSNY--------LSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       398 ~~~~~~~~--------~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      .+......        .........+.++.+.|++++|.+.+.......
T Consensus       289 ~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~~~A~~~L~~al~~a  337 (355)
T cd05804         289 ALKGRASSADDNKQPARDVGLPLAEALYAFAEGNYATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCHHHHHHHHHHHHHHH
Confidence            77653211        023333455667778999999999988876543

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.

>PRK04841 transcriptional regulator MalT; Provisional

Probab=99.07  E-value=1.6e-06  Score=90.21  Aligned_cols=353  Identities=9%  Similarity=-0.027  Sum_probs=220.1

Q ss_pred             HHcCCCHHHHHHHHhcCCCCCh--hhHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhhHHHHHHHHHhCCCHHHHHH
Q 012108           86 FASCGQMDHAMKLIDLMPLKDV--TSFNIMISGYARIGKIHSARYIFDKVPA----KDVVSWNSLILAYTNAGEMEKAGE  159 (471)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~A~~  159 (471)
                      +...|++.+|..........+.  .............|+++.+...++.+..    .++.........+...|++++|..
T Consensus       351 ~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a~~  430 (903)
T PRK04841        351 WLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEVNT  430 (903)
T ss_pred             HHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHHHH
Confidence            4445555555554444432211  1122223345566788888787777621    233333445556678899999988


Q ss_pred             HHHhccc----c----C----hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHHccCChHHH
Q 012108          160 MFKKMLV----K----N----VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDY----LTVTSVLSACANLGSLETG  223 (471)
Q Consensus       160 ~~~~~~~----~----~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~l~~~~~~~~~~~~a  223 (471)
                      .+.....    .    +    ......+...+...|++++|...+++..+.-...+.    ...+.+...+...|+++.|
T Consensus       431 ~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~~A  510 (903)
T PRK04841        431 LLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELARA  510 (903)
T ss_pred             HHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHHHH
Confidence            8876621    1    1    112223345567899999999999987763111121    2334555667789999999


Q ss_pred             HHHHHHHHHcCC---CC--chhHHHHHHHHHHhcCChHHHHHHHhcCCC-------C----ChhhHHHHHHHHHhcCChH
Q 012108          224 ARIHVYATDNGL---AS--NPHATTALIDMYAKCGSIEQSLEVFYKSQV-------K----DVFCWNAMILGLALHGYGY  287 (471)
Q Consensus       224 ~~~~~~~~~~~~---~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~----~~~~~~~l~~~~~~~~~~~  287 (471)
                      ...+++.....-   .+  .......+...+...|+++.|...+++...       +    ....+..+...+...|+++
T Consensus       511 ~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~~~  590 (903)
T PRK04841        511 LAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWARLD  590 (903)
T ss_pred             HHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcCHH
Confidence            999888764311   11  123456677788899999999988765332       1    1123445556677789999


Q ss_pred             HHHHHHHHHHhC--CCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHH-----HHHHHHHhhcCCHH
Q 012108          288 AALKLLGEMNDS--CVKAD--DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHY-----GCMVDLLGRARLLD  358 (471)
Q Consensus       288 ~a~~~~~~~~~~--~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~~l~~~~~~~g~~~  358 (471)
                      +|...+.+....  ...+.  ...+..+.......|+.+.|...+..+............+     ...+..+...|+.+
T Consensus       591 ~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~  670 (903)
T PRK04841        591 EAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGDKE  670 (903)
T ss_pred             HHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCCHH
Confidence            999999887543  11122  2344445667788999999999988886521111111111     11224455689999


Q ss_pred             HHHHHHHhCCCC--CCH----hHHHHHHHHHhhcCCchHHHHHHHHHHHcC----CCC-CchhHHHHHHHHHhcCCHHHH
Q 012108          359 RAIELIEAMPFE--PTE----SILGALLSACVIHQDLEIGDRVAKMVCAKS----NYL-SDGELMMFANLYASCGQWEEA  427 (471)
Q Consensus       359 ~A~~~~~~~~~~--p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~~~~~~~g~~~~A  427 (471)
                      .|.+.+......  ...    ..+..+..++...|++++|...++++....    ..+ ...+...++.++.+.|+.++|
T Consensus       671 ~A~~~l~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~~~~A  750 (903)
T PRK04841        671 AAANWLRQAPKPEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGRKSEA  750 (903)
T ss_pred             HHHHHHHhcCCCCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCCHHHH
Confidence            999998776311  111    113456677888999999999999887652    111 124566788899999999999


Q ss_pred             HHHHHHhhhCC
Q 012108          428 NRWRNMMNDTG  438 (471)
Q Consensus       428 ~~~~~~m~~~~  438 (471)
                      .+.+.+..+..
T Consensus       751 ~~~L~~Al~la  761 (903)
T PRK04841        751 QRVLLEALKLA  761 (903)
T ss_pred             HHHHHHHHHHh
Confidence            99999887654

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=99.06  E-value=4.1e-07  Score=81.81  Aligned_cols=389  Identities=11%  Similarity=0.012  Sum_probs=205.0

Q ss_pred             HHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CC-cccHHHHHHHHHcCCCHHH
Q 012108           18 KAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KD-IIAWNSMLDAFASCGQMDH   94 (471)
Q Consensus        18 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~-~~~~~~li~~~~~~g~~~~   94 (471)
                      ++.+..|+++.|...|-+.+... +++...|+.-..+|+..|++++|.+=-.+-.+  |+ +..|+....++.-.|++++
T Consensus        10 naa~s~~d~~~ai~~~t~ai~l~-p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~p~w~kgy~r~Gaa~~~lg~~~e   88 (539)
T KOG0548|consen   10 NAAFSSGDFETAIRLFTEAIMLS-PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLNPDWAKGYSRKGAALFGLGDYEE   88 (539)
T ss_pred             HhhcccccHHHHHHHHHHHHccC-CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcCCchhhHHHHhHHHHHhcccHHH
Confidence            45678899999999999999886 44888999999999999999999876555443  43 4579999999999999999


Q ss_pred             HHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHH---HHHHHhhcC-CC------ChhhHHHHHHHH----------HhC
Q 012108           95 AMKLIDLMPLK---DVTSFNIMISGYARIGKIHS---ARYIFDKVP-AK------DVVSWNSLILAY----------TNA  151 (471)
Q Consensus        95 A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~-~~------~~~~~~~l~~~~----------~~~  151 (471)
                      |+.-|.+-.+.   +...++.+..++.......+   --.++.... .|      ....|..++..+          ..-
T Consensus        89 A~~ay~~GL~~d~~n~~L~~gl~~a~~~~~~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d  168 (539)
T KOG0548|consen   89 AILAYSEGLEKDPSNKQLKTGLAQAYLEDYAADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLND  168 (539)
T ss_pred             HHHHHHHHhhcCCchHHHHHhHHHhhhHHHHhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhccccc
Confidence            99999988755   44556666666511100000   000111110 00      111222222221          111


Q ss_pred             CCHHHHHHHHHhc----------------ccc----------------------ChHHHHHHHHHHHhcCCHHHHHHHHH
Q 012108          152 GEMEKAGEMFKKM----------------LVK----------------------NVITWNTMVTGYLRSQLYIEVVDLFD  193 (471)
Q Consensus       152 ~~~~~A~~~~~~~----------------~~~----------------------~~~~~~~l~~~~~~~~~~~~a~~~~~  193 (471)
                      ..+..|.-.+...                ..|                      -..-...+.+...+..++..|++.+.
T Consensus       169 ~r~m~a~~~l~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~  248 (539)
T KOG0548|consen  169 PRLMKADGQLKGVDELLFYASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYA  248 (539)
T ss_pred             HHHHHHHHHHhcCccccccccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHH
Confidence            1122222222111                000                      00123345555666666666666666


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHH-------HHHHHHhcCChHHHHHHHhcCC
Q 012108          194 EMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTA-------LIDMYAKCGSIEQSLEVFYKSQ  266 (471)
Q Consensus       194 ~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~-------l~~~~~~~~~~~~a~~~~~~~~  266 (471)
                      ...+..  -+..-++....++...|.+...........+.|- ....-++.       +..+|.+.++++.++..|.+..
T Consensus       249 ~a~el~--~~it~~~n~aA~~~e~~~~~~c~~~c~~a~E~gr-e~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaL  325 (539)
T KOG0548|consen  249 KALELA--TDITYLNNIAAVYLERGKYAECIELCEKAVEVGR-ELRADYKLIAKALARLGNAYTKREDYEGAIKYYQKAL  325 (539)
T ss_pred             HHHhHh--hhhHHHHHHHHHHHhccHHHHhhcchHHHHHHhH-HHHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHh
Confidence            665542  2223333444455566666555555555544441 11111221       2234444455555555555422


Q ss_pred             CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHH
Q 012108          267 VKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD-ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG  345 (471)
Q Consensus       267 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  345 (471)
                      .+...     -....+....+++....+...-.  .|.. .-...-...+.+.|++..|...|.++.+  ..+.|...|.
T Consensus       326 te~Rt-----~~~ls~lk~~Ek~~k~~e~~a~~--~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIk--r~P~Da~lYs  396 (539)
T KOG0548|consen  326 TEHRT-----PDLLSKLKEAEKALKEAERKAYI--NPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIK--RDPEDARLYS  396 (539)
T ss_pred             hhhcC-----HHHHHHHHHHHHHHHHHHHHHhh--ChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHh--cCCchhHHHH
Confidence            21000     00111222233333333332221  2221 1111224445566777777777777666  3355666777


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          346 CMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      ...-+|.+.|.+..|+.-.+.. ...|+ ...|.-=..++....+++.|.+.|++.++.+|. +......+.+++..
T Consensus       397 NRAac~~kL~~~~~aL~Da~~~ieL~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~-~~e~~~~~~rc~~a  472 (539)
T KOG0548|consen  397 NRAACYLKLGEYPEALKDAKKCIELDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPS-NAEAIDGYRRCVEA  472 (539)
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHHhcCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCch-hHHHHHHHHHHHHH
Confidence            7777777777777666655544 23333 233433344444556677777777777776666 55555555555544

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

Probab=99.05  E-value=4e-07  Score=77.24  Aligned_cols=312  Identities=11%  Similarity=0.017  Sum_probs=201.1

Q ss_pred             chhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHH---HHHHcCCCHHHHHHHHhcCCCCChhhHHH---HHHHH
Q 012108           44 HVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSML---DAFASCGQMDHAMKLIDLMPLKDVTSFNI---MISGY  117 (471)
Q Consensus        44 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li---~~~~~~g~~~~A~~~~~~~~~~~~~~~~~---l~~~~  117 (471)
                      ++.-.--+...+...|.+..|+.-|....+-|+..|.++.   ..|...|+...|+.-|.......+..+.+   -...+
T Consensus        37 dvekhlElGk~lla~~Q~sDALt~yHaAve~dp~~Y~aifrRaT~yLAmGksk~al~Dl~rVlelKpDF~~ARiQRg~vl  116 (504)
T KOG0624|consen   37 DVEKHLELGKELLARGQLSDALTHYHAAVEGDPNNYQAIFRRATVYLAMGKSKAALQDLSRVLELKPDFMAARIQRGVVL  116 (504)
T ss_pred             HHHHHHHHHHHHHHhhhHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhcCCccchhhHHHHHhcCccHHHHHHHhchhh
Confidence            3444455667777889999999999999988888887764   46888899888888888776554333333   34468


Q ss_pred             HhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012108          118 ARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKA  197 (471)
Q Consensus       118 ~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  197 (471)
                      .+.|.++.|..=|+.++..++.-- ....++.+.--.++-.            .....+..+.-.|+...|+.....+++
T Consensus       117 lK~Gele~A~~DF~~vl~~~~s~~-~~~eaqskl~~~~e~~------------~l~~ql~s~~~~GD~~~ai~~i~~llE  183 (504)
T KOG0624|consen  117 LKQGELEQAEADFDQVLQHEPSNG-LVLEAQSKLALIQEHW------------VLVQQLKSASGSGDCQNAIEMITHLLE  183 (504)
T ss_pred             hhcccHHHHHHHHHHHHhcCCCcc-hhHHHHHHHHhHHHHH------------HHHHHHHHHhcCCchhhHHHHHHHHHh
Confidence            899999999999999865433110 0011111111111111            112233445556777777777777666


Q ss_pred             CCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChh------
Q 012108          198 GNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVF------  271 (471)
Q Consensus       198 ~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~------  271 (471)
                      -. +.|...|..-..+|...|.+..|+.=++...+.. ..+...+..+...+...|+.+.++..+++..+-|+.      
T Consensus       184 i~-~Wda~l~~~Rakc~i~~~e~k~AI~Dlk~askLs-~DnTe~~ykis~L~Y~vgd~~~sL~~iRECLKldpdHK~Cf~  261 (504)
T KOG0624|consen  184 IQ-PWDASLRQARAKCYIAEGEPKKAIHDLKQASKLS-QDNTEGHYKISQLLYTVGDAENSLKEIRECLKLDPDHKLCFP  261 (504)
T ss_pred             cC-cchhHHHHHHHHHHHhcCcHHHHHHHHHHHHhcc-ccchHHHHHHHHHHHhhhhHHHHHHHHHHHHccCcchhhHHH
Confidence            42 3455566666667777777777766666665544 445555555666777777777777766665542221      


Q ss_pred             hHHHH---------HHHHHhcCChHHHHHHHHHHHhCCCCCCHHH---HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC
Q 012108          272 CWNAM---------ILGLALHGYGYAALKLLGEMNDSCVKADDIT---FIGLLSACSHAGLVQEGCELFSRMEKDFGVTR  339 (471)
Q Consensus       272 ~~~~l---------~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~---~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  339 (471)
                      .|..+         +......+++.++++..+...+.........   +..+-.++...+++.+|++...++..  -.+.
T Consensus       262 ~YKklkKv~K~les~e~~ie~~~~t~cle~ge~vlk~ep~~~~ir~~~~r~~c~C~~~d~~~~eAiqqC~evL~--~d~~  339 (504)
T KOG0624|consen  262 FYKKLKKVVKSLESAEQAIEEKHWTECLEAGEKVLKNEPEETMIRYNGFRVLCTCYREDEQFGEAIQQCKEVLD--IDPD  339 (504)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCcccceeeeeeheeeecccccCCHHHHHHHHHHHHh--cCch
Confidence            11111         2234556788888888888777533322333   33445566778999999999999987  3444


Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT  372 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  372 (471)
                      |+.++.--..+|.-...++.|+.-|+.. ...++
T Consensus       340 dv~~l~dRAeA~l~dE~YD~AI~dye~A~e~n~s  373 (504)
T KOG0624|consen  340 DVQVLCDRAEAYLGDEMYDDAIHDYEKALELNES  373 (504)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHhcCcc
Confidence            5888888888999899999999999887 33443

>KOG4340 consensus Uncharacterized conserved protein [Function unknown]

Probab=99.04  E-value=2.4e-07  Score=76.99  Aligned_cols=303  Identities=13%  Similarity=0.112  Sum_probs=141.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCC---ChhhHHHHHHHHHhCCCHHHHHHHHHhcc--ccChHHHH-HHHHHHHhcC
Q 012108          110 FNIMISGYARIGKIHSARYIFDKVPAK---DVVSWNSLILAYTNAGEMEKAGEMFKKML--VKNVITWN-TMVTGYLRSQ  183 (471)
Q Consensus       110 ~~~l~~~~~~~g~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~~~~~~~-~l~~~~~~~~  183 (471)
                      +.+++..+.+..++.+|++++..-.+.   +....+.|..+|....++..|-+.++++.  .|...-|. .-...+.+.+
T Consensus        13 ftaviy~lI~d~ry~DaI~~l~s~~Er~p~~rAgLSlLgyCYY~~Q~f~~AA~CYeQL~ql~P~~~qYrlY~AQSLY~A~   92 (459)
T KOG4340|consen   13 FTAVVYRLIRDARYADAIQLLGSELERSPRSRAGLSLLGYCYYRLQEFALAAECYEQLGQLHPELEQYRLYQAQSLYKAC   92 (459)
T ss_pred             hHHHHHHHHHHhhHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhhChHHHHHHHHHHHHHHHhc
Confidence            445555556666666666665554332   33344455555666666666666666652  22222221 1233444555


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHH
Q 012108          184 LYIEVVDLFDEMKAGNVKPDYLTVTSVLS--ACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEV  261 (471)
Q Consensus       184 ~~~~a~~~~~~m~~~g~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  261 (471)
                      .+.+|+++...|...   |+...-..-+.  .....+++..+..+.++.-..   .+..+.+...-...+.|+++.|.+-
T Consensus        93 i~ADALrV~~~~~D~---~~L~~~~lqLqaAIkYse~Dl~g~rsLveQlp~e---n~Ad~~in~gCllykegqyEaAvqk  166 (459)
T KOG4340|consen   93 IYADALRVAFLLLDN---PALHSRVLQLQAAIKYSEGDLPGSRSLVEQLPSE---NEADGQINLGCLLYKEGQYEAAVQK  166 (459)
T ss_pred             ccHHHHHHHHHhcCC---HHHHHHHHHHHHHHhcccccCcchHHHHHhccCC---CccchhccchheeeccccHHHHHHH
Confidence            556666655555432   22111111111  112344444444444433211   1233333333334455555555555


Q ss_pred             HhcCCC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH----HHHHHhccCcHHHHHHHHHHhHH
Q 012108          262 FYKSQV----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIG----LLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       262 ~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      |+...+    .....|+..+ +..+.|+++.|++...+++++|++-.+..-..    .+.+ ...|+.   ..+....  
T Consensus       167 FqaAlqvsGyqpllAYniAL-aHy~~~qyasALk~iSEIieRG~r~HPElgIGm~tegiDv-rsvgNt---~~lh~Sa--  239 (459)
T KOG4340|consen  167 FQAALQVSGYQPLLAYNLAL-AHYSSRQYASALKHISEIIERGIRQHPELGIGMTTEGIDV-RSVGNT---LVLHQSA--  239 (459)
T ss_pred             HHHHHhhcCCCchhHHHHHH-HHHhhhhHHHHHHHHHHHHHhhhhcCCccCccceeccCch-hcccch---HHHHHHH--
Confidence            544333    1223333322 22234455555555555555444321110000    0000 000000   0000000  


Q ss_pred             hcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC----CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCch
Q 012108          334 DFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMP----FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDG  409 (471)
Q Consensus       334 ~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  409 (471)
                            -...+|.-...+.+.|+++.|.+.+..|+    ...|+.|...+.-.- ..+++.+..+-+.-+++.+|- .+.
T Consensus       240 ------l~eAfNLKaAIeyq~~n~eAA~eaLtDmPPRaE~elDPvTLHN~Al~n-~~~~p~~g~~KLqFLL~~nPf-P~E  311 (459)
T KOG4340|consen  240 ------LVEAFNLKAAIEYQLRNYEAAQEALTDMPPRAEEELDPVTLHNQALMN-MDARPTEGFEKLQFLLQQNPF-PPE  311 (459)
T ss_pred             ------HHHHhhhhhhhhhhcccHHHHHHHhhcCCCcccccCCchhhhHHHHhc-ccCCccccHHHHHHHHhcCCC-ChH
Confidence                  01122222333456788888888888773    344666666554321 245566666666777777775 677


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHH
Q 012108          410 ELMMFANLYASCGQWEEANRWRNM  433 (471)
Q Consensus       410 ~~~~l~~~~~~~g~~~~A~~~~~~  433 (471)
                      +|..++-.|++..-++-|-+++-+
T Consensus       312 TFANlLllyCKNeyf~lAADvLAE  335 (459)
T KOG4340|consen  312 TFANLLLLYCKNEYFDLAADVLAE  335 (459)
T ss_pred             HHHHHHHHHhhhHHHhHHHHHHhh
Confidence            888888888888777777766543

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

Probab=99.02  E-value=2.1e-06  Score=78.86  Aligned_cols=291  Identities=14%  Similarity=0.033  Sum_probs=158.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhc---CCCChh---hHHHHHHHHHhCCCHHHHHHHHHhccc--c-ChHHHHHHHHHH
Q 012108          109 SFNIMISGYARIGKIHSARYIFDKV---PAKDVV---SWNSLILAYTNAGEMEKAGEMFKKMLV--K-NVITWNTMVTGY  179 (471)
Q Consensus       109 ~~~~l~~~~~~~g~~~~a~~~~~~~---~~~~~~---~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~  179 (471)
                      .+..+...+...|+.+.+.+.+...   .+++..   ........+...|++++|.+.+++...  | +...+.. ...+
T Consensus         8 a~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~-~~~~   86 (355)
T cd05804           8 GHAAAALLLLLGGERPAAAAKAAAAAQALAARATERERAHVEALSAWIAGDLPKALALLEQLLDDYPRDLLALKL-HLGA   86 (355)
T ss_pred             HHHHHHHHHHhcCCcchHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHH-hHHH
Confidence            3444445555555555554444443   111211   111223345667788888888777632  2 3333332 2122


Q ss_pred             Hh----cCCHHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 012108          180 LR----SQLYIEVVDLFDEMKAGNVKPDY-LTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGS  254 (471)
Q Consensus       180 ~~----~~~~~~a~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  254 (471)
                      ..    .+..+.+.+.+..  ..+..|+. .....+...+...|++++|...+++..+.. +.+...+..+..++...|+
T Consensus        87 ~~~~~~~~~~~~~~~~l~~--~~~~~~~~~~~~~~~a~~~~~~G~~~~A~~~~~~al~~~-p~~~~~~~~la~i~~~~g~  163 (355)
T cd05804          87 FGLGDFSGMRDHVARVLPL--WAPENPDYWYLLGMLAFGLEEAGQYDRAEEAARRALELN-PDDAWAVHAVAHVLEMQGR  163 (355)
T ss_pred             HHhcccccCchhHHHHHhc--cCcCCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCC
Confidence            22    3444444444443  11223333 233445566778888888888888888875 5566777888888888888


Q ss_pred             hHHHHHHHhcCCCC-----Ch--hhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHH-H--HHHHHHhccCcHHH
Q 012108          255 IEQSLEVFYKSQVK-----DV--FCWNAMILGLALHGYGYAALKLLGEMNDSCV-KADDITF-I--GLLSACSHAGLVQE  323 (471)
Q Consensus       255 ~~~a~~~~~~~~~~-----~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~-~--~l~~~~~~~~~~~~  323 (471)
                      +++|+..+++....     +.  ..|..+...+...|++++|..++++...... .+..... .  .++.-+...|..+.
T Consensus       164 ~~eA~~~l~~~l~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~g~~~~  243 (355)
T cd05804         164 FKEGIAFMESWRDTWDCSSMLRGHNWWHLALFYLERGDYEAALAIYDTHIAPSAESDPALDLLDAASLLWRLELAGHVDV  243 (355)
T ss_pred             HHHHHHHHHhhhhccCCCcchhHHHHHHHHHHHHHCCCHHHHHHHHHHHhccccCCChHHHHhhHHHHHHHHHhcCCCCh
Confidence            88888888775541     11  2355677788888999999999988764322 1111111 1  22233333343322


Q ss_pred             HHHH---HHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC--CCC---C------HhHHHHHHHHHhhcCCc
Q 012108          324 GCEL---FSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMP--FEP---T------ESILGALLSACVIHQDL  389 (471)
Q Consensus       324 a~~~---~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~p---~------~~~~~~l~~~~~~~g~~  389 (471)
                      +...   ......................++...|+.++|..+++.+.  ...   .      ........-++...|+.
T Consensus       244 ~~~w~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~L~~l~~~~~~~~~~~~~~~~~~~~~l~A~~~~~~g~~  323 (355)
T cd05804         244 GDRWEDLADYAAWHFPDHGLAFNDLHAALALAGAGDKDALDKLLAALKGRASSADDNKQPARDVGLPLAEALYAFAEGNY  323 (355)
T ss_pred             HHHHHHHHHHHHhhcCcccchHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhccCchhhhHHhhhHHHHHHHHHHHcCCH
Confidence            2222   11111100001111222245566778888999988887761  111   1      11222222345688999


Q ss_pred             hHHHHHHHHHHHcC
Q 012108          390 EIGDRVAKMVCAKS  403 (471)
Q Consensus       390 ~~a~~~~~~~~~~~  403 (471)
                      ++|.+.+.......
T Consensus       324 ~~A~~~L~~al~~a  337 (355)
T cd05804         324 ATALELLGPVRDDL  337 (355)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998877654

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.

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=99.01  E-value=9.5e-06  Score=73.31  Aligned_cols=392  Identities=11%  Similarity=0.119  Sum_probs=209.8

Q ss_pred             CCchhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHHcCCCHHHHHHHHhcCCCC--ChhhHHHHHHH
Q 012108           42 CGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFASCGQMDHAMKLIDLMPLK--DVTSFNIMISG  116 (471)
Q Consensus        42 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~l~~~  116 (471)
                      +-|..+|+.|++-+..+ .+++++..++++..  | .+..|..-|..-.+..+++...++|.+....  +...|..-+.-
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~Y   95 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNVFPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLSY   95 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHHH
Confidence            34666677776655544 66777777776654  2 4456666666666667777777766665533  44444433332


Q ss_pred             HH-hcCCHHHHH----HHHhhc------CCCChhhHHHHHHH---------HHhCCCHHHHHHHHHhccc-c--Ch----
Q 012108          117 YA-RIGKIHSAR----YIFDKV------PAKDVVSWNSLILA---------YTNAGEMEKAGEMFKKMLV-K--NV----  169 (471)
Q Consensus       117 ~~-~~g~~~~a~----~~~~~~------~~~~~~~~~~l~~~---------~~~~~~~~~A~~~~~~~~~-~--~~----  169 (471)
                      -. ..|+...+.    +.|+-.      -..+...|+..+..         |....+++..+++|+++.. |  |.    
T Consensus        96 VR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkLW  175 (656)
T KOG1914|consen   96 VRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKLW  175 (656)
T ss_pred             HHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHHH
Confidence            21 122222211    112111      11122334443332         4445567777778877732 2  11    


Q ss_pred             ---HHHHHHHHH-------HHhcCCHHHHHHHHHHHHh--CCCCCCHHH---------------HHHHHHHHHccCChH-
Q 012108          170 ---ITWNTMVTG-------YLRSQLYIEVVDLFDEMKA--GNVKPDYLT---------------VTSVLSACANLGSLE-  221 (471)
Q Consensus       170 ---~~~~~l~~~-------~~~~~~~~~a~~~~~~m~~--~g~~p~~~~---------------~~~l~~~~~~~~~~~-  221 (471)
                         ..|..=|+.       --+...+..|.++++++..  .|......+               |..+|.- .+.+-.+ 
T Consensus       176 ~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~w-EksNpL~t  254 (656)
T KOG1914|consen  176 KDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKW-EKSNPLRT  254 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHH-HhcCCccc
Confidence               112111111       1123346667777766643  233211111               2222221 1111111 


Q ss_pred             --------HHHHHHHHH-HHcCCCCchhHH-----HHHHHHHHhcCCh-------HHHHHHHhcCCC----CChhhHHHH
Q 012108          222 --------TGARIHVYA-TDNGLASNPHAT-----TALIDMYAKCGSI-------EQSLEVFYKSQV----KDVFCWNAM  276 (471)
Q Consensus       222 --------~a~~~~~~~-~~~~~~~~~~~~-----~~l~~~~~~~~~~-------~~a~~~~~~~~~----~~~~~~~~l  276 (471)
                              ...-++++. .-.+..|+....     ....+.+...|+.       +++..+++....    .+..+|..+
T Consensus       255 ~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~  334 (656)
T KOG1914|consen  255 LDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFAL  334 (656)
T ss_pred             ccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                    112222322 222333332211     1112233344443       344455544332    123333333


Q ss_pred             HHHHHhc---CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHh
Q 012108          277 ILGLALH---GYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLG  352 (471)
Q Consensus       277 ~~~~~~~---~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  352 (471)
                      ...--..   .+.+.....++++...-..--..+|..+++...+..-...|..+|.++.++ +..+ ++..+++++..|+
T Consensus       335 a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~-~r~~hhVfVa~A~mEy~c  413 (656)
T KOG1914|consen  335 ADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKARED-KRTRHHVFVAAALMEYYC  413 (656)
T ss_pred             HhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhc-cCCcchhhHHHHHHHHHh
Confidence            3221111   135566667777665422222356778888888888889999999999884 5555 6777888887665


Q ss_pred             hcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC--CCCCchhHHHHHHHHHhcCCHHHHH
Q 012108          353 RARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS--NYLSDGELMMFANLYASCGQWEEAN  428 (471)
Q Consensus       353 ~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~  428 (471)
                       .++.+-|.++|+--  .+..++.-....+.-+...++-..+..+|++.+...  ++-...+|..++..-..-|+.+.+.
T Consensus       414 -skD~~~AfrIFeLGLkkf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si~  492 (656)
T KOG1914|consen  414 -SKDKETAFRIFELGLKKFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSIL  492 (656)
T ss_pred             -cCChhHHHHHHHHHHHhcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHHH
Confidence             57788889988754  233334444666777788888899999999998873  2224578889998888889999888


Q ss_pred             HHHHHhhhC
Q 012108          429 RWRNMMNDT  437 (471)
Q Consensus       429 ~~~~~m~~~  437 (471)
                      ++-+++...
T Consensus       493 ~lekR~~~a  501 (656)
T KOG1914|consen  493 KLEKRRFTA  501 (656)
T ss_pred             HHHHHHHHh
Confidence            887777553

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.01  E-value=4.6e-06  Score=80.62  Aligned_cols=372  Identities=13%  Similarity=0.105  Sum_probs=220.1

Q ss_pred             HHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHH
Q 012108           16 LLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHA   95 (471)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A   95 (471)
                      |..-+-+++++.--...++..++.|.+ |..++|++...|...++-.+-  ++.+    +..--+..+.-||..+++.-|
T Consensus       844 Lv~EvEkRNRLklLlp~LE~~i~eG~~-d~a~hnAlaKIyIDSNNnPE~--fLke----N~yYDs~vVGkYCEKRDP~lA  916 (1666)
T KOG0985|consen  844 LVEEVEKRNRLKLLLPWLESLIQEGSQ-DPATHNALAKIYIDSNNNPER--FLKE----NPYYDSKVVGKYCEKRDPHLA  916 (1666)
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHhccCc-chHHHhhhhheeecCCCChHH--hccc----CCcchhhHHhhhhcccCCceE
Confidence            333444555555566666777777744 778888888888766543321  1111    111112233334444444333


Q ss_pred             HHHHhcCCCC--------ChhhHHHHHHHHHhcCCHHHHHHHHh-----------hc----C--CCChhhHHHHHHHHHh
Q 012108           96 MKLIDLMPLK--------DVTSFNIMISGYARIGKIHSARYIFD-----------KV----P--AKDVVSWNSLILAYTN  150 (471)
Q Consensus        96 ~~~~~~~~~~--------~~~~~~~l~~~~~~~g~~~~a~~~~~-----------~~----~--~~~~~~~~~l~~~~~~  150 (471)
                      .-.+++-.-.        ....|-...+-+....+.+.-.+++.           +.    .  ..|+...+.-+.++..
T Consensus       917 ~vaYerGqcD~elI~vcNeNSlfK~~aRYlv~R~D~~LW~~VL~e~n~~rRqLiDqVv~tal~E~~dPe~vS~tVkAfMt  996 (1666)
T KOG0985|consen  917 CVAYERGQCDLELINVCNENSLFKSQARYLVERSDPDLWAKVLNEENPYRRQLIDQVVQTALPETQDPEEVSVTVKAFMT  996 (1666)
T ss_pred             EEeecccCCcHHHHHhcCchhHHHHHHHHHHhccChHHHHHHHhccChHHHHHHHHHHHhcCCccCChHHHHHHHHHHHh
Confidence            3323222211        11123333333333333333222221           11    1  1355666666777777


Q ss_pred             CCCHHHHHHHHHhc-cccCh-----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHH
Q 012108          151 AGEMEKAGEMFKKM-LVKNV-----ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGA  224 (471)
Q Consensus       151 ~~~~~~A~~~~~~~-~~~~~-----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~  224 (471)
                      .+-..+-.++++++ ..+++     ..-|.|+-...+. +..++.+..+++-.-. .|+.      ...+...+-+++|.
T Consensus       997 adLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rLdnyD-a~~i------a~iai~~~LyEEAF 1068 (1666)
T KOG0985|consen  997 ADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRLDNYD-APDI------AEIAIENQLYEEAF 1068 (1666)
T ss_pred             cCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHhccCC-chhH------HHHHhhhhHHHHHH
Confidence            77777888888777 33322     2233344333333 3455666666654432 2222      22344555667777


Q ss_pred             HHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 012108          225 RIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKAD  304 (471)
Q Consensus       225 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  304 (471)
                      .+|+..     ..+....+.|+.   .-+.++.|.++-++..+  +..|..+..+-.+.|...+|++-|-+.      -|
T Consensus      1069 ~ifkkf-----~~n~~A~~VLie---~i~~ldRA~efAe~~n~--p~vWsqlakAQL~~~~v~dAieSyika------dD 1132 (1666)
T KOG0985|consen 1069 AIFKKF-----DMNVSAIQVLIE---NIGSLDRAYEFAERCNE--PAVWSQLAKAQLQGGLVKDAIESYIKA------DD 1132 (1666)
T ss_pred             HHHHHh-----cccHHHHHHHHH---HhhhHHHHHHHHHhhCC--hHHHHHHHHHHHhcCchHHHHHHHHhc------CC
Confidence            777654     334444444443   34667777777666544  457888888888888888888776542      26


Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACV  384 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~  384 (471)
                      +..|..++..+.+.|.+++-..++..+++ ..-.|...  +.|+-+|++.+++.+.++++    ..|+......+..-|.
T Consensus      1133 ps~y~eVi~~a~~~~~~edLv~yL~MaRk-k~~E~~id--~eLi~AyAkt~rl~elE~fi----~gpN~A~i~~vGdrcf 1205 (1666)
T KOG0985|consen 1133 PSNYLEVIDVASRTGKYEDLVKYLLMARK-KVREPYID--SELIFAYAKTNRLTELEEFI----AGPNVANIQQVGDRCF 1205 (1666)
T ss_pred             cHHHHHHHHHHHhcCcHHHHHHHHHHHHH-hhcCccch--HHHHHHHHHhchHHHHHHHh----cCCCchhHHHHhHHHh
Confidence            67788889999999999988888888777 35555544  46788888888887766654    3577777778888888


Q ss_pred             hcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          385 IHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       385 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      ..|.++.|.-++.         +...|..|+..+...|.+..|.+.-++.
T Consensus      1206 ~~~~y~aAkl~y~---------~vSN~a~La~TLV~LgeyQ~AVD~aRKA 1246 (1666)
T KOG0985|consen 1206 EEKMYEAAKLLYS---------NVSNFAKLASTLVYLGEYQGAVDAARKA 1246 (1666)
T ss_pred             hhhhhHHHHHHHH---------HhhhHHHHHHHHHHHHHHHHHHHHhhhc
Confidence            8888888877765         4567777777777777777776554444

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

Probab=98.99  E-value=3.2e-08  Score=89.52  Aligned_cols=217  Identities=13%  Similarity=0.059  Sum_probs=175.4

Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHH
Q 012108          213 ACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAA  289 (471)
Q Consensus       213 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  289 (471)
                      -+.+.|++.+|.-.|+..++.. |-+...|..|.......++-..|+..+++..+   .|..+...|.-.|...|.-.+|
T Consensus       294 ~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~LdP~NleaLmaLAVSytNeg~q~~A  372 (579)
T KOG1125|consen  294 NLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELDPTNLEALMALAVSYTNEGLQNQA  372 (579)
T ss_pred             HHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcCCccHHHHHHHHHHHhhhhhHHHH
Confidence            3457888999999999998886 77888999999999999998888888887655   4667788888889999999999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHH-----------HHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHH
Q 012108          290 LKLLGEMNDSCVKADDITFIGLL-----------SACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLD  358 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~-----------~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  358 (471)
                      .+.|+.-+...  |.   |..+.           ..+.....+....++|-++....+..+|+..+..|.-.|--.|+++
T Consensus       373 l~~L~~Wi~~~--p~---y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efd  447 (579)
T KOG1125|consen  373 LKMLDKWIRNK--PK---YVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFD  447 (579)
T ss_pred             HHHHHHHHHhC--cc---chhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHH
Confidence            99998876542  11   00000           1222333455566777777665666688999999999999999999


Q ss_pred             HHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          359 RAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       359 ~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      +|...|+.+ .++| |..+||-|...++...+.++|+..+.+++++.|. -+.+...|+-.|...|.+.+|.+.|-..+.
T Consensus       448 raiDcf~~AL~v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~-yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~  526 (579)
T KOG1125|consen  448 RAVDCFEAALQVKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPG-YVRVRYNLGISCMNLGAYKEAVKHLLEALS  526 (579)
T ss_pred             HHHHHHHHHHhcCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCC-eeeeehhhhhhhhhhhhHHHHHHHHHHHHH
Confidence            999999987 5666 6789999999999999999999999999999999 788999999999999999999998876654

>KOG0985 consensus Vesicle coat protein clathrin, heavy chain [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.95  E-value=1.4e-05  Score=77.45  Aligned_cols=365  Identities=16%  Similarity=0.163  Sum_probs=207.9

Q ss_pred             HHHHHHHHhccCC--chhHHHHHHHHHhccCCHhHHHHHhcccC-CCCcc-----cHHHHHHHHHcCCCHHHHHHHHhcC
Q 012108           31 MLHGQTIKTGFCG--HVYVQTALLKMYGSLRCIDDAFKVFEKMP-EKDII-----AWNSMLDAFASCGQMDHAMKLIDLM  102 (471)
Q Consensus        31 ~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~~~~-----~~~~li~~~~~~g~~~~A~~~~~~~  102 (471)
                      ++.++..+.+++.  |+..-+.-+.++...+-..+-+++++++. ++++.     .-|.|+-...+. +..+..+..+++
T Consensus       968 qLiDqVv~tal~E~~dPe~vS~tVkAfMtadLp~eLIELLEKIvL~~S~Fse~~nLQnLLiLtAika-d~trVm~YI~rL 1046 (1666)
T KOG0985|consen  968 QLIDQVVQTALPETQDPEEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSENRNLQNLLILTAIKA-DRTRVMEYINRL 1046 (1666)
T ss_pred             HHHHHHHHhcCCccCChHHHHHHHHHHHhcCCcHHHHHHHHHHhcCCcccccchhhhhhHHHHHhhc-ChHHHHHHHHHh
Confidence            3445555544432  44445556677777777777777777764 33332     234444444443 445556666555


Q ss_pred             CCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhc
Q 012108          103 PLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRS  182 (471)
Q Consensus       103 ~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~  182 (471)
                      ..-|..   .+...+...+-+++|..+|++.. .+......|++   .-+++++|.++-+++.+|  ..|..+..+-.+.
T Consensus      1047 dnyDa~---~ia~iai~~~LyEEAF~ifkkf~-~n~~A~~VLie---~i~~ldRA~efAe~~n~p--~vWsqlakAQL~~ 1117 (1666)
T KOG0985|consen 1047 DNYDAP---DIAEIAIENQLYEEAFAIFKKFD-MNVSAIQVLIE---NIGSLDRAYEFAERCNEP--AVWSQLAKAQLQG 1117 (1666)
T ss_pred             ccCCch---hHHHHHhhhhHHHHHHHHHHHhc-ccHHHHHHHHH---HhhhHHHHHHHHHhhCCh--HHHHHHHHHHHhc
Confidence            433322   34455566666777777776652 12222222221   234555555555554433  4566666666666


Q ss_pred             CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHH
Q 012108          183 QLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVF  262 (471)
Q Consensus       183 ~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  262 (471)
                      |...+|.+-|-+      ..|...|..+++.+.+.|.+++-.+++..+++..-+|.  +-+.|+-+|.+.+++.+.++++
T Consensus      1118 ~~v~dAieSyik------adDps~y~eVi~~a~~~~~~edLv~yL~MaRkk~~E~~--id~eLi~AyAkt~rl~elE~fi 1189 (1666)
T KOG0985|consen 1118 GLVKDAIESYIK------ADDPSNYLEVIDVASRTGKYEDLVKYLLMARKKVREPY--IDSELIFAYAKTNRLTELEEFI 1189 (1666)
T ss_pred             CchHHHHHHHHh------cCCcHHHHHHHHHHHhcCcHHHHHHHHHHHHHhhcCcc--chHHHHHHHHHhchHHHHHHHh
Confidence            666666655432      13445566666666666666666666666655543332  2344556666666665555444


Q ss_pred             hcCCC-----------------------CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 012108          263 YKSQV-----------------------KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAG  319 (471)
Q Consensus       263 ~~~~~-----------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  319 (471)
                      ..-..                       .++.-|..|...+...|++..|...-++..      +..||..+-.+|...+
T Consensus      1190 ~gpN~A~i~~vGdrcf~~~~y~aAkl~y~~vSN~a~La~TLV~LgeyQ~AVD~aRKAn------s~ktWK~VcfaCvd~~ 1263 (1666)
T KOG0985|consen 1190 AGPNVANIQQVGDRCFEEKMYEAAKLLYSNVSNFAKLASTLVYLGEYQGAVDAARKAN------STKTWKEVCFACVDKE 1263 (1666)
T ss_pred             cCCCchhHHHHhHHHhhhhhhHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhcc------chhHHHHHHHHHhchh
Confidence            21000                       134557777777888888877776555432      5568888888888776


Q ss_pred             cHHHHHHHHHHhHHhcCCC--CChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHhhcCCchHHHHH
Q 012108          320 LVQEGCELFSRMEKDFGVT--RKLEHYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACVIHQDLEIGDRV  395 (471)
Q Consensus       320 ~~~~a~~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~  395 (471)
                      .+.-|.     +   +|+.  ....-...++..|...|-+++...+++.. |+. .....|+-|.-.|++- .+++..+.
T Consensus      1264 EFrlAQ-----i---CGL~iivhadeLeeli~~Yq~rGyFeElIsl~Ea~LGLERAHMgmfTELaiLYsky-kp~km~EH 1334 (1666)
T KOG0985|consen 1264 EFRLAQ-----I---CGLNIIVHADELEELIEYYQDRGYFEELISLLEAGLGLERAHMGMFTELAILYSKY-KPEKMMEH 1334 (1666)
T ss_pred             hhhHHH-----h---cCceEEEehHhHHHHHHHHHhcCcHHHHHHHHHhhhchhHHHHHHHHHHHHHHHhc-CHHHHHHH
Confidence            654442     1   2332  34555677899999999999999999876 433 3455666666666554 45555555


Q ss_pred             HHHHHHcCCCC-------CchhHHHHHHHHHhcCCHHHHH
Q 012108          396 AKMVCAKSNYL-------SDGELMMFANLYASCGQWEEAN  428 (471)
Q Consensus       396 ~~~~~~~~~~~-------~~~~~~~l~~~~~~~g~~~~A~  428 (471)
                      ++-....-.-|       ....|..+.-.|.+-..|+.|.
T Consensus      1335 l~LFwsRvNipKviRA~eqahlW~ElvfLY~~y~eyDNAa 1374 (1666)
T KOG0985|consen 1335 LKLFWSRVNIPKVIRAAEQAHLWSELVFLYDKYEEYDNAA 1374 (1666)
T ss_pred             HHHHHHhcchHHHHHHHHHHHHHHHHHHHHHhhhhhhHHH
Confidence            54443321110       2446666777777777777664

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

Probab=98.95  E-value=1.2e-07  Score=93.97  Aligned_cols=203  Identities=13%  Similarity=0.080  Sum_probs=153.7

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC--------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 012108          236 ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK--------DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDIT  307 (471)
Q Consensus       236 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  307 (471)
                      |.+...|-.+|......++.++|.++.++....        -...|.+++..-...|.-+...++|+++.+.  --....
T Consensus      1455 PNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqy--cd~~~V 1532 (1710)
T KOG1070|consen 1455 PNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQY--CDAYTV 1532 (1710)
T ss_pred             CCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHh--cchHHH
Confidence            556667888888888888888888888765541        2356777777777778778888888888764  222345


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHhHHHHHHHHH
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP---TESILGALLSAC  383 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~~  383 (471)
                      |..|...|.+.++.++|.++++.|.+.++  -....|..+++.+.+..+-++|.+++.++ ..-|   ........+..-
T Consensus      1533 ~~~L~~iy~k~ek~~~A~ell~~m~KKF~--q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1533 HLKLLGIYEKSEKNDEADELLRLMLKKFG--QTRKVWIMYADFLLRQNEAEAARELLKRALKSLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHHhhcchhHHHHHHHHHHHhc--chhhHHHHHHHHHhcccHHHHHHHHHHHHHhhcchhhhHHHHHHHHHHH
Confidence            77788888888888888888888888544  56677888888888888888888888776 2223   344444555556


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccC
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTA  443 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  443 (471)
                      .+.||.+++..+|+..+...|+ -...|+.+++.-.+.|+.+.++.+|+++...+..+..
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPK-RtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kk 1669 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPK-RTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKK 1669 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCcc-chhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhH
Confidence            6888888888888888888888 7888888888888888888888888888877776543

>PRK04841 transcriptional regulator MalT; Provisional

Probab=98.94  E-value=6.2e-06  Score=85.90  Aligned_cols=351  Identities=8%  Similarity=-0.026  Sum_probs=222.4

Q ss_pred             HHHhccCCHhHHHHHhcccCCCCcc--cHHHHHHHHHcCCCHHHHHHHHhcCCCC----ChhhHHHHHHHHHhcCCHHHH
Q 012108           53 KMYGSLRCIDDAFKVFEKMPEKDII--AWNSMLDAFASCGQMDHAMKLIDLMPLK----DVTSFNIMISGYARIGKIHSA  126 (471)
Q Consensus        53 ~~~~~~g~~~~A~~~~~~~~~~~~~--~~~~li~~~~~~g~~~~A~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~a  126 (471)
                      ..+...|++.+|.............  ........+...|+++.+..+++.+...    ++.........+...|+++++
T Consensus       349 ~~~~~~g~~~~Al~~a~~a~d~~~~~~ll~~~a~~l~~~g~~~~l~~~l~~lp~~~~~~~~~l~~~~a~~~~~~g~~~~a  428 (903)
T PRK04841        349 EAWLAQGFPSEAIHHALAAGDAQLLRDILLQHGWSLFNQGELSLLEECLNALPWEVLLENPRLVLLQAWLAQSQHRYSEV  428 (903)
T ss_pred             HHHHHCCCHHHHHHHHHHCCCHHHHHHHHHHhHHHHHhcCChHHHHHHHHhCCHHHHhcCcchHHHHHHHHHHCCCHHHH
Confidence            3344455555555544444332111  1112233455678888888888777421    444445556667788999999


Q ss_pred             HHHHhhcCC----C----C----hhhHHHHHHHHHhCCCHHHHHHHHHhccc--c--Ch----HHHHHHHHHHHhcCCHH
Q 012108          127 RYIFDKVPA----K----D----VVSWNSLILAYTNAGEMEKAGEMFKKMLV--K--NV----ITWNTMVTGYLRSQLYI  186 (471)
Q Consensus       127 ~~~~~~~~~----~----~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~--~~----~~~~~l~~~~~~~~~~~  186 (471)
                      ...+.....    .    +    ......+...+...|++++|...+++...  +  +.    ...+.+...+...|+++
T Consensus       429 ~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~a~~~lg~~~~~~G~~~  508 (903)
T PRK04841        429 NTLLARAEQELKDRNIELDGTLQAEFNALRAQVAINDGDPEEAERLAELALAELPLTWYYSRIVATSVLGEVHHCKGELA  508 (903)
T ss_pred             HHHHHHHHHhccccCcccchhHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccHHHHHHHHHHHHHHHHHcCCHH
Confidence            888876521    1    1    11222234556789999999999988632  1  21    24556667788899999


Q ss_pred             HHHHHHHHHHhCCC---CCC--HHHHHHHHHHHHccCChHHHHHHHHHHHHc----CCC--C-chhHHHHHHHHHHhcCC
Q 012108          187 EVVDLFDEMKAGNV---KPD--YLTVTSVLSACANLGSLETGARIHVYATDN----GLA--S-NPHATTALIDMYAKCGS  254 (471)
Q Consensus       187 ~a~~~~~~m~~~g~---~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~  254 (471)
                      +|...+++......   .+.  ..++..+...+...|+++.|...+++....    +..  + ....+..+...+...|+
T Consensus       509 ~A~~~~~~al~~~~~~g~~~~~~~~~~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~G~  588 (903)
T PRK04841        509 RALAMMQQTEQMARQHDVYHYALWSLLQQSEILFAQGFLQAAYETQEKAFQLIEEQHLEQLPMHEFLLRIRAQLLWEWAR  588 (903)
T ss_pred             HHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccccHHHHHHHHHHHHHHHhcC
Confidence            99999988764311   111  234455666778899999999998886542    211  1 23345566677888899


Q ss_pred             hHHHHHHHhcCCC------C--ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC--CCCCHH--HH--HHHHHHHhccCc
Q 012108          255 IEQSLEVFYKSQV------K--DVFCWNAMILGLALHGYGYAALKLLGEMNDSC--VKADDI--TF--IGLLSACSHAGL  320 (471)
Q Consensus       255 ~~~a~~~~~~~~~------~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~p~~~--~~--~~l~~~~~~~~~  320 (471)
                      +++|...+.+...      +  ....+..+...+...|++++|...+.+.....  ......  ..  ...+..+...|+
T Consensus       589 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~G~~~~A~~~l~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~  668 (903)
T PRK04841        589 LDEAEQCARKGLEVLSNYQPQQQLQCLAMLAKISLARGDLDNARRYLNRLENLLGNGRYHSDWIANADKVRLIYWQMTGD  668 (903)
T ss_pred             HHHHHHHHHHhHHhhhccCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccHhHhhHHHHHHHHHHHHCCC
Confidence            9999988876532      1  12344456667888999999999998875421  111111  11  111233455789


Q ss_pred             HHHHHHHHHHhHHhcCCCCChh----HHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HhHHHHHHHHHhhcCC
Q 012108          321 VQEGCELFSRMEKDFGVTRKLE----HYGCMVDLLGRARLLDRAIELIEAM-------PFEPT-ESILGALLSACVIHQD  388 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~~~~----~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~~~l~~~~~~~g~  388 (471)
                      .+.|...+.....  .......    .+..+..++...|++++|...+++.       +..++ ..+...+..++...|+
T Consensus       669 ~~~A~~~l~~~~~--~~~~~~~~~~~~~~~~a~~~~~~g~~~~A~~~l~~al~~~~~~g~~~~~a~~~~~la~a~~~~G~  746 (903)
T PRK04841        669 KEAAANWLRQAPK--PEFANNHFLQGQWRNIARAQILLGQFDEAEIILEELNENARSLRLMSDLNRNLILLNQLYWQQGR  746 (903)
T ss_pred             HHHHHHHHHhcCC--CCCccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHHHcCC
Confidence            9999988777654  1111111    1345677788999999999988876       22222 3456667778889999


Q ss_pred             chHHHHHHHHHHHcCCC
Q 012108          389 LEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~  405 (471)
                      .++|...+.++.+....
T Consensus       747 ~~~A~~~L~~Al~la~~  763 (903)
T PRK04841        747 KSEAQRVLLEALKLANR  763 (903)
T ss_pred             HHHHHHHHHHHHHHhCc
Confidence            99999999999987654

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

Probab=98.93  E-value=7.8e-08  Score=87.07  Aligned_cols=250  Identities=11%  Similarity=-0.008  Sum_probs=188.5

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 012108          177 TGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIE  256 (471)
Q Consensus       177 ~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  256 (471)
                      .-+.+.|+..+|.-.|+...+.. +-+...|..|.......++-..|+..+++..+.. +.+......|.-.|...|.-.
T Consensus       293 ~~lm~nG~L~~A~LafEAAVkqd-P~haeAW~~LG~~qaENE~E~~ai~AL~rcl~Ld-P~NleaLmaLAVSytNeg~q~  370 (579)
T KOG1125|consen  293 CNLMKNGDLSEAALAFEAAVKQD-PQHAEAWQKLGITQAENENEQNAISALRRCLELD-PTNLEALMALAVSYTNEGLQN  370 (579)
T ss_pred             HHHHhcCCchHHHHHHHHHHhhC-hHHHHHHHHhhhHhhhccchHHHHHHHHHHHhcC-CccHHHHHHHHHHHhhhhhHH
Confidence            44678889999999999888764 4456788888888888888899999999999886 677888889999999999999


Q ss_pred             HHHHHHhcCCCC-ChhhHHHHH---------HHHHhcCChHHHHHHHHHHH-hCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 012108          257 QSLEVFYKSQVK-DVFCWNAMI---------LGLALHGYGYAALKLLGEMN-DSCVKADDITFIGLLSACSHAGLVQEGC  325 (471)
Q Consensus       257 ~a~~~~~~~~~~-~~~~~~~l~---------~~~~~~~~~~~a~~~~~~~~-~~~~~p~~~~~~~l~~~~~~~~~~~~a~  325 (471)
                      .|.+.+++-... ....|....         ..+.....+....++|-++. ..+..+|+.....|.-.|.-.|++++|.
T Consensus       371 ~Al~~L~~Wi~~~p~y~~l~~a~~~~~~~~~~s~~~~~~l~~i~~~fLeaa~~~~~~~DpdvQ~~LGVLy~ls~efdrai  450 (579)
T KOG1125|consen  371 QALKMLDKWIRNKPKYVHLVSAGENEDFENTKSFLDSSHLAHIQELFLEAARQLPTKIDPDVQSGLGVLYNLSGEFDRAV  450 (579)
T ss_pred             HHHHHHHHHHHhCccchhccccCccccccCCcCCCCHHHHHHHHHHHHHHHHhCCCCCChhHHhhhHHHHhcchHHHHHH
Confidence            999888753210 000000000         12222223445555555554 4455578888888888889999999999


Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          326 ELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       326 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      ..|+.+..  --+-|...||.|...++...+.++|+..|++. .++|. +.+...|.-+|...|.+++|.+.|-.++...
T Consensus       451 Dcf~~AL~--v~Pnd~~lWNRLGAtLAN~~~s~EAIsAY~rALqLqP~yVR~RyNlgIS~mNlG~ykEA~~hlL~AL~mq  528 (579)
T KOG1125|consen  451 DCFEAALQ--VKPNDYLLWNRLGATLANGNRSEEAISAYNRALQLQPGYVRVRYNLGISCMNLGAYKEAVKHLLEALSMQ  528 (579)
T ss_pred             HHHHHHHh--cCCchHHHHHHhhHHhcCCcccHHHHHHHHHHHhcCCCeeeeehhhhhhhhhhhhHHHHHHHHHHHHHhh
Confidence            99999997  34457889999999999999999999999998 77886 5678888999999999999999998877653


Q ss_pred             CC---------CCchhHHHHHHHHHhcCCHHHHHHH
Q 012108          404 NY---------LSDGELMMFANLYASCGQWEEANRW  430 (471)
Q Consensus       404 ~~---------~~~~~~~~l~~~~~~~g~~~~A~~~  430 (471)
                      +.         ++..+|..|=.++.-.++.+-+.+.
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            22         2345777777777777877755544

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

Probab=98.92  E-value=2e-07  Score=76.72  Aligned_cols=150  Identities=9%  Similarity=-0.013  Sum_probs=109.8

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCH
Q 012108          278 LGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL  357 (471)
Q Consensus       278 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  357 (471)
                      ..|...|+++.+....+.+..    |.        ..+...++.+++...++...+  ..+.+...|..+...|...|++
T Consensus        24 ~~Y~~~g~~~~v~~~~~~~~~----~~--------~~~~~~~~~~~~i~~l~~~L~--~~P~~~~~w~~Lg~~~~~~g~~   89 (198)
T PRK10370         24 GSYLLSPKWQAVRAEYQRLAD----PL--------HQFASQQTPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWRNDY   89 (198)
T ss_pred             HHHHHcchHHHHHHHHHHHhC----cc--------ccccCchhHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCH
Confidence            456777777766444332221    11        012235666777777777776  4566788888888888889999


Q ss_pred             HHHHHHHHhC-CCCC-CHhHHHHHHHHH-hhcCC--chHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHH
Q 012108          358 DRAIELIEAM-PFEP-TESILGALLSAC-VIHQD--LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRN  432 (471)
Q Consensus       358 ~~A~~~~~~~-~~~p-~~~~~~~l~~~~-~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  432 (471)
                      ++|...|++. ...| +...+..+..++ ...|+  .++|.++++++++.+|. ++..+..++..+.+.|++++|+..|+
T Consensus        90 ~~A~~a~~~Al~l~P~~~~~~~~lA~aL~~~~g~~~~~~A~~~l~~al~~dP~-~~~al~~LA~~~~~~g~~~~Ai~~~~  168 (198)
T PRK10370         90 DNALLAYRQALQLRGENAELYAALATVLYYQAGQHMTPQTREMIDKALALDAN-EVTALMLLASDAFMQADYAQAIELWQ  168 (198)
T ss_pred             HHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHhCCC-ChhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            9999888887 4445 566777777764 56676  48899999999999998 88899999999999999999999999


Q ss_pred             HhhhCCCccc
Q 012108          433 MMNDTGIVKT  442 (471)
Q Consensus       433 ~m~~~~~~~~  442 (471)
                      ++.+..++.+
T Consensus       169 ~aL~l~~~~~  178 (198)
T PRK10370        169 KVLDLNSPRV  178 (198)
T ss_pred             HHHhhCCCCc
Confidence            9888766543

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.90  E-value=6e-06  Score=79.83  Aligned_cols=415  Identities=11%  Similarity=0.020  Sum_probs=217.1

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCC-----cccHHHHHHHH
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKD-----IIAWNSMLDAF   86 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-----~~~~~~li~~~   86 (471)
                      .|..|-..|....+...|.+.|+...+.. ..+...+......|++..+++.|..+.-...+.+     ...|..+.-.|
T Consensus       494 af~~LG~iYrd~~Dm~RA~kCf~KAFeLD-atdaeaaaa~adtyae~~~we~a~~I~l~~~qka~a~~~k~nW~~rG~yy  572 (1238)
T KOG1127|consen  494 AFAFLGQIYRDSDDMKRAKKCFDKAFELD-ATDAEAAAASADTYAEESTWEEAFEICLRAAQKAPAFACKENWVQRGPYY  572 (1238)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhcCC-chhhhhHHHHHHHhhccccHHHHHHHHHHHhhhchHHHHHhhhhhccccc
Confidence            45555566665556667777777666654 3355666677777777777777776633322211     12233344446


Q ss_pred             HcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChh-hHH--HHHHHHHhCCCHHHHHHH
Q 012108           87 ASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVV-SWN--SLILAYTNAGEMEKAGEM  160 (471)
Q Consensus        87 ~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~--~l~~~~~~~~~~~~A~~~  160 (471)
                      .+.++...|+.-|+...+.   |...|..+..+|...|++..|.++|.++...++. .|.  -..-..+..|.+.+|.+.
T Consensus       573 Lea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y~~fk~A~~ecd~GkYkeald~  652 (1238)
T KOG1127|consen  573 LEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKYGRFKEAVMECDNGKYKEALDA  652 (1238)
T ss_pred             cCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHHHHHHHHHHHHHhhhHHHHHHH
Confidence            6667777777777666544   4456667777888888888888888777443322 121  122334566777777777


Q ss_pred             HHhcccc----------ChHHHHHHHHHHHhcCCHHHHHHHHHHHH-------hCCCCCCHHHHHHHHHH----------
Q 012108          161 FKKMLVK----------NVITWNTMVTGYLRSQLYIEVVDLFDEMK-------AGNVKPDYLTVTSVLSA----------  213 (471)
Q Consensus       161 ~~~~~~~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~-------~~g~~p~~~~~~~l~~~----------  213 (471)
                      +..++..          -..++-.+...+...|=...+...+++.+       ......+...|-.+-.+          
T Consensus       653 l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~~~~~Wi~asdac~~f~q~e~~  732 (1238)
T KOG1127|consen  653 LGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQSDRLQWIVASDACYIFSQEEPS  732 (1238)
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhhhHHHHHHHhHHHHHHHHhccc
Confidence            7665211          11122222222222222222222222211       11111111111111111          


Q ss_pred             -------------HHccCCh---H---HHHHHHHHHHHcCCCCchhHHHHHHHHHHh----cC----ChHHHHHHHhcCC
Q 012108          214 -------------CANLGSL---E---TGARIHVYATDNGLASNPHATTALIDMYAK----CG----SIEQSLEVFYKSQ  266 (471)
Q Consensus       214 -------------~~~~~~~---~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~----~~~~a~~~~~~~~  266 (471)
                                   ....+..   +   -+.+.+-.-.+  ...++..|..|+..|.+    .+    +...|+..+.+..
T Consensus       733 ~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~WyNLGinylr~f~~l~et~~~~~~Ai~c~KkaV  810 (1238)
T KOG1127|consen  733 IVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPWYNLGINYLRYFLLLGETMKDACTAIRCCKKAV  810 (1238)
T ss_pred             chHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchHHHHhHHHHHHHHHcCCcchhHHHHHHHHHHHH
Confidence                         1111111   1   01111111111  11223333334433332    11    2234556665533


Q ss_pred             C---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhH
Q 012108          267 V---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEH  343 (471)
Q Consensus       267 ~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  343 (471)
                      +   .+...|+.|.-. ...|.+.-+...|-+-.... +-...+|..+.-.+.+..+++.|.+.|.....  -.+.+...
T Consensus       811 ~L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~se-p~~~~~W~NlgvL~l~n~d~E~A~~af~~~qS--LdP~nl~~  886 (1238)
T KOG1127|consen  811 SLCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSE-PTCHCQWLNLGVLVLENQDFEHAEPAFSSVQS--LDPLNLVQ  886 (1238)
T ss_pred             HHhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhcc-ccchhheeccceeEEecccHHHhhHHHHhhhh--cCchhhHH
Confidence            3   455667666554 55566666666666655442 33455677777777888888888888888876  34445666


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHhHHHHHHHHHhhcCCch----------HHHHHHHHHHHcCCCC
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-------PFEPTESILGALLSACVIHQDLE----------IGDRVAKMVCAKSNYL  406 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~l~~~~~~~g~~~----------~a~~~~~~~~~~~~~~  406 (471)
                      |..........|+.-++..+|..-       +--|+..-|.....-....|+.+          .|--.+++.....|+ 
T Consensus       887 WlG~Ali~eavG~ii~~~~lfaHs~el~~~~gka~~f~Yw~c~te~h~~Ng~~e~~I~t~~ki~sAs~al~~yf~~~p~-  965 (1238)
T KOG1127|consen  887 WLGEALIPEAVGRIIERLILFAHSDELCSKEGKAKKFQYWLCATEIHLQNGNIEESINTARKISSASLALSYYFLGHPQ-  965 (1238)
T ss_pred             HHHHHHhHHHHHHHHHHHHHHHhhHHhhccccccchhhHHHHHHHHHHhccchHHHHHHhhhhhhhHHHHHHHHhcCcc-
Confidence            655555556677777777777652       22334333333333334444443          344455566666777 


Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          407 SDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       407 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      +...|...+....+.+.+.+|.+...+.
T Consensus       966 ~~fAy~~~gstlEhL~ey~~a~ela~Rl  993 (1238)
T KOG1127|consen  966 LCFAYAANGSTLEHLEEYRAALELATRL  993 (1238)
T ss_pred             hhHHHHHHHhHHHHHHHHHHHHHHHHHH
Confidence            7778888888888888777776666554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.90  E-value=1.9e-07  Score=80.13  Aligned_cols=184  Identities=7%  Similarity=-0.058  Sum_probs=121.2

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-Ch---hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----
Q 012108          236 ASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-DV---FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD----  305 (471)
Q Consensus       236 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~----  305 (471)
                      +.....+..++..+...|++++|...|+++..  | +.   .++..+..++...|++++|...++++.+.  .|+.    
T Consensus        30 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~a~~~la~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~  107 (235)
T TIGR03302        30 EWPAEELYEEAKEALDSGDYTEAIKYFEALESRYPFSPYAEQAQLDLAYAYYKSGDYAEAIAAADRFIRL--HPNHPDAD  107 (235)
T ss_pred             cCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchhHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCchH
Confidence            34556677777788888888888888876554  2 22   35566777788888888888888888765  2321    


Q ss_pred             HHHHHHHHHHhcc--------CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHH
Q 012108          306 ITFIGLLSACSHA--------GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILG  377 (471)
Q Consensus       306 ~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~  377 (471)
                      .++..+..++...        |+.+.|.+.++.+.+.  .+.+...+..+.....    .....           .....
T Consensus       108 ~a~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~~~----~~~~~-----------~~~~~  170 (235)
T TIGR03302       108 YAYYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRMDY----LRNRL-----------AGKEL  170 (235)
T ss_pred             HHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHHHH----HHHHH-----------HHHHH
Confidence            1344444555443        6677788888877762  2223323322221111    00000           00112


Q ss_pred             HHHHHHhhcCCchHHHHHHHHHHHcCCC-C-CchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          378 ALLSACVIHQDLEIGDRVAKMVCAKSNY-L-SDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       378 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      .+...+.+.|++++|...++++++..|. | .+..+..++.++.+.|++++|..+++.+....
T Consensus       171 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~  233 (235)
T TIGR03302       171 YVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANY  233 (235)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            4566788999999999999999998775 1 35788999999999999999999999886544

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).

>KOG1127 consensus TPR repeat-containing protein [RNA processing and modification]

Probab=98.83  E-value=2.8e-06  Score=82.06  Aligned_cols=389  Identities=13%  Similarity=0.017  Sum_probs=211.9

Q ss_pred             hhHHHHHHHHHHHhccCCc-hhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHHHHHHHHhc
Q 012108           26 SCIGLMLHGQTIKTGFCGH-VYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAMKLIDL  101 (471)
Q Consensus        26 ~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~~~~~~  101 (471)
                      ...|...|-+.++..  ++ ...|..|...|+...+...|.+.|+...+   .+...+....+.|++..+++.|..+.-.
T Consensus       474 ~~~al~ali~alrld--~~~apaf~~LG~iYrd~~Dm~RA~kCf~KAFeLDatdaeaaaa~adtyae~~~we~a~~I~l~  551 (1238)
T KOG1127|consen  474 SALALHALIRALRLD--VSLAPAFAFLGQIYRDSDDMKRAKKCFDKAFELDATDAEAAAASADTYAEESTWEEAFEICLR  551 (1238)
T ss_pred             HHHHHHHHHHHHhcc--cchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCchhhhhHHHHHHHhhccccHHHHHHHHHH
Confidence            444444444444432  33 24678888888877788888888887664   4667788888999999999999887433


Q ss_pred             CCCCC-----hhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHH-H
Q 012108          102 MPLKD-----VTSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVIT-W  172 (471)
Q Consensus       102 ~~~~~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~  172 (471)
                      .-+.+     ...|....-.+...++..+|..-|+....   .|...|..+..+|.++|.+..|.++|.+...-++.. |
T Consensus       552 ~~qka~a~~~k~nW~~rG~yyLea~n~h~aV~~fQsALR~dPkD~n~W~gLGeAY~~sGry~~AlKvF~kAs~LrP~s~y  631 (1238)
T KOG1127|consen  552 AAQKAPAFACKENWVQRGPYYLEAHNLHGAVCEFQSALRTDPKDYNLWLGLGEAYPESGRYSHALKVFTKASLLRPLSKY  631 (1238)
T ss_pred             HhhhchHHHHHhhhhhccccccCccchhhHHHHHHHHhcCCchhHHHHHHHHHHHHhcCceehHHHhhhhhHhcCcHhHH
Confidence            32221     11233344456677888888888888744   356678888899999999999999998873332222 2


Q ss_pred             H--HHHHHHHhcCCHHHHHHHHHHHHhC------CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH-------HcCCCC
Q 012108          173 N--TMVTGYLRSQLYIEVVDLFDEMKAG------NVKPDYLTVTSVLSACANLGSLETGARIHVYAT-------DNGLAS  237 (471)
Q Consensus       173 ~--~l~~~~~~~~~~~~a~~~~~~m~~~------g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~~  237 (471)
                      .  -.....+..|.+.+|+..+......      +..--..++..+...+.-.|=..++..+++..+       ......
T Consensus       632 ~~fk~A~~ecd~GkYkeald~l~~ii~~~s~e~~~q~gLaE~~ir~akd~~~~gf~~kavd~~eksie~f~~~l~h~~~~  711 (1238)
T KOG1127|consen  632 GRFKEAVMECDNGKYKEALDALGLIIYAFSLERTGQNGLAESVIRDAKDSAITGFQKKAVDFFEKSIESFIVSLIHSLQS  711 (1238)
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHhhhh
Confidence            1  2233456788888888888776542      111112222222222222332333333333322       222122


Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCCh---H---HHHHHHHHHHhCCCCCCHHHH
Q 012108          238 NPHATTALIDMYAKCGSIEQSLEVFYKSQVKD---VFCWNAMILGLALHGYG---Y---AALKLLGEMNDSCVKADDITF  308 (471)
Q Consensus       238 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~---~---~a~~~~~~~~~~~~~p~~~~~  308 (471)
                      +...|..+.+          |..+|-... |+   .....++..-+-..+..   +   -+.+.+-.-.+  ...+..++
T Consensus       712 ~~~~Wi~asd----------ac~~f~q~e-~~~vn~h~l~il~~q~e~~~~l~~~d~l~Lg~~c~~~hls--l~~~~~~W  778 (1238)
T KOG1127|consen  712 DRLQWIVASD----------ACYIFSQEE-PSIVNMHYLIILSKQLEKTGALKKNDLLFLGYECGIAHLS--LAIHMYPW  778 (1238)
T ss_pred             hHHHHHHHhH----------HHHHHHHhc-ccchHHHHHHHHHHHHHhcccCcchhHHHHHHHHhhHHHH--HhhccchH
Confidence            2222222222          222222222 22   11111111111111111   1   01111111111  11123344


Q ss_pred             HHHHHHHhc-------c-CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHH
Q 012108          309 IGLLSACSH-------A-GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGA  378 (471)
Q Consensus       309 ~~l~~~~~~-------~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~  378 (471)
                      ..++..|.+       . .+...|...+.+..+  -...+..+|+.|.-. ...|++.-|...|-+.  ..+....+|..
T Consensus       779 yNLGinylr~f~~l~et~~~~~~Ai~c~KkaV~--L~ann~~~WnaLGVl-sg~gnva~aQHCfIks~~sep~~~~~W~N  855 (1238)
T KOG1127|consen  779 YNLGINYLRYFLLLGETMKDACTAIRCCKKAVS--LCANNEGLWNALGVL-SGIGNVACAQHCFIKSRFSEPTCHCQWLN  855 (1238)
T ss_pred             HHHhHHHHHHHHHcCCcchhHHHHHHHHHHHHH--HhhccHHHHHHHHHh-hccchhhhhhhhhhhhhhccccchhheec
Confidence            444433332       1 223356666666665  233455566665544 5556777666666544  23335567777


Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHH
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNM  433 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  433 (471)
                      +...+.+..+++.|...|.+.....|. +...|......-...|+.-++..+|..
T Consensus       856 lgvL~l~n~d~E~A~~af~~~qSLdP~-nl~~WlG~Ali~eavG~ii~~~~lfaH  909 (1238)
T KOG1127|consen  856 LGVLVLENQDFEHAEPAFSSVQSLDPL-NLVQWLGEALIPEAVGRIIERLILFAH  909 (1238)
T ss_pred             cceeEEecccHHHhhHHHHhhhhcCch-hhHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            777777777888888888888777777 777776666666666766666666654

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.81  E-value=1.3e-07  Score=73.50  Aligned_cols=103  Identities=7%  Similarity=-0.117  Sum_probs=49.0

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcC
Q 012108          310 GLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQ  387 (471)
Q Consensus       310 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g  387 (471)
                      .....+...|++++|...|+.+..  -.+.+...|..+..++.+.|++++|...|++. ...| +...+..+..++...|
T Consensus        29 ~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~p~~~~a~~~lg~~l~~~g  106 (144)
T PRK15359         29 ASGYASWQEGDYSRAVIDFSWLVM--AQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLDASHPEPVYQTGVCLKMMG  106 (144)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHHHHcC
Confidence            344444455555555555555544  22334444445555555555555555555544 2222 3444444444455555


Q ss_pred             CchHHHHHHHHHHHcCCCCCchhHHHHH
Q 012108          388 DLEIGDRVAKMVCAKSNYLSDGELMMFA  415 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~  415 (471)
                      ++++|+..|+++++..|. ++..+....
T Consensus       107 ~~~eAi~~~~~Al~~~p~-~~~~~~~~~  133 (144)
T PRK15359        107 EPGLAREAFQTAIKMSYA-DASWSEIRQ  133 (144)
T ss_pred             CHHHHHHHHHHHHHhCCC-ChHHHHHHH
Confidence            555555555555555554 444444333

>KOG1914 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA14 [RNA processing and modification]

Probab=98.78  E-value=0.00013  Score=66.30  Aligned_cols=414  Identities=14%  Similarity=0.090  Sum_probs=253.7

Q ss_pred             CCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCcccHHHHHH
Q 012108            7 HADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIAWNSMLD   84 (471)
Q Consensus         7 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~   84 (471)
                      +-|..+|..||+-+..+ ..+++.+.++++... ++.+...|...+..-.+..+++..+++|.+...  -+...|...+.
T Consensus        17 P~di~sw~~lire~qt~-~~~~~R~~YEq~~~~-FP~s~r~W~~yi~~El~skdfe~VEkLF~RCLvkvLnlDLW~lYl~   94 (656)
T KOG1914|consen   17 PYDIDSWSQLIREAQTQ-PIDKVRETYEQLVNV-FPSSPRAWKLYIERELASKDFESVEKLFSRCLVKVLNLDLWKLYLS   94 (656)
T ss_pred             CccHHHHHHHHHHHccC-CHHHHHHHHHHHhcc-CCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhhHhHHHHHHH
Confidence            45668999999998877 899999999999865 456778999999999999999999999999764  36666776665


Q ss_pred             HHHc-CCCHHHHH----HHHhcCC------CCChhhHHHHHH---------HHHhcCCHHHHHHHHhhcCC-C-------
Q 012108           85 AFAS-CGQMDHAM----KLIDLMP------LKDVTSFNIMIS---------GYARIGKIHSARYIFDKVPA-K-------  136 (471)
Q Consensus        85 ~~~~-~g~~~~A~----~~~~~~~------~~~~~~~~~l~~---------~~~~~g~~~~a~~~~~~~~~-~-------  136 (471)
                      ---+ .|+...+.    ..|+-..      -.+...|+.-+.         -+....+++...+++.++.. |       
T Consensus        95 YVR~~~~~~~~~r~~m~qAy~f~l~kig~di~s~siW~eYi~FL~~vea~gk~ee~QRI~~vRriYqral~tPm~nlEkL  174 (656)
T KOG1914|consen   95 YVRETKGKLFGYREKMVQAYDFALEKIGMDIKSYSIWDEYINFLEGVEAVGKYEENQRITAVRRIYQRALVTPMHNLEKL  174 (656)
T ss_pred             HHHHHccCcchHHHHHHHHHHHHHHHhccCcccchhHHHHHHHHHcccccccHHHHHHHHHHHHHHHHHhcCccccHHHH
Confidence            4322 22222211    1111111      112223333332         24455577788888888843 2       


Q ss_pred             --ChhhHHHHHHH-------HHhCCCHHHHHHHHHhccc--------------c-------ChHHHHHHHHHHHhcCC--
Q 012108          137 --DVVSWNSLILA-------YTNAGEMEKAGEMFKKMLV--------------K-------NVITWNTMVTGYLRSQL--  184 (471)
Q Consensus       137 --~~~~~~~l~~~-------~~~~~~~~~A~~~~~~~~~--------------~-------~~~~~~~l~~~~~~~~~--  184 (471)
                        |-..|..=++.       --+...+-.|.++++++..              +       -...|-.+|..-..++-  
T Consensus       175 W~DY~~fE~~IN~~tarK~i~e~s~~Ym~AR~~~qel~~lt~GL~r~~~~vp~~~T~~e~~qv~~W~n~I~wEksNpL~t  254 (656)
T KOG1914|consen  175 WKDYEAFEQEINIITARKFIGERSPEYMNARRVYQELQNLTRGLNRNAPAVPPKGTKDEIQQVELWKNWIKWEKSNPLRT  254 (656)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhhCHHHHHHHHHHHHHHHHHhhhcccCCCCCCCCChHHHHHHHHHHHHHHHHhcCCccc
Confidence              22223222221       1223456667777766510              0       01224334432211110  


Q ss_pred             ------HHHHHHHHHHH-HhCCCCCCHHH-HHHHH----HHHHccCC-------hHHHHHHHHHHHHcCCCCchhHHHHH
Q 012108          185 ------YIEVVDLFDEM-KAGNVKPDYLT-VTSVL----SACANLGS-------LETGARIHVYATDNGLASNPHATTAL  245 (471)
Q Consensus       185 ------~~~a~~~~~~m-~~~g~~p~~~~-~~~l~----~~~~~~~~-------~~~a~~~~~~~~~~~~~~~~~~~~~l  245 (471)
                            .....-.+++. .-.+..|+..- |...+    +.+...|+       .+++..+++...+.-...+..+|..+
T Consensus       255 ~~~~~~~~Rv~yayeQ~ll~l~~~peiWy~~s~yl~~~s~l~~~~~d~~~a~~~t~e~~~~yEr~I~~l~~~~~~Ly~~~  334 (656)
T KOG1914|consen  255 LDGTMLTRRVMYAYEQCLLYLGYHPEIWYDYSMYLIEISDLLTEKGDVPDAKSLTDEAASIYERAIEGLLKENKLLYFAL  334 (656)
T ss_pred             ccccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhhHHHHHhcccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence                  11122223322 22233443321 11111    12222333       34566666666554334445555554


Q ss_pred             HHHHHhcC---ChHHHHHHHhcCCC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhc
Q 012108          246 IDMYAKCG---SIEQSLEVFYKSQV----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKA-DDITFIGLLSACSH  317 (471)
Q Consensus       246 ~~~~~~~~---~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~  317 (471)
                      .+.--..-   ..+...+.+++...    .-..+|..++..-.+..-...|..+|.+..+.+..+ +...+..++.-+| 
T Consensus       335 a~~eE~~~~~n~~~~~~~~~~~ll~~~~~~~tLv~~~~mn~irR~eGlkaaR~iF~kaR~~~r~~hhVfVa~A~mEy~c-  413 (656)
T KOG1914|consen  335 ADYEESRYDDNKEKKVHEIYNKLLKIEDIDLTLVYCQYMNFIRRAEGLKAARKIFKKAREDKRTRHHVFVAAALMEYYC-  413 (656)
T ss_pred             HhhHHHhcccchhhhhHHHHHHHHhhhccCCceehhHHHHHHHHhhhHHHHHHHHHHHhhccCCcchhhHHHHHHHHHh-
Confidence            43322221   24445555555443    234678888999899999999999999999988777 6667777887766 


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC---CCCCC--HhHHHHHHHHHhhcCCchHH
Q 012108          318 AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM---PFEPT--ESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       318 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~---~~~p~--~~~~~~l~~~~~~~g~~~~a  392 (471)
                      .++..-|..+|+.-.+  .+..++..-...++.+...++-..|..+|++.   .+.|+  ..+|..++.--..-|+...+
T Consensus       414 skD~~~AfrIFeLGLk--kf~d~p~yv~~YldfL~~lNdd~N~R~LFEr~l~s~l~~~ks~~Iw~r~l~yES~vGdL~si  491 (656)
T KOG1914|consen  414 SKDKETAFRIFELGLK--KFGDSPEYVLKYLDFLSHLNDDNNARALFERVLTSVLSADKSKEIWDRMLEYESNVGDLNSI  491 (656)
T ss_pred             cCChhHHHHHHHHHHH--hcCCChHHHHHHHHHHHHhCcchhHHHHHHHHHhccCChhhhHHHHHHHHHHHHhcccHHHH
Confidence            5788999999998887  44556666778888889999999999999988   23443  47999999999999999999


Q ss_pred             HHHHHHHHHcCC---CCCchhHHHHHHHHHhcCCHH
Q 012108          393 DRVAKMVCAKSN---YLSDGELMMFANLYASCGQWE  425 (471)
Q Consensus       393 ~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~~~  425 (471)
                      .++-++....-|   .+....-..+++-|.-.+.+.
T Consensus       492 ~~lekR~~~af~~~qe~~~~~~~~~v~RY~~~d~~~  527 (656)
T KOG1914|consen  492 LKLEKRRFTAFPADQEYEGNETALFVDRYGILDLYP  527 (656)
T ss_pred             HHHHHHHHHhcchhhcCCCChHHHHHHHHhhccccc
Confidence            999888876655   222334445566666555543

>PLN02789 farnesyltranstransferase

Probab=98.77  E-value=7.3e-06  Score=72.55  Aligned_cols=229  Identities=12%  Similarity=-0.027  Sum_probs=109.7

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHHccC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYL-TVTSVLSACANLG-SLETGARIHVYATDNGLASNPHATTALIDM  248 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  248 (471)
                      ++..+-..+...++.++|+.++.++++.  .|+.. .|+....++...| ++++++..++.+.+.. +.+..+|+.....
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~l--nP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~  115 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRL--NPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWL  115 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHH
Confidence            3444444555556666666666666653  33332 3333333444444 3556666666665554 3344444444333


Q ss_pred             HHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 012108          249 YAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELF  328 (471)
Q Consensus       249 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  328 (471)
                      +.+.|+.                             ..++++..++++.+.. +-+...|.....++...|+++++++.+
T Consensus       116 l~~l~~~-----------------------------~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~  165 (320)
T PLN02789        116 AEKLGPD-----------------------------AANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYC  165 (320)
T ss_pred             HHHcCch-----------------------------hhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            3333331                             0133444444444332 113344444444444445555555555


Q ss_pred             HHhHHhcCCCCChhHHHHHHHHHhhc---CCH----HHHHHHHHhC-CCCC-CHhHHHHHHHHHhhc----CCchHHHHH
Q 012108          329 SRMEKDFGVTRKLEHYGCMVDLLGRA---RLL----DRAIELIEAM-PFEP-TESILGALLSACVIH----QDLEIGDRV  395 (471)
Q Consensus       329 ~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~----~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~----g~~~~a~~~  395 (471)
                      .++.+  ..+.+...|+.....+.+.   |..    +++.++..++ ...| +...|+.+...+...    +...+|.+.
T Consensus       166 ~~~I~--~d~~N~sAW~~R~~vl~~~~~l~~~~~~~e~el~y~~~aI~~~P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~  243 (320)
T PLN02789        166 HQLLE--EDVRNNSAWNQRYFVITRSPLLGGLEAMRDSELKYTIDAILANPRNESPWRYLRGLFKDDKEALVSDPEVSSV  243 (320)
T ss_pred             HHHHH--HCCCchhHHHHHHHHHHhccccccccccHHHHHHHHHHHHHhCCCCcCHHHHHHHHHhcCCcccccchhHHHH
Confidence            55544  2223333343333333222   111    2333333222 2233 344555555555442    334556666


Q ss_pred             HHHHHHcCCCCCchhHHHHHHHHHhcC------------------CHHHHHHHHHHhh
Q 012108          396 AKMVCAKSNYLSDGELMMFANLYASCG------------------QWEEANRWRNMMN  435 (471)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~l~~~~~~~g------------------~~~~A~~~~~~m~  435 (471)
                      +.+....+|. ++..+..|++.|....                  ..++|.++++.+.
T Consensus       244 ~~~~~~~~~~-s~~al~~l~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~l~  300 (320)
T PLN02789        244 CLEVLSKDSN-HVFALSDLLDLLCEGLQPTAEFRDTVDTLAEELSDSTLAQAVCSELE  300 (320)
T ss_pred             HHHhhcccCC-cHHHHHHHHHHHHhhhccchhhhhhhhccccccccHHHHHHHHHHHH
Confidence            6666666666 6667777777776532                  3466888888774

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

Probab=98.77  E-value=2e-06  Score=70.64  Aligned_cols=155  Identities=15%  Similarity=0.111  Sum_probs=92.2

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh
Q 012108          274 NAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR  353 (471)
Q Consensus       274 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  353 (471)
                      ..+-..+...|+-+....+....... .+-|.......+....+.|++..|...++++..  .-++|...|+.+.-+|.+
T Consensus        70 ~~~a~a~~~~G~a~~~l~~~~~~~~~-~~~d~~ll~~~gk~~~~~g~~~~A~~~~rkA~~--l~p~d~~~~~~lgaaldq  146 (257)
T COG5010          70 AKLATALYLRGDADSSLAVLQKSAIA-YPKDRELLAAQGKNQIRNGNFGEAVSVLRKAAR--LAPTDWEAWNLLGAALDQ  146 (257)
T ss_pred             HHHHHHHHhcccccchHHHHhhhhcc-CcccHHHHHHHHHHHHHhcchHHHHHHHHHHhc--cCCCChhhhhHHHHHHHH
Confidence            34445555556655555555554332 122333444455666666666666666666665  555666666666666666


Q ss_pred             cCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHH
Q 012108          354 ARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWR  431 (471)
Q Consensus       354 ~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  431 (471)
                      .|+++.|..-|.+. .+.| ++...+.+...+.-.|+++.|..++.......+. |..+-..|..+....|++++|.++.
T Consensus       147 ~Gr~~~Ar~ay~qAl~L~~~~p~~~nNlgms~~L~gd~~~A~~lll~a~l~~~a-d~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         147 LGRFDEARRAYRQALELAPNEPSIANNLGMSLLLRGDLEDAETLLLPAYLSPAA-DSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             ccChhHHHHHHHHHHHhccCCchhhhhHHHHHHHcCCHHHHHHHHHHHHhCCCC-chHHHHHHHHHHhhcCChHHHHhhc
Confidence            66666666666555 3333 4455566666666666666666666666666665 6666666666666666666666554


Q ss_pred             H
Q 012108          432 N  432 (471)
Q Consensus       432 ~  432 (471)
                      .
T Consensus       226 ~  226 (257)
T COG5010         226 V  226 (257)
T ss_pred             c
Confidence            3

>PF12854 PPR_1: PPR repeat

Probab=98.75  E-value=8.2e-09  Score=57.13  Aligned_cols=33  Identities=12%  Similarity=0.104  Sum_probs=21.8

Q ss_pred             cCCCCCcccHHHHHHHHhhccchhHHHHHHHHH
Q 012108            4 LGVHADNYSFPLLLKAAGILSSSCIGLMLHGQT   36 (471)
Q Consensus         4 ~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~   36 (471)
                      +|+.||..||++||.++++.|++++|.++|++|
T Consensus         1 ~G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M   33 (34)
T PF12854_consen    1 RGCEPDVVTYNTLIDGYCKAGRVDEAFELFDEM   33 (34)
T ss_pred             CCCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhC
Confidence            366666666666666666666666666666665

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

Probab=98.72  E-value=5.5e-06  Score=68.07  Aligned_cols=107  Identities=11%  Similarity=0.046  Sum_probs=55.2

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHh----hcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCC
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLG----RARLLDRAIELIEAM--PFEPTESILGALLSACVIHQD  388 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~  388 (471)
                      +.+..+++-|.+.+++|.+    -.+..+.+.|..++.    ..+...+|.-+|+++  +..|+..+.+....++...|+
T Consensus       147 ~lk~~r~d~A~~~lk~mq~----ided~tLtQLA~awv~la~ggek~qdAfyifeE~s~k~~~T~~llnG~Av~~l~~~~  222 (299)
T KOG3081|consen  147 LLKMHRFDLAEKELKKMQQ----IDEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSEKTPPTPLLLNGQAVCHLQLGR  222 (299)
T ss_pred             HHHHHHHHHHHHHHHHHHc----cchHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhcccCCChHHHccHHHHHHHhcC
Confidence            3344555555555555554    122333333333332    224455555555555  245555555555555555666


Q ss_pred             chHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHH
Q 012108          389 LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEE  426 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  426 (471)
                      +++|+.+++.++...+. ++.+...++-+-...|...+
T Consensus       223 ~eeAe~lL~eaL~kd~~-dpetL~Nliv~a~~~Gkd~~  259 (299)
T KOG3081|consen  223 YEEAESLLEEALDKDAK-DPETLANLIVLALHLGKDAE  259 (299)
T ss_pred             HHHHHHHHHHHHhccCC-CHHHHHHHHHHHHHhCCChH
Confidence            66666666666665555 55555555555555555433

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

Probab=98.72  E-value=2.5e-06  Score=79.74  Aligned_cols=210  Identities=12%  Similarity=-0.035  Sum_probs=133.7

Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHH
Q 012108          212 SACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAA  289 (471)
Q Consensus       212 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a  289 (471)
                      ..+...|-...|..+++++.         .+...+..|+..|+..+|..+..+-.+  |++..|..+........-+++|
T Consensus       406 ell~slGitksAl~I~Erle---------mw~~vi~CY~~lg~~~kaeei~~q~lek~~d~~lyc~LGDv~~d~s~yEka  476 (777)
T KOG1128|consen  406 ELLLSLGITKSALVIFERLE---------MWDPVILCYLLLGQHGKAEEINRQELEKDPDPRLYCLLGDVLHDPSLYEKA  476 (777)
T ss_pred             HHHHHcchHHHHHHHHHhHH---------HHHHHHHHHHHhcccchHHHHHHHHhcCCCcchhHHHhhhhccChHHHHHH
Confidence            34444444555555544332         233345555555555555554433222  3445555555554444445555


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 012108          290 LKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P  368 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  368 (471)
                      .++.+.....       .-..+.......++++++.+.|+.-.+  -.+-...+|-.+.-+..+.++++.|.+.|... .
T Consensus       477 wElsn~~sar-------A~r~~~~~~~~~~~fs~~~~hle~sl~--~nplq~~~wf~~G~~ALqlek~q~av~aF~rcvt  547 (777)
T KOG1128|consen  477 WELSNYISAR-------AQRSLALLILSNKDFSEADKHLERSLE--INPLQLGTWFGLGCAALQLEKEQAAVKAFHRCVT  547 (777)
T ss_pred             HHHhhhhhHH-------HHHhhccccccchhHHHHHHHHHHHhh--cCccchhHHHhccHHHHHHhhhHHHHHHHHHHhh
Confidence            5555443221       111111112235666666666666555  23335667777777788889999999988876 5


Q ss_pred             CCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          369 FEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       369 ~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ..|| ...|+++-.+|.+.++-.+|...++++.+.+.. +...|........+.|.+++|++.+.++.+....
T Consensus       548 L~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlKcn~~-~w~iWENymlvsvdvge~eda~~A~~rll~~~~~  619 (777)
T KOG1128|consen  548 LEPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALKCNYQ-HWQIWENYMLVSVDVGEFEDAIKAYHRLLDLRKK  619 (777)
T ss_pred             cCCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhhcCCC-CCeeeechhhhhhhcccHHHHHHHHHHHHHhhhh
Confidence            5665 568999999999999999999999999999876 7888888888889999999999999888764433

>PRK15359 type III secretion system chaperone protein SscB; Provisional

Probab=98.72  E-value=1e-06  Score=68.57  Aligned_cols=112  Identities=7%  Similarity=-0.084  Sum_probs=87.1

Q ss_pred             HHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          326 ELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       326 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      .++++..+   ..|+  .+..+...+...|++++|...|+.. ...| +...|..+..++...|++++|...|+++.+.+
T Consensus        14 ~~~~~al~---~~p~--~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~y~~Al~l~   88 (144)
T PRK15359         14 DILKQLLS---VDPE--TVYASGYASWQEGDYSRAVIDFSWLVMAQPWSWRAHIALAGTWMMLKEYTTAINFYGHALMLD   88 (144)
T ss_pred             HHHHHHHH---cCHH--HHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcC
Confidence            45566555   2333  3555677788888999998888887 3444 66788888888888899999999999999888


Q ss_pred             CCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccC
Q 012108          404 NYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTA  443 (471)
Q Consensus       404 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  443 (471)
                      |. ++..+..++.++...|++++|+..|++..+..+..+.
T Consensus        89 p~-~~~a~~~lg~~l~~~g~~~eAi~~~~~Al~~~p~~~~  127 (144)
T PRK15359         89 AS-HPEPVYQTGVCLKMMGEPGLAREAFQTAIKMSYADAS  127 (144)
T ss_pred             CC-CcHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChH
Confidence            88 8888888999888999999999998888877665443

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

Probab=98.71  E-value=8.9e-06  Score=76.18  Aligned_cols=210  Identities=11%  Similarity=0.050  Sum_probs=166.2

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCC
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGS  219 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~  219 (471)
                      .-..+...+...|-...|..+|++     ...|..++.+|...|+..+|..+..+-.++  +||...|..+.+......-
T Consensus       400 ~q~~laell~slGitksAl~I~Er-----lemw~~vi~CY~~lg~~~kaeei~~q~lek--~~d~~lyc~LGDv~~d~s~  472 (777)
T KOG1128|consen  400 LQRLLAELLLSLGITKSALVIFER-----LEMWDPVILCYLLLGQHGKAEEINRQELEK--DPDPRLYCLLGDVLHDPSL  472 (777)
T ss_pred             HHHHHHHHHHHcchHHHHHHHHHh-----HHHHHHHHHHHHHhcccchHHHHHHHHhcC--CCcchhHHHhhhhccChHH
Confidence            345667788899999999999987     466788888999999999999998887773  7888888888887776666


Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 012108          220 LETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEM  296 (471)
Q Consensus       220 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  296 (471)
                      +++|.++.+..-.       .....+.....+.++++++.+.|+.-..   -...+|-.+..+..+.+++..|.+.|...
T Consensus       473 yEkawElsn~~sa-------rA~r~~~~~~~~~~~fs~~~~hle~sl~~nplq~~~wf~~G~~ALqlek~q~av~aF~rc  545 (777)
T KOG1128|consen  473 YEKAWELSNYISA-------RAQRSLALLILSNKDFSEADKHLERSLEINPLQLGTWFGLGCAALQLEKEQAAVKAFHRC  545 (777)
T ss_pred             HHHHHHHhhhhhH-------HHHHhhccccccchhHHHHHHHHHHHhhcCccchhHHHhccHHHHHHhhhHHHHHHHHHH
Confidence            7777777665432       2333344444557889999999886444   24568888888888999999999999988


Q ss_pred             HhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          297 NDSCVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       297 ~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      ...  .|| ...|+.+-.+|.+.++-.+|...+.++.+ ++ ..+...|...+....+.|.+++|.+.++++
T Consensus       546 vtL--~Pd~~eaWnNls~ayi~~~~k~ra~~~l~EAlK-cn-~~~w~iWENymlvsvdvge~eda~~A~~rl  613 (777)
T KOG1128|consen  546 VTL--EPDNAEAWNNLSTAYIRLKKKKRAFRKLKEALK-CN-YQHWQIWENYMLVSVDVGEFEDAIKAYHRL  613 (777)
T ss_pred             hhc--CCCchhhhhhhhHHHHHHhhhHHHHHHHHHHhh-cC-CCCCeeeechhhhhhhcccHHHHHHHHHHH
Confidence            864  555 46799999999999999999999999998 55 555667888888889999999999999887

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.70  E-value=2.4e-06  Score=83.36  Aligned_cols=179  Identities=9%  Similarity=-0.036  Sum_probs=126.8

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD-ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCM  347 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  347 (471)
                      +...+..|.....+.|.+++|..+++...+.  .|+. .....+...+.+.+++++|...+++...  .-+.+......+
T Consensus        85 ~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~--~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~--~~p~~~~~~~~~  160 (694)
T PRK15179         85 TELFQVLVARALEAAHRSDEGLAVWRGIHQR--FPDSSEAFILMLRGVKRQQGIEAGRAEIELYFS--GGSSSAREILLE  160 (694)
T ss_pred             cHHHHHHHHHHHHHcCCcHHHHHHHHHHHhh--CCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhh--cCCCCHHHHHHH
Confidence            5777888888888888888888888888875  5554 4566677888888888888888888887  555567777788


Q ss_pred             HHHHhhcCCHHHHHHHHHhCC-CCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHH
Q 012108          348 VDLLGRARLLDRAIELIEAMP-FEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWE  425 (471)
Q Consensus       348 ~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  425 (471)
                      ..++.+.|++++|..+|+++. -.| +..++..+..++...|+.++|...|+++.+.... ....|+.++      ++..
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~-~~~~~~~~~------~~~~  233 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSRQHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGD-GARKLTRRL------VDLN  233 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCc-chHHHHHHH------HHHH
Confidence            888888888888888888872 233 4678888888888888888888888888877554 334443332      2334


Q ss_pred             HHHHHHHHhhhCCCcccCcceEEEEcCeEeEEe
Q 012108          426 EANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFL  458 (471)
Q Consensus       426 ~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~  458 (471)
                      .-..+++++.-.+......+.-+.+...+..|.
T Consensus       234 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  266 (694)
T PRK15179        234 ADLAALRRLGVEGDGRDVPVSILVLEKMLQEIG  266 (694)
T ss_pred             HHHHHHHHcCcccccCCCceeeeeHHHHHHHHh
Confidence            445566666555444444455555544444333

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

Probab=98.68  E-value=3.2e-05  Score=63.75  Aligned_cols=249  Identities=14%  Similarity=0.043  Sum_probs=161.9

Q ss_pred             HHHHhCCCHHHHHHHHHhc-cc-cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHH-
Q 012108          146 LAYTNAGEMEKAGEMFKKM-LV-KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLET-  222 (471)
Q Consensus       146 ~~~~~~~~~~~A~~~~~~~-~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~-  222 (471)
                      +-+.-.|++..++..-... .. .+...-..+.++|...|++.....-   +.... .|....+..+.......++.+. 
T Consensus        16 Rn~fY~Gnyq~~ine~~~~~~~~~~~e~d~y~~raylAlg~~~~~~~e---I~~~~-~~~lqAvr~~a~~~~~e~~~~~~   91 (299)
T KOG3081|consen   16 RNYFYLGNYQQCINEAEKFSSSKTDVELDVYMYRAYLALGQYQIVISE---IKEGK-ATPLQAVRLLAEYLELESNKKSI   91 (299)
T ss_pred             HHHHHhhHHHHHHHHHHhhccccchhHHHHHHHHHHHHcccccccccc---ccccc-CChHHHHHHHHHHhhCcchhHHH
Confidence            3344556666666655544 22 3444444566777777776544332   22221 3333333333333333444333 


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVK  302 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  302 (471)
                      ..++.+.+.......+......-...|+..|++++|++..+...  +..+...=...+.+..+.+-|.+.+++|.+-   
T Consensus        92 ~~~l~E~~a~~~~~sn~i~~l~aa~i~~~~~~~deAl~~~~~~~--~lE~~Al~VqI~lk~~r~d~A~~~lk~mq~i---  166 (299)
T KOG3081|consen   92 LASLYELVADSTDGSNLIDLLLAAIIYMHDGDFDEALKALHLGE--NLEAAALNVQILLKMHRFDLAEKELKKMQQI---  166 (299)
T ss_pred             HHHHHHHHHhhccchhHHHHHHhhHHhhcCCChHHHHHHHhccc--hHHHHHHHHHHHHHHHHHHHHHHHHHHHHcc---
Confidence            33455555555444444444555567889999999999988733  3333333345566778899999999999873   


Q ss_pred             CCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHH
Q 012108          303 ADDITFIGLLSACSH----AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESIL  376 (471)
Q Consensus       303 p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~  376 (471)
                      -+..|.+.|..++.+    .+.+..|.-+|+++.+  ..+|++.+.+-..-++...|++++|..++++.  +...++.++
T Consensus       167 ded~tLtQLA~awv~la~ggek~qdAfyifeE~s~--k~~~T~~llnG~Av~~l~~~~~eeAe~lL~eaL~kd~~dpetL  244 (299)
T KOG3081|consen  167 DEDATLTQLAQAWVKLATGGEKIQDAFYIFEELSE--KTPPTPLLLNGQAVCHLQLGRYEEAESLLEEALDKDAKDPETL  244 (299)
T ss_pred             chHHHHHHHHHHHHHHhccchhhhhHHHHHHHHhc--ccCCChHHHccHHHHHHHhcCHHHHHHHHHHHHhccCCCHHHH
Confidence            356777777777653    4678899999999987  68899999999999999999999999999988  445577787


Q ss_pred             HHHHHHHhhcCCchH-HHHHHHHHHHcCCC
Q 012108          377 GALLSACVIHQDLEI-GDRVAKMVCAKSNY  405 (471)
Q Consensus       377 ~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~  405 (471)
                      ..++..-...|...+ -.+.+.+.....|.
T Consensus       245 ~Nliv~a~~~Gkd~~~~~r~l~QLk~~~p~  274 (299)
T KOG3081|consen  245 ANLIVLALHLGKDAEVTERNLSQLKLSHPE  274 (299)
T ss_pred             HHHHHHHHHhCCChHHHHHHHHHHHhcCCc
Confidence            777776666665544 45667777776666

>KOG0548 consensus Molecular co-chaperone STI1 [Posttranslational modification, protein turnover, chaperones]

Probab=98.67  E-value=0.00011  Score=66.78  Aligned_cols=361  Identities=13%  Similarity=0.023  Sum_probs=227.9

Q ss_pred             CCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCc-hhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHH
Q 012108            7 HADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGH-VYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSM   82 (471)
Q Consensus         7 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l   82 (471)
                      ++|.+.|+.-..+++..|++++|++=-.+-++..  |+ ...|+.....+.-.|++++|+..|.+-.+  | +...++.+
T Consensus        33 p~nhvlySnrsaa~a~~~~~~~al~da~k~~~l~--p~w~kgy~r~Gaa~~~lg~~~eA~~ay~~GL~~d~~n~~L~~gl  110 (539)
T KOG0548|consen   33 PTNHVLYSNRSAAYASLGSYEKALKDATKTRRLN--PDWAKGYSRKGAALFGLGDYEEAILAYSEGLEKDPSNKQLKTGL  110 (539)
T ss_pred             CCccchhcchHHHHHHHhhHHHHHHHHHHHHhcC--CchhhHHHHhHHHHHhcccHHHHHHHHHHHhhcCCchHHHHHhH
Confidence            4466788888899999999999988777766654  43 35788888888889999999999998775  3 33456666


Q ss_pred             HHHHHcCCCHHHHHHHHh------cCC-CC------ChhhHHHHHHHHHhc----------CCHHHHHHHHhhc------
Q 012108           83 LDAFASCGQMDHAMKLID------LMP-LK------DVTSFNIMISGYARI----------GKIHSARYIFDKV------  133 (471)
Q Consensus        83 i~~~~~~g~~~~A~~~~~------~~~-~~------~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~------  133 (471)
                      ..++....   ++...|.      .+. .+      ....|..++..+-+.          .++..+.-.+...      
T Consensus       111 ~~a~~~~~---~~~~~~~~p~~~~~l~~~p~t~~~~~~~~~~~~l~~~~~~p~~l~~~l~d~r~m~a~~~l~~~~~~~~~  187 (539)
T KOG0548|consen  111 AQAYLEDY---AADQLFTKPYFHEKLANLPLTNYSLSDPAYVKILEIIQKNPTSLKLYLNDPRLMKADGQLKGVDELLFY  187 (539)
T ss_pred             HHhhhHHH---HhhhhccCcHHHHHhhcChhhhhhhccHHHHHHHHHhhcCcHhhhcccccHHHHHHHHHHhcCcccccc
Confidence            66651110   1111111      000 00      112333333332221          1122222221111      


Q ss_pred             ----------CCC------------C----------hhhHHHHHHHHHhCCCHHHHHHHHHhccc--cChHHHHHHHHHH
Q 012108          134 ----------PAK------------D----------VVSWNSLILAYTNAGEMEKAGEMFKKMLV--KNVITWNTMVTGY  179 (471)
Q Consensus       134 ----------~~~------------~----------~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~  179 (471)
                                .+|            |          ..-...+.+...+..+++.|.+-+.....  .++.-++....+|
T Consensus       188 ~~~~~~~~~~~~p~~~~~~~~~~~~d~~ee~~~k~~a~~ek~lgnaaykkk~f~~a~q~y~~a~el~~~it~~~n~aA~~  267 (539)
T KOG0548|consen  188 ASGIEILASMAEPCKQEHNGFPIIEDNTEERRVKEKAHKEKELGNAAYKKKDFETAIQHYAKALELATDITYLNNIAAVY  267 (539)
T ss_pred             ccccccCCCCCCcccccCCCCCccchhHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHHHHhHhhhhHHHHHHHHHH
Confidence                      001            0          01234567777888889999998888733  4555577788889


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHH-------HHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 012108          180 LRSQLYIEVVDLFDEMKAGNVKPDYLTVTS-------VLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKC  252 (471)
Q Consensus       180 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-------l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  252 (471)
                      ...|.+.++........+.|.. ...-|+.       +..++.+.++++.+...|++.......|+.         ..+.
T Consensus       268 ~e~~~~~~c~~~c~~a~E~gre-~rad~klIak~~~r~g~a~~k~~~~~~ai~~~~kaLte~Rt~~~---------ls~l  337 (539)
T KOG0548|consen  268 LERGKYAECIELCEKAVEVGRE-LRADYKLIAKALARLGNAYTKREDYEGAIKYYQKALTEHRTPDL---------LSKL  337 (539)
T ss_pred             HhccHHHHhhcchHHHHHHhHH-HHHHHHHHHHHHHHhhhhhhhHHhHHHHHHHHHHHhhhhcCHHH---------HHHH
Confidence            9999998888887777666532 2223333       333556677888899999887655433322         2233


Q ss_pred             CChHHHHHHHhcCCC--CCh-hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHH
Q 012108          253 GSIEQSLEVFYKSQV--KDV-FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFS  329 (471)
Q Consensus       253 ~~~~~a~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  329 (471)
                      ...+++.+..+...-  |.. .....-...+.+.|++..|+..|.+++... +-|...|..-.-+|.+.|.+..|+.=.+
T Consensus       338 k~~Ek~~k~~e~~a~~~pe~A~e~r~kGne~Fk~gdy~~Av~~YteAIkr~-P~Da~lYsNRAac~~kL~~~~~aL~Da~  416 (539)
T KOG0548|consen  338 KEAEKALKEAERKAYINPEKAEEEREKGNEAFKKGDYPEAVKHYTEAIKRD-PEDARLYSNRAACYLKLGEYPEALKDAK  416 (539)
T ss_pred             HHHHHHHHHHHHHHhhChhHHHHHHHHHHHHHhccCHHHHHHHHHHHHhcC-CchhHHHHHHHHHHHHHhhHHHHHHHHH
Confidence            344555544433222  221 112223667889999999999999999885 5577889999999999999999999888


Q ss_pred             HhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhh
Q 012108          330 RMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALLSACVI  385 (471)
Q Consensus       330 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~  385 (471)
                      ...+  -.++....|..=..++....++++|.+.|++. ...|+..-+..-+.-|..
T Consensus       417 ~~ie--L~p~~~kgy~RKg~al~~mk~ydkAleay~eale~dp~~~e~~~~~~rc~~  471 (539)
T KOG0548|consen  417 KCIE--LDPNFIKAYLRKGAALRAMKEYDKALEAYQEALELDPSNAEAIDGYRRCVE  471 (539)
T ss_pred             HHHh--cCchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHH
Confidence            8877  23444666666666677778899999999887 555665544444444443

>PLN02789 farnesyltranstransferase

Probab=98.65  E-value=4.3e-05  Score=67.73  Aligned_cols=208  Identities=13%  Similarity=0.057  Sum_probs=126.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccccC---hHHHHHHHHHHHhcC-CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLVKN---VITWNTMVTGYLRSQ-LYIEVVDLFDEMKAGNVKPDYLTVTSVLSACA  215 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~~-~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~  215 (471)
                      ++..+-.++...+..++|+.+..+++..+   ..+|+.-..++...| ++++++..++++.+.+ +-+...|+.....+.
T Consensus        39 a~~~~ra~l~~~e~serAL~lt~~aI~lnP~~ytaW~~R~~iL~~L~~~l~eeL~~~~~~i~~n-pknyqaW~~R~~~l~  117 (320)
T PLN02789         39 AMDYFRAVYASDERSPRALDLTADVIRLNPGNYTVWHFRRLCLEALDADLEEELDFAEDVAEDN-PKNYQIWHHRRWLAE  117 (320)
T ss_pred             HHHHHHHHHHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHcchhHHHHHHHHHHHHHHC-CcchHHhHHHHHHHH
Confidence            44455566777889999999999995543   345666666666777 6899999999998864 334455665555555


Q ss_pred             ccCCh--HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhc---CCh-
Q 012108          216 NLGSL--ETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALH---GYG-  286 (471)
Q Consensus       216 ~~~~~--~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~---~~~-  286 (471)
                      +.|+.  +.+..+++.+.+.. +-+..+|+....++...|+++++++.++++.+   .|..+|+.....+.+.   |.. 
T Consensus       118 ~l~~~~~~~el~~~~kal~~d-pkNy~AW~~R~w~l~~l~~~~eeL~~~~~~I~~d~~N~sAW~~R~~vl~~~~~l~~~~  196 (320)
T PLN02789        118 KLGPDAANKELEFTRKILSLD-AKNYHAWSHRQWVLRTLGGWEDELEYCHQLLEEDVRNNSAWNQRYFVITRSPLLGGLE  196 (320)
T ss_pred             HcCchhhHHHHHHHHHHHHhC-cccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCchhHHHHHHHHHHhcccccccc
Confidence            56653  56778888887776 66777788777777777888888877777654   3556666665554443   222 


Q ss_pred             ---HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc----CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHh
Q 012108          287 ---YAALKLLGEMNDSCVKADDITFIGLLSACSHA----GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLG  352 (471)
Q Consensus       287 ---~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  352 (471)
                         ++.+....+++... +-+...|+.+...+...    ++..+|...+.++..  ..+.+......|++.|+
T Consensus       197 ~~~e~el~y~~~aI~~~-P~N~SaW~Yl~~ll~~~~~~l~~~~~~~~~~~~~~~--~~~~s~~al~~l~d~~~  266 (320)
T PLN02789        197 AMRDSELKYTIDAILAN-PRNESPWRYLRGLFKDDKEALVSDPEVSSVCLEVLS--KDSNHVFALSDLLDLLC  266 (320)
T ss_pred             ccHHHHHHHHHHHHHhC-CCCcCHHHHHHHHHhcCCcccccchhHHHHHHHhhc--ccCCcHHHHHHHHHHHH
Confidence               24444444444431 22334454444444441    233445555555443  12233444555555554

>TIGR03302 OM_YfiO outer membrane assembly lipoprotein YfiO

Probab=98.64  E-value=3.3e-06  Score=72.49  Aligned_cols=181  Identities=12%  Similarity=0.020  Sum_probs=124.9

Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCch---hHHHHHHHHHHhcCChHHHHHHHhcCCC--C-Chh---h
Q 012108          202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNP---HATTALIDMYAKCGSIEQSLEVFYKSQV--K-DVF---C  272 (471)
Q Consensus       202 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~---~  272 (471)
                      .....+..+...+...|+++.|...++.+.+.. +.++   ..+..+..++...|++++|+..++++.+  | +..   +
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            345567778888999999999999999998764 3332   4667789999999999999999998765  2 222   4


Q ss_pred             HHHHHHHHHhc--------CChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhH
Q 012108          273 WNAMILGLALH--------GYGYAALKLLGEMNDSCVKADDI-TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEH  343 (471)
Q Consensus       273 ~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  343 (471)
                      +..+..++...        |++++|.+.++.+...  .|+.. ....+... ..   .      ......         .
T Consensus       110 ~~~~g~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~a~~~~-~~---~------~~~~~~---------~  168 (235)
T TIGR03302       110 YYLRGLSNYNQIDRVDRDQTAAREAFEAFQELIRR--YPNSEYAPDAKKRM-DY---L------RNRLAG---------K  168 (235)
T ss_pred             HHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHH--CCCChhHHHHHHHH-HH---H------HHHHHH---------H
Confidence            55555666554        7889999999999876  44432 22222111 00   0      000000         1


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CC---CC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PF---EP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~---~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      ...+...|.+.|++++|...+++. ..   .| ....+..+..++...|++++|..+++.+....|
T Consensus       169 ~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~a~~~l~~~~~~lg~~~~A~~~~~~l~~~~~  234 (235)
T TIGR03302       169 ELYVARFYLKRGAYVAAINRFETVVENYPDTPATEEALARLVEAYLKLGLKDLAQDAAAVLGANYP  234 (235)
T ss_pred             HHHHHHHHHHcCChHHHHHHHHHHHHHCCCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCC
Confidence            124566788889999998888877 22   22 346778888889999999999998888776554

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).

>PF12854 PPR_1: PPR repeat

Probab=98.63  E-value=4.6e-08  Score=54.12  Aligned_cols=33  Identities=27%  Similarity=0.467  Sum_probs=26.3

Q ss_pred             ccCCchhHHHHHHHHHhccCCHhHHHHHhcccC
Q 012108           40 GFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMP   72 (471)
Q Consensus        40 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~   72 (471)
                      |++||..+|+.+|++|++.|++++|.++|++|.
T Consensus         2 G~~Pd~~ty~~lI~~~Ck~G~~~~A~~l~~~M~   34 (34)
T PF12854_consen    2 GCEPDVVTYNTLIDGYCKAGRVDEAFELFDEMK   34 (34)
T ss_pred             CCCCcHhHHHHHHHHHHHCCCHHHHHHHHHhCc
Confidence            677888888888888888888888888887773

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

Probab=98.62  E-value=2.2e-05  Score=78.77  Aligned_cols=223  Identities=13%  Similarity=0.082  Sum_probs=167.7

Q ss_pred             CCCH-HHHHHHHHHHHccCChHHHHHHHHHHHHcC-CC---CchhHHHHHHHHHHhcCChHHHHHHHhcCCCC--ChhhH
Q 012108          201 KPDY-LTVTSVLSACANLGSLETGARIHVYATDNG-LA---SNPHATTALIDMYAKCGSIEQSLEVFYKSQVK--DVFCW  273 (471)
Q Consensus       201 ~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~  273 (471)
                      .|++ ..|-..+......++.++|.++.++++..- +.   --...|.++++....-|.-+...++|+++.+-  ....|
T Consensus      1454 sPNSSi~WI~YMaf~LelsEiekAR~iaerAL~tIN~REeeEKLNiWiA~lNlEn~yG~eesl~kVFeRAcqycd~~~V~ 1533 (1710)
T KOG1070|consen 1454 SPNSSILWIRYMAFHLELSEIEKARKIAERALKTINFREEEEKLNIWIAYLNLENAYGTEESLKKVFERACQYCDAYTVH 1533 (1710)
T ss_pred             CCCcchHHHHHHHHHhhhhhhHHHHHHHHHHhhhCCcchhHHHHHHHHHHHhHHHhhCcHHHHHHHHHHHHHhcchHHHH
Confidence            3444 456667777788889999999998887541 11   12356777777777778788888899888773  34678


Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHH
Q 012108          274 NAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR--KLEHYGCMVDLL  351 (471)
Q Consensus       274 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~  351 (471)
                      ..|...|.+.+++++|-++++.|.+. ..-....|...+..+.++.+-+.|..++.++.+  -++.  ......-.++.-
T Consensus      1534 ~~L~~iy~k~ek~~~A~ell~~m~KK-F~q~~~vW~~y~~fLl~~ne~~aa~~lL~rAL~--~lPk~eHv~~IskfAqLE 1610 (1710)
T KOG1070|consen 1534 LKLLGIYEKSEKNDEADELLRLMLKK-FGQTRKVWIMYADFLLRQNEAEAARELLKRALK--SLPKQEHVEFISKFAQLE 1610 (1710)
T ss_pred             HHHHHHHHHhhcchhHHHHHHHHHHH-hcchhhHHHHHHHHHhcccHHHHHHHHHHHHHh--hcchhhhHHHHHHHHHHH
Confidence            88999999999999999999999876 344667889999999999999999999999988  2333  355556666777


Q ss_pred             hhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC-ch-hHHHHHHHHHhcCCHHH
Q 012108          352 GRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS-DG-ELMMFANLYASCGQWEE  426 (471)
Q Consensus       352 ~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~-~~~~l~~~~~~~g~~~~  426 (471)
                      .+.|+.+++..+|+..  ..+--...|+.++..-.++|+.+.++.+|++++.++..|- .. .|...+..-...|+-..
T Consensus      1611 Fk~GDaeRGRtlfEgll~ayPKRtDlW~VYid~eik~~~~~~vR~lfeRvi~l~l~~kkmKfffKkwLeyEk~~Gde~~ 1689 (1710)
T KOG1070|consen 1611 FKYGDAERGRTLFEGLLSAYPKRTDLWSVYIDMEIKHGDIKYVRDLFERVIELKLSIKKMKFFFKKWLEYEKSHGDEKN 1689 (1710)
T ss_pred             hhcCCchhhHHHHHHHHhhCccchhHHHHHHHHHHccCCHHHHHHHHHHHHhcCCChhHhHHHHHHHHHHHHhcCchhh
Confidence            8899999999999987  3333567899999999999999999999999999876532 22 33334443334466443

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

Probab=98.59  E-value=2.8e-05  Score=77.00  Aligned_cols=55  Identities=15%  Similarity=0.190  Sum_probs=27.3

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHH
Q 012108          206 TVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVF  262 (471)
Q Consensus       206 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~  262 (471)
                      .+..+..+|-+.|+.+++..+|+++++.. +.++.+.|.+...|... ++++|++++
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~  172 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYL  172 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHH
Confidence            34444444455555555555555555544 44445555555555544 555555444

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

Probab=98.59  E-value=8.5e-06  Score=67.12  Aligned_cols=125  Identities=12%  Similarity=0.035  Sum_probs=94.5

Q ss_pred             cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHH-hhcCC--HHH
Q 012108          283 HGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLL-GRARL--LDR  359 (471)
Q Consensus       283 ~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~--~~~  359 (471)
                      .++.+++...++.....+ +.+...|..+...|...|+++.|...|+++.+  -.+.+...+..+..++ ...|+  .++
T Consensus        52 ~~~~~~~i~~l~~~L~~~-P~~~~~w~~Lg~~~~~~g~~~~A~~a~~~Al~--l~P~~~~~~~~lA~aL~~~~g~~~~~~  128 (198)
T PRK10370         52 QQTPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWRNDYDNALLAYRQALQ--LRGENAELYAALATVLYYQAGQHMTPQ  128 (198)
T ss_pred             chhHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCCCcHH
Confidence            455677777777766653 55677888888888888999999999988887  3445677777777764 66676  488


Q ss_pred             HHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhH
Q 012108          360 AIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGEL  411 (471)
Q Consensus       360 A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  411 (471)
                      |.+++++. ...| +...+..+...+...|++++|+..|+++++..|. +..-+
T Consensus       129 A~~~l~~al~~dP~~~~al~~LA~~~~~~g~~~~Ai~~~~~aL~l~~~-~~~r~  181 (198)
T PRK10370        129 TREMIDKALALDANEVTALMLLASDAFMQADYAQAIELWQKVLDLNSP-RVNRT  181 (198)
T ss_pred             HHHHHHHHHHhCCCChhHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CccHH
Confidence            88888887 3444 5677888888888999999999999999888877 44443

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

Probab=98.59  E-value=3.2e-05  Score=63.72  Aligned_cols=119  Identities=13%  Similarity=-0.003  Sum_probs=53.0

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc
Q 012108          275 AMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA  354 (471)
Q Consensus       275 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  354 (471)
                      ..+....+.|++..|...+.+.... -++|...++.+.-+|.+.|+++.|..-|.+..+  -.+-++...+.+.-.|.-.
T Consensus       105 ~~gk~~~~~g~~~~A~~~~rkA~~l-~p~d~~~~~~lgaaldq~Gr~~~Ar~ay~qAl~--L~~~~p~~~nNlgms~~L~  181 (257)
T COG5010         105 AQGKNQIRNGNFGEAVSVLRKAARL-APTDWEAWNLLGAALDQLGRFDEARRAYRQALE--LAPNEPSIANNLGMSLLLR  181 (257)
T ss_pred             HHHHHHHHhcchHHHHHHHHHHhcc-CCCChhhhhHHHHHHHHccChhHHHHHHHHHHH--hccCCchhhhhHHHHHHHc
Confidence            3444444444444444444444432 233444444444444455555555444444444  1222333344444444444


Q ss_pred             CCHHHHHHHHHhCCC-CC-CHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          355 RLLDRAIELIEAMPF-EP-TESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       355 g~~~~A~~~~~~~~~-~p-~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      |+++.|..++..... .+ |..+-..+..+....|++++|+.+.
T Consensus       182 gd~~~A~~lll~a~l~~~ad~~v~~NLAl~~~~~g~~~~A~~i~  225 (257)
T COG5010         182 GDLEDAETLLLPAYLSPAADSRVRQNLALVVGLQGDFREAEDIA  225 (257)
T ss_pred             CCHHHHHHHHHHHHhCCCCchHHHHHHHHHHhhcCChHHHHhhc
Confidence            555555544444411 11 3344444444444455555544443

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

Probab=98.58  E-value=1.1e-06  Score=67.96  Aligned_cols=94  Identities=13%  Similarity=0.087  Sum_probs=46.2

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      ...+...+...|++++|.+.++.+ .. +.+...+..+...+...|++++|...+++..+.+|. ++..+..++.+|...
T Consensus        20 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~la~~~~~~   98 (135)
T TIGR02552        20 IYALAYNLYQQGRYDEALKLFQLLAAYDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAALDPD-DPRPYFHAAECLLAL   98 (135)
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHc
Confidence            333444444445555555544444 11 223344444445555555555555555555555554 455555555555555


Q ss_pred             CCHHHHHHHHHHhhhCC
Q 012108          422 GQWEEANRWRNMMNDTG  438 (471)
Q Consensus       422 g~~~~A~~~~~~m~~~~  438 (471)
                      |++++|...+++..+..
T Consensus        99 g~~~~A~~~~~~al~~~  115 (135)
T TIGR02552        99 GEPESALKALDLAIEIC  115 (135)
T ss_pred             CCHHHHHHHHHHHHHhc
Confidence            55555555555554443

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=98.57  E-value=1.3e-05  Score=71.85  Aligned_cols=117  Identities=18%  Similarity=0.088  Sum_probs=76.8

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a  392 (471)
                      +...|+++.|+..++.+.+  ..+.|+..+....+.+...++..+|.+.++++ ...|+ ......+..++.+.|++.+|
T Consensus       316 ~~~~~~~d~A~~~l~~L~~--~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l~P~~~~l~~~~a~all~~g~~~ea  393 (484)
T COG4783         316 TYLAGQYDEALKLLQPLIA--AQPDNPYYLELAGDILLEANKAKEAIERLKKALALDPNSPLLQLNLAQALLKGGKPQEA  393 (484)
T ss_pred             HHHhcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCccHHHHHHHHHHHhcCChHHH
Confidence            3455677777777777665  45556666666667777777777777777766 34454 44556666677777777777


Q ss_pred             HHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          393 DRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       393 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      +++++......|. |+..|..|+.+|...|+..+|.....+.
T Consensus       394 i~~L~~~~~~~p~-dp~~w~~LAqay~~~g~~~~a~~A~AE~  434 (484)
T COG4783         394 IRILNRYLFNDPE-DPNGWDLLAQAYAELGNRAEALLARAEG  434 (484)
T ss_pred             HHHHHHHhhcCCC-CchHHHHHHHHHHHhCchHHHHHHHHHH
Confidence            7777777777777 7777777777776666665555544443

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

Probab=98.56  E-value=3.9e-05  Score=68.86  Aligned_cols=136  Identities=19%  Similarity=0.153  Sum_probs=100.3

Q ss_pred             HHHhCCCHHHHHHHHHhcc---ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHccCChHH
Q 012108          147 AYTNAGEMEKAGEMFKKML---VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD-YLTVTSVLSACANLGSLET  222 (471)
Q Consensus       147 ~~~~~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~  222 (471)
                      .+...|++++|+..++.+.   +.|+..+......+...++.++|.+.++++...  .|+ ......+..++.+.|++++
T Consensus       315 ~~~~~~~~d~A~~~l~~L~~~~P~N~~~~~~~~~i~~~~nk~~~A~e~~~kal~l--~P~~~~l~~~~a~all~~g~~~e  392 (484)
T COG4783         315 QTYLAGQYDEALKLLQPLIAAQPDNPYYLELAGDILLEANKAKEAIERLKKALAL--DPNSPLLQLNLAQALLKGGKPQE  392 (484)
T ss_pred             HHHHhcccchHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHhc--CCCccHHHHHHHHHHHhcCChHH
Confidence            4556677777777777772   236666666777788888888888888888775  455 3444556677888888888


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDS  299 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  299 (471)
                      |..+++...... +.++..|..|.++|...|+..++..-.              ...+...|++++|+..+....+.
T Consensus       393 ai~~L~~~~~~~-p~dp~~w~~LAqay~~~g~~~~a~~A~--------------AE~~~~~G~~~~A~~~l~~A~~~  454 (484)
T COG4783         393 AIRILNRYLFND-PEDPNGWDLLAQAYAELGNRAEALLAR--------------AEGYALAGRLEQAIIFLMRASQQ  454 (484)
T ss_pred             HHHHHHHHhhcC-CCCchHHHHHHHHHHHhCchHHHHHHH--------------HHHHHhCCCHHHHHHHHHHHHHh
Confidence            888888877765 777888888888888888877766543              45677788888888888877765

>PRK15179 Vi polysaccharide biosynthesis protein TviE; Provisional

Probab=98.54  E-value=2e-05  Score=77.04  Aligned_cols=143  Identities=12%  Similarity=0.032  Sum_probs=118.0

Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 012108          235 LASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGL  311 (471)
Q Consensus       235 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  311 (471)
                      .+.++..+..|..+..+.|.+++|..+++...+  | +......++..+.+.+++++|+..+++..... +-+......+
T Consensus        82 ~~~~~~~~~~La~i~~~~g~~~ea~~~l~~~~~~~Pd~~~a~~~~a~~L~~~~~~eeA~~~~~~~l~~~-p~~~~~~~~~  160 (694)
T PRK15179         82 YPHTELFQVLVARALEAAHRSDEGLAVWRGIHQRFPDSSEAFILMLRGVKRQQGIEAGRAEIELYFSGG-SSSAREILLE  160 (694)
T ss_pred             ccccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHhhcC-CCCHHHHHHH
Confidence            466788999999999999999999999998765  3 56678888999999999999999999999863 3345566777


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHH
Q 012108          312 LSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALL  380 (471)
Q Consensus       312 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~  380 (471)
                      ..++.+.|++++|..+|+++..  ..+.+...+..+...+...|+.++|...|++.  ...|....|+.++
T Consensus       161 a~~l~~~g~~~~A~~~y~~~~~--~~p~~~~~~~~~a~~l~~~G~~~~A~~~~~~a~~~~~~~~~~~~~~~  229 (694)
T PRK15179        161 AKSWDEIGQSEQADACFERLSR--QHPEFENGYVGWAQSLTRRGALWRARDVLQAGLDAIGDGARKLTRRL  229 (694)
T ss_pred             HHHHHHhcchHHHHHHHHHHHh--cCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhhCcchHHHHHHH
Confidence            7888999999999999999997  44456788889999999999999999999988  3445556665554

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

Probab=98.48  E-value=0.0001  Score=73.10  Aligned_cols=59  Identities=8%  Similarity=0.115  Sum_probs=29.9

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYAT  231 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  231 (471)
                      ++-.+..+|-+.|+.++|..+|+++++.. +-|....+.+...++.. ++++|.+++.++.
T Consensus       118 Al~~LA~~Ydk~g~~~ka~~~yer~L~~D-~~n~~aLNn~AY~~ae~-dL~KA~~m~~KAV  176 (906)
T PRK14720        118 ALRTLAEAYAKLNENKKLKGVWERLVKAD-RDNPEIVKKLATSYEEE-DKEKAITYLKKAI  176 (906)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHh-hHHHHHHHHHHHH
Confidence            44445555555555555555555555543 33444445555555544 5555555554443

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.46  E-value=6.5e-06  Score=74.35  Aligned_cols=124  Identities=16%  Similarity=0.070  Sum_probs=96.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSAC  383 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~  383 (471)
                      .....++..+...++++.|.++|+++.+.   .|+  ....+++.+...++-.+|.+++++. . .+.+...+..-...+
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 YLVDTLLKYLSLTQRYDEAIELLEKLRER---DPE--VAVLLARVYLLMNEEVEAIRLLNEALKENPQDSELLNLQAEFL  244 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhc---CCc--HHHHHHHHHHhcCcHHHHHHHHHHHHHhCCCCHHHHHHHHHHH
Confidence            33445666666778888888888888772   143  4445777777777888888888776 2 233566666667778


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      .+.++++.|+.+.+++.+..|. +-.+|..|+.+|.+.|++++|+-.++.+-
T Consensus       245 l~k~~~~lAL~iAk~av~lsP~-~f~~W~~La~~Yi~~~d~e~ALlaLNs~P  295 (395)
T PF09295_consen  245 LSKKKYELALEIAKKAVELSPS-EFETWYQLAECYIQLGDFENALLALNSCP  295 (395)
T ss_pred             HhcCCHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHhcCCHHHHHHHHhcCc
Confidence            8999999999999999999999 89999999999999999999999888774

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

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.43  E-value=3.9e-05  Score=62.73  Aligned_cols=191  Identities=10%  Similarity=0.046  Sum_probs=127.0

Q ss_pred             CChHHHHHHHHHHHH---cC-CCCchhH-HHHHHHHHHhcCChHHHHHHHhcCCC--CCh-hhHHHHHHHHHhcCChHHH
Q 012108          218 GSLETGARIHVYATD---NG-LASNPHA-TTALIDMYAKCGSIEQSLEVFYKSQV--KDV-FCWNAMILGLALHGYGYAA  289 (471)
Q Consensus       218 ~~~~~a~~~~~~~~~---~~-~~~~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~-~~~~~l~~~~~~~~~~~~a  289 (471)
                      .+.++..+++..+..   .| ..++..+ +..++-+....|+.+.|..+++.+..  |+. ..-..-.-.+-..|++++|
T Consensus        26 rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~fp~S~RV~~lkam~lEa~~~~~~A  105 (289)
T KOG3060|consen   26 RNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRFPGSKRVGKLKAMLLEATGNYKEA  105 (289)
T ss_pred             cCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhCCCChhHHHHHHHHHHHhhchhhH
Confidence            455566666655542   23 3455443 55566667778888888888877554  222 1111112234457888999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 012108          290 LKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P  368 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  368 (471)
                      +++++.+.+.+ +.|..++.-=+...-..|+--+|++-+....+  .+..|...|..+...|...|++++|.-.++++ -
T Consensus       106 ~e~y~~lL~dd-pt~~v~~KRKlAilka~GK~l~aIk~ln~YL~--~F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  106 IEYYESLLEDD-PTDTVIRKRKLAILKAQGKNLEAIKELNEYLD--KFMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             HHHHHHHhccC-cchhHHHHHHHHHHHHcCCcHHHHHHHHHHHH--HhcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            99999888774 44556666655566667777788888888887  67788889999999999999999999999888 4


Q ss_pred             CCCCH-hHHHHHHHHHhhcC---CchHHHHHHHHHHHcCCCCCchhHH
Q 012108          369 FEPTE-SILGALLSACVIHQ---DLEIGDRVAKMVCAKSNYLSDGELM  412 (471)
Q Consensus       369 ~~p~~-~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~  412 (471)
                      ++|.. ..+..+...+...|   +.+.|.+.+.+.++..|. +...+.
T Consensus       183 ~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~~-~~ral~  229 (289)
T KOG3060|consen  183 IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNPK-NLRALF  229 (289)
T ss_pred             cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhChH-hHHHHH
Confidence            45644 44455555544333   566788888888888775 443333

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.41  E-value=0.0023  Score=62.03  Aligned_cols=88  Identities=6%  Similarity=0.001  Sum_probs=52.5

Q ss_pred             HHHHHHHhccCcHHH---HHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC---CCCCHhHHHHHHHH
Q 012108          309 IGLLSACSHAGLVQE---GCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMP---FEPTESILGALLSA  382 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~---a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~p~~~~~~~l~~~  382 (471)
                      +.++..+.+.++...   |+-+++....  .-+.|..+-..+|..|.-.|-+..|.++|+.+.   ++-|..-|. +...
T Consensus       440 ~~Lid~~rktnd~~~l~eaI~LLE~glt--~s~hnf~~KLlLiriY~~lGa~p~a~~~y~tLdIK~IQ~DTlgh~-~~~~  516 (932)
T KOG2053|consen  440 NHLIDLWRKTNDLTDLFEAITLLENGLT--KSPHNFQTKLLLIRIYSYLGAFPDAYELYKTLDIKNIQTDTLGHL-IFRR  516 (932)
T ss_pred             HHHHHHHHhcCcHHHHHHHHHHHHHHhh--cCCccHHHHHHHHHHHHHhcCChhHHHHHHhcchHHhhhccchHH-HHHH
Confidence            456677777777664   4444444444  333455666778899999999999999999883   333332221 2233


Q ss_pred             HhhcCCchHHHHHHHHH
Q 012108          383 CVIHQDLEIGDRVAKMV  399 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~  399 (471)
                      +...|++..+...+...
T Consensus       517 ~~t~g~~~~~s~~~~~~  533 (932)
T KOG2053|consen  517 AETSGRSSFASNTFNEH  533 (932)
T ss_pred             HHhcccchhHHHHHHHH
Confidence            34445555544444433

>KOG3060 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.38  E-value=0.00028  Score=57.95  Aligned_cols=186  Identities=15%  Similarity=0.101  Sum_probs=141.7

Q ss_pred             cCCHHHHHHHHHHHHh---CC-CCCCHHH-HHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChH
Q 012108          182 SQLYIEVVDLFDEMKA---GN-VKPDYLT-VTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIE  256 (471)
Q Consensus       182 ~~~~~~a~~~~~~m~~---~g-~~p~~~~-~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  256 (471)
                      ..++++..+++.+++.   .| ..++..+ |..++-+....|+.+.|...++.+.+.- |.+..+-..-...+-..|+++
T Consensus        25 ~rnseevv~l~~~~~~~~k~~~~g~e~w~l~EqV~IAAld~~~~~lAq~C~~~L~~~f-p~S~RV~~lkam~lEa~~~~~  103 (289)
T KOG3060|consen   25 VRNSEEVVQLGSEVLNYSKSGALGDEIWTLYEQVFIAALDTGRDDLAQKCINQLRDRF-PGSKRVGKLKAMLLEATGNYK  103 (289)
T ss_pred             ccCHHHHHHHHHHHHHHhhhcccCchHHHHHHHHHHHHHHhcchHHHHHHHHHHHHhC-CCChhHHHHHHHHHHHhhchh
Confidence            4567777777777653   24 4566554 4456667778889999999999987764 555555555555667789999


Q ss_pred             HHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          257 QSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       257 ~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      +|+++++.+...   |.+++-.-+...-..|+..+|++-+.+..+. +..|...|..+...|...|+++.|.-.++++.-
T Consensus       104 ~A~e~y~~lL~ddpt~~v~~KRKlAilka~GK~l~aIk~ln~YL~~-F~~D~EAW~eLaeiY~~~~~f~kA~fClEE~ll  182 (289)
T KOG3060|consen  104 EAIEYYESLLEDDPTDTVIRKRKLAILKAQGKNLEAIKELNEYLDK-FMNDQEAWHELAEIYLSEGDFEKAAFCLEELLL  182 (289)
T ss_pred             hHHHHHHHHhccCcchhHHHHHHHHHHHHcCCcHHHHHHHHHHHHH-hcCcHHHHHHHHHHHHhHhHHHHHHHHHHHHHH
Confidence            999999988764   4466666677777789888999999888876 677999999999999999999999999999986


Q ss_pred             hcCCCCChhHHHHHHHHHhhcC---CHHHHHHHHHhC-CCCC
Q 012108          334 DFGVTRKLEHYGCMVDLLGRAR---LLDRAIELIEAM-PFEP  371 (471)
Q Consensus       334 ~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p  371 (471)
                        ..|.++..+..+.+.+-..|   +.+-|.++|.+. .+.|
T Consensus       183 --~~P~n~l~f~rlae~~Yt~gg~eN~~~arkyy~~alkl~~  222 (289)
T KOG3060|consen  183 --IQPFNPLYFQRLAEVLYTQGGAENLELARKYYERALKLNP  222 (289)
T ss_pred             --cCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHhCh
Confidence              45567778888888765544   566788888776 5555

>KOG2053 consensus Mitochondrial inheritance and actin cytoskeleton organization protein [Cytoskeleton]

Probab=98.38  E-value=0.0029  Score=61.44  Aligned_cols=403  Identities=15%  Similarity=0.095  Sum_probs=225.2

Q ss_pred             hccchhHHHHHHHHHHHhccCCchhHHHHHHHHH--hccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHHHHH
Q 012108           22 ILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMY--GSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAM   96 (471)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~~A~   96 (471)
                      ..+++..|.+..+.+.+..  |+. .|...+.++  .+.|+.++|..+++....   .|..+...+-..|.+.|+.++|.
T Consensus        21 d~~qfkkal~~~~kllkk~--Pn~-~~a~vLkaLsl~r~gk~~ea~~~Le~~~~~~~~D~~tLq~l~~~y~d~~~~d~~~   97 (932)
T KOG2053|consen   21 DSSQFKKALAKLGKLLKKH--PNA-LYAKVLKALSLFRLGKGDEALKLLEALYGLKGTDDLTLQFLQNVYRDLGKLDEAV   97 (932)
T ss_pred             hhHHHHHHHHHHHHHHHHC--CCc-HHHHHHHHHHHHHhcCchhHHHHHhhhccCCCCchHHHHHHHHHHHHHhhhhHHH
Confidence            5678899999999988774  333 234444444  578999999999887653   47778889999999999999999


Q ss_pred             HHHhcCCCC--ChhhHHHHHHHHHhcCCHH----HHHHHHhhcCCCChhhHHHHHHHHHhCC----------CHHHHHHH
Q 012108           97 KLIDLMPLK--DVTSFNIMISGYARIGKIH----SARYIFDKVPAKDVVSWNSLILAYTNAG----------EMEKAGEM  160 (471)
Q Consensus        97 ~~~~~~~~~--~~~~~~~l~~~~~~~g~~~----~a~~~~~~~~~~~~~~~~~l~~~~~~~~----------~~~~A~~~  160 (471)
                      .+++.....  +......+..+|++.+.+.    .|.+++...++ +++.+=++++......          -..-|.+.
T Consensus        98 ~~Ye~~~~~~P~eell~~lFmayvR~~~yk~qQkaa~~LyK~~pk-~~yyfWsV~Slilqs~~~~~~~~~~i~l~LA~~m  176 (932)
T KOG2053|consen   98 HLYERANQKYPSEELLYHLFMAYVREKSYKKQQKAALQLYKNFPK-RAYYFWSVISLILQSIFSENELLDPILLALAEKM  176 (932)
T ss_pred             HHHHHHHhhCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCc-ccchHHHHHHHHHHhccCCcccccchhHHHHHHH
Confidence            999999866  4445556666777777654    45666665444 3433334444443321          13446667


Q ss_pred             HHhccccC-h----HHHHHHHHHHHhcCCHHHHHHHHHH-HHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 012108          161 FKKMLVKN-V----ITWNTMVTGYLRSQLYIEVVDLFDE-MKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNG  234 (471)
Q Consensus       161 ~~~~~~~~-~----~~~~~l~~~~~~~~~~~~a~~~~~~-m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  234 (471)
                      ++.+.+.+ .    .-...-...+...|.+++|+.++.. ..+.-...+...-+.-+..+...+++++..++-.++...|
T Consensus       177 ~~~~l~~~gk~~s~aE~~Lyl~iL~~~~k~~eal~~l~~~la~~l~~~~~~l~~~~~dllk~l~~w~~l~~l~~~Ll~k~  256 (932)
T KOG2053|consen  177 VQKLLEKKGKIESEAEIILYLLILELQGKYQEALEFLAITLAEKLTSANLYLENKKLDLLKLLNRWQELFELSSRLLEKG  256 (932)
T ss_pred             HHHHhccCCccchHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhccccchHHHHHHHHHHHHhcChHHHHHHHHHHHHhC
Confidence            77764443 1    1111222344567889999999844 3333223333444455667778899999999999988887


Q ss_pred             CCCchhHHHHHHHHHH----------------hcCChHHHHHHHhcCCCC-ChhhHHHHHHHHH---hcCChHHHHHHHH
Q 012108          235 LASNPHATTALIDMYA----------------KCGSIEQSLEVFYKSQVK-DVFCWNAMILGLA---LHGYGYAALKLLG  294 (471)
Q Consensus       235 ~~~~~~~~~~l~~~~~----------------~~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~---~~~~~~~a~~~~~  294 (471)
                       ..|   |...++.+.                ..+..+...+..++.... ....|-+-+.+..   .-|+.+++...|-
T Consensus       257 -~Dd---y~~~~~sv~klLe~~~~~~a~~~~s~~~~l~~~~ek~~~~i~~~~Rgp~LA~lel~kr~~~~gd~ee~~~~y~  332 (932)
T KOG2053|consen  257 -NDD---YKIYTDSVFKLLELLNKEPAEAAHSLSKSLDECIEKAQKNIGSKSRGPYLARLELDKRYKLIGDSEEMLSYYF  332 (932)
T ss_pred             -Ccc---hHHHHHHHHHHHHhcccccchhhhhhhhhHHHHHHHHHHhhcccccCcHHHHHHHHHHhcccCChHHHHHHHH
Confidence             333   333333221                112233333333332221 2223333333333   4577777665543


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChh-------HHHHHHHHHhhcCCH-----HHHHH
Q 012108          295 EMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLE-------HYGCMVDLLGRARLL-----DRAIE  362 (471)
Q Consensus       295 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~-------~~~~l~~~~~~~g~~-----~~A~~  362 (471)
                      +-.  |-.|   .|..=+..|...=+.+.-..++......   .++..       -+...+....-.|.+     +....
T Consensus       333 ~kf--g~kp---cc~~Dl~~yl~~l~~~q~~~l~~~l~~~---~~~~s~~~k~l~~h~c~l~~~rl~G~~~~l~ad~i~a  404 (932)
T KOG2053|consen  333 KKF--GDKP---CCAIDLNHYLGHLNIDQLKSLMSKLVLA---DDDSSGDEKVLQQHLCVLLLLRLLGLYEKLPADSILA  404 (932)
T ss_pred             HHh--CCCc---HhHhhHHHhhccCCHHHHHHHHHHhhcc---CCcchhhHHHHHHHHHHHHHHHHhhccccCChHHHHH
Confidence            321  2122   1222222222222222223333332220   11100       011111111111211     11111


Q ss_pred             HHHhC------C------CCCC---------HhHHHHHHHHHhhcCCch---HHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          363 LIEAM------P------FEPT---------ESILGALLSACVIHQDLE---IGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       363 ~~~~~------~------~~p~---------~~~~~~l~~~~~~~g~~~---~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ++++.      +      .-|+         ..+.+.|+..+.+.++..   +|+-+++......|. |..+-..++++|
T Consensus       405 ~~~kl~~~ye~gls~~K~ll~TE~~~g~~~llLav~~Lid~~rktnd~~~l~eaI~LLE~glt~s~h-nf~~KLlLiriY  483 (932)
T KOG2053|consen  405 YVRKLKLTYEKGLSLSKDLLPTEYSFGDELLLLAVNHLIDLWRKTNDLTDLFEAITLLENGLTKSPH-NFQTKLLLIRIY  483 (932)
T ss_pred             HHHHHHHHHhccccccccccccccccHHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhhcCCc-cHHHHHHHHHHH
Confidence            11111      0      1111         124566777888777755   678888888888888 888888899999


Q ss_pred             HhcCCHHHHHHHHHHhhhCCCcc
Q 012108          419 ASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       419 ~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      .-.|-+..|.++|+.+.-..+..
T Consensus       484 ~~lGa~p~a~~~y~tLdIK~IQ~  506 (932)
T KOG2053|consen  484 SYLGAFPDAYELYKTLDIKNIQT  506 (932)
T ss_pred             HHhcCChhHHHHHHhcchHHhhh
Confidence            99999999999998885555443

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

Probab=98.37  E-value=1.7e-05  Score=61.36  Aligned_cols=110  Identities=9%  Similarity=0.016  Sum_probs=82.5

Q ss_pred             HHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 012108          292 LLGEMNDSCVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF  369 (471)
Q Consensus       292 ~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  369 (471)
                      .+++....  .|+ ......+...+...|++++|.+.++.+..  ..+.++..+..+..++.+.|++++|...++.. ..
T Consensus         5 ~~~~~l~~--~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~   80 (135)
T TIGR02552         5 TLKDLLGL--DSEQLEQIYALAYNLYQQGRYDEALKLFQLLAA--YDPYNSRYWLGLAACCQMLKEYEEAIDAYALAAAL   80 (135)
T ss_pred             hHHHHHcC--ChhhHHHHHHHHHHHHHcccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence            34455543  343 34455666777888888888888888877  34557778888888888888888888888877 33


Q ss_pred             CC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          370 EP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       370 ~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .| +...+..+...+...|++++|...|++..+..|.
T Consensus        81 ~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  117 (135)
T TIGR02552        81 DPDDPRPYFHAAECLLALGEPESALKALDLAIEICGE  117 (135)
T ss_pred             CCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccc
Confidence            34 5667777788888899999999999999888876

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

>PF09295 ChAPs: ChAPs (Chs5p-Arf1p-binding proteins); InterPro: IPR015374 ChAPs (Chs5p-Arf1p-binding proteins) are required for the export of specialised cargo from the Golgi

Probab=98.36  E-value=2.2e-05  Score=70.99  Aligned_cols=128  Identities=11%  Similarity=0.036  Sum_probs=102.6

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 012108          240 HATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAG  319 (471)
Q Consensus       240 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  319 (471)
                      .....|+..+...++++.|+.+|+++...++.....++..+...++-.+|.+++++.... .+-+......-...|.+.+
T Consensus       170 yLv~~Ll~~l~~t~~~~~ai~lle~L~~~~pev~~~LA~v~l~~~~E~~AI~ll~~aL~~-~p~d~~LL~~Qa~fLl~k~  248 (395)
T PF09295_consen  170 YLVDTLLKYLSLTQRYDEAIELLEKLRERDPEVAVLLARVYLLMNEEVEAIRLLNEALKE-NPQDSELLNLQAEFLLSKK  248 (395)
T ss_pred             HHHHHHHHHHhhcccHHHHHHHHHHHHhcCCcHHHHHHHHHHhcCcHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHhcC
Confidence            445556677777788888888888888877777777888888888888999999988865 2335566666677788999


Q ss_pred             cHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 012108          320 LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFE  370 (471)
Q Consensus       320 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  370 (471)
                      +++.|+++.+++.+  -.+.+..+|..|..+|.+.|+++.|+-.++.++.-
T Consensus       249 ~~~lAL~iAk~av~--lsP~~f~~W~~La~~Yi~~~d~e~ALlaLNs~Pm~  297 (395)
T PF09295_consen  249 KYELALEIAKKAVE--LSPSEFETWYQLAECYIQLGDFENALLALNSCPML  297 (395)
T ss_pred             CHHHHHHHHHHHHH--hCchhHHHHHHHHHHHHhcCCHHHHHHHHhcCcCC
Confidence            99999999999987  44556779999999999999999999999888533

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

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.27  E-value=0.0017  Score=61.60  Aligned_cols=108  Identities=15%  Similarity=0.124  Sum_probs=59.4

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGL  320 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  320 (471)
                      +.+--+.-+...|+..+|.++-.+..-||-..|---+.+++..+++++-+++-+..+      ++.-|.....+|.+.|+
T Consensus       686 Sl~dTv~~li~~g~~k~a~ql~~~FkipdKr~~wLk~~aLa~~~kweeLekfAkskk------sPIGy~PFVe~c~~~~n  759 (829)
T KOG2280|consen  686 SLHDTVTTLILIGQNKRAEQLKSDFKIPDKRLWWLKLTALADIKKWEELEKFAKSKK------SPIGYLPFVEACLKQGN  759 (829)
T ss_pred             cHHHHHHHHHHccchHHHHHHHHhcCCcchhhHHHHHHHHHhhhhHHHHHHHHhccC------CCCCchhHHHHHHhccc
Confidence            333344445556666666666666666666666666666666666665554443322      12345556666666666


Q ss_pred             HHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHH
Q 012108          321 VQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELI  364 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  364 (471)
                      .++|.+++.+...   .       .-.+.+|.+.|++.+|.++-
T Consensus       760 ~~EA~KYiprv~~---l-------~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  760 KDEAKKYIPRVGG---L-------QEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             HHHHhhhhhccCC---h-------HHHHHHHHHhccHHHHHHHH
Confidence            6666666554432   1       13445556666665555443

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.26  E-value=4.9e-05  Score=59.43  Aligned_cols=115  Identities=11%  Similarity=0.041  Sum_probs=59.6

Q ss_pred             cCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHhhcCCchH
Q 012108          318 AGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTE----SILGALLSACVIHQDLEI  391 (471)
Q Consensus       318 ~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~l~~~~~~~g~~~~  391 (471)
                      .++...+...++.+.++.+-.+ .....-.+...+...|++++|...|+.+ ...|+.    .....+...+...|++++
T Consensus        24 ~~~~~~~~~~~~~l~~~~~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~~~d~~l~~~a~l~LA~~~~~~~~~d~  103 (145)
T PF09976_consen   24 AGDPAKAEAAAEQLAKDYPSSPYAALAALQLAKAAYEQGDYDEAKAALEKALANAPDPELKPLARLRLARILLQQGQYDE  103 (145)
T ss_pred             CCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHH
Confidence            4555555555555555211111 1222233444555566666666666655 111222    133344555666677777


Q ss_pred             HHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          392 GDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       392 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      |+..++....  +...+..+...+++|.+.|++++|...|++.
T Consensus       104 Al~~L~~~~~--~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen  104 ALATLQQIPD--EAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHhccC--cchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            7666655322  1124555666677777777777777766653

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=98.23  E-value=7.2e-05  Score=57.36  Aligned_cols=93  Identities=10%  Similarity=-0.032  Sum_probs=69.3

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      .-.+...+...|++++|.++|+-+ .+.| +..-|..|..++...|++++|+..+..+...+|+ ++..+..++.++...
T Consensus        38 lY~~A~~ly~~G~l~~A~~~f~~L~~~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~d-dp~~~~~ag~c~L~l  116 (157)
T PRK15363         38 LYRYAMQLMEVKEFAGAARLFQLLTIYDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKID-APQAPWAAAECYLAC  116 (157)
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHHc
Confidence            334445556778888888877776 3344 4556677777777888888888888888888888 888888888888888


Q ss_pred             CCHHHHHHHHHHhhhC
Q 012108          422 GQWEEANRWRNMMNDT  437 (471)
Q Consensus       422 g~~~~A~~~~~~m~~~  437 (471)
                      |+.+.|.+.|+.....
T Consensus       117 G~~~~A~~aF~~Ai~~  132 (157)
T PRK15363        117 DNVCYAIKALKAVVRI  132 (157)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            8888888888877653

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=98.22  E-value=0.0034  Score=55.69  Aligned_cols=107  Identities=16%  Similarity=0.097  Sum_probs=58.5

Q ss_pred             HHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHH
Q 012108          244 ALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQE  323 (471)
Q Consensus       244 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~  323 (471)
                      ..+.-+...|+...|.++-.+..-|+...|...+.+++..++|++-.++...   .   -++..|..++.+|.+.|+..+
T Consensus       182 ~Ti~~li~~~~~k~A~kl~k~Fkv~dkrfw~lki~aLa~~~~w~eL~~fa~s---k---KsPIGyepFv~~~~~~~~~~e  255 (319)
T PF04840_consen  182 DTIRKLIEMGQEKQAEKLKKEFKVPDKRFWWLKIKALAENKDWDELEKFAKS---K---KSPIGYEPFVEACLKYGNKKE  255 (319)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHcCCcHHHHHHHHHHHHHhcCCHHHHHHHHhC---C---CCCCChHHHHHHHHHCCCHHH
Confidence            3344455556666666666666666666666666666666666655543321   1   123556666666666666666


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          324 GCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       324 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      |..++.++.           +..-+..|.++|++.+|.+.--+.
T Consensus       256 A~~yI~k~~-----------~~~rv~~y~~~~~~~~A~~~A~~~  288 (319)
T PF04840_consen  256 ASKYIPKIP-----------DEERVEMYLKCGDYKEAAQEAFKE  288 (319)
T ss_pred             HHHHHHhCC-----------hHHHHHHHHHCCCHHHHHHHHHHc
Confidence            655555421           123455556666666665554333

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

>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=98.21  E-value=1.9e-05  Score=56.63  Aligned_cols=94  Identities=15%  Similarity=0.045  Sum_probs=71.7

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      +..+...+...|++++|...+++. ...| +...+..+...+...|++++|.+.++......|. +...+..++..+...
T Consensus         3 ~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~   81 (100)
T cd00189           3 LLNLGNLYYKLGDYDEALEYYEKALELDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPD-NAKAYYNLGLAYYKL   81 (100)
T ss_pred             HHHHHHHHHHHhcHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc-chhHHHHHHHHHHHH
Confidence            445566677778888888887776 3333 3456667777788888888898888888888877 677888888888888


Q ss_pred             CCHHHHHHHHHHhhhCC
Q 012108          422 GQWEEANRWRNMMNDTG  438 (471)
Q Consensus       422 g~~~~A~~~~~~m~~~~  438 (471)
                      |++++|...+++..+..
T Consensus        82 ~~~~~a~~~~~~~~~~~   98 (100)
T cd00189          82 GKYEEALEAYEKALELD   98 (100)
T ss_pred             HhHHHHHHHHHHHHccC
Confidence            99999988888876544

>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A

Probab=98.19  E-value=5.9e-06  Score=55.17  Aligned_cols=67  Identities=12%  Similarity=-0.046  Sum_probs=60.8

Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcC-CHHHHHHHHHHhhhCCC
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCG-QWEEANRWRNMMNDTGI  439 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~m~~~~~  439 (471)
                      ++.+|..+...+...|++++|+..|+++++.+|. ++..|..++.+|.+.| ++++|++.+++..+.+|
T Consensus         2 ~a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~-~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    2 NAEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPN-NAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             SHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTT-HHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            4567888899999999999999999999999999 9999999999999999 79999999999877653

...

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=98.19  E-value=4.2e-06  Score=55.08  Aligned_cols=61  Identities=10%  Similarity=0.055  Sum_probs=53.7

Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +...+...|++++|+..|+++++..|. ++..+..++.++...|++++|..+|+++.+..+.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~-~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPD-NPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTT-HHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            456778899999999999999999999 9999999999999999999999999999877664

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.18  E-value=3.6e-06  Score=47.34  Aligned_cols=33  Identities=33%  Similarity=0.629  Sum_probs=27.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD  203 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~  203 (471)
                      +||.++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            678888888888888888888888888888876

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.

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=98.16  E-value=0.0048  Score=55.23  Aligned_cols=404  Identities=11%  Similarity=0.109  Sum_probs=221.5

Q ss_pred             HHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCc---ccHHHHHHHHHcCCCHHHHHHHHhcCCCC
Q 012108           29 GLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDI---IAWNSMLDAFASCGQMDHAMKLIDLMPLK  105 (471)
Q Consensus        29 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~---~~~~~li~~~~~~g~~~~A~~~~~~~~~~  105 (471)
                      -.++-+++.+.  +.|...|-.|+.-|..+|..++.+++++++..|-+   .+|..-+.+-....++.....+|.+....
T Consensus        28 ~lrLRerIkdN--PtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~pfp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k  105 (660)
T COG5107          28 ELRLRERIKDN--PTNILSYFQLIQYLETQESMDAEREMYEQLSSPFPIMEHAWRLYMSGELARKDFRSVESLFGRCLKK  105 (660)
T ss_pred             HHHHHHHhhcC--chhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCCCccccHHHHHHhcchhhhhhHHHHHHHHHHHHhh
Confidence            34666666654  56888999999999999999999999999998744   57888888877788899999888877655


Q ss_pred             --ChhhHHHHHHHHHhcCCH------HHHHHHHhhc-----CC-CChhhHHHHHHH---------HHhCCCHHHHHHHHH
Q 012108          106 --DVTSFNIMISGYARIGKI------HSARYIFDKV-----PA-KDVVSWNSLILA---------YTNAGEMEKAGEMFK  162 (471)
Q Consensus       106 --~~~~~~~l~~~~~~~g~~------~~a~~~~~~~-----~~-~~~~~~~~l~~~---------~~~~~~~~~A~~~~~  162 (471)
                        +...|..-+.-..+.+..      -...+.|+-.     .+ .....|+..+..         +-.+.+++...+.+.
T Consensus       106 ~l~ldLW~lYl~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~  185 (660)
T COG5107         106 SLNLDLWMLYLEYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYM  185 (660)
T ss_pred             hccHhHHHHHHHHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHH
Confidence              555555555444333311      1111222222     12 233344443332         223445666677777


Q ss_pred             hccc-c--Ch-------HHHHHHHHH-----HHh--cCCHHHHHHHHHHHHh--CCCCC----CHHHHHH----------
Q 012108          163 KMLV-K--NV-------ITWNTMVTG-----YLR--SQLYIEVVDLFDEMKA--GNVKP----DYLTVTS----------  209 (471)
Q Consensus       163 ~~~~-~--~~-------~~~~~l~~~-----~~~--~~~~~~a~~~~~~m~~--~g~~p----~~~~~~~----------  209 (471)
                      +++. |  |.       ..|..=++.     +..  .--+..|.+.++++..  .|...    +..+++-          
T Consensus       186 ral~tP~~nleklW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~Wl  265 (660)
T COG5107         186 RALQTPMGNLEKLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWL  265 (660)
T ss_pred             HHHcCccccHHHHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhh
Confidence            7732 2  11       111111111     100  1124456666666532  23321    1122222          


Q ss_pred             -HHHHHHc-----cCC--hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChh----------
Q 012108          210 -VLSACAN-----LGS--LETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVF----------  271 (471)
Q Consensus       210 -l~~~~~~-----~~~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~----------  271 (471)
                       .|.--..     .|+  .+...-++++.... ++-.+.+|--....+...++-+.|+.......+..+.          
T Consensus       266 NwIkwE~en~l~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~rg~~~spsL~~~lse~ye  344 (660)
T COG5107         266 NWIKWEMENGLKLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVERGIEMSPSLTMFLSEYYE  344 (660)
T ss_pred             hHhhHhhcCCcccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHHhcccCCCchheeHHHHHh
Confidence             1111000     000  11111223332222 2333444444455555667777777776654442111          


Q ss_pred             ----------hHHHHHHHHHh---cCChHHHHHH------HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 012108          272 ----------CWNAMILGLAL---HGYGYAALKL------LGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRME  332 (471)
Q Consensus       272 ----------~~~~l~~~~~~---~~~~~~a~~~------~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  332 (471)
                                +|..+++.+.+   .++.+.+...      ..+..-....--...|...++...+..-.+.|..+|-++.
T Consensus       345 l~nd~e~v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~r  424 (660)
T COG5107         345 LVNDEEAVYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKLR  424 (660)
T ss_pred             hcccHHHHhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence                      12222222211   1111111110      0110000001122446667777777788899999999998


Q ss_pred             HhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHH-HHHHHHHhhcCCchHHHHHHHHHHHcCCC-CCch
Q 012108          333 KDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESIL-GALLSACVIHQDLEIGDRVAKMVCAKSNY-LSDG  409 (471)
Q Consensus       333 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~-~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~  409 (471)
                      +..-+.+++..+++++..++ .|+..-|..+|+-- ..-||...| .-.+.-+...++-+.|..+|+..++.-.. --..
T Consensus       425 k~~~~~h~vyi~~A~~E~~~-~~d~~ta~~ifelGl~~f~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q~k~  503 (660)
T COG5107         425 KEGIVGHHVYIYCAFIEYYA-TGDRATAYNIFELGLLKFPDSTLYKEKYLLFLIRINDEENARALFETSVERLEKTQLKR  503 (660)
T ss_pred             ccCCCCcceeeeHHHHHHHh-cCCcchHHHHHHHHHHhCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhH
Confidence            84337788888999888665 57888888888754 334555544 55666677888888999999866554322 0256


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          410 ELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       410 ~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      .|..++.--..-|+...+..+=++|..
T Consensus       504 iy~kmi~YEs~~G~lN~v~sLe~rf~e  530 (660)
T COG5107         504 IYDKMIEYESMVGSLNNVYSLEERFRE  530 (660)
T ss_pred             HHHHHHHHHHhhcchHHHHhHHHHHHH
Confidence            888888888888888777666665543

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.16  E-value=4.2e-06  Score=46.68  Aligned_cols=33  Identities=33%  Similarity=0.477  Sum_probs=25.7

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKP  202 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p  202 (471)
                      .+|+.++.+|.+.|+++.|.++|++|.+.|++|
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            467778888888888888888888887777766

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.16  E-value=3.4e-05  Score=58.05  Aligned_cols=92  Identities=15%  Similarity=-0.005  Sum_probs=43.1

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC--CchhHHHHHHHHH
Q 012108          347 MVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL--SDGELMMFANLYA  419 (471)
Q Consensus       347 l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~  419 (471)
                      ++..+.+.|++++|.+.|..+ ...|+    ...+..+..++...|+++.|...++.+....|..  .+..+..++.++.
T Consensus         8 ~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~~~~~   87 (119)
T TIGR02795         8 AALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLGMSLQ   87 (119)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHHHHHH
Confidence            334444444444444444444 11111    1233334445555555555555555555544431  1334445555555


Q ss_pred             hcCCHHHHHHHHHHhhhCC
Q 012108          420 SCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       420 ~~g~~~~A~~~~~~m~~~~  438 (471)
                      +.|++++|...++++.+..
T Consensus        88 ~~~~~~~A~~~~~~~~~~~  106 (119)
T TIGR02795        88 ELGDKEKAKATLQQVIKRY  106 (119)
T ss_pred             HhCChHHHHHHHHHHHHHC
Confidence            5555555555555555443

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.

>TIGR00756 PPR pentatricopeptide repeat domain (PPR motif)

Probab=98.16  E-value=4.4e-06  Score=46.96  Aligned_cols=33  Identities=33%  Similarity=0.456  Sum_probs=28.0

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKAD  304 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~  304 (471)
                      +|++++.+|++.|++++|.++|++|.+.|+.||
T Consensus         2 ~~n~li~~~~~~~~~~~a~~~~~~M~~~g~~p~   34 (35)
T TIGR00756         2 TYNTLIDGLCKAGRVEEALELFKEMLERGIEPD   34 (35)
T ss_pred             cHHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCC
Confidence            688888888888888888888888888888886

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.

>PF09976 TPR_21: Tetratricopeptide repeat; InterPro: IPR018704 This domain, found in various hypothetical prokaryotic proteins, has no known function

Probab=98.14  E-value=0.00015  Score=56.72  Aligned_cols=124  Identities=10%  Similarity=0.059  Sum_probs=80.1

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC--hhHHHHH
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDSCVKAD---DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK--LEHYGCM  347 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l  347 (471)
                      |..++..+ ..++...+...++.+.... +.+   ......+...+...|++++|...|+.+... ...|.  ......|
T Consensus        15 y~~~~~~~-~~~~~~~~~~~~~~l~~~~-~~s~ya~~A~l~lA~~~~~~g~~~~A~~~l~~~~~~-~~d~~l~~~a~l~L   91 (145)
T PF09976_consen   15 YEQALQAL-QAGDPAKAEAAAEQLAKDY-PSSPYAALAALQLAKAAYEQGDYDEAKAALEKALAN-APDPELKPLARLRL   91 (145)
T ss_pred             HHHHHHHH-HCCCHHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-CCCHHHHHHHHHHH
Confidence            44444444 3677777777777777652 222   123333456677788888888888888772 32222  2344456


Q ss_pred             HHHHhhcCCHHHHHHHHHhCCC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHH
Q 012108          348 VDLLGRARLLDRAIELIEAMPF-EPTESILGALLSACVIHQDLEIGDRVAKMV  399 (471)
Q Consensus       348 ~~~~~~~g~~~~A~~~~~~~~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  399 (471)
                      ...+...|++++|+..++.... ......+......+...|++++|...|+++
T Consensus        92 A~~~~~~~~~d~Al~~L~~~~~~~~~~~~~~~~Gdi~~~~g~~~~A~~~y~~A  144 (145)
T PF09976_consen   92 ARILLQQGQYDEALATLQQIPDEAFKALAAELLGDIYLAQGDYDEARAAYQKA  144 (145)
T ss_pred             HHHHHHcCCHHHHHHHHHhccCcchHHHHHHHHHHHHHHCCCHHHHHHHHHHh
Confidence            6777788888888888877632 223455666777788888888888888764

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=98.11  E-value=5.2e-06  Score=57.89  Aligned_cols=77  Identities=16%  Similarity=0.145  Sum_probs=38.1

Q ss_pred             CCHHHHHHHHHhC-CCCC---CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHH
Q 012108          355 RLLDRAIELIEAM-PFEP---TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRW  430 (471)
Q Consensus       355 g~~~~A~~~~~~~-~~~p---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  430 (471)
                      |+++.|+.+++++ ...|   +...+..+..++.+.|++++|..++++ .+.++. +......++.+|.+.|++++|++.
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~-~~~~~~-~~~~~~l~a~~~~~l~~y~eAi~~   80 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK-LKLDPS-NPDIHYLLARCLLKLGKYEEAIKA   80 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC-HTHHHC-HHHHHHHHHHHHHHTT-HHHHHHH
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH-hCCCCC-CHHHHHHHHHHHHHhCCHHHHHHH
Confidence            4444555544444 1111   233333455555566666666666655 444443 344444556666666666666666


Q ss_pred             HHH
Q 012108          431 RNM  433 (471)
Q Consensus       431 ~~~  433 (471)
                      +++
T Consensus        81 l~~   83 (84)
T PF12895_consen   81 LEK   83 (84)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            554

>TIGR02795 tol_pal_ybgF tol-pal system protein YbgF

Probab=98.10  E-value=7.7e-05  Score=56.11  Aligned_cols=104  Identities=13%  Similarity=-0.011  Sum_probs=65.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHH
Q 012108          307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALL  380 (471)
Q Consensus       307 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~  380 (471)
                      ++..+...+...|++++|.+.|..+.....-.+ ....+..+..++.+.|++++|...|+.+ ...|+    ...+..+.
T Consensus         4 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~~~   83 (119)
T TIGR02795         4 AYYDAALLVLKAGDYADAIQAFQAFLKKYPKSTYAPNAHYWLGEAYYAQGKYADAAKAFLAVVKKYPKSPKAPDALLKLG   83 (119)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHHhhccHHHHHHHHHHHHHHCCCCCcccHHHHHHH
Confidence            445555666667777777777777765211111 1334555666777777777777777765 22222    34566666


Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCCCCchhH
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGEL  411 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  411 (471)
                      .++...|++++|...++++.+..|. +....
T Consensus        84 ~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~  113 (119)
T TIGR02795        84 MSLQELGDKEKAKATLQQVIKRYPG-SSAAK  113 (119)
T ss_pred             HHHHHhCChHHHHHHHHHHHHHCcC-ChhHH
Confidence            7777788888888888888887776 54433

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.

>PF13812 PPR_3: Pentatricopeptide repeat domain

Probab=98.08  E-value=7.8e-06  Score=45.56  Aligned_cols=33  Identities=36%  Similarity=0.444  Sum_probs=25.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKA  303 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p  303 (471)
                      .+|+.++.+|++.|+++.|.++|++|.+.|++|
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            467777777888888888888888887777766

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=98.02  E-value=2.4e-05  Score=65.79  Aligned_cols=110  Identities=10%  Similarity=-0.021  Sum_probs=86.4

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCch
Q 012108          313 SACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLE  390 (471)
Q Consensus       313 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~  390 (471)
                      .-..+.+++.+|+..|.++.+  -.+.|+..|..-..+|.+.|.++.|.+-.+.. .+.|. ..+|..|..+|...|+++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~--l~P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~iDp~yskay~RLG~A~~~~gk~~  166 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIE--LDPTNAVYYCNRAAAYSKLGEYEDAVKDCESALSIDPHYSKAYGRLGLAYLALGKYE  166 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHh--cCCCcchHHHHHHHHHHHhcchHHHHHHHHHHHhcChHHHHHHHHHHHHHHccCcHH
Confidence            346677899999999999987  45567888888889999999999998887776 55664 568999999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHH
Q 012108          391 IGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWE  425 (471)
Q Consensus       391 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~  425 (471)
                      +|++.|+++++.+|. +......|-.+-.+.+...
T Consensus       167 ~A~~aykKaLeldP~-Ne~~K~nL~~Ae~~l~e~~  200 (304)
T KOG0553|consen  167 EAIEAYKKALELDPD-NESYKSNLKIAEQKLNEPK  200 (304)
T ss_pred             HHHHHHHhhhccCCC-cHHHHHHHHHHHHHhcCCC
Confidence            999999999999988 6655555555544444433

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=98.01  E-value=4.1e-05  Score=69.58  Aligned_cols=107  Identities=7%  Similarity=-0.028  Sum_probs=88.8

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCC
Q 012108          311 LLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQD  388 (471)
Q Consensus       311 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  388 (471)
                      -...+...|+++.|++.|+++.+  ..+.+...|..+..+|.+.|++++|+..++++ .+.| +...|..+..+|...|+
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~--~~P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~l~P~~~~a~~~lg~~~~~lg~   85 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAID--LDPNNAELYADRAQANIKLGNFTEAVADANKAIELDPSLAKAYLRKGTACMKLEE   85 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHhCC
Confidence            35566788999999999999998  44556888888999999999999999999988 4455 56788888999999999


Q ss_pred             chHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          389 LEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      +++|+..|+++++.+|. ++.....+..+..+
T Consensus        86 ~~eA~~~~~~al~l~P~-~~~~~~~l~~~~~k  116 (356)
T PLN03088         86 YQTAKAALEKGASLAPG-DSRFTKLIKECDEK  116 (356)
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            99999999999999998 77766665554333

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=98.00  E-value=9.6e-05  Score=59.74  Aligned_cols=96  Identities=13%  Similarity=0.004  Sum_probs=52.9

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      +..+...+...|++++|...|++. ...|+    ...+..+...+...|++++|...++++++..|. +...+..++.+|
T Consensus        38 ~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~  116 (172)
T PRK02603         38 YYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELNPK-QPSALNNIAVIY  116 (172)
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHH
Confidence            444444444555555555555444 11111    234555556666666666666666666666665 555666666666


Q ss_pred             HhcCC--------------HHHHHHHHHHhhhCCCc
Q 012108          419 ASCGQ--------------WEEANRWRNMMNDTGIV  440 (471)
Q Consensus       419 ~~~g~--------------~~~A~~~~~~m~~~~~~  440 (471)
                      ...|+              +++|.+++++..+.++.
T Consensus       117 ~~~g~~~~a~~~~~~A~~~~~~A~~~~~~a~~~~p~  152 (172)
T PRK02603        117 HKRGEKAEEAGDQDEAEALFDKAAEYWKQAIRLAPN  152 (172)
T ss_pred             HHcCChHhHhhCHHHHHHHHHHHHHHHHHHHhhCch
Confidence            66555              45666666666555543

>COG5107 RNA14 Pre-mRNA 3'-end processing (cleavage and polyadenylation) factor [RNA processing and modification]

Probab=97.97  E-value=0.012  Score=52.84  Aligned_cols=402  Identities=11%  Similarity=0.010  Sum_probs=223.9

Q ss_pred             CCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCcccHHHHH
Q 012108            6 VHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIAWNSML   83 (471)
Q Consensus         6 ~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li   83 (471)
                      .+.|..+|-.|++.+...|..++..+.+++|..- ++--..+|...+.+-....++...+.+|.+...  -+...|...+
T Consensus        38 NPtnI~S~fqLiq~~~tq~s~~~~re~yeq~~~p-fp~~~~aw~ly~s~ELA~~df~svE~lf~rCL~k~l~ldLW~lYl  116 (660)
T COG5107          38 NPTNILSYFQLIQYLETQESMDAEREMYEQLSSP-FPIMEHAWRLYMSGELARKDFRSVESLFGRCLKKSLNLDLWMLYL  116 (660)
T ss_pred             CchhHHHHHHHHHHHhhhhhHHHHHHHHHHhcCC-CccccHHHHHHhcchhhhhhHHHHHHHHHHHHhhhccHhHHHHHH
Confidence            3456679999999999999999999999999754 344556788778877778999999999998765  3556666665


Q ss_pred             HHHHcCCC---------HHHHHHHHhcC--CCC-ChhhHHHHHH---HHH------hcCCHHHHHHHHhhcCCC------
Q 012108           84 DAFASCGQ---------MDHAMKLIDLM--PLK-DVTSFNIMIS---GYA------RIGKIHSARYIFDKVPAK------  136 (471)
Q Consensus        84 ~~~~~~g~---------~~~A~~~~~~~--~~~-~~~~~~~l~~---~~~------~~g~~~~a~~~~~~~~~~------  136 (471)
                      .---+.+.         +-+|.++.-..  ..+ ....|+..+.   ..-      ...+++.....+.+++..      
T Consensus       117 ~YIRr~n~~~tGq~r~~i~~ayefv~~~~~~e~~s~~~W~ey~~fle~~~~~~kwEeQqrid~iR~~Y~ral~tP~~nle  196 (660)
T COG5107         117 EYIRRVNNLITGQKRFKIYEAYEFVLGCAIFEPQSENYWDEYGLFLEYIEELGKWEEQQRIDKIRNGYMRALQTPMGNLE  196 (660)
T ss_pred             HHHHhhCcccccchhhhhHHHHHHHHhcccccccccchHHHHHHHHHhccccccHHHHHHHHHHHHHHHHHHcCccccHH
Confidence            54333221         22233322111  011 2222332222   212      223345555556665321      


Q ss_pred             ----ChhhHHHHHHHH-----Hh--CCCHHHHHHHHHhccc-------c---ChHHHHHHHH-----------HHHhcC-
Q 012108          137 ----DVVSWNSLILAY-----TN--AGEMEKAGEMFKKMLV-------K---NVITWNTMVT-----------GYLRSQ-  183 (471)
Q Consensus       137 ----~~~~~~~l~~~~-----~~--~~~~~~A~~~~~~~~~-------~---~~~~~~~l~~-----------~~~~~~-  183 (471)
                          |-..|..=++-.     .-  .--+-.|...+++...       .   +..++|.+.+           .-...| 
T Consensus       197 klW~dy~~fE~e~N~~TarKfvge~sp~ym~ar~~yqe~~nlt~Gl~v~~~~~~Rt~nK~~r~s~S~WlNwIkwE~en~l  276 (660)
T COG5107         197 KLWKDYENFELELNKITARKFVGETSPIYMSARQRYQEIQNLTRGLSVKNPINLRTANKAARTSDSNWLNWIKWEMENGL  276 (660)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHhcccCHHHHHHHHHHHHHHHHhccccccCchhhhhhccccccccchhhhHhhHhhcCCc
Confidence                111111111100     00  0112334444444310       0   1222222111           100000 


Q ss_pred             ----C--HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 012108          184 ----L--YIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQ  257 (471)
Q Consensus       184 ----~--~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  257 (471)
                          +  ....--++++.... +......|----.-+...++-+.|.+...    .|++..+.....+...|.-.++-+.
T Consensus       277 ~L~~~~~~qRi~y~~~q~~~y-~~~~~evw~dys~Y~~~isd~q~al~tv~----rg~~~spsL~~~lse~yel~nd~e~  351 (660)
T COG5107         277 KLGGRPHEQRIHYIHNQILDY-FYYAEEVWFDYSEYLIGISDKQKALKTVE----RGIEMSPSLTMFLSEYYELVNDEEA  351 (660)
T ss_pred             ccCCCcHHHHHHHHHHHHHHH-hhhhHHHHHHHHHHHhhccHHHHHHHHHH----hcccCCCchheeHHHHHhhcccHHH
Confidence                0  00011111111110 01111111111122233455555555443    3333333333334444444444444


Q ss_pred             HHHHHhcCCC---------------------------------CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC-CCC
Q 012108          258 SLEVFYKSQV---------------------------------KDVFCWNAMILGLALHGYGYAALKLLGEMNDSC-VKA  303 (471)
Q Consensus       258 a~~~~~~~~~---------------------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~p  303 (471)
                      ....|++..+                                 .-..+|...+....+....+.|..+|-++.+.| +.+
T Consensus       352 v~~~fdk~~q~L~r~ys~~~s~~~s~~D~N~e~~~Ell~kr~~k~t~v~C~~~N~v~r~~Gl~aaR~~F~k~rk~~~~~h  431 (660)
T COG5107         352 VYGCFDKCTQDLKRKYSMGESESASKVDNNFEYSKELLLKRINKLTFVFCVHLNYVLRKRGLEAARKLFIKLRKEGIVGH  431 (660)
T ss_pred             HhhhHHHHHHHHHHHHhhhhhhhhccccCCccccHHHHHHHHhhhhhHHHHHHHHHHHHhhHHHHHHHHHHHhccCCCCc
Confidence            4443332110                                 112467778888888888999999999999998 667


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCC--HhHHHHH
Q 012108          304 DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPT--ESILGAL  379 (471)
Q Consensus       304 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~--~~~~~~l  379 (471)
                      +...++.++.-++ .|+...|..+|+.-..  .++.++..-+..+..+.+.++-+.|..+|+..  .+..+  ..+|..+
T Consensus       432 ~vyi~~A~~E~~~-~~d~~ta~~ifelGl~--~f~d~~~y~~kyl~fLi~inde~naraLFetsv~r~~~~q~k~iy~km  508 (660)
T COG5107         432 HVYIYCAFIEYYA-TGDRATAYNIFELGLL--KFPDSTLYKEKYLLFLIRINDEENARALFETSVERLEKTQLKRIYDKM  508 (660)
T ss_pred             ceeeeHHHHHHHh-cCCcchHHHHHHHHHH--hCCCchHHHHHHHHHHHHhCcHHHHHHHHHHhHHHHHHhhhhHHHHHH
Confidence            7888888888766 5788899999998776  44455555566777888999999999999965  23333  5789999


Q ss_pred             HHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          380 LSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       380 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      +.--..-|+...+..+-+++.+.-|.  ..+...+..-|
T Consensus       509 i~YEs~~G~lN~v~sLe~rf~e~~pQ--en~~evF~Sry  545 (660)
T COG5107         509 IEYESMVGSLNNVYSLEERFRELVPQ--ENLIEVFTSRY  545 (660)
T ss_pred             HHHHHhhcchHHHHhHHHHHHHHcCc--HhHHHHHHHHH
Confidence            99989999999999998999888776  43333333333

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.95  E-value=0.019  Score=54.42  Aligned_cols=233  Identities=14%  Similarity=0.109  Sum_probs=137.6

Q ss_pred             CCchhHHHHHHHHHhccCCHhHHHHHhcccCC-CCcccHHHHH----------HHHHcCCCHHHHHHHHhcCCCCChhhH
Q 012108           42 CGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE-KDIIAWNSML----------DAFASCGQMDHAMKLIDLMPLKDVTSF  110 (471)
Q Consensus        42 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~~~~~li----------~~~~~~g~~~~A~~~~~~~~~~~~~~~  110 (471)
                      .|.+..|..+...-...-.++.|+..|-+... +.+...-.|-          ..-+--|++++|.+++-.+.++|.   
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISAFYGEFEEAEKLYLDADRRDL---  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhhhhcchhHhhhhhhccchhhh---
Confidence            47778888888877777888888888877654 3222111111          111225889999999888876653   


Q ss_pred             HHHHHHHHhcCCHHHHHHHHhhcCCC-----ChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCH
Q 012108          111 NIMISGYARIGKIHSARYIFDKVPAK-----DVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLY  185 (471)
Q Consensus       111 ~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~  185 (471)
                        .+..+.+.|++-.+.++++.--..     -...++.+.+.+.....|++|.+.|......     ...+.++.+..++
T Consensus       766 --Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~~-----e~~~ecly~le~f  838 (1189)
T KOG2041|consen  766 --AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGDT-----ENQIECLYRLELF  838 (1189)
T ss_pred             --hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccch-----HhHHHHHHHHHhh
Confidence              456667778888777777765322     1246777788888888888888877664221     1244555555555


Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcC
Q 012108          186 IEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKS  265 (471)
Q Consensus       186 ~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  265 (471)
                      ++-..+-..+     +.+....-.+...+.+.|.-++|.+.+-   +.+ .|     ..-+..+...++|.+|.++-+..
T Consensus       839 ~~LE~la~~L-----pe~s~llp~~a~mf~svGMC~qAV~a~L---r~s-~p-----kaAv~tCv~LnQW~~avelaq~~  904 (1189)
T KOG2041|consen  839 GELEVLARTL-----PEDSELLPVMADMFTSVGMCDQAVEAYL---RRS-LP-----KAAVHTCVELNQWGEAVELAQRF  904 (1189)
T ss_pred             hhHHHHHHhc-----CcccchHHHHHHHHHhhchHHHHHHHHH---hcc-Cc-----HHHHHHHHHHHHHHHHHHHHHhc
Confidence            5544443332     3344445556666666676666655442   222 12     12344556666677777666655


Q ss_pred             CCCChhhHH--------------HHHHHHHhcCChHHHHHHHHHHHh
Q 012108          266 QVKDVFCWN--------------AMILGLALHGYGYAALKLLGEMND  298 (471)
Q Consensus       266 ~~~~~~~~~--------------~l~~~~~~~~~~~~a~~~~~~~~~  298 (471)
                      .-|.+.+.-              --|..+.+.|++-+|-+++.+|.+
T Consensus       905 ~l~qv~tliak~aaqll~~~~~~eaIe~~Rka~~~~daarll~qmae  951 (1189)
T KOG2041|consen  905 QLPQVQTLIAKQAAQLLADANHMEAIEKDRKAGRHLDAARLLSQMAE  951 (1189)
T ss_pred             cchhHHHHHHHHHHHHHhhcchHHHHHHhhhcccchhHHHHHHHHhH
Confidence            444332211              123345566777777777777643

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.93  E-value=0.008  Score=52.95  Aligned_cols=96  Identities=10%  Similarity=0.086  Sum_probs=50.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC-----CCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHh-cCCCCC--hhH
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDSCV-----KADDI-TFIGLLSACSHAGLVQEGCELFSRMEKD-FGVTRK--LEH  343 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~--~~~  343 (471)
                      +..+...+.+.|++++|.++|++....-.     +.+.. .|...+-++...|+...|...+++.... .++..+  ...
T Consensus       158 ~~~~A~l~~~l~~y~~A~~~~e~~~~~~l~~~l~~~~~~~~~l~a~l~~L~~~D~v~A~~~~~~~~~~~~~F~~s~E~~~  237 (282)
T PF14938_consen  158 LLKAADLYARLGRYEEAIEIYEEVAKKCLENNLLKYSAKEYFLKAILCHLAMGDYVAARKALERYCSQDPSFASSREYKF  237 (282)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHHTCCCHCTTGHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHGTTSTTSTTSHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHhhcccccchhHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHH
Confidence            34456666777777777777777654321     11111 2222333445567777777777776642 122222  334


Q ss_pred             HHHHHHHHhh--cCCHHHHHHHHHhCC
Q 012108          344 YGCMVDLLGR--ARLLDRAIELIEAMP  368 (471)
Q Consensus       344 ~~~l~~~~~~--~g~~~~A~~~~~~~~  368 (471)
                      ...|+.++-.  ...+.+|..-|+.+.
T Consensus       238 ~~~l~~A~~~~D~e~f~~av~~~d~~~  264 (282)
T PF14938_consen  238 LEDLLEAYEEGDVEAFTEAVAEYDSIS  264 (282)
T ss_dssp             HHHHHHHHHTT-CCCHHHHCHHHTTSS
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHcccC
Confidence            4555665543  345666666666664

>cd00189 TPR Tetratricopeptide repeat domain; typically contains 34 amino acids [WLF]-X(2)-[LIM]-[GAS]-X(2)-[YLF]-X(8)-[ASE]-X(3)-[FYL]-X(2)-[ASL]-X(4)-[PKE] is the consensus sequence; found in a variety of organisms including bacteria, cyanobacteria, yeast, fungi, plants, and humans in various subcellular locations; involved in a variety of functions including protein-protein interactions, but common features in the interaction partners have not been defined; involved in chaperone, cell-cycle, transciption, and protein transport complexes; the number of TPR motifs varies among proteins (1,3-11,13 15,16,19); 5-6 tandem repeats generate a right-handed helical structure with an amphipathic channel that is thought to accomodate an alpha-helix of a target protein; it has been proposed that TPR proteins preferably interact with WD-40 repeat proteins, but in many instances several TPR-proteins seem to aggregate to multi-protein complexes; examples of TPR-proteins include, Cdc16p, Cdc23p and C

Probab=97.92  E-value=0.00014  Score=51.94  Aligned_cols=89  Identities=12%  Similarity=0.025  Sum_probs=39.2

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCch
Q 012108          313 SACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLE  390 (471)
Q Consensus       313 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~  390 (471)
                      ..+...|++++|...++.+.+  ..+.+...+..+..++...|++++|.+.++.. ...| +..++..+...+...|+++
T Consensus         8 ~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (100)
T cd00189           8 NLYYKLGDYDEALEYYEKALE--LDPDNADAYYNLAAAYYKLGKYEEALEDYEKALELDPDNAKAYYNLGLAYYKLGKYE   85 (100)
T ss_pred             HHHHHHhcHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCcchhHHHHHHHHHHHHHhHH
Confidence            333444444444444444443  12222233444444444444445554444443 1112 2234444445555555555


Q ss_pred             HHHHHHHHHHHcC
Q 012108          391 IGDRVAKMVCAKS  403 (471)
Q Consensus       391 ~a~~~~~~~~~~~  403 (471)
                      .|...++...+..
T Consensus        86 ~a~~~~~~~~~~~   98 (100)
T cd00189          86 EALEAYEKALELD   98 (100)
T ss_pred             HHHHHHHHHHccC
Confidence            5555555554443

>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=97.91  E-value=2.4e-05  Score=51.96  Aligned_cols=56  Identities=13%  Similarity=0.155  Sum_probs=48.8

Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ...|++++|+++|+++.+..|. +...+..++.+|.+.|++++|.++++++....+.
T Consensus         2 l~~~~~~~A~~~~~~~l~~~p~-~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~   57 (68)
T PF14559_consen    2 LKQGDYDEAIELLEKALQRNPD-NPEARLLLAQCYLKQGQYDEAEELLERLLKQDPD   57 (68)
T ss_dssp             HHTTHHHHHHHHHHHHHHHTTT-SHHHHHHHHHHHHHTT-HHHHHHHHHCCHGGGTT
T ss_pred             hhccCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            4678999999999999999999 8999999999999999999999999998877665

...

>PF12895 Apc3: Anaphase-promoting complex, cyclosome, subunit 3; PDB: 3KAE_D 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2XPI_A 3ULQ_A

Probab=97.90  E-value=4.1e-05  Score=53.34  Aligned_cols=47  Identities=17%  Similarity=0.188  Sum_probs=20.1

Q ss_pred             CChHHHHHHHHHHHhCCCC-CCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 012108          284 GYGYAALKLLGEMNDSCVK-ADDITFIGLLSACSHAGLVQEGCELFSR  330 (471)
Q Consensus       284 ~~~~~a~~~~~~~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~  330 (471)
                      |+++.|+.+++++.+.... ++...+..+..++.+.|++++|..++++
T Consensus         3 ~~y~~Ai~~~~k~~~~~~~~~~~~~~~~la~~~~~~~~y~~A~~~~~~   50 (84)
T PF12895_consen    3 GNYENAIKYYEKLLELDPTNPNSAYLYNLAQCYFQQGKYEEAIELLQK   50 (84)
T ss_dssp             T-HHHHHHHHHHHHHHHCGTHHHHHHHHHHHHHHHTTHHHHHHHHHHC
T ss_pred             ccHHHHHHHHHHHHHHCCCChhHHHHHHHHHHHHHCCCHHHHHHHHHH
Confidence            4445555555555443210 1222233344445555555555555544

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.88  E-value=0.001  Score=58.61  Aligned_cols=155  Identities=11%  Similarity=-0.075  Sum_probs=100.0

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH--HHhccCcHHHHHHHHHHhHHhcCCCCChhHH------------
Q 012108          279 GLALHGYGYAALKLLGEMNDSCVKADDITFIGLLS--ACSHAGLVQEGCELFSRMEKDFGVTRKLEHY------------  344 (471)
Q Consensus       279 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~--~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~------------  344 (471)
                      ++...|++++|...--...+..  ++ ..+..+++  ++.-.++.+.+...|++...   ..|+...-            
T Consensus       178 cl~~~~~~~~a~~ea~~ilkld--~~-n~~al~vrg~~~yy~~~~~ka~~hf~qal~---ldpdh~~sk~~~~~~k~le~  251 (486)
T KOG0550|consen  178 CLAFLGDYDEAQSEAIDILKLD--AT-NAEALYVRGLCLYYNDNADKAINHFQQALR---LDPDHQKSKSASMMPKKLEV  251 (486)
T ss_pred             hhhhcccchhHHHHHHHHHhcc--cc-hhHHHHhcccccccccchHHHHHHHhhhhc---cChhhhhHHhHhhhHHHHHH
Confidence            4556777777777666655432  11 22333333  33456777777777777765   23432211            


Q ss_pred             -HHHHHHHhhcCCHHHHHHHHHhC-CC-----CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH
Q 012108          345 -GCMVDLLGRARLLDRAIELIEAM-PF-----EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL  417 (471)
Q Consensus       345 -~~l~~~~~~~g~~~~A~~~~~~~-~~-----~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  417 (471)
                       ..-..-..+.|++.+|.+.|.+. .+     .|+...|.....+..+.|+.++|+.-.+.+.++++. -...|..-+.+
T Consensus       252 ~k~~gN~~fk~G~y~~A~E~Yteal~idP~n~~~naklY~nra~v~~rLgrl~eaisdc~~Al~iD~s-yikall~ra~c  330 (486)
T KOG0550|consen  252 KKERGNDAFKNGNYRKAYECYTEALNIDPSNKKTNAKLYGNRALVNIRLGRLREAISDCNEALKIDSS-YIKALLRRANC  330 (486)
T ss_pred             HHhhhhhHhhccchhHHHHHHHHhhcCCccccchhHHHHHHhHhhhcccCCchhhhhhhhhhhhcCHH-HHHHHHHHHHH
Confidence             11122335678888888888876 33     344556766777777888888888888888888776 56666677777


Q ss_pred             HHhcCCHHHHHHHHHHhhhCCCc
Q 012108          418 YASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       418 ~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +...++|++|.+-+++..+..-.
T Consensus       331 ~l~le~~e~AV~d~~~a~q~~~s  353 (486)
T KOG0550|consen  331 HLALEKWEEAVEDYEKAMQLEKD  353 (486)
T ss_pred             HHHHHHHHHHHHHHHHHHhhccc
Confidence            78888888888888887665443

>PLN03088 SGT1, suppressor of G2 allele of SKP1; Provisional

Probab=97.87  E-value=0.00036  Score=63.44  Aligned_cols=102  Identities=12%  Similarity=-0.040  Sum_probs=83.5

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC
Q 012108          276 MILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                      ....+...|++++|+..|++++... +-+...|..+..++...|++++|+..++++..  -.+.+...|..+..+|...|
T Consensus         8 ~a~~a~~~~~~~~Ai~~~~~Al~~~-P~~~~a~~~~a~~~~~~g~~~eAl~~~~~Al~--l~P~~~~a~~~lg~~~~~lg   84 (356)
T PLN03088          8 KAKEAFVDDDFALAVDLYTQAIDLD-PNNAELYADRAQANIKLGNFTEAVADANKAIE--LDPSLAKAYLRKGTACMKLE   84 (356)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHhC
Confidence            4556778899999999999999863 33567888888999999999999999999988  34556888999999999999


Q ss_pred             CHHHHHHHHHhC-CCCCCHhHHHHHH
Q 012108          356 LLDRAIELIEAM-PFEPTESILGALL  380 (471)
Q Consensus       356 ~~~~A~~~~~~~-~~~p~~~~~~~l~  380 (471)
                      ++++|...|++. .+.|+.......+
T Consensus        85 ~~~eA~~~~~~al~l~P~~~~~~~~l  110 (356)
T PLN03088         85 EYQTAKAALEKGASLAPGDSRFTKLI  110 (356)
T ss_pred             CHHHHHHHHHHHHHhCCCCHHHHHHH
Confidence            999999999987 5566554444443

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.87  E-value=0.00059  Score=57.98  Aligned_cols=109  Identities=15%  Similarity=0.007  Sum_probs=88.0

Q ss_pred             CCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHhhc---CCchHHHHHHHHHHHcCCCCCchhH
Q 012108          337 VTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACVIH---QDLEIGDRVAKMVCAKSNYLSDGEL  411 (471)
Q Consensus       337 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~~~~~~~~~  411 (471)
                      .+-|...|-.|...|.+.|+++.|..-|.+. .+. +++..+..+..++...   ....++..+|+++++.+|. ++...
T Consensus       152 nP~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~rL~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~-~iral  230 (287)
T COG4235         152 NPGDAEGWDLLGRAYMALGRASDALLAYRNALRLAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPA-NIRAL  230 (287)
T ss_pred             CCCCchhHHHHHHHHHHhcchhHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCc-cHHHH
Confidence            4557888999999999999999999999887 333 4556666666665433   2466789999999999999 99999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcce
Q 012108          412 MMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSS  446 (471)
Q Consensus       412 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~  446 (471)
                      ..|+..+...|++.+|...|+.|.+..+..++...
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~~~~rr~  265 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPADDPRRS  265 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCCCCchHH
Confidence            99999999999999999999999988877665443

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=97.86  E-value=5.1e-05  Score=51.25  Aligned_cols=62  Identities=13%  Similarity=-0.035  Sum_probs=54.7

Q ss_pred             HHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          380 LSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       380 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ...|.+.+++++|.++++.+++.+|. ++..+...+.++.+.|++++|.+.+++..+.++..+
T Consensus         2 ~~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~~~   63 (73)
T PF13371_consen    2 KQIYLQQEDYEEALEVLERALELDPD-DPELWLQRARCLFQLGRYEEALEDLERALELSPDDP   63 (73)
T ss_pred             HHHHHhCCCHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCCcH
Confidence            35678899999999999999999999 999999999999999999999999999988777544

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.85  E-value=0.00042  Score=49.31  Aligned_cols=80  Identities=15%  Similarity=0.145  Sum_probs=66.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHHccC--------ChHHHHHHHHHHHHcCCCCchhHH
Q 012108          172 WNTMVTGYLRSQLYIEVVDLFDEMKAGNV-KPDYLTVTSVLSACANLG--------SLETGARIHVYATDNGLASNPHAT  242 (471)
Q Consensus       172 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~  242 (471)
                      ....|..+...+++.....+|+.+++.|+ .|+..+|+.++.+.++..        +.-....+|++++..+++|+..+|
T Consensus        28 ~i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~~~lKP~~etY  107 (120)
T PF08579_consen   28 QIDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILSNKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHHhccCCcHHHH
Confidence            34456667777999999999999999999 899999999999887543        234567889999999999999999


Q ss_pred             HHHHHHHHh
Q 012108          243 TALIDMYAK  251 (471)
Q Consensus       243 ~~l~~~~~~  251 (471)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999988765

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 [, , ].

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.83  E-value=0.0059  Score=47.87  Aligned_cols=126  Identities=10%  Similarity=0.043  Sum_probs=85.0

Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHhHH
Q 012108          301 VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP---TESIL  376 (471)
Q Consensus       301 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~  376 (471)
                      ..|+...-..|..++.+.|+..+|...|++... -.+..|......+.++....+++..|...++.+ ..+|   ++.+.
T Consensus        85 ~ApTvqnr~rLa~al~elGr~~EA~~hy~qals-G~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~  163 (251)
T COG4700          85 IAPTVQNRYRLANALAELGRYHEAVPHYQQALS-GIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGH  163 (251)
T ss_pred             hchhHHHHHHHHHHHHHhhhhhhhHHHHHHHhc-cccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCch
Confidence            356666666677777788888888888888776 244556777777777777778888888777776 2122   22233


Q ss_pred             HHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHH
Q 012108          377 GALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANR  429 (471)
Q Consensus       377 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~  429 (471)
                      ..+.+++...|.+..|+..|+.+...-|.  +..-......+.++|+.+++..
T Consensus       164 Ll~aR~laa~g~~a~Aesafe~a~~~ypg--~~ar~~Y~e~La~qgr~~ea~a  214 (251)
T COG4700         164 LLFARTLAAQGKYADAESAFEVAISYYPG--PQARIYYAEMLAKQGRLREANA  214 (251)
T ss_pred             HHHHHHHHhcCCchhHHHHHHHHHHhCCC--HHHHHHHHHHHHHhcchhHHHH
Confidence            44667777888888888888888777665  4444445566677776665543

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.80  E-value=0.00093  Score=58.56  Aligned_cols=132  Identities=14%  Similarity=0.063  Sum_probs=98.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSA-CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      .+|..++....+.+..+.|..+|.+.++.+ ..+...|...... +...++.+.|..+|+...+  .++.+...|...++
T Consensus         2 ~v~i~~m~~~~r~~g~~~aR~vF~~a~~~~-~~~~~vy~~~A~~E~~~~~d~~~A~~Ife~glk--~f~~~~~~~~~Y~~   78 (280)
T PF05843_consen    2 LVWIQYMRFMRRTEGIEAARKVFKRARKDK-RCTYHVYVAYALMEYYCNKDPKRARKIFERGLK--KFPSDPDFWLEYLD   78 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-CS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHH--HHTT-HHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcCC-CCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHH
Confidence            467788888888888999999999998653 2234445444444 3335777779999999998  46677888999999


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          350 LLGRARLLDRAIELIEAM-PFEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+.+.|+.+.|..+|++. ..-|.    ...|...+..-.+.|+.+...++.+++.+.-+.
T Consensus        79 ~l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~~~~  139 (280)
T PF05843_consen   79 FLIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEELFPE  139 (280)
T ss_dssp             HHHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHTTT
T ss_pred             HHHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhh
Confidence            999999999999999987 22233    348888998888999999999999999887665

The Drosophila melanogaster suppressor of forked [Su(f)] protein shares homology with the Saccharomyces cerevisiae RNA14 protein and the 77 kDa subunit of Homo sapiens cleavage stimulation factor, which are proteins involved in mRNA 3' end formation. This suggests a role for Su(f) in mRNA 3' end formation in Drosophila. The su(f) gene produces three transcripts; two of them are polyadenylated at the end of the transcription unit, and one is a truncated transcript, polyadenylated in intron 4. It is thought that su(f) plays a role in the regulation of poly(A) site utilisation and the GU-rich sequence is important for this regulation to occur [].; GO: 0006397 mRNA processing, 0005634 nucleus; PDB: 2L9B_B 2OND_B 2OOE_A 4E85_B 4EBA_C 4E6H_A 2UY1_B.

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=97.80  E-value=0.0056  Score=57.34  Aligned_cols=52  Identities=17%  Similarity=0.142  Sum_probs=30.8

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      .+...+..-+.+...+..|-++|.++-.          ...+++.....+++.+|+.+-++.
T Consensus       748 e~l~~~a~ylk~l~~~gLAaeIF~k~gD----------~ksiVqlHve~~~W~eAFalAe~h  799 (1081)
T KOG1538|consen  748 EPLLLCATYLKKLDSPGLAAEIFLKMGD----------LKSLVQLHVETQRWDEAFALAEKH  799 (1081)
T ss_pred             hHHHHHHHHHhhccccchHHHHHHHhcc----------HHHHhhheeecccchHhHhhhhhC
Confidence            3444444444555566666666666654          234566666667777777776666

>PF14938 SNAP: Soluble NSF attachment protein, SNAP; PDB: 1QQE_A 2IFU_A

Probab=97.80  E-value=0.0011  Score=58.48  Aligned_cols=54  Identities=24%  Similarity=0.333  Sum_probs=24.8

Q ss_pred             HHHHHHhC-CCHHHHHHHHHhccc-----c----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012108          144 LILAYTNA-GEMEKAGEMFKKMLV-----K----NVITWNTMVTGYLRSQLYIEVVDLFDEMKA  197 (471)
Q Consensus       144 l~~~~~~~-~~~~~A~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  197 (471)
                      +...|... |++++|.+.|++...     .    -...+..+...+.+.|++++|.++|++...
T Consensus       120 lA~~ye~~~~d~e~Ai~~Y~~A~~~y~~e~~~~~a~~~~~~~A~l~~~l~~y~~A~~~~e~~~~  183 (282)
T PF14938_consen  120 LAEIYEEQLGDYEKAIEYYQKAAELYEQEGSPHSAAECLLKAADLYARLGRYEEAIEIYEEVAK  183 (282)
T ss_dssp             HHHHHCCTT--HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            44444444 555555555555411     0    112344445555555666666666655544

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.78  E-value=3.6e-05  Score=41.73  Aligned_cols=29  Identities=31%  Similarity=0.747  Sum_probs=19.6

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCC
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGN  199 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g  199 (471)
                      +||.++++|++.|++++|.++|++|.+.|
T Consensus         2 ~y~~li~~~~~~~~~~~a~~~~~~M~~~g   30 (31)
T PF01535_consen    2 TYNSLISGYCKMGQFEEALEVFDEMRERG   30 (31)
T ss_pred             cHHHHHHHHHccchHHHHHHHHHHHhHCc
Confidence            56666666666666666666666666655

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.

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.77  E-value=0.0089  Score=49.66  Aligned_cols=138  Identities=12%  Similarity=0.043  Sum_probs=102.9

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchh-----HHHH
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH-----ATTA  244 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-----~~~~  244 (471)
                      ...+.++.++.-.|.+.-....+++..+...+.+......+.+...+.|+.+.|..++++..+..-..+..     +...
T Consensus       178 ~Vmy~~~~~llG~kEy~iS~d~~~~vi~~~~e~~p~L~s~Lgr~~MQ~GD~k~a~~yf~~vek~~~kL~~~q~~~~V~~n  257 (366)
T KOG2796|consen  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQKLDGLQGKIMVLMN  257 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHhhhhccchhHHHHhh
Confidence            45667778888889999999999999987766777778888888899999999999999877644333333     3334


Q ss_pred             HHHHHHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 012108          245 LIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFI  309 (471)
Q Consensus       245 l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  309 (471)
                      ....|.-.+++..|...+.++...   ++..-|.-.-+..-.|+..+|++.++.|...  .|...+-+
T Consensus       258 ~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~--~P~~~l~e  323 (366)
T KOG2796|consen  258 SAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQ--DPRHYLHE  323 (366)
T ss_pred             hhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhcc--CCccchhh
Confidence            445666778888888888877763   4555565555666678999999999999886  45544443

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.77  E-value=0.00034  Score=56.33  Aligned_cols=91  Identities=12%  Similarity=-0.043  Sum_probs=64.1

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFA  415 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  415 (471)
                      ...+..+...+...|++++|...|++. ...|+    ..++..+...+...|++++|+..++++.+..|. ....+..++
T Consensus        35 a~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~~~-~~~~~~~la  113 (168)
T CHL00033         35 AFTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERNPF-LPQALNNMA  113 (168)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHH
Confidence            455566666666777777777777766 22222    346777888888888888888888888888777 667777777


Q ss_pred             HHHH-------hcCCHHHHHHHHH
Q 012108          416 NLYA-------SCGQWEEANRWRN  432 (471)
Q Consensus       416 ~~~~-------~~g~~~~A~~~~~  432 (471)
                      ..+.       +.|++++|...++
T Consensus       114 ~i~~~~~~~~~~~g~~~~A~~~~~  137 (168)
T CHL00033        114 VICHYRGEQAIEQGDSEIAEAWFD  137 (168)
T ss_pred             HHHHHhhHHHHHcccHHHHHHHHH
Confidence            7777       7778775544444

>PRK02603 photosystem I assembly protein Ycf3; Provisional

Probab=97.76  E-value=0.001  Score=53.73  Aligned_cols=90  Identities=13%  Similarity=0.129  Sum_probs=57.3

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 012108          169 VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD--YLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALI  246 (471)
Q Consensus       169 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  246 (471)
                      ...+..+...+...|++++|...|++..+.+..+.  ...+..+...+.+.|++++|...+++..+.. +.+...+..+.
T Consensus        35 a~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg  113 (172)
T PRK02603         35 AFVYYRDGMSAQADGEYAEALENYEEALKLEEDPNDRSYILYNMGIIYASNGEHDKALEYYHQALELN-PKQPSALNNIA  113 (172)
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHHHH
Confidence            34566666677777777777777777765432222  2456666667777777777777777777654 34455666666


Q ss_pred             HHHHhcCChHHHH
Q 012108          247 DMYAKCGSIEQSL  259 (471)
Q Consensus       247 ~~~~~~~~~~~a~  259 (471)
                      ..+...|+...+.
T Consensus       114 ~~~~~~g~~~~a~  126 (172)
T PRK02603        114 VIYHKRGEKAEEA  126 (172)
T ss_pred             HHHHHcCChHhHh
Confidence            6676666654433

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.76  E-value=0.0017  Score=61.77  Aligned_cols=138  Identities=7%  Similarity=-0.038  Sum_probs=86.2

Q ss_pred             CCCCHHHHHHHHHHHhc--c---CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc--------CCHHHHHHHHHhC
Q 012108          301 VKADDITFIGLLSACSH--A---GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA--------RLLDRAIELIEAM  367 (471)
Q Consensus       301 ~~p~~~~~~~l~~~~~~--~---~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~~A~~~~~~~  367 (471)
                      .+.+...|..++++...  .   ++...|..+|+++.+  -.+.....|..+..++...        .+...+.+...+.
T Consensus       333 ~~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~--ldP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a  410 (517)
T PRK10153        333 LPHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILK--SEPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNI  410 (517)
T ss_pred             CCCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHh
Confidence            34555666666665332  2   235567777777766  2222344444443333221        1233444444432


Q ss_pred             ----CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          368 ----PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       368 ----~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                          ....++..+..+.-.....|++++|...++++++.+|  +...|..+++++...|+.++|.+.+++....++..+
T Consensus       411 ~al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~p--s~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~~p  487 (517)
T PRK10153        411 VALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEM--SWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPGEN  487 (517)
T ss_pred             hhcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCC--CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCc
Confidence                1333556677666666677888888888888888886  467888888888888888888888888887777655

>KOG0553 consensus TPR repeat-containing protein [General function prediction only]

Probab=97.75  E-value=0.00038  Score=58.79  Aligned_cols=123  Identities=11%  Similarity=-0.001  Sum_probs=92.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCH
Q 012108          278 LGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL  357 (471)
Q Consensus       278 ~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  357 (471)
                      .-+.+.+++.+|+..|.+.++.. +-|.+.|..-..+|++.|.++.|++-.+....  -.+....+|..|..+|...|++
T Consensus        89 N~~m~~~~Y~eAv~kY~~AI~l~-P~nAVyycNRAAAy~~Lg~~~~AVkDce~Al~--iDp~yskay~RLG~A~~~~gk~  165 (304)
T KOG0553|consen   89 NKLMKNKDYQEAVDKYTEAIELD-PTNAVYYCNRAAAYSKLGEYEDAVKDCESALS--IDPHYSKAYGRLGLAYLALGKY  165 (304)
T ss_pred             HHHHHhhhHHHHHHHHHHHHhcC-CCcchHHHHHHHHHHHhcchHHHHHHHHHHHh--cChHHHHHHHHHHHHHHccCcH
Confidence            34678899999999999999862 34667777789999999999999998888886  3334578899999999999999


Q ss_pred             HHHHHHHHhC-CCCCCHhHHHHHHHHH-hhcCCch---HHHHHHHHHHHcC
Q 012108          358 DRAIELIEAM-PFEPTESILGALLSAC-VIHQDLE---IGDRVAKMVCAKS  403 (471)
Q Consensus       358 ~~A~~~~~~~-~~~p~~~~~~~l~~~~-~~~g~~~---~a~~~~~~~~~~~  403 (471)
                      ++|.+.|++. .+.|+-.+|..=+... .+.+..+   .+...++.....+
T Consensus       166 ~~A~~aykKaLeldP~Ne~~K~nL~~Ae~~l~e~~~~~~~~~~~d~~~~ig  216 (304)
T KOG0553|consen  166 EEAIEAYKKALELDPDNESYKSNLKIAEQKLNEPKSSAQASGSFDMAGLIG  216 (304)
T ss_pred             HHHHHHHHhhhccCCCcHHHHHHHHHHHHHhcCCCcccccccchhhhhhcc
Confidence            9999999987 7889887775544433 2333333   3444444444444

>PF01535 PPR: PPR repeat; InterPro: IPR002885 This entry represents the PPR repeat

Probab=97.74  E-value=4.6e-05  Score=41.27  Aligned_cols=31  Identities=10%  Similarity=0.111  Sum_probs=26.5

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhcc
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGF   41 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~   41 (471)
                      ++|+.++++|++.|++++|.+++++|.+.|+
T Consensus         1 v~y~~li~~~~~~~~~~~a~~~~~~M~~~g~   31 (31)
T PF01535_consen    1 VTYNSLISGYCKMGQFEEALEVFDEMRERGI   31 (31)
T ss_pred             CcHHHHHHHHHccchHHHHHHHHHHHhHCcC
Confidence            4788999999999999999999999888763

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.

>PF05843 Suf: Suppressor of forked protein (Suf); InterPro: IPR008847 This domain consists of several eukaryotic suppressor of forked (Suf) like proteins

Probab=97.73  E-value=0.00043  Score=60.69  Aligned_cols=130  Identities=12%  Similarity=0.111  Sum_probs=99.1

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHH-HhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDL-LGRARLLDRAIELIEAM--PFEPTESILGALLSA  382 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~  382 (471)
                      .+|..+++...+.+..+.|..+|.++.+.  ...+...|-..... |...++.+.|.++|+..  .+..+...|...+.-
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 LVWIQYMRFMRRTEGIEAARKVFKRARKD--KRCTYHVYVAYALMEYYCNKDPKRARKIFERGLKKFPSDPDFWLEYLDF   79 (280)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CCS-THHHHHHHHHHHHTCS-HHHHHHHHHHHHHHHTT-HHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCChHHHHHHHHHHHcC--CCCCHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHH
Confidence            46788889999999999999999999873  22334445444444 33357777799999988  455677888999999


Q ss_pred             HhhcCCchHHHHHHHHHHHcCCC-C-CchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          383 CVIHQDLEIGDRVAKMVCAKSNY-L-SDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~~~~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      +...++.+.|..+|++.+..-+. . ....|..++..-.+.|+.+.+..+.+++.+.
T Consensus        80 l~~~~d~~~aR~lfer~i~~l~~~~~~~~iw~~~i~fE~~~Gdl~~v~~v~~R~~~~  136 (280)
T PF05843_consen   80 LIKLNDINNARALFERAISSLPKEKQSKKIWKKFIEFESKYGDLESVRKVEKRAEEL  136 (280)
T ss_dssp             HHHTT-HHHHHHHHHHHCCTSSCHHHCHHHHHHHHHHHHHHS-HHHHHHHHHHHHHH
T ss_pred             HHHhCcHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            99999999999999999877443 1 1258899999999999999999999988765

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.

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.70  E-value=0.019  Score=49.02  Aligned_cols=59  Identities=7%  Similarity=-0.048  Sum_probs=34.1

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH----HHHHHHHHHccCChHHHHHHHHHHHHcC
Q 012108          174 TMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLT----VTSVLSACANLGSLETGARIHVYATDNG  234 (471)
Q Consensus       174 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~  234 (471)
                      .....+...|++++|.+.|+++...  .|+...    .-.+..++.+.++++.|...+++..+..
T Consensus        37 ~~A~~~~~~g~y~~Ai~~f~~l~~~--yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~~   99 (243)
T PRK10866         37 ATAQQKLQDGNWKQAITQLEALDNR--YPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRLN   99 (243)
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhC
Confidence            3444555667777777777776654  232221    1234456666777777777777766654

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.68  E-value=0.00088  Score=61.16  Aligned_cols=117  Identities=11%  Similarity=0.137  Sum_probs=92.5

Q ss_pred             CChhhHHHHHHHHHhCCCHHHHHHHHHhcc-cc-----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 012108          136 KDVVSWNSLILAYTNAGEMEKAGEMFKKML-VK-----NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTS  209 (471)
Q Consensus       136 ~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  209 (471)
                      .+......+++.+....+++.+..++.+.. .|     -..+..++++.|.+.|..+.++.+++.=...|+-||..+++.
T Consensus        64 vS~~dld~fvn~~~~~~~~d~~~~~L~k~R~s~~~~~~~~~t~ha~vR~~l~~~~~~~~l~~L~n~~~yGiF~D~~s~n~  143 (429)
T PF10037_consen   64 VSSLDLDIFVNNVESKDDLDEVEDVLYKFRHSPNCSYLLPSTHHALVRQCLELGAEDELLELLKNRLQYGIFPDNFSFNL  143 (429)
T ss_pred             CcHHHHHHHHhhcCCHhHHHHHHHHHHHHHcCcccccccCccHHHHHHHHHhcCCHHHHHHHHhChhhcccCCChhhHHH
Confidence            355556667777777778888888887772 22     234556899999999999999999999889999999999999


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 012108          210 VLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKC  252 (471)
Q Consensus       210 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  252 (471)
                      ++..+.+.|++..|.++...|...+...+..++..-+.++.+.
T Consensus       144 Lmd~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~~~~  186 (429)
T PF10037_consen  144 LMDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSCYKY  186 (429)
T ss_pred             HHHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHHHHh
Confidence            9999999999999999998888777666666666655555554

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 [].

>PRK10153 DNA-binding transcriptional activator CadC; Provisional

Probab=97.67  E-value=0.0031  Score=60.12  Aligned_cols=137  Identities=10%  Similarity=-0.126  Sum_probs=97.4

Q ss_pred             CCChhhHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhcc--------CcHHHHHHHHHHhH
Q 012108          267 VKDVFCWNAMILGLALH-----GYGYAALKLLGEMNDSCVKADD-ITFIGLLSACSHA--------GLVQEGCELFSRME  332 (471)
Q Consensus       267 ~~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~--------~~~~~a~~~~~~~~  332 (471)
                      ..+...|...+++....     +....|..+|++..+.  .|+. ..+..+..++...        .+...+.+...+..
T Consensus       334 ~~~~~Ay~~~lrg~~~~~~~~~~~~~~A~~lle~Ai~l--dP~~a~a~A~la~~~~~~~~~~~~~~~~l~~a~~~~~~a~  411 (517)
T PRK10153        334 PHQGAALTLFYQAHHYLNSGDAKSLNKASDLLEEILKS--EPDFTYAQAEKALADIVRHSQQPLDEKQLAALSTELDNIV  411 (517)
T ss_pred             CCCHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHHHhh
Confidence            34677888877775432     2367899999998885  5654 3444433333221        12334444444443


Q ss_pred             HhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          333 KDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       333 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .....+.++..|.++.-.....|++++|...++++ ...|+...|..+...+...|+.++|...++++...+|.
T Consensus       412 al~~~~~~~~~~~ala~~~~~~g~~~~A~~~l~rAl~L~ps~~a~~~lG~~~~~~G~~~eA~~~~~~A~~L~P~  485 (517)
T PRK10153        412 ALPELNVLPRIYEILAVQALVKGKTDEAYQAINKAIDLEMSWLNYVLLGKVYELKGDNRLAADAYSTAFNLRPG  485 (517)
T ss_pred             hcccCcCChHHHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC
Confidence            31124445677888877777889999999999988 67788889999999999999999999999999999998

>PRK15363 pathogenicity island 2 chaperone protein SscA; Provisional

Probab=97.66  E-value=0.0017  Score=50.01  Aligned_cols=85  Identities=8%  Similarity=-0.036  Sum_probs=34.2

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a  392 (471)
                      +...|++++|..+|+.+..  -.+.+...|-.|..++-..|++++|+..|... .+.| |+..+..+..++...|+.+.|
T Consensus        45 ly~~G~l~~A~~~f~~L~~--~Dp~~~~y~~gLG~~~Q~~g~~~~AI~aY~~A~~L~~ddp~~~~~ag~c~L~lG~~~~A  122 (157)
T PRK15363         45 LMEVKEFAGAARLFQLLTI--YDAWSFDYWFRLGECCQAQKHWGEAIYAYGRAAQIKIDAPQAPWAAAECYLACDNVCYA  122 (157)
T ss_pred             HHHCCCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHHHHHcCCHHHH
Confidence            3334444444444444433  12223333344444444444444444444433 1112 233344444444444444444


Q ss_pred             HHHHHHHHH
Q 012108          393 DRVAKMVCA  401 (471)
Q Consensus       393 ~~~~~~~~~  401 (471)
                      .+.|+.++.
T Consensus       123 ~~aF~~Ai~  131 (157)
T PRK15363        123 IKALKAVVR  131 (157)
T ss_pred             HHHHHHHHH
Confidence            444444443

>PF04840 Vps16_C: Vps16, C-terminal region; InterPro: IPR006925 This protein forms part of the Class C vacuolar protein sorting (Vps) complex

Probab=97.65  E-value=0.039  Score=49.11  Aligned_cols=273  Identities=10%  Similarity=0.041  Sum_probs=149.1

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCC
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQ   91 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~   91 (471)
                      +|..+.......|+.+-|..+++.      +|+..-   =+..+.+.|+.+.|+.---+-.+|| -+|..|+..--+. .
T Consensus         2 S~a~IA~~A~~~GR~~LA~~LL~~------Ep~~~~---qVplLL~m~e~e~AL~kAi~SgD~D-Li~~vLl~L~~~l-~   70 (319)
T PF04840_consen    2 SYAEIARKAYEEGRPKLATKLLEL------EPRASK---QVPLLLKMGEDELALNKAIESGDTD-LIYLVLLHLKRKL-S   70 (319)
T ss_pred             CHHHHHHHHHHcChHHHHHHHHHc------CCChHH---HHHHHhcCCchHHHHHHHHHcCCcc-HHHHHHHHHHHhC-C
Confidence            577788888888888888887663      454432   2455566777777743222222222 2455555433222 2


Q ss_pred             HHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHH-------HHHHHHHhc
Q 012108           92 MDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEME-------KAGEMFKKM  164 (471)
Q Consensus        92 ~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~-------~A~~~~~~~  164 (471)
                      ...-..++..    .+.. ..+...|++..+.+.-..+|.+--.........+-.++.. .+.+       .|.+.|...
T Consensus        71 ~s~f~~il~~----~p~a-~~l~~~~~r~~~~~~L~~~y~q~d~~~~~a~~~l~~~~~~-~~~~~~~~~L~~a~~~y~~~  144 (319)
T PF04840_consen   71 LSQFFKILNQ----NPVA-SNLYKKYCREQDRELLKDFYYQEDRFQELANLHLQEALSQ-KDVEEKISFLKQAQKLYSKS  144 (319)
T ss_pred             HHHHHHHHHh----Ccch-HHHHHHHHHhccHHHHHHHHHhcchHHHHHHHHHHHHHhC-CChHHHHHHHHHHHHHHHhc
Confidence            2222222222    2221 2344455665555555555543211111111111122211 2322       233333322


Q ss_pred             cccChHHHHHHHHHHHhcCCHHHHHHHHHH---HHh-CCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchh
Q 012108          165 LVKNVITWNTMVTGYLRSQLYIEVVDLFDE---MKA-GNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPH  240 (471)
Q Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~---m~~-~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  240 (471)
                      ..  ......++         ++-.++++.   +.+ .+......+.+..+.-+...|+...|.++-.+.   . .|+..
T Consensus       145 k~--~~f~~~~~---------e~q~~Ll~~Q~~Le~~~~~~f~~~Sl~~Ti~~li~~~~~k~A~kl~k~F---k-v~dkr  209 (319)
T PF04840_consen  145 KN--DAFEAKLI---------EEQIKLLEYQKELEEKYNTNFVGLSLNDTIRKLIEMGQEKQAEKLKKEF---K-VPDKR  209 (319)
T ss_pred             ch--hHHHHHHH---------HHHHHHHHHHHHHHHHhccchhcCCHHHHHHHHHHCCCHHHHHHHHHHc---C-CcHHH
Confidence            11  11111111         111122211   111 122222335555666777888888887775544   3 57888


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGL  320 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~  320 (471)
                      .|-..+.+++..++|++-.++-..  +.++..|..++.+|.+.|+..+|..+..+     ++     +..-+..|.+.|+
T Consensus       210 fw~lki~aLa~~~~w~eL~~fa~s--kKsPIGyepFv~~~~~~~~~~eA~~yI~k-----~~-----~~~rv~~y~~~~~  277 (319)
T PF04840_consen  210 FWWLKIKALAENKDWDELEKFAKS--KKSPIGYEPFVEACLKYGNKKEASKYIPK-----IP-----DEERVEMYLKCGD  277 (319)
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHhC--CCCCCChHHHHHHHHHCCCHHHHHHHHHh-----CC-----hHHHHHHHHHCCC
Confidence            899999999999999988887654  55789999999999999999999988877     22     2445666778888


Q ss_pred             HHHHHHHH
Q 012108          321 VQEGCELF  328 (471)
Q Consensus       321 ~~~a~~~~  328 (471)
                      +.+|.+.-
T Consensus       278 ~~~A~~~A  285 (319)
T PF04840_consen  278 YKEAAQEA  285 (319)
T ss_pred             HHHHHHHH
Confidence            88886553

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

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.65  E-value=0.0023  Score=47.38  Aligned_cols=89  Identities=15%  Similarity=0.078  Sum_probs=54.6

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC---chhHHHHHHHHH
Q 012108          175 MVTGYLRSQLYIEVVDLFDEMKAGNVKPDY--LTVTSVLSACANLGSLETGARIHVYATDNGLAS---NPHATTALIDMY  249 (471)
Q Consensus       175 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~  249 (471)
                      +..++-..|+.++|+.+|++....|.....  ..+..+...+...|+.++|..+++...... +.   +......+..++
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~-p~~~~~~~l~~f~Al~L   85 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEF-PDDELNAALRVFLALAL   85 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-CCccccHHHHHHHHHHH
Confidence            445566677777788888777777655442  344455666777777777777777776542 11   223333344455


Q ss_pred             HhcCChHHHHHHHhc
Q 012108          250 AKCGSIEQSLEVFYK  264 (471)
Q Consensus       250 ~~~~~~~~a~~~~~~  264 (471)
                      ...|+.++|++.+-.
T Consensus        86 ~~~gr~~eAl~~~l~  100 (120)
T PF12688_consen   86 YNLGRPKEALEWLLE  100 (120)
T ss_pred             HHCCCHHHHHHHHHH
Confidence            666666666666544

>CHL00033 ycf3 photosystem I assembly protein Ycf3

Probab=97.63  E-value=0.0022  Score=51.65  Aligned_cols=80  Identities=11%  Similarity=0.059  Sum_probs=48.0

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC--CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKP--DYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALID  247 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  247 (471)
                      ..|..+...+...|++++|+..|++.......+  ...++..+...+...|+.++|...++...... +.....+..+..
T Consensus        36 ~~~~~~g~~~~~~g~~~~A~~~~~~al~l~~~~~~~~~~~~~lg~~~~~~g~~~eA~~~~~~Al~~~-~~~~~~~~~la~  114 (168)
T CHL00033         36 FTYYRDGMSAQSEGEYAEALQNYYEAMRLEIDPYDRSYILYNIGLIHTSNGEHTKALEYYFQALERN-PFLPQALNNMAV  114 (168)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhccccchhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHH
Confidence            445566666667777777777777766542222  12356666667777777777777777776553 333444555555


Q ss_pred             HHH
Q 012108          248 MYA  250 (471)
Q Consensus       248 ~~~  250 (471)
                      .+.
T Consensus       115 i~~  117 (168)
T CHL00033        115 ICH  117 (168)
T ss_pred             HHH
Confidence            554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.58  E-value=0.00097  Score=58.76  Aligned_cols=132  Identities=9%  Similarity=-0.018  Sum_probs=90.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhH---HhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-------C-CCCCH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRME---KDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-------P-FEPTE  373 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~---~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~-~~p~~  373 (471)
                      ..|..|.+.|.-.|+++.|+...+.-.   +++|... ....+..|..++.-.|+++.|.+.|+..       + -....
T Consensus       196 Ra~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEA  275 (639)
T KOG1130|consen  196 RAYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEA  275 (639)
T ss_pred             chhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHH
Confidence            456677777777888888877655322   2244433 3456777888888888998888888754       2 12234


Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHc----CCC-CCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAK----SNY-LSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~-~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      ....+|..+|.-..++++|+.++.+=+..    +-. -....+.+|+.+|...|..++|+.+.+.-++.
T Consensus       276 QscYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~~  344 (639)
T KOG1130|consen  276 QSCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLRS  344 (639)
T ss_pred             HHHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHHH
Confidence            56677888888888888888877654432    211 13567888999999999999988877766553

>PF13432 TPR_16: Tetratricopeptide repeat; PDB: 3CVP_A 3CVL_A 3CVQ_A 3CV0_A 2GW1_B 3CVN_A 3QKY_A 2PL2_B

Probab=97.57  E-value=0.0003  Score=46.12  Aligned_cols=59  Identities=12%  Similarity=-0.044  Sum_probs=41.4

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          347 MVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       347 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +...+.+.|++++|.+.|+++ ...| +...+..+..++...|++++|...|+++++..|.
T Consensus         3 ~a~~~~~~g~~~~A~~~~~~~l~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~P~   63 (65)
T PF13432_consen    3 LARALYQQGDYDEAIAAFEQALKQDPDNPEAWYLLGRILYQQGRYDEALAYYERALELDPD   63 (65)
T ss_dssp             HHHHHHHCTHHHHHHHHHHHHHCCSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC
Confidence            345566777777777777776 3334 4567777777777888888888888888777776

>COG4700 Uncharacterized protein conserved in bacteria containing a divergent form of TPR repeats [Function unknown]

Probab=97.57  E-value=0.021  Score=44.90  Aligned_cols=97  Identities=12%  Similarity=-0.029  Sum_probs=44.9

Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-----CChhhHHHH
Q 012108          202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-----KDVFCWNAM  276 (471)
Q Consensus       202 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~l  276 (471)
                      |+...-..|..+....|+..+|...|++....-...|....-.+.++....++...|...++++.+     ..+.+...+
T Consensus        87 pTvqnr~rLa~al~elGr~~EA~~hy~qalsG~fA~d~a~lLglA~Aqfa~~~~A~a~~tLe~l~e~~pa~r~pd~~Ll~  166 (251)
T COG4700          87 PTVQNRYRLANALAELGRYHEAVPHYQQALSGIFAHDAAMLLGLAQAQFAIQEFAAAQQTLEDLMEYNPAFRSPDGHLLF  166 (251)
T ss_pred             hhHHHHHHHHHHHHHhhhhhhhHHHHHHHhccccCCCHHHHHHHHHHHHhhccHHHHHHHHHHHhhcCCccCCCCchHHH
Confidence            333333344444455555555555555544433344444444445555555555555444444332     122333344


Q ss_pred             HHHHHhcCChHHHHHHHHHHHh
Q 012108          277 ILGLALHGYGYAALKLLGEMND  298 (471)
Q Consensus       277 ~~~~~~~~~~~~a~~~~~~~~~  298 (471)
                      ...+...|++.+|...|+...+
T Consensus       167 aR~laa~g~~a~Aesafe~a~~  188 (251)
T COG4700         167 ARTLAAQGKYADAESAFEVAIS  188 (251)
T ss_pred             HHHHHhcCCchhHHHHHHHHHH
Confidence            4445555555555555555444

>KOG2280 consensus Vacuolar assembly/sorting protein VPS16 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.56  E-value=0.086  Score=50.71  Aligned_cols=319  Identities=12%  Similarity=0.083  Sum_probs=178.5

Q ss_pred             HHHHHHHHcCCCHHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCC---HHHHHHHHhhcCC--CChhhHHHHHHHHHhC
Q 012108           80 NSMLDAFASCGQMDHAMKLIDLMPLKD---VTSFNIMISGYARIGK---IHSARYIFDKVPA--KDVVSWNSLILAYTNA  151 (471)
Q Consensus        80 ~~li~~~~~~g~~~~A~~~~~~~~~~~---~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~  151 (471)
                      ..+|+-+...+.+..|..+-..+..+.   ...|.....-+.+..+   -+-+..+-+++..  .+..+|..+.......
T Consensus       441 ~~vi~Rl~~r~~Y~vaIQva~~l~~p~~~~~~Vl~~Wa~~kI~~~d~~d~~vld~I~~kls~~~~~~iSy~~iA~~Ay~~  520 (829)
T KOG2280|consen  441 EVVIDRLVDRHLYSVAIQVAKLLNLPESQGDRVLLEWARRKIKQSDKMDEEVLDKIDEKLSAKLTPGISYAAIARRAYQE  520 (829)
T ss_pred             hhhhHHHHhcchhHHHHHHHHHhCCccccccHHHHHHHHHHHhccCccchHHHHHHHHHhcccCCCceeHHHHHHHHHhc
Confidence            346666777788888888888877663   4566677777666532   2233333333333  3556777788888888


Q ss_pred             CCHHHHHHHHHhcccc--------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHH
Q 012108          152 GEMEKAGEMFKKMLVK--------NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETG  223 (471)
Q Consensus       152 ~~~~~A~~~~~~~~~~--------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a  223 (471)
                      |+.+.|..+++.=+..        +..-+..-+.-+...|+.+....++-.+.+.   .+...+...+      .+...|
T Consensus       521 GR~~LA~kLle~E~~~~~qV~lLL~m~~~~~AL~kaies~d~~Li~~Vllhlk~~---~~~s~l~~~l------~~~p~a  591 (829)
T KOG2280|consen  521 GRFELARKLLELEPRSGEQVPLLLKMKDSSLALKKAIESGDTDLIIQVLLHLKNK---LNRSSLFMTL------RNQPLA  591 (829)
T ss_pred             CcHHHHHHHHhcCCCccchhHHHhccchHHHHHHHHHhcCCchhHHHHHHHHHHH---HHHHHHHHHH------Hhchhh
Confidence            8888888887654221        2223444455555666666666655555432   1222222111      223344


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHh-cC------CCCChhhHHHHHHHHHhcCC----------h
Q 012108          224 ARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFY-KS------QVKDVFCWNAMILGLALHGY----------G  286 (471)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~-~~------~~~~~~~~~~l~~~~~~~~~----------~  286 (471)
                      ..+|.+..+..-..      .+-..| ..++...+...|. +-      ..+-.........++.+...          .
T Consensus       592 ~~lY~~~~r~~~~~------~l~d~y-~q~dn~~~~a~~~~q~~~~~~~~~~r~~~lk~~a~~~a~sk~~s~e~ka~ed~  664 (829)
T KOG2280|consen  592 LSLYRQFMRHQDRA------TLYDFY-NQDDNHQALASFHLQASYAAETIEGRIPALKTAANAFAKSKEKSFEAKALEDQ  664 (829)
T ss_pred             hHHHHHHHHhhchh------hhhhhh-hcccchhhhhhhhhhhhhhhhhhcccchhHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            44444443321000      011112 2222222222221 00      00111112223333333322          1


Q ss_pred             HHHHHHHHHHHhC-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHH
Q 012108          287 YAALKLLGEMNDS-CVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIE  365 (471)
Q Consensus       287 ~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  365 (471)
                      .+-+++.+.+..+ |..-...+.+--+.-+...|+-.+|.++-.+.+-     ||...|-.-+.+++..+++++-+++-+
T Consensus       665 ~kLl~lQ~~Le~q~~~~f~dlSl~dTv~~li~~g~~k~a~ql~~~Fki-----pdKr~~wLk~~aLa~~~kweeLekfAk  739 (829)
T KOG2280|consen  665 MKLLKLQRTLEDQFGGSFVDLSLHDTVTTLILIGQNKRAEQLKSDFKI-----PDKRLWWLKLTALADIKKWEELEKFAK  739 (829)
T ss_pred             HHHHHHHHHHHHHhccccccCcHHHHHHHHHHccchHHHHHHHHhcCC-----cchhhHHHHHHHHHhhhhHHHHHHHHh
Confidence            1122222233222 3333444556666667778899999888777665     888888888889999999998888877


Q ss_pred             hCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHH
Q 012108          366 AMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWR  431 (471)
Q Consensus       366 ~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  431 (471)
                      ..+   .+.-|.....+|.+.|+.++|.+.+-+.         .-+.....+|.+.|++.+|.+.-
T Consensus       740 skk---sPIGy~PFVe~c~~~~n~~EA~KYiprv---------~~l~ekv~ay~~~~~~~eAad~A  793 (829)
T KOG2280|consen  740 SKK---SPIGYLPFVEACLKQGNKDEAKKYIPRV---------GGLQEKVKAYLRVGDVKEAADLA  793 (829)
T ss_pred             ccC---CCCCchhHHHHHHhcccHHHHhhhhhcc---------CChHHHHHHHHHhccHHHHHHHH
Confidence            764   2455666778899999999998877542         11226788888999988887643

>PF08579 RPM2: Mitochondrial ribonuclease P subunit (RPM2); InterPro: IPR013888 Ribonuclease P (RNase P) generates mature tRNA molecules by cleaving their 5' ends

Probab=97.55  E-value=0.0016  Score=46.48  Aligned_cols=79  Identities=8%  Similarity=-0.026  Sum_probs=64.5

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccC--------cHHHHHHHHHHhHHhcCCCCChhHH
Q 012108          274 NAMILGLALHGYGYAALKLLGEMNDSCV-KADDITFIGLLSACSHAG--------LVQEGCELFSRMEKDFGVTRKLEHY  344 (471)
Q Consensus       274 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~--------~~~~a~~~~~~~~~~~~~~~~~~~~  344 (471)
                      ...|..+...+++.....+|+.++..|+ .|+..+|+.++.+.++..        ++-..+.+|+.+.. .+++|+..+|
T Consensus        29 i~~I~~~~~~~d~N~I~~lYqslkRN~i~lPsv~~Yn~VL~Si~~R~lD~~~ie~kl~~LLtvYqDiL~-~~lKP~~etY  107 (120)
T PF08579_consen   29 IDNINSCFENEDYNIINPLYQSLKRNGITLPSVELYNKVLKSIAKRELDSEDIENKLTNLLTVYQDILS-NKLKPNDETY  107 (120)
T ss_pred             HHHHHHHHhhcchHHHHHHHHHHHhcCCCCCcHHHHHHHHHHHHHccccchhHHHHHHHHHHHHHHHHH-hccCCcHHHH
Confidence            4456666677999999999999999999 899999999998876542        34567788899987 6899999999


Q ss_pred             HHHHHHHhh
Q 012108          345 GCMVDLLGR  353 (471)
Q Consensus       345 ~~l~~~~~~  353 (471)
                      +.++..+.+
T Consensus       108 nivl~~Llk  116 (120)
T PF08579_consen  108 NIVLGSLLK  116 (120)
T ss_pred             HHHHHHHHH
Confidence            999887754

Rpm2 is a protein subunit of the yeast mitochondrial RNase P. It has the ability to act as a transcriptional activator in the nucleus, where it plays a role in defining the steady-state levels of mRNAs for some nucleus-encoded mitochondrial components. Rpm2p is also involved in maturation of Rpm1 and in translation of mitochondrial mRNAs [, , ].

>PRK10866 outer membrane biogenesis protein BamD; Provisional

Probab=97.55  E-value=0.032  Score=47.68  Aligned_cols=62  Identities=6%  Similarity=-0.069  Sum_probs=41.8

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHhccc--cC-hHH---HHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012108          137 DVVSWNSLILAYTNAGEMEKAGEMFKKMLV--KN-VIT---WNTMVTGYLRSQLYIEVVDLFDEMKAG  198 (471)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~-~~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~  198 (471)
                      +....-.....+.+.|++++|.+.|+.+..  |+ ...   .-.++.++.+.+++++|...+++..+.
T Consensus        31 ~~~~~Y~~A~~~~~~g~y~~Ai~~f~~l~~~yP~s~~a~~a~l~la~ayy~~~~y~~A~~~~e~fi~~   98 (243)
T PRK10866         31 PPSEIYATAQQKLQDGNWKQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL   98 (243)
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            333333445556778888888888888833  22 222   234667788889999999999888775

>PF10037 MRP-S27: Mitochondrial 28S ribosomal protein S27; InterPro: IPR019266 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms

Probab=97.53  E-value=0.002  Score=58.96  Aligned_cols=113  Identities=17%  Similarity=0.121  Sum_probs=51.9

Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHHc--CCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC----CChhhHHHH
Q 012108          203 DYLTVTSVLSACANLGSLETGARIHVYATDN--GLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV----KDVFCWNAM  276 (471)
Q Consensus       203 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l  276 (471)
                      +......+++.+....+.+.+..++-.....  ....-+.|..++++.|.+.|..+.++.+++.=..    +|..+++.|
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            3444444444444444455555544444432  1112223334555555555555555555443222    445555555


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          277 ILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       277 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      +..+.+.|++..|.++...|..++...++.|+..-+.+|
T Consensus       145 md~fl~~~~~~~A~~V~~~~~lQe~~~~~~t~~L~l~~~  183 (429)
T PF10037_consen  145 MDHFLKKGNYKSAAKVATEMMLQEEFDNPSTQALALYSC  183 (429)
T ss_pred             HHHHhhcccHHHHHHHHHHHHHhhccCCchHHHHHHHHH
Confidence            555555555555555555554444444444444444333

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 [].

>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=97.49  E-value=0.0016  Score=52.59  Aligned_cols=97  Identities=13%  Similarity=0.188  Sum_probs=71.2

Q ss_pred             HHHHHhc--cccChHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc-------------
Q 012108          158 GEMFKKM--LVKNVITWNTMVTGYLR-----SQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANL-------------  217 (471)
Q Consensus       158 ~~~~~~~--~~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~-------------  217 (471)
                      .+.|+..  ..++..+|..++..|.+     .|..+=....++.|.+-|+.-|..+|+.|++.+=+.             
T Consensus        34 ~~~f~~~~~~~k~K~~F~~~V~~f~~~~~~RRGHVeFI~aAL~~M~efgv~kDL~~Y~~LLDvFPKg~fvp~n~fQ~~F~  113 (228)
T PF06239_consen   34 EELFERAPGQAKDKATFLEAVDIFKQRDVRRRGHVEFIYAALKKMDEFGVEKDLEVYKALLDVFPKGKFVPRNFFQAEFM  113 (228)
T ss_pred             HHHHHHHhhccccHHHHHHHHHHHHhcCCCCcChHHHHHHHHHHHHHcCCcccHHHHHHHHHhCCCCCcccccHHHHHhc
Confidence            3444444  44566666666666654     356666777778888888888888888888877542             


Q ss_pred             ---CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 012108          218 ---GSLETGARIHVYATDNGLASNPHATTALIDMYAKCGS  254 (471)
Q Consensus       218 ---~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  254 (471)
                         .+-+-|.+++++|...|+-||..++..+++.+.+.+.
T Consensus       114 hyp~Qq~c~i~lL~qME~~gV~Pd~Et~~~ll~iFG~~s~  153 (228)
T PF06239_consen  114 HYPRQQECAIDLLEQMENNGVMPDKETEQMLLNIFGRKSH  153 (228)
T ss_pred             cCcHHHHHHHHHHHHHHHcCCCCcHHHHHHHHHHhccccH
Confidence               2446688999999999999999999999998877655

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=97.48  E-value=0.096  Score=49.20  Aligned_cols=396  Identities=12%  Similarity=0.047  Sum_probs=212.0

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHH
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFA   87 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~   87 (471)
                      ..|..||..-....+.+.+..+++.++.. .|.--.-|......=.+.|..+.+.++|++...  | ++..|......+.
T Consensus        46 ~~wt~li~~~~~~~~~~~~r~~y~~fL~k-yPl~~gyW~kfA~~E~klg~~~~s~~Vfergv~aip~SvdlW~~Y~~f~~  124 (577)
T KOG1258|consen   46 DAWTTLIQENDSIEDVDALREVYDIFLSK-YPLCYGYWKKFADYEYKLGNAENSVKVFERGVQAIPLSVDLWLSYLAFLK  124 (577)
T ss_pred             cchHHHHhccCchhHHHHHHHHHHHHHhh-CccHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHh
Confidence            34555665555555566677777777754 233334556666666677788888888887654  2 4445555444332


Q ss_pred             -cCCCHHHHHHHHhcCCCC------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHh---C------
Q 012108           88 -SCGQMDHAMKLIDLMPLK------DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTN---A------  151 (471)
Q Consensus        88 -~~g~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~---~------  151 (471)
                       ..|+.+...+.|+....-      ....|...+.--...+++.....++++.++-....++..-.-|.+   .      
T Consensus       125 n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l  204 (577)
T KOG1258|consen  125 NNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWKRVANIYERILEIPLHQLNRHFDRFKQLLNQNEEKIL  204 (577)
T ss_pred             ccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHHHHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhh
Confidence             456666666666665432      444566666666666777777777777755444433333322221   1      


Q ss_pred             CCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHH--HHHHHH-------HHHccCChHH
Q 012108          152 GEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLT--VTSVLS-------ACANLGSLET  222 (471)
Q Consensus       152 ~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~--~~~l~~-------~~~~~~~~~~  222 (471)
                      ...+++.++=......         ......+...+-.+.  .+...+-+.+..+  .+.+-.       .+-.......
T Consensus       205 ~~~d~~~~l~~~~~~~---------~~~~~~~~~~e~~~~--~v~~~~~~s~~l~~~~~~l~~~~~~~~~~~~~s~~~~~  273 (577)
T KOG1258|consen  205 LSIDELIQLRSDVAER---------SKITHSQEPLEELEI--GVKDSTDPSKSLTEEKTILKRIVSIHEKVYQKSEEEEE  273 (577)
T ss_pred             cCHHHHHHHhhhHHhh---------hhcccccChhHHHHH--HHhhccCccchhhHHHHHHHHHHHHHHHHHHhhHhHHH
Confidence            1111111111111000         000000111111110  0111110100000  001111       1111112222


Q ss_pred             HHHHHHHHHHcC---C----CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC---hhhHHHHHHHHHhcCChHHHHHH
Q 012108          223 GARIHVYATDNG---L----ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD---VFCWNAMILGLALHGYGYAALKL  292 (471)
Q Consensus       223 a~~~~~~~~~~~---~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~  292 (471)
                      ....++.-++.-   +    +++..+|...+..-.+.|+.+.+.-+|++...|-   ...|-..+.-....|+.+-|..+
T Consensus       274 kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~cA~Y~efWiky~~~m~~~~~~~~~~~~  353 (577)
T KOG1258|consen  274 KRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPCALYDEFWIKYARWMESSGDVSLANNV  353 (577)
T ss_pred             HHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHHhhhHHHHHHHHHHHHHcCchhHHHHH
Confidence            222233322211   1    2345678888888889999999999998876652   24555555555566888888888


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHhhcCCHHHHH---HHHHhC-
Q 012108          293 LGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLDRAI---ELIEAM-  367 (471)
Q Consensus       293 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~---~~~~~~-  367 (471)
                      +....+--++-.+.+-..-...+-..|+++.|..+++.+.++  . |+ ...-..-+....+.|+.+.+.   +++... 
T Consensus       354 ~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e--~-pg~v~~~l~~~~~e~r~~~~~~~~~~~~l~s~~~  430 (577)
T KOG1258|consen  354 LARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESE--Y-PGLVEVVLRKINWERRKGNLEDANYKNELYSSIY  430 (577)
T ss_pred             HHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhh--C-CchhhhHHHHHhHHHHhcchhhhhHHHHHHHHhc
Confidence            877665433322222222222344578999999999999984  3 44 333334445566788888887   444444 


Q ss_pred             CCCCCHhHHHHHHHH-----HhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcC
Q 012108          368 PFEPTESILGALLSA-----CVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCG  422 (471)
Q Consensus       368 ~~~p~~~~~~~l~~~-----~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  422 (471)
                      ...-+..+...+.--     +.-.++.+.|..++.++.+..|. +...|..+++.....+
T Consensus       431 ~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~~~~~-~k~~~~~~~~~~~~~~  489 (577)
T KOG1258|consen  431 EGKENNGILEKLYVKFARLRYKIREDADLARIILLEANDILPD-CKVLYLELIRFELIQP  489 (577)
T ss_pred             ccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhhcCCc-cHHHHHHHHHHHHhCC
Confidence            222233333322222     33567899999999999999988 8888888888777665

>PF12688 TPR_5: Tetratrico peptide repeat

Probab=97.44  E-value=0.0052  Score=45.58  Aligned_cols=90  Identities=14%  Similarity=0.068  Sum_probs=53.7

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHh
Q 012108          276 MILGLALHGYGYAALKLLGEMNDSCVKAD--DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLG  352 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~  352 (471)
                      +..++-..|+.++|+.+|++....|....  ...+..+...+...|++++|..++++....+.-.+ +......+..++.
T Consensus         7 ~A~a~d~~G~~~~Ai~~Y~~Al~~gL~~~~~~~a~i~lastlr~LG~~deA~~~L~~~~~~~p~~~~~~~l~~f~Al~L~   86 (120)
T PF12688_consen    7 LAWAHDSLGREEEAIPLYRRALAAGLSGADRRRALIQLASTLRNLGRYDEALALLEEALEEFPDDELNAALRVFLALALY   86 (120)
T ss_pred             HHHHHHhcCCHHHHHHHHHHHHHcCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCccccHHHHHHHHHHHH
Confidence            44556667777777777777777765544  23455566677777777777777777766321111 2222222334555


Q ss_pred             hcCCHHHHHHHHH
Q 012108          353 RARLLDRAIELIE  365 (471)
Q Consensus       353 ~~g~~~~A~~~~~  365 (471)
                      ..|+.++|.+.+-
T Consensus        87 ~~gr~~eAl~~~l   99 (120)
T PF12688_consen   87 NLGRPKEALEWLL   99 (120)
T ss_pred             HCCCHHHHHHHHH
Confidence            6667666666553

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=97.43  E-value=0.0014  Score=56.35  Aligned_cols=60  Identities=7%  Similarity=-0.102  Sum_probs=26.1

Q ss_pred             HHHHHHhhcCCchHHHHHHHHHHHcCCC--CCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          378 ALLSACVIHQDLEIGDRVAKMVCAKSNY--LSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       378 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      -+..+|...|++++|...|+.+.+..|.  ..+..+..++.++...|++++|..+++++.+.
T Consensus       185 ~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~~~~~~g~~~~A~~~~~~vi~~  246 (263)
T PRK10803        185 WLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGVIMQDKGDTAKAKAVYQQVIKK  246 (263)
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            3444444444444444444444444333  01222333344444445555555555444443

>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=97.43  E-value=0.00078  Score=44.59  Aligned_cols=49  Identities=20%  Similarity=0.174  Sum_probs=25.7

Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          317 HAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       317 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      ..|++++|.++|+++..  ..+.+...+..+..+|.+.|++++|.++++++
T Consensus         3 ~~~~~~~A~~~~~~~l~--~~p~~~~~~~~la~~~~~~g~~~~A~~~l~~~   51 (68)
T PF14559_consen    3 KQGDYDEAIELLEKALQ--RNPDNPEARLLLAQCYLKQGQYDEAEELLERL   51 (68)
T ss_dssp             HTTHHHHHHHHHHHHHH--HTTTSHHHHHHHHHHHHHTT-HHHHHHHHHCC
T ss_pred             hccCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34555555555555554  23334445555555555555555555555555

...

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.41  E-value=0.048  Score=45.33  Aligned_cols=178  Identities=13%  Similarity=0.020  Sum_probs=83.2

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCC--CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc
Q 012108          175 MVTGYLRSQLYIEVVDLFDEMKAGNVK--PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKC  252 (471)
Q Consensus       175 l~~~~~~~~~~~~a~~~~~~m~~~g~~--p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  252 (471)
                      ....+...|++.+|.+.|+++...-..  --......++.++.+.|+++.|...++..++.-......-+...+.+.+..
T Consensus        11 ~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~yP~~~~~~~A~Y~~g~~~~   90 (203)
T PF13525_consen   11 KALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKLYPNSPKADYALYMLGLSYY   90 (203)
T ss_dssp             HHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH-TT-TTHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhhHHHHHHHHHH
Confidence            344455566666666666666543111  111223344555666666666666666665543111111122222222111


Q ss_pred             CChHHHHHHHhcCCCCC-------hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 012108          253 GSIEQSLEVFYKSQVKD-------VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGC  325 (471)
Q Consensus       253 ~~~~~a~~~~~~~~~~~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  325 (471)
                      .......     ....|       ...+..++.-|-.+....+|...+..+...    -..--..+..-|.+.|.+..|.
T Consensus        91 ~~~~~~~-----~~~~D~~~~~~A~~~~~~li~~yP~S~y~~~A~~~l~~l~~~----la~~e~~ia~~Y~~~~~y~aA~  161 (203)
T PF13525_consen   91 KQIPGIL-----RSDRDQTSTRKAIEEFEELIKRYPNSEYAEEAKKRLAELRNR----LAEHELYIARFYYKRGKYKAAI  161 (203)
T ss_dssp             HHHHHHH------TT---HHHHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHH----HHHHHHHHHHHHHCTT-HHHHH
T ss_pred             HhCccch-----hcccChHHHHHHHHHHHHHHHHCcCchHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHcccHHHHH
Confidence            1111100     00001       123445556666666666666666655432    0111223566688888888888


Q ss_pred             HHHHHhHHhcCCCCC-hhHHHHHHHHHhhcCCHHHHH
Q 012108          326 ELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLDRAI  361 (471)
Q Consensus       326 ~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~  361 (471)
                      .-++.+.+.+.-.+. ......++.+|.+.|..+.+.
T Consensus       162 ~r~~~v~~~yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  162 IRFQYVIENYPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HHHHHHHHHSTTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHHHHHHHHCCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            888888874322221 344566677777777776443

>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=97.41  E-value=0.0005  Score=45.71  Aligned_cols=64  Identities=16%  Similarity=0.040  Sum_probs=42.6

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcC-CchHHHHHHHHHHHcCC
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQ-DLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~  404 (471)
                      +..|..+...+...|++++|+..|++. ...| +...|..+..++...| ++++|++.++++++.+|
T Consensus         3 a~~~~~~g~~~~~~~~~~~A~~~~~~ai~~~p~~~~~~~~~g~~~~~~~~~~~~A~~~~~~al~l~P   69 (69)
T PF13414_consen    3 AEAWYNLGQIYFQQGDYEEAIEYFEKAIELDPNNAEAYYNLGLAYMKLGKDYEEAIEDFEKALKLDP   69 (69)
T ss_dssp             HHHHHHHHHHHHHTTHHHHHHHHHHHHHHHSTTHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhCccHHHHHHHHHHHHHcCc
Confidence            445666666666777777777776665 2233 4556677777777777 57777777777777665

...

>KOG2796 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.36  E-value=0.015  Score=48.36  Aligned_cols=134  Identities=8%  Similarity=-0.107  Sum_probs=93.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHH-----H
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHY-----G  345 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~-----~  345 (471)
                      ...+.++..+.-.|.+.-....+.+.++...+.++.....+.+.-.+.|+.+.|...|+...+..+ ..+....     .
T Consensus       178 ~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  178 RVMYSMANCLLGMKEYVLSVDAYHSVIKYYPEQEPQLLSGLGRISMQIGDIKTAEKYFQDVEKVTQ-KLDGLQGKIMVLM  256 (366)
T ss_pred             HHHHHHHHHHhcchhhhhhHHHHHHHHHhCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHh-hhhccchhHHHHh
Confidence            345566667777788888888888888876566777888888888889999999999997776432 2222222     2


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCC--CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          346 CMVDLLGRARLLDRAIELIEAMPF--EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .....|.-.+++..|...+.++..  +.++...|.-.-+..-.|+...|.+.++.+.+..|.
T Consensus       257 n~a~i~lg~nn~a~a~r~~~~i~~~D~~~~~a~NnKALcllYlg~l~DAiK~~e~~~~~~P~  318 (366)
T KOG2796|consen  257 NSAFLHLGQNNFAEAHRFFTEILRMDPRNAVANNNKALCLLYLGKLKDALKQLEAMVQQDPR  318 (366)
T ss_pred             hhhhheecccchHHHHHHHhhccccCCCchhhhchHHHHHHHHHHHHHHHHHHHHHhccCCc
Confidence            333345667788888888888732  223444444444445678888999999988888877

>KOG0550 consensus Molecular chaperone (DnaJ superfamily) [Posttranslational modification, protein turnover, chaperones]

Probab=97.28  E-value=0.088  Score=47.04  Aligned_cols=21  Identities=10%  Similarity=0.077  Sum_probs=14.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHH
Q 012108          411 LMMFANLYASCGQWEEANRWR  431 (471)
Q Consensus       411 ~~~l~~~~~~~g~~~~A~~~~  431 (471)
                      |...+.+|...++..+..+..
T Consensus       417 FkevgeAy~il~d~~kr~r~d  437 (486)
T KOG0550|consen  417 FKEVGEAYTILSDPMKRVRFD  437 (486)
T ss_pred             HHHHHHHHHHhcCHHHHhhcc
Confidence            445677888888887776643

>KOG2041 consensus WD40 repeat protein [General function prediction only]

Probab=97.28  E-value=0.18  Score=48.20  Aligned_cols=200  Identities=11%  Similarity=0.057  Sum_probs=119.5

Q ss_pred             CCCcccHHHHHHHHhhccchhHHHHHHHHHHHh-cc--------CCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcc
Q 012108            7 HADNYSFPLLLKAAGILSSSCIGLMLHGQTIKT-GF--------CGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDII   77 (471)
Q Consensus         7 ~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-~~--------~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~   77 (471)
                      .|-+..|..|..+....-.++.|...|-+.... |+        -.+.....+=+.+  --|++++|++++-++.++|. 
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 NPHPRLWRLLAEYALFKLALDTAEHAFVRCGDYAGIKLVKRLRTIHSKEQQRAEISA--FYGEFEEAEKLYLDADRRDL-  765 (1189)
T ss_pred             CCchHHHHHHHHHHHHHHhhhhHhhhhhhhccccchhHHHHhhhhhhHHHHhHhHhh--hhcchhHhhhhhhccchhhh-
Confidence            466667777777766666677777666544321 11        1122222222222  35899999999988877653 


Q ss_pred             cHHHHHHHHHcCCCHHHHHHHHhcCCCC-----ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCC
Q 012108           78 AWNSMLDAFASCGQMDHAMKLIDLMPLK-----DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAG  152 (471)
Q Consensus        78 ~~~~li~~~~~~g~~~~A~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~  152 (471)
                          .|..+.+.|++-....+++.--..     -..+|+.+...++....+++|.+.+.....     -...++++.+..
T Consensus       766 ----Aielr~klgDwfrV~qL~r~g~~d~dD~~~e~A~r~ig~~fa~~~~We~A~~yY~~~~~-----~e~~~ecly~le  836 (1189)
T KOG2041|consen  766 ----AIELRKKLGDWFRVYQLIRNGGSDDDDEGKEDAFRNIGETFAEMMEWEEAAKYYSYCGD-----TENQIECLYRLE  836 (1189)
T ss_pred             ----hHHHHHhhhhHHHHHHHHHccCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccc-----hHhHHHHHHHHH
Confidence                467778888888888888764433     235788888888888888888888776522     123455666666


Q ss_pred             CHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHH
Q 012108          153 EMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHV  228 (471)
Q Consensus       153 ~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~  228 (471)
                      ++++-+.+...+++ +....-.+...+...|.-++|.+.|-+-   + .|.     ..+..|...++|.+|.++-+
T Consensus       837 ~f~~LE~la~~Lpe-~s~llp~~a~mf~svGMC~qAV~a~Lr~---s-~pk-----aAv~tCv~LnQW~~avelaq  902 (1189)
T KOG2041|consen  837 LFGELEVLARTLPE-DSELLPVMADMFTSVGMCDQAVEAYLRR---S-LPK-----AAVHTCVELNQWGEAVELAQ  902 (1189)
T ss_pred             hhhhHHHHHHhcCc-ccchHHHHHHHHHhhchHHHHHHHHHhc---c-CcH-----HHHHHHHHHHHHHHHHHHHH
Confidence            66665555555433 3344455666666677766666655332   1 111     22345555566666555543

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=97.26  E-value=0.12  Score=45.77  Aligned_cols=282  Identities=15%  Similarity=0.181  Sum_probs=180.5

Q ss_pred             HHHHHHHH--HhCCCHHHHHHHHHhc---cccChHHHHHHHH--HHHhcCCHHHHHHHHHHHHhCCCCCCHHHH--HHHH
Q 012108          141 WNSLILAY--TNAGEMEKAGEMFKKM---LVKNVITWNTMVT--GYLRSQLYIEVVDLFDEMKAGNVKPDYLTV--TSVL  211 (471)
Q Consensus       141 ~~~l~~~~--~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~--~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~--~~l~  211 (471)
                      |.+|-.++  .-.|+-..|.++-.+.   +..|....-.++.  +-.-.|+++.|.+-|+.|..   .|.....  -.|.
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~---dPEtRllGLRgLy  161 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD---DPETRLLGLRGLY  161 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc---ChHHHHHhHHHHH
Confidence            44444333  3456777777666554   3334444333433  34457899999999999876   2333222  1222


Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-----CChh--hHHHHHHHHH---
Q 012108          212 SACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-----KDVF--CWNAMILGLA---  281 (471)
Q Consensus       212 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~--~~~~l~~~~~---  281 (471)
                      -..-+.|+.+.|.++-+..-... +.-.......+...|..|+++.|+++++.-..     ++..  .-..|+.+-.   
T Consensus       162 leAqr~GareaAr~yAe~Aa~~A-p~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~~vie~~~aeR~rAvLLtAkA~s~  240 (531)
T COG3898         162 LEAQRLGAREAARHYAERAAEKA-PQLPWAARATLEARCAAGDWDGALKLVDAQRAAKVIEKDVAERSRAVLLTAKAMSL  240 (531)
T ss_pred             HHHHhcccHHHHHHHHHHHHhhc-cCCchHHHHHHHHHHhcCChHHHHHHHHHHHHHHhhchhhHHHHHHHHHHHHHHHH
Confidence            23346788888888888776654 44567788889999999999999999875332     3321  1122222211   


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHH
Q 012108          282 LHGYGYAALKLLGEMNDSCVKADDITF-IGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA  360 (471)
Q Consensus       282 ~~~~~~~a~~~~~~~~~~~~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  360 (471)
                      -..+...|...-.+..+  +.||...- ..-..++.+.|+..++-.+++.+-+   ..|.+.++...  .+.+.|+.  +
T Consensus       241 ldadp~~Ar~~A~~a~K--L~pdlvPaav~AAralf~d~~~rKg~~ilE~aWK---~ePHP~ia~lY--~~ar~gdt--a  311 (531)
T COG3898         241 LDADPASARDDALEANK--LAPDLVPAAVVAARALFRDGNLRKGSKILETAWK---AEPHPDIALLY--VRARSGDT--A  311 (531)
T ss_pred             hcCChHHHHHHHHHHhh--cCCccchHHHHHHHHHHhccchhhhhhHHHHHHh---cCCChHHHHHH--HHhcCCCc--H
Confidence            12345556655555444  46665433 3345778999999999999999987   34665554333  23445543  3


Q ss_pred             HHHHHhC----CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc-CCHHHHHHHHHHh
Q 012108          361 IELIEAM----PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC-GQWEEANRWRNMM  434 (471)
Q Consensus       361 ~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m  434 (471)
                      ..-+++.    ..+| +......+..+....|++..|..--+......|.  ...|..|.+.-... |+-.++...+-+.
T Consensus       312 ~dRlkRa~~L~slk~nnaes~~~va~aAlda~e~~~ARa~Aeaa~r~~pr--es~~lLlAdIeeAetGDqg~vR~wlAqa  389 (531)
T COG3898         312 LDRLKRAKKLESLKPNNAESSLAVAEAALDAGEFSAARAKAEAAAREAPR--ESAYLLLADIEEAETGDQGKVRQWLAQA  389 (531)
T ss_pred             HHHHHHHHHHHhcCccchHHHHHHHHHHHhccchHHHHHHHHHHhhhCch--hhHHHHHHHHHhhccCchHHHHHHHHHH
Confidence            3222222    2344 4567777888888999999999988888888776  88888888887765 9999999998887


Q ss_pred             hhC
Q 012108          435 NDT  437 (471)
Q Consensus       435 ~~~  437 (471)
                      .+.
T Consensus       390 v~A  392 (531)
T COG3898         390 VKA  392 (531)
T ss_pred             hcC
Confidence            654

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.25  E-value=0.054  Score=48.73  Aligned_cols=163  Identities=14%  Similarity=0.017  Sum_probs=89.0

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCCC-------ChhhHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCCHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQVK-------DVFCWNAMILGLAL---HGYGYAALKLLGEMNDSCVKADDITF  308 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~~~  308 (471)
                      +.+...++-+|....+++..+++++.+...       ....-...+-++.+   .|+.++|++++..+....-.+++.+|
T Consensus       141 ~div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~~~~~~~~d~~  220 (374)
T PF13281_consen  141 PDIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLESDENPDPDTL  220 (374)
T ss_pred             hhHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHhccCCCChHHH
Confidence            344445666788888888888888877763       12222334455666   78888888888886555566777788


Q ss_pred             HHHHHHHhc---------cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCH-H---HHHHHH---Hh-C----
Q 012108          309 IGLLSACSH---------AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL-D---RAIELI---EA-M----  367 (471)
Q Consensus       309 ~~l~~~~~~---------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~---~A~~~~---~~-~----  367 (471)
                      ..+.+.|-.         ....+.|...|.+.-+   ..|+...--.++..+...|.. +   +..++-   .. +    
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 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFE---IEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKG  297 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHc---CCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhc
Confidence            777776642         1235566666665544   234433222222233333321 1   111111   11 0    


Q ss_pred             --CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          368 --PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       368 --~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                        .-..+-..+..++.++.-.|+.++|.+..+++.+..|
T Consensus       298 ~~~~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~~  336 (374)
T PF13281_consen  298 SLEKMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLKP  336 (374)
T ss_pred             cccccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcCC
Confidence              1122334445555666666666666666666665543

>PF13281 DUF4071: Domain of unknown function (DUF4071)

Probab=97.21  E-value=0.039  Score=49.58  Aligned_cols=167  Identities=12%  Similarity=0.033  Sum_probs=101.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHhc---cCcHHHHHHHHHHhHHhcCCCCChhHH
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSC---VKADDITFIGLLSACSH---AGLVQEGCELFSRMEKDFGVTRKLEHY  344 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~~~~~~~~  344 (471)
                      .+...++-+|....+++..+++++.+....   +.-+...-....-++.+   .|+.++|++++..+.. ....+++.++
T Consensus       142 div~~lllSyRdiqdydamI~Lve~l~~~p~~~~~~~~~i~~~yafALnRrn~~gdre~Al~il~~~l~-~~~~~~~d~~  220 (374)
T PF13281_consen  142 DIVINLLLSYRDIQDYDAMIKLVETLEALPTCDVANQHNIKFQYAFALNRRNKPGDREKALQILLPVLE-SDENPDPDTL  220 (374)
T ss_pred             hHHHHHHHHhhhhhhHHHHHHHHHHhhccCccchhcchHHHHHHHHHHhhcccCCCHHHHHHHHHHHHh-ccCCCChHHH
Confidence            334456666888888888888888887641   11122222334455566   7888888888888555 3566777888


Q ss_pred             HHHHHHHhh---------cCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCC-ch---HHHHHH----HHHHHcC---
Q 012108          345 GCMVDLLGR---------ARLLDRAIELIEAM-PFEPTESILGALLSACVIHQD-LE---IGDRVA----KMVCAKS---  403 (471)
Q Consensus       345 ~~l~~~~~~---------~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~-~~---~a~~~~----~~~~~~~---  403 (471)
                      ..+...|..         ...+++|...|.+. .+.|+...--+++..+...|. .+   +..++-    ....+.+   
T Consensus       221 gL~GRIyKD~~~~s~~~d~~~ldkAi~~Y~kgFe~~~~~Y~GIN~AtLL~~~g~~~~~~~el~~i~~~l~~llg~kg~~~  300 (374)
T PF13281_consen  221 GLLGRIYKDLFLESNFTDRESLDKAIEWYRKGFEIEPDYYSGINAATLLMLAGHDFETSEELRKIGVKLSSLLGRKGSLE  300 (374)
T ss_pred             HHHHHHHHHHHHHcCccchHHHHHHHHHHHHHHcCCccccchHHHHHHHHHcCCcccchHHHHHHHHHHHHHHHhhcccc
Confidence            877777632         23467788888776 555665443333333333332 11   222222    1111222   


Q ss_pred             CCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          404 NYLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       404 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      +..+-..+.+++.++.-.|+.++|.+..++|.+..
T Consensus       301 ~~~dYWd~ATl~Ea~vL~~d~~ka~~a~e~~~~l~  335 (374)
T PF13281_consen  301 KMQDYWDVATLLEASVLAGDYEKAIQAAEKAFKLK  335 (374)
T ss_pred             ccccHHHHHHHHHHHHHcCCHHHHHHHHHHHhhcC
Confidence            33356666678888888888888888888887664

>PRK15331 chaperone protein SicA; Provisional

Probab=97.21  E-value=0.0029  Score=48.96  Aligned_cols=85  Identities=7%  Similarity=-0.031  Sum_probs=46.5

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a  392 (471)
                      +...|++++|..+|+-+..  -.+-++..+..|..++-..+++++|...|...  -...|+..+-....++...|+.+.|
T Consensus        47 ~y~~Gk~~eA~~~F~~L~~--~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         47 FYNQGRLDEAETFFRFLCI--YDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKNDYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHCCCHHHHHHHHHHHHH--hCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccCCCCccchHHHHHHHhCCHHHH
Confidence            4456666666666666654  22234445555666666666666666666544  1112333333345556666666666


Q ss_pred             HHHHHHHHH
Q 012108          393 DRVAKMVCA  401 (471)
Q Consensus       393 ~~~~~~~~~  401 (471)
                      ...|+.+++
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            666666555

>PF13525 YfiO: Outer membrane lipoprotein; PDB: 3TGO_A 3Q5M_A 2YHC_A

Probab=97.15  E-value=0.023  Score=47.23  Aligned_cols=165  Identities=13%  Similarity=0.049  Sum_probs=87.5

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHhccc--c----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHH--HHHHHHHH
Q 012108          142 NSLILAYTNAGEMEKAGEMFKKMLV--K----NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYL--TVTSVLSA  213 (471)
Q Consensus       142 ~~l~~~~~~~~~~~~A~~~~~~~~~--~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~--~~~~l~~~  213 (471)
                      -.....+...|++++|.+.|+.+..  |    ...+.-.++.++.+.|+++.|...+++.++.  -|+..  .+...+.+
T Consensus         9 Y~~a~~~~~~g~y~~Ai~~f~~l~~~~P~s~~a~~A~l~la~a~y~~~~y~~A~~~~~~fi~~--yP~~~~~~~A~Y~~g   86 (203)
T PF13525_consen    9 YQKALEALQQGDYEEAIKLFEKLIDRYPNSPYAPQAQLMLAYAYYKQGDYEEAIAAYERFIKL--YPNSPKADYALYMLG   86 (203)
T ss_dssp             HHHHHHHHHCT-HHHHHHHHHHHHHH-TTSTTHHHHHHHHHHHHHHTT-HHHHHHHHHHHHHH---TT-TTHHHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CCCCcchhhHHHHHH
Confidence            3445566777888888888888733  1    2234556677788888888888888887664  23321  12222222


Q ss_pred             HHc-------------cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHH
Q 012108          214 CAN-------------LGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGL  280 (471)
Q Consensus       214 ~~~-------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~  280 (471)
                      .+.             .+...+|...|+.+++.               |=......+|...+..+...=...--.+...|
T Consensus        87 ~~~~~~~~~~~~~~~D~~~~~~A~~~~~~li~~---------------yP~S~y~~~A~~~l~~l~~~la~~e~~ia~~Y  151 (203)
T PF13525_consen   87 LSYYKQIPGILRSDRDQTSTRKAIEEFEELIKR---------------YPNSEYAEEAKKRLAELRNRLAEHELYIARFY  151 (203)
T ss_dssp             HHHHHHHHHHH-TT---HHHHHHHHHHHHHHHH----------------TTSTTHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhCccchhcccChHHHHHHHHHHHHHHHH---------------CcCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            111             11223444445544443               22223333333333222111111112356678


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHHHHH
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKADD----ITFIGLLSACSHAGLVQEGC  325 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~~a~  325 (471)
                      .+.|.+..|..-++.+++.  -|+.    .....++.++.+.|..+.+.
T Consensus       152 ~~~~~y~aA~~r~~~v~~~--yp~t~~~~~al~~l~~~y~~l~~~~~a~  198 (203)
T PF13525_consen  152 YKRGKYKAAIIRFQYVIEN--YPDTPAAEEALARLAEAYYKLGLKQAAD  198 (203)
T ss_dssp             HCTT-HHHHHHHHHHHHHH--STTSHHHHHHHHHHHHHHHHTT-HHHHH
T ss_pred             HHcccHHHHHHHHHHHHHH--CCCCchHHHHHHHHHHHHHHhCChHHHH
Confidence            8899999999999998876  3332    34566778888888877443

>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=97.13  E-value=0.0018  Score=50.74  Aligned_cols=70  Identities=21%  Similarity=0.205  Sum_probs=53.4

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh-----hCCCcccCcc
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN-----DTGIVKTAGS  445 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~-----~~~~~~~~~~  445 (471)
                      +...++..+...|++++|..+++.++..+|. +...|..++.+|...|+..+|.+.|+++.     +.|+.|++.+
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~dP~-~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~  138 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALDPY-DEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPET  138 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT--HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHH
Confidence            4455677778899999999999999999999 99999999999999999999999998874     3577766543

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=97.12  E-value=0.0025  Score=57.86  Aligned_cols=98  Identities=10%  Similarity=-0.001  Sum_probs=59.1

Q ss_pred             CChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH----hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHH
Q 012108          339 RKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTE----SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMM  413 (471)
Q Consensus       339 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~----~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  413 (471)
                      .+...++.+..+|.+.|++++|+..|++. .+.|+.    .+|..+..+|...|+.++|+..++++++..+.    .|..
T Consensus        73 ~~a~a~~NLG~AL~~lGryeEAIa~f~rALeL~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrALelsn~----~f~~  148 (453)
T PLN03098         73 KTAEDAVNLGLSLFSKGRVKDALAQFETALELNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTALRDYNL----KFST  148 (453)
T ss_pred             CCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcch----hHHH
Confidence            34666777777777777777777777774 555653    24777777777777777777777777775311    1211


Q ss_pred             HHH--HHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          414 FAN--LYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       414 l~~--~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +..  .+....+..+..++++.+.+.|..
T Consensus       149 i~~DpdL~plR~~pef~eLlee~rk~G~~  177 (453)
T PLN03098        149 ILNDPDLAPFRASPEFKELQEEARKGGED  177 (453)
T ss_pred             HHhCcchhhhcccHHHHHHHHHHHHhCCc
Confidence            111  111222334566666666666554

>KOG1130 consensus Predicted G-alpha GTPase interaction protein, contains GoLoco domain [Signal transduction mechanisms]

Probab=97.11  E-value=0.0057  Score=54.16  Aligned_cols=128  Identities=11%  Similarity=-0.000  Sum_probs=75.3

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHH----HHcCCC-CchhHHHHHHHHHHhcCChHHHHHHHhcCC-------CC--Chh
Q 012108          206 TVTSVLSACANLGSLETGARIHVYA----TDNGLA-SNPHATTALIDMYAKCGSIEQSLEVFYKSQ-------VK--DVF  271 (471)
Q Consensus       206 ~~~~l~~~~~~~~~~~~a~~~~~~~----~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~--~~~  271 (471)
                      .|..|.+.|.-.|+++.|+...+.-    ++.|-. .....+..+..+++-.|+++.|.+.|+...       .+  ...
T Consensus       197 a~GnLGNTyYlLGdf~~ai~~H~~RL~ia~efGDrAaeRRA~sNlgN~hiflg~fe~A~ehYK~tl~LAielg~r~vEAQ  276 (639)
T KOG1130|consen  197 AYGNLGNTYYLLGDFDQAIHFHKLRLEIAQEFGDRAAERRAHSNLGNCHIFLGNFELAIEHYKLTLNLAIELGNRTVEAQ  276 (639)
T ss_pred             hhcccCceeeeeccHHHHHHHHHHHHHHHHHhhhHHHHHHhhcccchhhhhhcccHhHHHHHHHHHHHHHHhcchhHHHH
Confidence            4555555556667777776655442    233311 123456667777777777777777775422       12  223


Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHh----C-CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMND----S-CVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      .+.+|...|.-..++++|+.++.+-.+    . ...-....+.+|..++...|..++|+.+.+...+
T Consensus       277 scYSLgNtytll~e~~kAI~Yh~rHLaIAqeL~DriGe~RacwSLgna~~alg~h~kAl~fae~hl~  343 (639)
T KOG1130|consen  277 SCYSLGNTYTLLKEVQKAITYHQRHLAIAQELEDRIGELRACWSLGNAFNALGEHRKALYFAELHLR  343 (639)
T ss_pred             HHHHhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence            455566666666677777776654321    1 1122445677788888888888887776655544

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=97.07  E-value=0.0012  Score=39.01  Aligned_cols=42  Identities=14%  Similarity=-0.001  Sum_probs=34.0

Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHH
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFAN  416 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  416 (471)
                      .++..+..+|...|++++|+++++++++..|+ |+..+..|+.
T Consensus         2 ~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~-~~~a~~~La~   43 (44)
T PF13428_consen    2 AAWLALARAYRRLGQPDEAERLLRRALALDPD-DPEAWRALAQ   43 (44)
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcC-CHHHHHHhhh
Confidence            35667788888888888888888888888888 8887777654

>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=97.05  E-value=0.0089  Score=48.48  Aligned_cols=87  Identities=20%  Similarity=0.207  Sum_probs=54.2

Q ss_pred             CChhhHHHHHHHHHh-----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc----------------CcHHHHHH
Q 012108          268 KDVFCWNAMILGLAL-----HGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHA----------------GLVQEGCE  326 (471)
Q Consensus       268 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~----------------~~~~~a~~  326 (471)
                      .+..+|..++..|.+     .|..+=....+..|.+-|+.-|..+|+.|+..+=+.                .+-+-|++
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            345555555555543     456666667777777778777888888777766531                12344566


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHhhcC
Q 012108          327 LFSRMEKDFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                      ++++|.. +|+-||..++..+++.+++.+
T Consensus       125 lL~qME~-~gV~Pd~Et~~~ll~iFG~~s  152 (228)
T PF06239_consen  125 LLEQMEN-NGVMPDKETEQMLLNIFGRKS  152 (228)
T ss_pred             HHHHHHH-cCCCCcHHHHHHHHHHhcccc
Confidence            6666666 566666666666666665544

ECSIT plays an important role in signalling to NF-kappaB, functioning as the intermediate in the signalling pathways between TRAF-6 and MEKK-1 [].

>COG4235 Cytochrome c biogenesis factor [Posttranslational modification, protein turnover, chaperones]

Probab=97.02  E-value=0.038  Score=47.33  Aligned_cols=102  Identities=14%  Similarity=0.042  Sum_probs=80.1

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc---CCHHHHHHHHHhC-CCCC-CHhHH
Q 012108          302 KADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA---RLLDRAIELIEAM-PFEP-TESIL  376 (471)
Q Consensus       302 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~-~~~p-~~~~~  376 (471)
                      +-|...|..|...|...|+++.|..-|.+..+  -.++++..+..+..++...   ....++..+|+++ ...| ++...
T Consensus       153 P~d~egW~~Lg~~ym~~~~~~~A~~AY~~A~r--L~g~n~~~~~g~aeaL~~~a~~~~ta~a~~ll~~al~~D~~~iral  230 (287)
T COG4235         153 PGDAEGWDLLGRAYMALGRASDALLAYRNALR--LAGDNPEILLGLAEALYYQAGQQMTAKARALLRQALALDPANIRAL  230 (287)
T ss_pred             CCCchhHHHHHHHHHHhcchhHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCCcccHHHHHHHHHHHhcCCccHHHH
Confidence            55778899999999999999999999999987  4456667777777665433   2456788888888 4444 56677


Q ss_pred             HHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          377 GALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       377 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ..|...+...|++.+|...|+.|++..|.
T Consensus       231 ~lLA~~afe~g~~~~A~~~Wq~lL~~lp~  259 (287)
T COG4235         231 SLLAFAAFEQGDYAEAAAAWQMLLDLLPA  259 (287)
T ss_pred             HHHHHHHHHcccHHHHHHHHHHHHhcCCC
Confidence            77788889999999999999999998876

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.99  E-value=0.0015  Score=44.60  Aligned_cols=63  Identities=13%  Similarity=0.050  Sum_probs=47.0

Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHc----CCC-C-CchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAK----SNY-L-SDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~----~~~-~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      .+++.+...|...|++++|+..++++++.    ++. | ...++..++.+|...|++++|.+++++..+
T Consensus         6 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~~~~~al~   74 (78)
T PF13424_consen    6 NAYNNLARVYRELGRYDEALDYYEKALDIEEQLGDDHPDTANTLNNLGECYYRLGDYEEALEYYQKALD   74 (78)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHTTTHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHh
Confidence            46777888888888888888888888754    222 1 145677888889999999999998887754

...

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.99  E-value=0.014  Score=51.84  Aligned_cols=96  Identities=10%  Similarity=-0.021  Sum_probs=80.2

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ..+++.|..+|.+.+++.+|++...+. . .++++..+---..++...|+++.|+..|+++++..|. |..+-..|+.+-
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~-Nka~~~el~~l~  335 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPNNVKALYRRGQALLALGEYDLARDDFQKALKLEPS-NKAARAELIKLK  335 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCCchhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCC-cHHHHHHHHHHH
Confidence            346778888999999999999998877 3 3457777777889999999999999999999999999 988888898888


Q ss_pred             HhcCCHHH-HHHHHHHhhhC
Q 012108          419 ASCGQWEE-ANRWRNMMNDT  437 (471)
Q Consensus       419 ~~~g~~~~-A~~~~~~m~~~  437 (471)
                      .+.....+ ..++|..|...
T Consensus       336 ~k~~~~~~kekk~y~~mF~k  355 (397)
T KOG0543|consen  336 QKIREYEEKEKKMYANMFAK  355 (397)
T ss_pred             HHHHHHHHHHHHHHHHHhhc
Confidence            77766555 47888888654

>KOG1538 consensus Uncharacterized conserved protein WDR10, contains WD40 repeats [General function prediction only]

Probab=96.97  E-value=0.18  Score=47.81  Aligned_cols=267  Identities=15%  Similarity=0.168  Sum_probs=145.3

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHhcc-----------ccChHHHHHHHHHHHhcCC--HHHHHHHHHHHHhCCCCCCHH
Q 012108          139 VSWNSLILAYTNAGEMEKAGEMFKKML-----------VKNVITWNTMVTGYLRSQL--YIEVVDLFDEMKAGNVKPDYL  205 (471)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~A~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~m~~~g~~p~~~  205 (471)
                      ..+.+=+..|...|.+++|.++----+           .-+...++..=.+|.+..+  +-+...-++++++.|-.|+..
T Consensus       557 vp~~~~m~q~Ieag~f~ea~~iaclgVv~~DW~~LA~~ALeAL~f~~ARkAY~rVRdl~~L~li~EL~~~k~rge~P~~i  636 (1081)
T KOG1538|consen  557 VPQSAPMYQYIERGLFKEAYQIACLGVTDTDWRELAMEALEALDFETARKAYIRVRDLRYLELISELEERKKRGETPNDL  636 (1081)
T ss_pred             ccccccchhhhhccchhhhhcccccceecchHHHHHHHHHhhhhhHHHHHHHHHHhccHHHHHHHHHHHHHhcCCCchHH
Confidence            345555566778888887765421111           1122334444556666554  334455567778888778776


Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHH----HH
Q 012108          206 TVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILG----LA  281 (471)
Q Consensus       206 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~----~~  281 (471)
                      ..   ...|+-.|++.+|.++|.+   .|..      +.-++.|.....++.|.+++......   .-..|++-    -.
T Consensus       637 Ll---A~~~Ay~gKF~EAAklFk~---~G~e------nRAlEmyTDlRMFD~aQE~~~~g~~~---eKKmL~RKRA~WAr  701 (1081)
T KOG1538|consen  637 LL---ADVFAYQGKFHEAAKLFKR---SGHE------NRALEMYTDLRMFDYAQEFLGSGDPK---EKKMLIRKRADWAR  701 (1081)
T ss_pred             HH---HHHHHhhhhHHHHHHHHHH---cCch------hhHHHHHHHHHHHHHHHHHhhcCChH---HHHHHHHHHHHHhh
Confidence            43   3456667888888887754   2211      12334444444455555544332211   11111110    00


Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHH
Q 012108          282 LHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAI  361 (471)
Q Consensus       282 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  361 (471)
                      ..+++..|-+++   +..|-      ..-.+..+..+|-.+.+.++-+++-.     .+..+...+...+.+...+.-|-
T Consensus       702 ~~kePkaAAEmL---iSaGe------~~KAi~i~~d~gW~d~lidI~rkld~-----~ere~l~~~a~ylk~l~~~gLAa  767 (1081)
T KOG1538|consen  702 NIKEPKAAAEML---ISAGE------HVKAIEICGDHGWVDMLIDIARKLDK-----AEREPLLLCATYLKKLDSPGLAA  767 (1081)
T ss_pred             hcCCcHHHHHHh---hcccc------hhhhhhhhhcccHHHHHHHHHhhcch-----hhhhHHHHHHHHHhhccccchHH
Confidence            111122221111   11110      00112223344444444444444433     34555566666667778888999


Q ss_pred             HHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC---------CchhHHHHHHHHHhcCCHHHHHHHHH
Q 012108          362 ELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL---------SDGELMMFANLYASCGQWEEANRWRN  432 (471)
Q Consensus       362 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---------~~~~~~~l~~~~~~~g~~~~A~~~~~  432 (471)
                      ++|.+|+..      ..+.......+++.+|..+.++..+.-++.         ...-|...-.+|.+.|+-.+|..+++
T Consensus       768 eIF~k~gD~------ksiVqlHve~~~W~eAFalAe~hPe~~~dVy~pyaqwLAE~DrFeEAqkAfhkAGr~~EA~~vLe  841 (1081)
T KOG1538|consen  768 EIFLKMGDL------KSLVQLHVETQRWDEAFALAEKHPEFKDDVYMPYAQWLAENDRFEEAQKAFHKAGRQREAVQVLE  841 (1081)
T ss_pred             HHHHHhccH------HHHhhheeecccchHhHhhhhhCccccccccchHHHHhhhhhhHHHHHHHHHHhcchHHHHHHHH
Confidence            999999632      345667788999999999988766655441         11223345568899999999999999


Q ss_pred             HhhhCCCc
Q 012108          433 MMNDTGIV  440 (471)
Q Consensus       433 ~m~~~~~~  440 (471)
                      ++....+.
T Consensus       842 QLtnnav~  849 (1081)
T KOG1538|consen  842 QLTNNAVA  849 (1081)
T ss_pred             Hhhhhhhh
Confidence            98665444

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=96.97  E-value=0.00085  Score=36.95  Aligned_cols=32  Identities=28%  Similarity=0.275  Sum_probs=30.0

Q ss_pred             HHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHH
Q 012108          396 AKMVCAKSNYLSDGELMMFANLYASCGQWEEAN  428 (471)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  428 (471)
                      ++++++.+|+ ++..|..|+.+|...|++++|+
T Consensus         2 y~kAie~~P~-n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    2 YKKAIELNPN-NAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             hHHHHHHCCC-CHHHHHHHHHHHHHCcCHHhhc
Confidence            6788999999 9999999999999999999986

>PRK10803 tol-pal system protein YbgF; Provisional

Probab=96.97  E-value=0.018  Score=49.72  Aligned_cols=98  Identities=10%  Similarity=-0.013  Sum_probs=60.4

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC----CHhHHHHHHH
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP----TESILGALLS  381 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p----~~~~~~~l~~  381 (471)
                      |...+....+.|++++|...|+.+.+.+...+ .+..+-.+..+|...|++++|...|+.+ ...|    ....+..++.
T Consensus       146 Y~~A~~l~~~~~~y~~Ai~af~~fl~~yP~s~~a~~A~y~LG~~y~~~g~~~~A~~~f~~vv~~yP~s~~~~dAl~klg~  225 (263)
T PRK10803        146 YNAAIALVQDKSRQDDAIVAFQNFVKKYPDSTYQPNANYWLGQLNYNKGKKDDAAYYFASVVKNYPKSPKAADAMFKVGV  225 (263)
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHCcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCcchhHHHHHHHH
Confidence            44434334555777777777777776321111 1245556667777777777777777766 1112    2334444566


Q ss_pred             HHhhcCCchHHHHHHHHHHHcCCC
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+...|+.++|..+++++++..|.
T Consensus       226 ~~~~~g~~~~A~~~~~~vi~~yP~  249 (263)
T PRK10803        226 IMQDKGDTAKAKAVYQQVIKKYPG  249 (263)
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCcC
Confidence            677788888888888888888776

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.88  E-value=0.52  Score=46.35  Aligned_cols=51  Identities=14%  Similarity=0.030  Sum_probs=34.7

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHH
Q 012108          346 CMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAK  397 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  397 (471)
                      -++..+.+..+++.+..+.+..+- -++..|..+++.+.+.+..+.-.+...
T Consensus       710 dl~~~~~q~~d~E~~it~~~~~g~-~~p~l~~~~L~yF~~~~~i~~~~~~v~  760 (933)
T KOG2114|consen  710 DLMLYFQQISDPETVITLCERLGK-EDPSLWLHALKYFVSEESIEDCYEIVY  760 (933)
T ss_pred             HHHHHHHHhhChHHHHHHHHHhCc-cChHHHHHHHHHHhhhcchhhHHHHHH
Confidence            456667777788888888887762 377788888888877775554443333

>PF13371 TPR_9: Tetratricopeptide repeat

Probab=96.88  E-value=0.005  Score=41.35  Aligned_cols=57  Identities=11%  Similarity=0.022  Sum_probs=40.6

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          349 DLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ..|.+.+++++|.++++.+ ...| ++..+......+...|++++|.+.|+++.+.+|+
T Consensus         3 ~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~g~~~~A~~~l~~~l~~~p~   61 (73)
T PF13371_consen    3 QIYLQQEDYEEALEVLERALELDPDDPELWLQRARCLFQLGRYEEALEDLERALELSPD   61 (73)
T ss_pred             HHHHhCCCHHHHHHHHHHHHHhCcccchhhHHHHHHHHHhccHHHHHHHHHHHHHHCCC
Confidence            4566777777777777776 3333 4556666777777888888888888888877776

>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=96.88  E-value=0.02  Score=42.99  Aligned_cols=53  Identities=8%  Similarity=0.128  Sum_probs=43.9

Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHh
Q 012108          300 CVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLG  352 (471)
Q Consensus       300 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  352 (471)
                      ...|+..+..+++.+|+..|++..|.++.+.+.+.++++-+..+|..|++-..
T Consensus        47 pl~Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W~~   99 (126)
T PF12921_consen   47 PLYPTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEWAY   99 (126)
T ss_pred             CCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            46788888899999998889999999999998888887778888888877543

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.85  E-value=0.36  Score=43.95  Aligned_cols=404  Identities=10%  Similarity=0.050  Sum_probs=219.8

Q ss_pred             hhccchhHHHHHHHHHHHhccCCc------hhHHHHHHHHHhccCCHhHHHHHhcccCCC-CcccHHHHHHH--HHcCCC
Q 012108           21 GILSSSCIGLMLHGQTIKTGFCGH------VYVQTALLKMYGSLRCIDDAFKVFEKMPEK-DIIAWNSMLDA--FASCGQ   91 (471)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-~~~~~~~li~~--~~~~g~   91 (471)
                      -+++++.+|..+|.++-+.. ..+      ....+.++++|.. ++++.....+....+. ....|-.+..+  +-+.+.
T Consensus        17 qkq~~~~esEkifskI~~e~-~~~~f~lkeEvl~grilnAffl-~nld~Me~~l~~l~~~~~~s~~l~LF~~L~~Y~~k~   94 (549)
T PF07079_consen   17 QKQKKFQESEKIFSKIYDEK-ESSPFLLKEEVLGGRILNAFFL-NNLDLMEKQLMELRQQFGKSAYLPLFKALVAYKQKE   94 (549)
T ss_pred             HHHhhhhHHHHHHHHHHHHh-hcchHHHHHHHHhhHHHHHHHH-hhHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHhhh
Confidence            36789999999999987653 222      2334566777764 5566655555554431 24456656555  356788


Q ss_pred             HHHHHHHHhcCCCC------------------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC--------CChhhHHHHH
Q 012108           92 MDHAMKLIDLMPLK------------------DVTSFNIMISGYARIGKIHSARYIFDKVPA--------KDVVSWNSLI  145 (471)
Q Consensus        92 ~~~A~~~~~~~~~~------------------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~l~  145 (471)
                      +.+|++.+......                  |...=+..+.++...|++.++..+++++.+        -+..+|+.++
T Consensus        95 ~~kal~~ls~w~~~~~~~~~~~Ld~ni~~l~~df~l~~i~a~sLIe~g~f~EgR~iLn~i~~~llkrE~~w~~d~yd~~v  174 (549)
T PF07079_consen   95 YRKALQALSVWKEQIKGTESPWLDTNIQQLFSDFFLDEIEAHSLIETGRFSEGRAILNRIIERLLKRECEWNSDMYDRAV  174 (549)
T ss_pred             HHHHHHHHHHHHhhhcccccchhhhhHHHHhhHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHhhhhhcccHHHHHHHH
Confidence            88888876544321                  222334567788999999999999988833        3667777755


Q ss_pred             HHHHhC--------CC-------HHHHHHHHHhccccCh----------HHHHHHHHHHHhc--CCHHHHHHHHHHHHhC
Q 012108          146 LAYTNA--------GE-------MEKAGEMFKKMLVKNV----------ITWNTMVTGYLRS--QLYIEVVDLFDEMKAG  198 (471)
Q Consensus       146 ~~~~~~--------~~-------~~~A~~~~~~~~~~~~----------~~~~~l~~~~~~~--~~~~~a~~~~~~m~~~  198 (471)
                      -.++++        ..       ++.+.-..+++..-+.          .....++....-.  .+..--.++++.....
T Consensus       175 lmlsrSYfLEl~e~~s~dl~pdyYemilfY~kki~~~d~~~Y~k~~peeeL~s~imqhlfi~p~e~l~~~mq~l~~We~~  254 (549)
T PF07079_consen  175 LMLSRSYFLELKESMSSDLYPDYYEMILFYLKKIHAFDQRPYEKFIPEEELFSTIMQHLFIVPKERLPPLMQILENWENF  254 (549)
T ss_pred             HHHhHHHHHHHHHhcccccChHHHHHHHHHHHHHHHHhhchHHhhCcHHHHHHHHHHHHHhCCHhhccHHHHHHHHHHhh
Confidence            444432        11       1222222222211111          1122222222211  1122222333333333


Q ss_pred             CCCCCHHHH-HHHHHHHHccCChHHHHHHHHHHHHcCCCC----chhHHHHHHHHHHhcCChHHHHHHHhcCCC--CChh
Q 012108          199 NVKPDYLTV-TSVLSACANLGSLETGARIHVYATDNGLAS----NPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDVF  271 (471)
Q Consensus       199 g~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~  271 (471)
                      -+.|+.... ..+...+.+  +.+++..+.+.+....+.+    -..+|..++....+.++...|.+.+.-+..  |+..
T Consensus       255 yv~p~~~LVi~~L~~~f~~--~~e~~~~~ce~ia~~~i~~Lke~li~~F~~~Ls~~Vk~~~T~~a~q~l~lL~~ldp~~s  332 (549)
T PF07079_consen  255 YVHPNYDLVIEPLKQQFMS--DPEQVGHFCEAIASSKIEKLKEELIDRFGNLLSFKVKQVQTEEAKQYLALLKILDPRIS  332 (549)
T ss_pred             ccCCchhHHHHHHHHHHhc--ChHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHhcCCcch
Confidence            445554322 233333333  5555555555544332211    235677777777888888887776653322  2211


Q ss_pred             -------hHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCH-HHHHHHHH---HHhccCc-HHHHHHHHHHhHHhc
Q 012108          272 -------CWNAMILGLAL----HGYGYAALKLLGEMNDSCVKADD-ITFIGLLS---ACSHAGL-VQEGCELFSRMEKDF  335 (471)
Q Consensus       272 -------~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~---~~~~~~~-~~~a~~~~~~~~~~~  335 (471)
                             +-..+-+..+.    ..+..+-+.+|++.....+  |. .....++.   -+-+.|. -++|+.+++.+.+  
T Consensus       333 vs~Kllls~~~lq~Iv~~DD~~~Tklr~yL~lwe~~qs~Di--DrqQLvh~L~~~Ak~lW~~g~~dekalnLLk~il~--  408 (549)
T PF07079_consen  333 VSEKLLLSPKVLQDIVCEDDESYTKLRDYLNLWEEIQSYDI--DRQQLVHYLVFGAKHLWEIGQCDEKALNLLKLILQ--  408 (549)
T ss_pred             hhhhhhcCHHHHHHHHhcchHHHHHHHHHHHHHHHHHhhcc--cHHHHHHHHHHHHHHHHhcCCccHHHHHHHHHHHH--
Confidence                   11112222221    1223344555666555432  22 22223332   2344455 8889999998887  


Q ss_pred             CCCCChhHHHHHHH----HHhhc---CCHH---HHHHHHHhCCCCC----CHhHHHHHHHH--HhhcCCchHHHHHHHHH
Q 012108          336 GVTRKLEHYGCMVD----LLGRA---RLLD---RAIELIEAMPFEP----TESILGALLSA--CVIHQDLEIGDRVAKMV  399 (471)
Q Consensus       336 ~~~~~~~~~~~l~~----~~~~~---g~~~---~A~~~~~~~~~~p----~~~~~~~l~~~--~~~~g~~~~a~~~~~~~  399 (471)
                      -.+-|..+-|.+..    .|.+.   ..+.   +-....++.+++|    +...-|.|..+  +..+|++.++.-.-...
T Consensus       409 ft~yD~ec~n~v~~fvKq~Y~qaLs~~~~~rLlkLe~fi~e~gl~~i~i~e~eian~LaDAEyLysqgey~kc~~ys~WL  488 (549)
T PF07079_consen  409 FTNYDIECENIVFLFVKQAYKQALSMHAIPRLLKLEDFITEVGLTPITISEEEIANFLADAEYLYSQGEYHKCYLYSSWL  488 (549)
T ss_pred             hccccHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHhcCCCcccccHHHHHHHHHHHHHHHhcccHHHHHHHHHHH
Confidence            22334444433322    23222   1112   2233344456555    33455666665  45789999998887777


Q ss_pred             HHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          400 CAKSNYLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       400 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      .+..|  ++.+|..++-++....++++|++++..+
T Consensus       489 ~~iaP--S~~~~RLlGl~l~e~k~Y~eA~~~l~~L  521 (549)
T PF07079_consen  489 TKIAP--SPQAYRLLGLCLMENKRYQEAWEYLQKL  521 (549)
T ss_pred             HHhCC--cHHHHHHHHHHHHHHhhHHHHHHHHHhC
Confidence            77766  6999999999999999999999999987

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PF03704 BTAD: Bacterial transcriptional activator domain; InterPro: IPR005158 Found in the DNRI/REDD/AFSR family of regulators, this region of AFSR (P25941 from SWISSPROT) along with the C-terminal region is capable of independently directing actinorhodin production

Probab=96.81  E-value=0.041  Score=42.95  Aligned_cols=72  Identities=17%  Similarity=0.188  Sum_probs=45.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH-----HcCCCCchhHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYAT-----DNGLASNPHATT  243 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  243 (471)
                      +...++..+...|++++|..+++.+.... +.+...|..++.++...|+...|.+.|+.+.     +.|++|++.+-.
T Consensus        64 ~~~~l~~~~~~~~~~~~a~~~~~~~l~~d-P~~E~~~~~lm~~~~~~g~~~~A~~~Y~~~~~~l~~elg~~Ps~~~~~  140 (146)
T PF03704_consen   64 ALERLAEALLEAGDYEEALRLLQRALALD-PYDEEAYRLLMRALAAQGRRAEALRVYERYRRRLREELGIEPSPETRA  140 (146)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHS-TT-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHHHHHHS----HHHHH
T ss_pred             HHHHHHHHHHhccCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHHhCcCcCHHHHH
Confidence            34456666777788888888888877653 4566777788888888888888888777764     357777766544

It is important for the formation of secondary metabolites.; PDB: 2FF4_B 2FEZ_A.

>PF09205 DUF1955: Domain of unknown function (DUF1955); InterPro: IPR015288 Members of this family are found in hypothetical proteins synthesised by the Archaeal organism Sulfolobus

Probab=96.71  E-value=0.15  Score=37.77  Aligned_cols=141  Identities=16%  Similarity=0.126  Sum_probs=85.1

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH
Q 012108          280 LALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR  359 (471)
Q Consensus       280 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  359 (471)
                      +.-.|..++..++..+....   .+..-++.+|--....-+-+-..++++.+-+-    -|.          ..+|++..
T Consensus        12 ~ildG~V~qGveii~k~v~S---sni~E~NWvICNiiDaa~C~yvv~~LdsIGki----FDi----------s~C~NlKr   74 (161)
T PF09205_consen   12 RILDGDVKQGVEIIEKTVNS---SNIKEYNWVICNIIDAADCDYVVETLDSIGKI----FDI----------SKCGNLKR   74 (161)
T ss_dssp             HHHTT-HHHHHHHHHHHHHH---S-HHHHTHHHHHHHHH--HHHHHHHHHHHGGG----S-G----------GG-S-THH
T ss_pred             HHHhchHHHHHHHHHHHcCc---CCccccceeeeecchhhchhHHHHHHHHHhhh----cCc----------hhhcchHH
Confidence            34467788888888887753   24455666655545445555556666666552    111          23444444


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          360 AIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       360 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ....+-.++  .+.......+......|.-+.-.+++..+.+ +-.++|.....++.+|.+.|+..++.+++.+.-+.|+
T Consensus        75 Vi~C~~~~n--~~se~vD~ALd~lv~~~kkDqLdki~~~l~k-n~~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~  151 (161)
T PF09205_consen   75 VIECYAKRN--KLSEYVDLALDILVKQGKKDQLDKIYNELKK-NEEINPEFLVKIANAYKKLGNTREANELLKEACEKGL  151 (161)
T ss_dssp             HHHHHHHTT-----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHhh-ccCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhch
Confidence            444444443  3444556667778889999998888888876 3344799999999999999999999999999988887


Q ss_pred             c
Q 012108          440 V  440 (471)
Q Consensus       440 ~  440 (471)
                      .
T Consensus       152 k  152 (161)
T PF09205_consen  152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            5

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13424 TPR_12: Tetratricopeptide repeat; PDB: 3RO2_A 3Q15_A 3ASG_A 3ASD_A 3AS5_A 3AS4_A 3ASH_B 4A1S_B 3CEQ_B 3EDT_H

Probab=96.60  E-value=0.0097  Score=40.54  Aligned_cols=23  Identities=22%  Similarity=0.391  Sum_probs=10.5

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHH
Q 012108          172 WNTMVTGYLRSQLYIEVVDLFDE  194 (471)
Q Consensus       172 ~~~l~~~~~~~~~~~~a~~~~~~  194 (471)
                      ++.+..++...|++++|++.+++
T Consensus        49 ~~~lg~~~~~~g~~~~A~~~~~~   71 (78)
T PF13424_consen   49 LNNLGECYYRLGDYEEALEYYQK   71 (78)
T ss_dssp             HHHHHHHHHHTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            44444444444444444444444

...

>PF07079 DUF1347: Protein of unknown function (DUF1347); InterPro: IPR010764 This family consists of several hypothetical bacterial proteins of around 610 residues in length

Probab=96.60  E-value=0.55  Score=42.80  Aligned_cols=47  Identities=4%  Similarity=-0.096  Sum_probs=26.0

Q ss_pred             hhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHH
Q 012108          352 GRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKM  398 (471)
Q Consensus       352 ~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  398 (471)
                      ...|++.++.-.-.-+ .+.|++.+|..+.-+.....++++|..++..
T Consensus       473 ysqgey~kc~~ys~WL~~iaPS~~~~RLlGl~l~e~k~Y~eA~~~l~~  520 (549)
T PF07079_consen  473 YSQGEYHKCYLYSSWLTKIAPSPQAYRLLGLCLMENKRYQEAWEYLQK  520 (549)
T ss_pred             HhcccHHHHHHHHHHHHHhCCcHHHHHHHHHHHHHHhhHHHHHHHHHh
Confidence            3456666555444433 4455666666555555556666666655544

Members of this family are highly conserved and seem to be specific to Chlamydia species. The function of this family is unknown.

>PRK15331 chaperone protein SicA; Provisional

Probab=96.54  E-value=0.15  Score=39.74  Aligned_cols=86  Identities=8%  Similarity=0.051  Sum_probs=65.1

Q ss_pred             HHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHH
Q 012108          350 LLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEA  427 (471)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  427 (471)
                      -+-..|++++|..+|+-+ .. .-+..-|..|..++...+++++|+..+..+...+++ |+..+...+.+|...|+.+.|
T Consensus        46 ~~y~~Gk~~eA~~~F~~L~~~d~~n~~Y~~GLaa~~Q~~k~y~~Ai~~Y~~A~~l~~~-dp~p~f~agqC~l~l~~~~~A  124 (165)
T PRK15331         46 EFYNQGRLDEAETFFRFLCIYDFYNPDYTMGLAAVCQLKKQFQKACDLYAVAFTLLKN-DYRPVFFTGQCQLLMRKAAKA  124 (165)
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcccC-CCCccchHHHHHHHhCCHHHH
Confidence            345678888888888876 22 234555667777777788888888888888888777 888888888888888888888


Q ss_pred             HHHHHHhhh
Q 012108          428 NRWRNMMND  436 (471)
Q Consensus       428 ~~~~~~m~~  436 (471)
                      +..|+....
T Consensus       125 ~~~f~~a~~  133 (165)
T PRK15331        125 RQCFELVNE  133 (165)
T ss_pred             HHHHHHHHh
Confidence            888877765

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=96.45  E-value=0.1  Score=45.81  Aligned_cols=165  Identities=13%  Similarity=0.022  Sum_probs=96.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC----Chh
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDS-CVKAD---DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR----KLE  342 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~  342 (471)
                      ..|..+.+++-+..++.+++.+-..-... |..|.   -....++..+....+.++++++.|+.+.+-..-..    ...
T Consensus        84 ea~lnlar~~e~l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElq  163 (518)
T KOG1941|consen   84 EAYLNLARSNEKLCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQ  163 (518)
T ss_pred             HHHHHHHHHHHHHHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeee
Confidence            34555555665555666666555443322 22221   12233456667777788888888887766222111    245


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHh-----HHHHHHHHHhhcCCchHHHHHHHHHHHcC----CC-
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAM-------PFEPTES-----ILGALLSACVIHQDLEIGDRVAKMVCAKS----NY-  405 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~~-----~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~-  405 (471)
                      .+-.|...|.+..++++|.-+..+.       ++..-..     ....+.-++...|....|.+..++..+..    .. 
T Consensus       164 vcv~Lgslf~~l~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra  243 (518)
T KOG1941|consen  164 VCVSLGSLFAQLKDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRA  243 (518)
T ss_pred             hhhhHHHHHHHHHhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChH
Confidence            6777778888888888776555443       2221111     23334456777888888888777766542    11 


Q ss_pred             CCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          406 LSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       406 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      ........+++.|...|+.+.|+.-|++..
T Consensus       244 ~~arc~~~~aDIyR~~gd~e~af~rYe~Am  273 (518)
T KOG1941|consen  244 LQARCLLCFADIYRSRGDLERAFRRYEQAM  273 (518)
T ss_pred             HHHHHHHHHHHHHHhcccHhHHHHHHHHHH
Confidence            122344467888888888888887776653

>KOG0543 consensus FKBP-type peptidyl-prolyl cis-trans isomerase [Posttranslational modification, protein turnover, chaperones]

Probab=96.42  E-value=0.015  Score=51.72  Aligned_cols=69  Identities=7%  Similarity=-0.090  Sum_probs=63.1

Q ss_pred             HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          373 ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       373 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ...+..+..++.+.+++..|++...++++.+|. |+..+..-+.+|...|+++.|+..|+++.+..|..-
T Consensus       257 ~~~~lNlA~c~lKl~~~~~Ai~~c~kvLe~~~~-N~KALyRrG~A~l~~~e~~~A~~df~ka~k~~P~Nk  325 (397)
T KOG0543|consen  257 LACHLNLAACYLKLKEYKEAIESCNKVLELDPN-NVKALYRRGQALLALGEYDLARDDFQKALKLEPSNK  325 (397)
T ss_pred             HHHhhHHHHHHHhhhhHHHHHHHHHHHHhcCCC-chhHHHHHHHHHHhhccHHHHHHHHHHHHHhCCCcH
Confidence            346778888999999999999999999999999 999999999999999999999999999998877653

>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=96.39  E-value=0.21  Score=46.80  Aligned_cols=131  Identities=14%  Similarity=0.137  Sum_probs=64.7

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHH
Q 012108          108 TSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIE  187 (471)
Q Consensus       108 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  187 (471)
                      .-.+.++.-+.+.|..+.|+++-.     |+.   .-.+...+.|+++.|.++.++..  +...|..|.....++|+++-
T Consensus       296 ~~~~~i~~fL~~~G~~e~AL~~~~-----D~~---~rFeLAl~lg~L~~A~~~a~~~~--~~~~W~~Lg~~AL~~g~~~l  365 (443)
T PF04053_consen  296 DQGQSIARFLEKKGYPELALQFVT-----DPD---HRFELALQLGNLDIALEIAKELD--DPEKWKQLGDEALRQGNIEL  365 (443)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHSS------HH---HHHHHHHHCT-HHHHHHHCCCCS--THHHHHHHHHHHHHTTBHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHhhcC-----ChH---HHhHHHHhcCCHHHHHHHHHhcC--cHHHHHHHHHHHHHcCCHHH
Confidence            335555555555555555555432     221   22234455666666666555443  44466666666666666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHh
Q 012108          188 VVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFY  263 (471)
Q Consensus       188 a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  263 (471)
                      |.+.|.+...         +..|+-.|.-.|+.+...++.+.....| .     ++....++.-.|+.++..+++.
T Consensus       366 Ae~c~~k~~d---------~~~L~lLy~~~g~~~~L~kl~~~a~~~~-~-----~n~af~~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  366 AEECYQKAKD---------FSGLLLLYSSTGDREKLSKLAKIAEERG-D-----INIAFQAALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHHHCT----------HHHHHHHHHHCT-HHHHHHHHHHHHHTT-------HHHHHHHHHHHT-HHHHHHHHH
T ss_pred             HHHHHHhhcC---------ccccHHHHHHhCCHHHHHHHHHHHHHcc-C-----HHHHHHHHHHcCCHHHHHHHHH
Confidence            6666655332         3344444555566666555555555544 1     2333333344455555555543

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.

>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=96.39  E-value=0.46  Score=44.58  Aligned_cols=154  Identities=16%  Similarity=0.163  Sum_probs=75.4

Q ss_pred             HhhccchhHHHHHHH--HHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHH
Q 012108           20 AGILSSSCIGLMLHG--QTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMK   97 (471)
Q Consensus        20 ~~~~g~~~~a~~~~~--~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~   97 (471)
                      ..-+|+++.+.++.+  .+. ..+  +....+.++..+.+.|-.+.|+.+-+.-        ..-.....+.|+++.|.+
T Consensus       271 av~~~d~~~v~~~i~~~~ll-~~i--~~~~~~~i~~fL~~~G~~e~AL~~~~D~--------~~rFeLAl~lg~L~~A~~  339 (443)
T PF04053_consen  271 AVLRGDFEEVLRMIAASNLL-PNI--PKDQGQSIARFLEKKGYPELALQFVTDP--------DHRFELALQLGNLDIALE  339 (443)
T ss_dssp             HHHTT-HHH-----HHHHTG-GG----HHHHHHHHHHHHHTT-HHHHHHHSS-H--------HHHHHHHHHCT-HHHHHH
T ss_pred             HHHcCChhhhhhhhhhhhhc-ccC--ChhHHHHHHHHHHHCCCHHHHHhhcCCh--------HHHhHHHHhcCCHHHHHH
Confidence            334566666555543  111 111  1334566666666777777777664431        233455566777777777


Q ss_pred             HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHH
Q 012108           98 LIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVT  177 (471)
Q Consensus        98 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~  177 (471)
                      +.++..  ++..|..+.+...+.|+++-|++.|.+..     -+..|+-.|.-.|+.+.-.++.+.....+  -+|....
T Consensus       340 ~a~~~~--~~~~W~~Lg~~AL~~g~~~lAe~c~~k~~-----d~~~L~lLy~~~g~~~~L~kl~~~a~~~~--~~n~af~  410 (443)
T PF04053_consen  340 IAKELD--DPEKWKQLGDEALRQGNIELAEECYQKAK-----DFSGLLLLYSSTGDREKLSKLAKIAEERG--DINIAFQ  410 (443)
T ss_dssp             HCCCCS--THHHHHHHHHHHHHTTBHHHHHHHHHHCT------HHHHHHHHHHCT-HHHHHHHHHHHHHTT---HHHHHH
T ss_pred             HHHhcC--cHHHHHHHHHHHHHcCCHHHHHHHHHhhc-----CccccHHHHHHhCCHHHHHHHHHHHHHcc--CHHHHHH
Confidence            666555  55566666666666666666666666553     24445555555666555444444432221  1333334


Q ss_pred             HHHhcCCHHHHHHHHH
Q 012108          178 GYLRSQLYIEVVDLFD  193 (471)
Q Consensus       178 ~~~~~~~~~~a~~~~~  193 (471)
                      ++.-.|+.++..+++.
T Consensus       411 ~~~~lgd~~~cv~lL~  426 (443)
T PF04053_consen  411 AALLLGDVEECVDLLI  426 (443)
T ss_dssp             HHHHHT-HHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHH
Confidence            4444555555555443

This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. While clathrin mediates endocytic protein transport, and transport from ER to Golgi, coatomers primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. For example, the coatomer COP1 (coat protein complex 1) is responsible for reverse transport of recycled proteins from Golgi and pre-Golgi compartments back to the ER, while COPII buds vesicles from the ER to the Golgi []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Activated small guanine triphosphatases (GTPases) attract coat proteins to specific membrane export sites, thereby linking coatomers to export cargos. As coat proteins polymerise, vesicles are formed and budded from membrane-bound organelles. Coatomer complexes also influence Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors. In mammals, coatomer complexes can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the WD-associated region found in coatomer subunits alpha, beta and beta' subunits. The alpha-subunit (RET1P) of the coatomer complex in Saccharomyces cerevisiae (Baker's yeast), participates in membrane transport between the endoplasmic reticulum and Golgi apparatus. The protein contains six WD-40 repeat motifs in its N-terminal region []. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0005198 structural molecule activity, 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 3MKQ_B.

>PLN03098 LPA1 LOW PSII ACCUMULATION1; Provisional

Probab=96.26  E-value=0.037  Score=50.56  Aligned_cols=63  Identities=10%  Similarity=-0.020  Sum_probs=52.3

Q ss_pred             CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC-h---hHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          302 KADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK-L---EHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       302 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~---~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      +.+...++.+..+|...|++++|+..|++..+   ..|+ .   .+|..+..+|.+.|+.++|.+.+++.
T Consensus        72 P~~a~a~~NLG~AL~~lGryeEAIa~f~rALe---L~Pd~aeA~~A~yNLAcaya~LGr~dEAla~LrrA  138 (453)
T PLN03098         72 VKTAEDAVNLGLSLFSKGRVKDALAQFETALE---LNPNPDEAQAAYYNKACCHAYREEGKKAADCLRTA  138 (453)
T ss_pred             CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHh---hCCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            34567888899999999999999999999887   3454 3   35888999999999999999999887

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=96.21  E-value=0.37  Score=45.86  Aligned_cols=114  Identities=18%  Similarity=0.044  Sum_probs=59.2

Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChhHHH-HHHHHHhhcCCHHHHHHHHHhCCC------CCCHhHHHHHHHHHhhcCCchH
Q 012108          319 GLVQEGCELFSRMEKDFGVTRKLEHYG-CMVDLLGRARLLDRAIELIEAMPF------EPTESILGALLSACVIHQDLEI  391 (471)
Q Consensus       319 ~~~~~a~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~~~~------~p~~~~~~~l~~~~~~~g~~~~  391 (471)
                      .+.+.|.+++..+.+  .. |+...|. .-.+.+...|++++|.+.|++...      +.....+--+.-.+....++++
T Consensus       247 ~~~~~a~~lL~~~~~--~y-P~s~lfl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~  323 (468)
T PF10300_consen  247 VPLEEAEELLEEMLK--RY-PNSALFLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEE  323 (468)
T ss_pred             CCHHHHHHHHHHHHH--hC-CCcHHHHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHH
Confidence            445556666666665  22 3333322 223344555666666666665410      1112223334445556677777


Q ss_pred             HHHHHHHHHHcCCCCCchhHHHHH-HHHHhcCCH-------HHHHHHHHHhhh
Q 012108          392 GDRVAKMVCAKSNYLSDGELMMFA-NLYASCGQW-------EEANRWRNMMND  436 (471)
Q Consensus       392 a~~~~~~~~~~~~~~~~~~~~~l~-~~~~~~g~~-------~~A~~~~~~m~~  436 (471)
                      |...|..+.+.+.. +...|..+. -++...|+.       ++|.++|.++..
T Consensus       324 A~~~f~~L~~~s~W-Ska~Y~Y~~a~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  324 AAEYFLRLLKESKW-SKAFYAYLAAACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHHHHHHhcccc-HHHHHHHHHHHHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            77777777766555 444444332 334455666       666666666543

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.

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.18  E-value=0.61  Score=38.84  Aligned_cols=50  Identities=20%  Similarity=0.078  Sum_probs=24.0

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC---C---CCCCHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          346 CMVDLLGRARLLDRAIELIEAM---P---FEPTESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~---~---~~p~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      ..|-.|....++..|...++.-   +   -+.+..+...|+.+| ..||.+++..++
T Consensus       195 a~ilv~L~~~Dyv~aekc~r~~~qip~f~~sed~r~lenLL~ay-d~gD~E~~~kvl  250 (308)
T KOG1585|consen  195 AAILVYLYAHDYVQAEKCYRDCSQIPAFLKSEDSRSLENLLTAY-DEGDIEEIKKVL  250 (308)
T ss_pred             HHHHHHhhHHHHHHHHHHhcchhcCccccChHHHHHHHHHHHHh-ccCCHHHHHHHH
Confidence            3333444445556666665552   1   112344555555554 445555554444

>KOG2114 consensus Vacuolar assembly/sorting protein PEP5/VPS11 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.12  E-value=1.6  Score=43.14  Aligned_cols=175  Identities=7%  Similarity=0.056  Sum_probs=100.4

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCch--hHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcC
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHV--YVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASC   89 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~--~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~   89 (471)
                      ....-|..+.+...++-|..+...   .+..++.  .........+-+.|++++|..-|-+...--.  -..+|.-|...
T Consensus       336 ~le~kL~iL~kK~ly~~Ai~LAk~---~~~d~d~~~~i~~kYgd~Ly~Kgdf~~A~~qYI~tI~~le--~s~Vi~kfLda  410 (933)
T KOG2114|consen  336 DLETKLDILFKKNLYKVAINLAKS---QHLDEDTLAEIHRKYGDYLYGKGDFDEATDQYIETIGFLE--PSEVIKKFLDA  410 (933)
T ss_pred             cHHHHHHHHHHhhhHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHcccCC--hHHHHHHhcCH
Confidence            344455555566666666655432   2222221  2233334445577899998877766442110  13345556666


Q ss_pred             CCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCCh-hhHHHHHHHHHhCCCHHHHHHHHHhcc
Q 012108           90 GQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPAKDV-VSWNSLILAYTNAGEMEKAGEMFKKML  165 (471)
Q Consensus        90 g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~A~~~~~~~~  165 (471)
                      .+...-..+++.+.+.   +..--..++.+|.+.++.++-.+..+...+-.. .-....+..+.+.+-.++|.-+-.+..
T Consensus       411 q~IknLt~YLe~L~~~gla~~dhttlLLncYiKlkd~~kL~efI~~~~~g~~~fd~e~al~Ilr~snyl~~a~~LA~k~~  490 (933)
T KOG2114|consen  411 QRIKNLTSYLEALHKKGLANSDHTTLLLNCYIKLKDVEKLTEFISKCDKGEWFFDVETALEILRKSNYLDEAELLATKFK  490 (933)
T ss_pred             HHHHHHHHHHHHHHHcccccchhHHHHHHHHHHhcchHHHHHHHhcCCCcceeeeHHHHHHHHHHhChHHHHHHHHHHhc
Confidence            6666666666666544   444566788888888888887777776652111 124455666666777777766655543


Q ss_pred             ccChHHHHHHHHHHHhcCCHHHHHHHHHHH
Q 012108          166 VKNVITWNTMVTGYLRSQLYIEVVDLFDEM  195 (471)
Q Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m  195 (471)
                      . +....+.++   -..+++++|++.+..+
T Consensus       491 ~-he~vl~ill---e~~~ny~eAl~yi~sl  516 (933)
T KOG2114|consen  491 K-HEWVLDILL---EDLHNYEEALRYISSL  516 (933)
T ss_pred             c-CHHHHHHHH---HHhcCHHHHHHHHhcC
Confidence            3 333333333   3467788888877665

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=96.09  E-value=0.73  Score=39.66  Aligned_cols=119  Identities=12%  Similarity=0.016  Sum_probs=69.2

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHH---HHHHHhhcCCchH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGA---LLSACVIHQDLEI  391 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~---l~~~~~~~g~~~~  391 (471)
                      ....|++.+|...|+....  -.+-+...-..+..+|...|+.+.|..++..++..-...-+..   -+..+.+.....+
T Consensus       144 ~~~~e~~~~a~~~~~~al~--~~~~~~~~~~~la~~~l~~g~~e~A~~iL~~lP~~~~~~~~~~l~a~i~ll~qaa~~~~  221 (304)
T COG3118         144 LIEAEDFGEAAPLLKQALQ--AAPENSEAKLLLAECLLAAGDVEAAQAILAALPLQAQDKAAHGLQAQIELLEQAAATPE  221 (304)
T ss_pred             hhhccchhhHHHHHHHHHH--hCcccchHHHHHHHHHHHcCChHHHHHHHHhCcccchhhHHHHHHHHHHHHHHHhcCCC
Confidence            4556777777777777766  2333455556667777777777777777777753333322222   2233333334333


Q ss_pred             HHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          392 GDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       392 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      ... ++.-...+|. |...-..++..|...|+.+.|.+.+-.+.+.
T Consensus       222 ~~~-l~~~~aadPd-d~~aa~~lA~~~~~~g~~e~Ale~Ll~~l~~  265 (304)
T COG3118         222 IQD-LQRRLAADPD-DVEAALALADQLHLVGRNEAALEHLLALLRR  265 (304)
T ss_pred             HHH-HHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            333 2333345666 6777777777777777777777766655544

>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=96.09  E-value=0.14  Score=38.46  Aligned_cols=47  Identities=9%  Similarity=-0.058  Sum_probs=26.4

Q ss_pred             cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHHHHHH
Q 012108          167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAG-NVKPDYLTVTSVLSA  213 (471)
Q Consensus       167 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~l~~~  213 (471)
                      |+..+..+++.+|+.+|++..|+++++...+. +++-+..+|..|+.-
T Consensus        50 Pt~~lL~AIv~sf~~n~~i~~al~~vd~fs~~Y~I~i~~~~W~~Ll~W   97 (126)
T PF12921_consen   50 PTSRLLIAIVHSFGYNGDIFSALKLVDFFSRKYPIPIPKEFWRRLLEW   97 (126)
T ss_pred             CCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHcCCCCCHHHHHHHHHH
Confidence            45555566666666666666666666655432 455555555555553

The protein has a basic amino terminal signal sequence that is cleaved upon import into mitochondria [].

>PRK11906 transcriptional regulator; Provisional

Probab=96.06  E-value=0.17  Score=46.45  Aligned_cols=118  Identities=11%  Similarity=-0.003  Sum_probs=63.1

Q ss_pred             hHHHHHHHHHHHhC-CCCCCH-HHHHHHHHHHhcc---------CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc
Q 012108          286 GYAALKLLGEMNDS-CVKADD-ITFIGLLSACSHA---------GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA  354 (471)
Q Consensus       286 ~~~a~~~~~~~~~~-~~~p~~-~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  354 (471)
                      .+.|+.+|.+.... .+.|+. ..|..+..++...         ....+|.+.-++..+  -.+.|+.....+..++.-.
T Consensus       274 ~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAve--ld~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        274 IYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSD--ITTVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHhh
Confidence            45566677776621 234443 3444444433211         123344455555554  2334555555555555666


Q ss_pred             CCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          355 RLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       355 g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ++++.|...|++. .+.|+ ..+|......+.-.|+.++|.+.+++..+..|.
T Consensus       352 ~~~~~a~~~f~rA~~L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~  404 (458)
T PRK11906        352 GQAKVSHILFEQAKIHSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPR  404 (458)
T ss_pred             cchhhHHHHHHHHhhcCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCch
Confidence            6677777777666 34443 334444444455567777777777776666665

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=96.00  E-value=1.8  Score=42.53  Aligned_cols=101  Identities=12%  Similarity=0.057  Sum_probs=66.1

Q ss_pred             HHHHhhccchhHHHHHHHHHHHhccCC---chhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHH
Q 012108           17 LKAAGILSSSCIGLMLHGQTIKTGFCG---HVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMD   93 (471)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~   93 (471)
                      ++.+...+.+++|+.+.+.....  .|   ....+..++..+.-.|++++|-...-.|...+..-|..-+..+...++..
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~--~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~  440 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGN--EERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLT  440 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCC--ccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccc
Confidence            34555666777777766554322  23   23456677777777788888888877777777777777777777777766


Q ss_pred             HHHHHHhcCCCC-ChhhHHHHHHHHHh
Q 012108           94 HAMKLIDLMPLK-DVTSFNIMISGYAR  119 (471)
Q Consensus        94 ~A~~~~~~~~~~-~~~~~~~l~~~~~~  119 (471)
                      ....++-.-... ++..|..++..|..
T Consensus       441 ~Ia~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  441 DIAPYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hhhccCCCCCcccCchHHHHHHHHHHH
Confidence            555444333322 66677777777766

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=96.00  E-value=0.063  Score=45.42  Aligned_cols=58  Identities=14%  Similarity=0.015  Sum_probs=26.4

Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCCC--CchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNYL--SDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      |..++...|++++|..+|..+.+..|+-  -++.+..|+.+..+.|+.++|..+|+++.+
T Consensus       184 LGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d~A~atl~qv~k  243 (262)
T COG1729         184 LGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTDEACATLQQVIK  243 (262)
T ss_pred             HHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            4444444444555444444444443320  123444444444455555555555544443

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.91  E-value=0.57  Score=36.15  Aligned_cols=88  Identities=8%  Similarity=0.041  Sum_probs=57.0

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCC
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCG   90 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g   90 (471)
                      .....++..+...+.+......++.+.+.+ ..+...++.++..|++.+ .+.....++.  ..+......+++.|.+.+
T Consensus         8 ~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~-~~~ll~~l~~--~~~~yd~~~~~~~c~~~~   83 (140)
T smart00299        8 IDVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYD-PQKEIERLDN--KSNHYDIEKVGKLCEKAK   83 (140)
T ss_pred             CCHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHC-HHHHHHHHHh--ccccCCHHHHHHHHHHcC
Confidence            345667777777788888888888888776 357778888888887653 3344444442  223344445666666666


Q ss_pred             CHHHHHHHHhcC
Q 012108           91 QMDHAMKLIDLM  102 (471)
Q Consensus        91 ~~~~A~~~~~~~  102 (471)
                      .++++.-++.++
T Consensus        84 l~~~~~~l~~k~   95 (140)
T smart00299       84 LYEEAVELYKKD   95 (140)
T ss_pred             cHHHHHHHHHhh
Confidence            666666666554

>COG3898 Uncharacterized membrane-bound protein [Function unknown]

Probab=95.87  E-value=1.3  Score=39.79  Aligned_cols=119  Identities=14%  Similarity=0.127  Sum_probs=67.1

Q ss_pred             HHHHHHHHH--cCCCHHHHHHHHhcCC---CCChhhHHHHHHH--HHhcCCHHHHHHHHhhcCCCChhhHH----HHHHH
Q 012108           79 WNSMLDAFA--SCGQMDHAMKLIDLMP---LKDVTSFNIMISG--YARIGKIHSARYIFDKVPAKDVVSWN----SLILA  147 (471)
Q Consensus        79 ~~~li~~~~--~~g~~~~A~~~~~~~~---~~~~~~~~~l~~~--~~~~g~~~~a~~~~~~~~~~~~~~~~----~l~~~  147 (471)
                      |..|-.+++  -.|+-..|.++-.+..   ..|......++.+  -.-.|+.+.|.+-|+-|.. |+.+..    .|.--
T Consensus        85 yqALStGliAagAGda~lARkmt~~~~~llssDqepLIhlLeAQaal~eG~~~~Ar~kfeAMl~-dPEtRllGLRgLyle  163 (531)
T COG3898          85 YQALSTGLIAAGAGDASLARKMTARASKLLSSDQEPLIHLLEAQAALLEGDYEDARKKFEAMLD-DPETRLLGLRGLYLE  163 (531)
T ss_pred             HHHHhhhhhhhccCchHHHHHHHHHHHhhhhccchHHHHHHHHHHHHhcCchHHHHHHHHHHhc-ChHHHHHhHHHHHHH
Confidence            444444433  3466666666554443   2255544444443  2345777777777777753 222221    22222


Q ss_pred             HHhCCCHHHHHHHHHhcc--cc-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012108          148 YTNAGEMEKAGEMFKKML--VK-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAG  198 (471)
Q Consensus       148 ~~~~~~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~  198 (471)
                      ..+.|+.+.|..+-+..-  .| -...+...+...+..|+|+.|+++++.-+..
T Consensus       164 Aqr~GareaAr~yAe~Aa~~Ap~l~WA~~AtLe~r~~~gdWd~AlkLvd~~~~~  217 (531)
T COG3898         164 AQRLGAREAARHYAERAAEKAPQLPWAARATLEARCAAGDWDGALKLVDAQRAA  217 (531)
T ss_pred             HHhcccHHHHHHHHHHHHhhccCCchHHHHHHHHHHhcCChHHHHHHHHHHHHH
Confidence            345677777777666652  22 3456677777778888888888877765543

>PRK11619 lytic murein transglycosylase; Provisional

Probab=95.77  E-value=2.4  Score=42.20  Aligned_cols=114  Identities=4%  Similarity=-0.108  Sum_probs=52.5

Q ss_pred             cCChHHHHHHHHHHHhCC-CCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH
Q 012108          283 HGYGYAALKLLGEMNDSC-VKADD--ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR  359 (471)
Q Consensus       283 ~~~~~~a~~~~~~~~~~~-~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  359 (471)
                      ..+.+.|..++....... ..+..  .....+.......+...++...+.....   ...+......-+....+.++++.
T Consensus       254 r~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~---~~~~~~~~e~r~r~Al~~~dw~~  330 (644)
T PRK11619        254 RQDAENARLMIPSLVRAQKLNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIM---RSQSTSLLERRVRMALGTGDRRG  330 (644)
T ss_pred             HhCHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhccc---ccCCcHHHHHHHHHHHHccCHHH
Confidence            344566666666654332 22221  1222232222332224455555554433   11233333334444446666666


Q ss_pred             HHHHHHhCC--CCCCHhHHHHHHHHHhhcCCchHHHHHHHHH
Q 012108          360 AIELIEAMP--FEPTESILGALLSACVIHQDLEIGDRVAKMV  399 (471)
Q Consensus       360 A~~~~~~~~--~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~  399 (471)
                      +...+..|+  .+-...-.-=+.+++...|+.++|...|+++
T Consensus       331 ~~~~i~~L~~~~~~~~rw~YW~aRa~~~~g~~~~A~~~~~~~  372 (644)
T PRK11619        331 LNTWLARLPMEAKEKDEWRYWQADLLLEQGRKAEAEEILRQL  372 (644)
T ss_pred             HHHHHHhcCHhhccCHhhHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            666666662  1112222233455555566777776666665

>COG1729 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=95.76  E-value=0.13  Score=43.58  Aligned_cols=86  Identities=16%  Similarity=0.099  Sum_probs=42.8

Q ss_pred             hcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHhhcCCHH
Q 012108          282 LHGYGYAALKLLGEMNDSCV--KADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLD  358 (471)
Q Consensus       282 ~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~  358 (471)
                      +.|++..|...|...++...  .-....+..|..++...|++++|..+|..+.++++-.|. +...--|..+..+.|+.+
T Consensus       153 ksgdy~~A~~~F~~fi~~YP~s~~~~nA~yWLGe~~y~qg~y~~Aa~~f~~~~k~~P~s~KApdallKlg~~~~~l~~~d  232 (262)
T COG1729         153 KSGDYAEAEQAFQAFIKKYPNSTYTPNAYYWLGESLYAQGDYEDAAYIFARVVKDYPKSPKAPDALLKLGVSLGRLGNTD  232 (262)
T ss_pred             HcCCHHHHHHHHHHHHHcCCCCcccchhHHHHHHHHHhcccchHHHHHHHHHHHhCCCCCCChHHHHHHHHHHHHhcCHH
Confidence            44556666666666655411  111233445566666666666666666666654333332 234444444444444444


Q ss_pred             HHHHHHHhC
Q 012108          359 RAIELIEAM  367 (471)
Q Consensus       359 ~A~~~~~~~  367 (471)
                      +|..+|++.
T Consensus       233 ~A~atl~qv  241 (262)
T COG1729         233 EACATLQQV  241 (262)
T ss_pred             HHHHHHHHH
Confidence            444444444

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.75  E-value=0.31  Score=37.13  Aligned_cols=53  Identities=21%  Similarity=0.127  Sum_probs=27.5

Q ss_pred             hcCCHHHHHHHHHhC----CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          353 RARLLDRAIELIEAM----PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       353 ~~g~~~~A~~~~~~~----~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +.|++++|.+.|+.+    +..| ....-..++.+|.+.+++++|...+++.++++|.
T Consensus        22 ~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFirLhP~   79 (142)
T PF13512_consen   22 QKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIRLHPT   79 (142)
T ss_pred             HhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            445555555555544    1111 2233444555566666666666666666666655

>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=95.70  E-value=0.25  Score=36.62  Aligned_cols=138  Identities=13%  Similarity=0.190  Sum_probs=70.6

Q ss_pred             HcCCCHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC-CChhhHHHHHHHHHhCCCHHHHHHHHHhc
Q 012108           87 ASCGQMDHAMKLIDLMPLK-DVTSFNIMISGYARIGKIHSARYIFDKVPA-KDVVSWNSLILAYTNAGEMEKAGEMFKKM  164 (471)
Q Consensus        87 ~~~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  164 (471)
                      .-.|.+++..+++.+...+ +..-+|+++--....-+-+...+.++.+-+ -|..          .+|++......+-.+
T Consensus        13 ildG~V~qGveii~k~v~Ssni~E~NWvICNiiDaa~C~yvv~~LdsIGkiFDis----------~C~NlKrVi~C~~~~   82 (161)
T PF09205_consen   13 ILDGDVKQGVEIIEKTVNSSNIKEYNWVICNIIDAADCDYVVETLDSIGKIFDIS----------KCGNLKRVIECYAKR   82 (161)
T ss_dssp             HHTT-HHHHHHHHHHHHHHS-HHHHTHHHHHHHHH--HHHHHHHHHHHGGGS-GG----------G-S-THHHHHHHHHT
T ss_pred             HHhchHHHHHHHHHHHcCcCCccccceeeeecchhhchhHHHHHHHHHhhhcCch----------hhcchHHHHHHHHHh
Confidence            3456666666666555443 444555555555444444444444444411 1111          122222222222221


Q ss_pred             cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 012108          165 LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA  236 (471)
Q Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  236 (471)
                      - .+....+.-+.....+|+-++-.+++.++.+.+ .++.....-+..+|.+.|+..++.+++.++.+.|++
T Consensus        83 n-~~se~vD~ALd~lv~~~kkDqLdki~~~l~kn~-~~~p~~L~kia~Ay~klg~~r~~~ell~~ACekG~k  152 (161)
T PF09205_consen   83 N-KLSEYVDLALDILVKQGKKDQLDKIYNELKKNE-EINPEFLVKIANAYKKLGNTREANELLKEACEKGLK  152 (161)
T ss_dssp             T----HHHHHHHHHHHHTT-HHHHHHHHHHH------S-HHHHHHHHHHHHHTT-HHHHHHHHHHHHHTT-H
T ss_pred             c-chHHHHHHHHHHHHHhccHHHHHHHHHHHhhcc-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHhchH
Confidence            1 122344556677778888888888888876533 567777777788888888888888888888888753

Their exact function has not, as yet, been determined. ; PDB: 1WY6_A.

>PF13428 TPR_14: Tetratricopeptide repeat

Probab=95.60  E-value=0.017  Score=34.05  Aligned_cols=36  Identities=19%  Similarity=0.135  Sum_probs=31.3

Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccC
Q 012108          408 DGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTA  443 (471)
Q Consensus       408 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  443 (471)
                      +.++..++.+|.+.|++++|+++++++.+..+..+.
T Consensus         1 p~~~~~la~~~~~~G~~~~A~~~~~~~l~~~P~~~~   36 (44)
T PF13428_consen    1 PAAWLALARAYRRLGQPDEAERLLRRALALDPDDPE   36 (44)
T ss_pred             CHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCCHH
Confidence            457889999999999999999999999998776543

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.55  E-value=1.3  Score=37.47  Aligned_cols=218  Identities=17%  Similarity=0.055  Sum_probs=92.4

Q ss_pred             CCHHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHHccCChHHHHHHHHHHHHc-CCCCchhHHHHHHHHHHhcCChHHHHH
Q 012108          183 QLYIEVVDLFDEMKAGNVKP-DYLTVTSVLSACANLGSLETGARIHVYATDN-GLASNPHATTALIDMYAKCGSIEQSLE  260 (471)
Q Consensus       183 ~~~~~a~~~~~~m~~~g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~l~~~~~~~~~~~~a~~  260 (471)
                      +....+...+.......... ....+......+...+++..+...+...... ........+......+...+++..+.+
T Consensus        37 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  116 (291)
T COG0457          37 GELAEALELLEEALELLPNSDLAGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALE  116 (291)
T ss_pred             hhHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHH
Confidence            34444444444444332110 2344444445555555555555555555432 123334444445555555555555555


Q ss_pred             HHhcCCCC---ChhhHHHHHH-HHHhcCChHHHHHHHHHHHhCCCCC----CHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 012108          261 VFYKSQVK---DVFCWNAMIL-GLALHGYGYAALKLLGEMNDSCVKA----DDITFIGLLSACSHAGLVQEGCELFSRME  332 (471)
Q Consensus       261 ~~~~~~~~---~~~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~p----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  332 (471)
                      .+......   +......... .+...|+++.|...+.+....  .|    ....+......+...++.+.+...+....
T Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~  194 (291)
T COG0457         117 LLEKALALDPDPDLAEALLALGALYELGDYEEALELYEKALEL--DPELNELAEALLALGALLEALGRYEEALELLEKAL  194 (291)
T ss_pred             HHHHHHcCCCCcchHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHH
Confidence            55543331   1111222222 445555555555555555331  21    12222222233344455555555555554


Q ss_pred             HhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          333 KDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       333 ~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      .  ..+. ....+..+...+...++++.|...+... ...|+ ...+..+...+...+..+.+...+.+..+..+
T Consensus       195 ~--~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  267 (291)
T COG0457         195 K--LNPDDDAEALLNLGLLYLKLGKYEEALEYYEKALELDPDNAEALYNLALLLLELGRYEEALEALEKALELDP  267 (291)
T ss_pred             h--hCcccchHHHHHhhHHHHHcccHHHHHHHHHHHHhhCcccHHHHhhHHHHHHHcCCHHHHHHHHHHHHHhCc
Confidence            4  2222 2344444444444444455555444444 22222 22222222222233344444444444444433

>PF10300 DUF3808: Protein of unknown function (DUF3808); InterPro: IPR019412 This entry represents a family of proteins conserved from fungi to humans

Probab=95.53  E-value=1.6  Score=41.60  Aligned_cols=159  Identities=15%  Similarity=0.049  Sum_probs=95.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCH-----HHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCCCchhH
Q 012108          172 WNTMVTGYLRSQLYIEVVDLFDEMKAG-NVKPDY-----LTVTSVLSACAN----LGSLETGARIHVYATDNGLASNPHA  241 (471)
Q Consensus       172 ~~~l~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~-----~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~  241 (471)
                      ...++....-.|+-+.+++.+.+..+. |+.-..     -.|...+..++.    ..+.+.+.++++.+.+.  -|+...
T Consensus       191 ~~kll~~vGF~gdR~~GL~~L~~~~~~~~i~~~la~L~LL~y~~~~~~~~~~~~~~~~~~~a~~lL~~~~~~--yP~s~l  268 (468)
T PF10300_consen  191 VLKLLSFVGFSGDRELGLRLLWEASKSENIRSPLAALVLLWYHLVVPSFLGIDGEDVPLEEAEELLEEMLKR--YPNSAL  268 (468)
T ss_pred             HHHHHhhcCcCCcHHHHHHHHHHHhccCCcchHHHHHHHHHHHHHHHHHcCCcccCCCHHHHHHHHHHHHHh--CCCcHH
Confidence            334555555678888888887776543 222111     123333333332    34667788888888776  344444


Q ss_pred             HH-HHHHHHHhcCChHHHHHHHhcCCCC-------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012108          242 TT-ALIDMYAKCGSIEQSLEVFYKSQVK-------DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLS  313 (471)
Q Consensus       242 ~~-~l~~~~~~~~~~~~a~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  313 (471)
                      |. .-.+.+...|++++|++.|++....       ....+--+.-.+.-..++++|...|..+.+.. ..+..+|.-+..
T Consensus       269 fl~~~gR~~~~~g~~~~Ai~~~~~a~~~q~~~~Ql~~l~~~El~w~~~~~~~w~~A~~~f~~L~~~s-~WSka~Y~Y~~a  347 (468)
T PF10300_consen  269 FLFFEGRLERLKGNLEEAIESFERAIESQSEWKQLHHLCYFELAWCHMFQHDWEEAAEYFLRLLKES-KWSKAFYAYLAA  347 (468)
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHhccchhhHHhHHHHHHHHHHHHHHHHchHHHHHHHHHHHHhcc-ccHHHHHHHHHH
Confidence            33 3446667788888888888864431       22344455666777888888888888888753 334444444443


Q ss_pred             H-HhccCcH-------HHHHHHHHHhHH
Q 012108          314 A-CSHAGLV-------QEGCELFSRMEK  333 (471)
Q Consensus       314 ~-~~~~~~~-------~~a~~~~~~~~~  333 (471)
                      + +...|+.       ++|.++|.++..
T Consensus       348 ~c~~~l~~~~~~~~~~~~a~~l~~~vp~  375 (468)
T PF10300_consen  348 ACLLMLGREEEAKEHKKEAEELFRKVPK  375 (468)
T ss_pred             HHHHhhccchhhhhhHHHHHHHHHHHHH
Confidence            3 3345666       777777776654

In humans this protein is expressed in primary breast carcinomas but not in normal breast tissue, and has a putative eukaryotic RNP-1 RNA binding region and a candidate anchoring transmembrane domain. The human protein is coordinately regulated with oestrogen receptor, but is not necessarily oestradiol-responsive []. Members of this family carry a tetratricopeptide repeat (IPR013105 from INTERPRO) at their C terminus.

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=95.52  E-value=3.6  Score=42.59  Aligned_cols=53  Identities=6%  Similarity=0.183  Sum_probs=29.8

Q ss_pred             HHHHHHcCCCHHHHHHHHhcCCCC-------ChhhHHHHHHHHHhc-CCHHHHHHHHhhcC
Q 012108           82 MLDAFASCGQMDHAMKLIDLMPLK-------DVTSFNIMISGYARI-GKIHSARYIFDKVP  134 (471)
Q Consensus        82 li~~~~~~g~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~  134 (471)
                      -+.-++..+++.+|.++.++-+-.       ++..|..-+.++.+. ++.+-...++..+.
T Consensus       683 ~vr~~l~~~~y~~AF~~~RkhRidlnii~d~~~~~Fl~nv~afl~~in~~~~l~lfl~~lk  743 (1265)
T KOG1920|consen  683 KVRTLLDRLRYKEAFEVMRKHRIDLNIIFDYDPKRFLKNVPAFLKQINRVNHLELFLTELK  743 (1265)
T ss_pred             HHHHHHHHHHHHHHHHHHHHhccCccchhhcCHHHHHhhHHHHhccCCcHHHHHHHHhhcc
Confidence            345566777788887776655422       455555555555543 44555555555554

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.49  E-value=0.21  Score=43.41  Aligned_cols=161  Identities=11%  Similarity=-0.058  Sum_probs=118.8

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHH----HHHHhhcCC
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCM----VDLLGRARL  356 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l----~~~~~~~g~  356 (471)
                      --.|++.+|-..++++.+. .+.|...+.-.=.+|...|+.+.-...++++..  ...++..+|..+    .-++..+|-
T Consensus       114 ~~~g~~h~a~~~wdklL~d-~PtDlla~kfsh~a~fy~G~~~~~k~ai~kIip--~wn~dlp~~sYv~GmyaFgL~E~g~  190 (491)
T KOG2610|consen  114 WGRGKHHEAAIEWDKLLDD-YPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIP--KWNADLPCYSYVHGMYAFGLEECGI  190 (491)
T ss_pred             hccccccHHHHHHHHHHHh-CchhhhhhhhhhhHHHhccchhhhhhHHHHhcc--ccCCCCcHHHHHHHHHHhhHHHhcc
Confidence            3578888998999998876 455666777777889999999999999999886  556666555444    334567899


Q ss_pred             HHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC---CCchhHHHHHHHHHhcCCHHHHHHHH
Q 012108          357 LDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY---LSDGELMMFANLYASCGQWEEANRWR  431 (471)
Q Consensus       357 ~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~~~~~l~~~~~~~g~~~~A~~~~  431 (471)
                      +++|++.-++. .+.| |...-.++...+-..|+++++.++..+-...-..   .-...|-..+-.+...+.++.|.++|
T Consensus       191 y~dAEk~A~ralqiN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  191 YDDAEKQADRALQINRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             chhHHHHHHhhccCCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999999887 4444 6677788888888999999999887654332221   11234556667778889999999999


Q ss_pred             HHhhhCCCcccCc
Q 012108          432 NMMNDTGIVKTAG  444 (471)
Q Consensus       432 ~~m~~~~~~~~~~  444 (471)
                      ++=.-.....+++
T Consensus       271 D~ei~k~l~k~Da  283 (491)
T KOG2610|consen  271 DREIWKRLEKDDA  283 (491)
T ss_pred             HHHHHHHhhccch
Confidence            8765555555555

>KOG1585 consensus Protein required for fusion of vesicles in vesicular transport, gamma-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=95.47  E-value=1.3  Score=37.04  Aligned_cols=25  Identities=12%  Similarity=0.134  Sum_probs=13.7

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhc
Q 012108          109 SFNIMISGYARIGKIHSARYIFDKV  133 (471)
Q Consensus       109 ~~~~l~~~~~~~g~~~~a~~~~~~~  133 (471)
                      .|.....+|....++++|...+.+.
T Consensus        33 ~yekAAvafRnAk~feKakdcLlkA   57 (308)
T KOG1585|consen   33 LYEKAAVAFRNAKKFEKAKDCLLKA   57 (308)
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHH
Confidence            3444555555556666665555544

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=95.45  E-value=0.17  Score=42.85  Aligned_cols=89  Identities=9%  Similarity=0.082  Sum_probs=61.9

Q ss_pred             cChHHHHHHHHHHHh-----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc----------------CChHHHHH
Q 012108          167 KNVITWNTMVTGYLR-----SQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANL----------------GSLETGAR  225 (471)
Q Consensus       167 ~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~----------------~~~~~a~~  225 (471)
                      +|..+|-..+..+..     .+..+-....++.|.+-|+.-|..+|+.|++.+-+.                .+-+-+.+
T Consensus        65 RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~HYP~QQ~C~I~  144 (406)
T KOG3941|consen   65 RDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLHYPQQQNCAIK  144 (406)
T ss_pred             ccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhhCchhhhHHHH
Confidence            344444444444332     244555555667777778878888888777766542                23456888


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCCh
Q 012108          226 IHVYATDNGLASNPHATTALIDMYAKCGSI  255 (471)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  255 (471)
                      ++++|...|+-||-.+-..|++++.+.+..
T Consensus       145 vLeqME~hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  145 VLEQMEWHGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             HHHHHHHcCCCCchHHHHHHHHHhcccccc
Confidence            999999999999999999999999887764

>smart00299 CLH Clathrin heavy chain repeat homology

Probab=95.44  E-value=0.89  Score=35.08  Aligned_cols=129  Identities=10%  Similarity=-0.024  Sum_probs=81.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDL  350 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  350 (471)
                      .....++..+...+.+......++.+...+ ..+....+.++..|++.+. ....+.++.  .     ++.......+..
T Consensus         8 ~~~~~vv~~~~~~~~~~~l~~yLe~~~~~~-~~~~~~~~~li~ly~~~~~-~~ll~~l~~--~-----~~~yd~~~~~~~   78 (140)
T smart00299        8 IDVSEVVELFEKRNLLEELIPYLESALKLN-SENPALQTKLIELYAKYDP-QKEIERLDN--K-----SNHYDIEKVGKL   78 (140)
T ss_pred             CCHHHHHHHHHhCCcHHHHHHHHHHHHccC-ccchhHHHHHHHHHHHHCH-HHHHHHHHh--c-----cccCCHHHHHHH
Confidence            334556777777778888888888888776 3566778888888876533 333333332  1     233334457777


Q ss_pred             HhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhc-CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          351 LGRARLLDRAIELIEAMPFEPTESILGALLSACVIH-QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~-g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      |.+.+.++++..++.+++...      ..+..+... ++++.|.+++++     .. ++..|..++..+..
T Consensus        79 c~~~~l~~~~~~l~~k~~~~~------~Al~~~l~~~~d~~~a~~~~~~-----~~-~~~lw~~~~~~~l~  137 (140)
T smart00299       79 CEKAKLYEEAVELYKKDGNFK------DAIVTLIEHLGNYEKAIEYFVK-----QN-NPELWAEVLKALLD  137 (140)
T ss_pred             HHHcCcHHHHHHHHHhhcCHH------HHHHHHHHcccCHHHHHHHHHh-----CC-CHHHHHHHHHHHHc
Confidence            788888888888888876321      222223333 778888877765     22 56677777766553

>KOG1258 consensus mRNA processing protein [RNA processing and modification]

Probab=95.37  E-value=2.6  Score=40.09  Aligned_cols=332  Identities=8%  Similarity=-0.020  Sum_probs=193.2

Q ss_pred             hhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhc-cCCHhHHHHHhcccCC------CCcccHHHHHHHHHcCCCHH
Q 012108           21 GILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGS-LRCIDDAFKVFEKMPE------KDIIAWNSMLDAFASCGQMD   93 (471)
Q Consensus        21 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~~~~------~~~~~~~~li~~~~~~g~~~   93 (471)
                      .+.|..+.+..+|++.+.. ++.++..|...+..+.. .|+.+..+..|+....      .....|...|..-..++++.
T Consensus        90 ~klg~~~~s~~Vfergv~a-ip~SvdlW~~Y~~f~~n~~~d~~~lr~~fe~A~~~vG~dF~S~~lWdkyie~en~qks~k  168 (577)
T KOG1258|consen   90 YKLGNAENSVKVFERGVQA-IPLSVDLWLSYLAFLKNNNGDPETLRDLFERAKSYVGLDFLSDPLWDKYIEFENGQKSWK  168 (577)
T ss_pred             HHhhhHHHHHHHHHHHHHh-hhhHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhcccchhccHHHHHHHHHHhccccHH
Confidence            4677888999999998864 67788888888777764 5788888888888664      35567888888888888999


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHh---c------CCHHHHHHH-----------------------HhhcCCCCh---
Q 012108           94 HAMKLIDLMPLKDVTSFNIMISGYAR---I------GKIHSARYI-----------------------FDKVPAKDV---  138 (471)
Q Consensus        94 ~A~~~~~~~~~~~~~~~~~l~~~~~~---~------g~~~~a~~~-----------------------~~~~~~~~~---  138 (471)
                      ....++++...-...-++..-.-|.+   .      -..+++.++                       .+....|..   
T Consensus       169 ~v~~iyeRileiP~~~~~~~f~~f~~~l~~~~~~~l~~~d~~~~l~~~~~~~~~~~~~~~~~e~~~~~v~~~~~~s~~l~  248 (577)
T KOG1258|consen  169 RVANIYERILEIPLHQLNRHFDRFKQLLNQNEEKILLSIDELIQLRSDVAERSKITHSQEPLEELEIGVKDSTDPSKSLT  248 (577)
T ss_pred             HHHHHHHHHHhhhhhHhHHHHHHHHHHHhcCChhhhcCHHHHHHHhhhHHhhhhcccccChhHHHHHHHhhccCccchhh
Confidence            99999888764322222221111111   1      011111111                       111111110   


Q ss_pred             hhHHHHH-------HHHHhCCCHHHHHHHHHhcc-------cc----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 012108          139 VSWNSLI-------LAYTNAGEMEKAGEMFKKML-------VK----NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV  200 (471)
Q Consensus       139 ~~~~~l~-------~~~~~~~~~~~A~~~~~~~~-------~~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  200 (471)
                      ...+.+.       .++-......+....|+.-+       +|    +...|+.-+.--...|+++.+.-+|++..-.- 
T Consensus       249 ~~~~~l~~~~~~~~~~~~~s~~~~~kr~~fE~~IkrpYfhvkpl~~aql~nw~~yLdf~i~~g~~~~~~~l~ercli~c-  327 (577)
T KOG1258|consen  249 EEKTILKRIVSIHEKVYQKSEEEEEKRWGFEEGIKRPYFHVKPLDQAQLKNWRYYLDFEITLGDFSRVFILFERCLIPC-  327 (577)
T ss_pred             HHHHHHHHHHHHHHHHHHhhHhHHHHHHhhhhhccccccccCcccHHHHHHHHHHhhhhhhcccHHHHHHHHHHHHhHH-
Confidence            0111111       12222223333333444331       11    45678888888889999999999888875311 


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CCh-hhHHHHH
Q 012108          201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDV-FCWNAMI  277 (471)
Q Consensus       201 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~-~~~~~l~  277 (471)
                      ..=...|--.+.-....|+.+.|..++....+.-++..+.+.-.-....-..|+++.|..+++.+..  |+. ..-..-+
T Consensus       328 A~Y~efWiky~~~m~~~~~~~~~~~~~~~~~~i~~k~~~~i~L~~a~f~e~~~n~~~A~~~lq~i~~e~pg~v~~~l~~~  407 (577)
T KOG1258|consen  328 ALYDEFWIKYARWMESSGDVSLANNVLARACKIHVKKTPIIHLLEARFEESNGNFDDAKVILQRIESEYPGLVEVVLRKI  407 (577)
T ss_pred             hhhHHHHHHHHHHHHHcCchhHHHHHHHhhhhhcCCCCcHHHHHHHHHHHhhccHHHHHHHHHHHHhhCCchhhhHHHHH
Confidence            0011223333334444588888888888877766555554444444444557899999999887765  222 2222234


Q ss_pred             HHHHhcCChHHHH---HHHHHHHhCCCCCCH--HHHHHHHH-HHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 012108          278 LGLALHGYGYAAL---KLLGEMNDSCVKADD--ITFIGLLS-ACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLL  351 (471)
Q Consensus       278 ~~~~~~~~~~~a~---~~~~~~~~~~~~p~~--~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  351 (471)
                      ....+.|..+.+.   .++.........+..  ..+....+ .+.-.++.+.|..++.++.+  .++++...|..++...
T Consensus       408 ~~e~r~~~~~~~~~~~~l~s~~~~~~~~~~i~~~l~~~~~r~~~~i~~d~~~a~~~l~~~~~--~~~~~k~~~~~~~~~~  485 (577)
T KOG1258|consen  408 NWERRKGNLEDANYKNELYSSIYEGKENNGILEKLYVKFARLRYKIREDADLARIILLEAND--ILPDCKVLYLELIRFE  485 (577)
T ss_pred             hHHHHhcchhhhhHHHHHHHHhcccccCcchhHHHHHHHHHHHHHHhcCHHHHHHHHHHhhh--cCCccHHHHHHHHHHH
Confidence            4455677777776   333333322111111  11111221 12335788899999999988  7888888888888877


Q ss_pred             hhcCC
Q 012108          352 GRARL  356 (471)
Q Consensus       352 ~~~g~  356 (471)
                      ...+.
T Consensus       486 ~~~~~  490 (577)
T KOG1258|consen  486 LIQPS  490 (577)
T ss_pred             HhCCc
Confidence            66553

>KOG2610 consensus Uncharacterized conserved protein [Function unknown]

Probab=95.35  E-value=0.55  Score=41.01  Aligned_cols=147  Identities=7%  Similarity=-0.113  Sum_probs=104.0

Q ss_pred             HhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHH----HHHHHHHhccCcHH
Q 012108          250 AKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITF----IGLLSACSHAGLVQ  322 (471)
Q Consensus       250 ~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~----~~l~~~~~~~~~~~  322 (471)
                      ...|+..+|-..++++.+   .|..++..-=.++...|+.+.-...+++.... ..||...|    ..+.-++...|-++
T Consensus       114 ~~~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  114 WGRGKHHEAAIEWDKLLDDYPTDLLAVKFSHDAHFYNGNQIGKKNAIEKIIPK-WNADLPCYSYVHGMYAFGLEECGIYD  192 (491)
T ss_pred             hccccccHHHHHHHHHHHhCchhhhhhhhhhhHHHhccchhhhhhHHHHhccc-cCCCCcHHHHHHHHHHhhHHHhccch
Confidence            345777777777777665   36777887888999999999999999998765 23443333    33444556889999


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCC------CHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          323 EGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEP------TESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       323 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p------~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      +|++.-++..+  -.+.|.-.-.++...+...|++.++.++..+-...-      -...|-...-.+...+.++.|+++|
T Consensus       193 dAEk~A~ralq--iN~~D~Wa~Ha~aHVlem~~r~Keg~eFM~~ted~Wr~s~mlasHNyWH~Al~~iE~aeye~aleIy  270 (491)
T KOG2610|consen  193 DAEKQADRALQ--INRFDCWASHAKAHVLEMNGRHKEGKEFMYKTEDDWRQSWMLASHNYWHTALFHIEGAEYEKALEIY  270 (491)
T ss_pred             hHHHHHHhhcc--CCCcchHHHHHHHHHHHhcchhhhHHHHHHhcccchhhhhHHHhhhhHHHHHhhhcccchhHHHHHH
Confidence            99999888876  344566666778888888999999999988763111      1122333334456779999999999


Q ss_pred             HHH
Q 012108          397 KMV  399 (471)
Q Consensus       397 ~~~  399 (471)
                      +.=
T Consensus       271 D~e  273 (491)
T KOG2610|consen  271 DRE  273 (491)
T ss_pred             HHH
Confidence            753

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=95.32  E-value=1.5  Score=37.03  Aligned_cols=60  Identities=10%  Similarity=0.006  Sum_probs=45.0

Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCCCCchh---HHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNYLSDGE---LMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +.+-|.+.|.+..|..-++.+++.-++ ...+   +..+..+|...|-.++|.+.-+ ++..+.+
T Consensus       173 IaryY~kr~~~~AA~nR~~~v~e~y~~-t~~~~eaL~~l~eaY~~lgl~~~a~~~~~-vl~~N~p  235 (254)
T COG4105         173 IARYYLKRGAYVAAINRFEEVLENYPD-TSAVREALARLEEAYYALGLTDEAKKTAK-VLGANYP  235 (254)
T ss_pred             HHHHHHHhcChHHHHHHHHHHHhcccc-ccchHHHHHHHHHHHHHhCChHHHHHHHH-HHHhcCC
Confidence            456688999999999999999998666 4444   4456678999999999988654 4444443

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=95.32  E-value=0.075  Score=42.47  Aligned_cols=124  Identities=16%  Similarity=0.080  Sum_probs=79.2

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhh
Q 012108          313 SACSHAGLVQEGCELFSRMEKDFGVTRK-----LEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVI  385 (471)
Q Consensus       313 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~  385 (471)
                      +-+...|++++|..-|..+..  .+++.     ...|..-..++.+.+.++.|++-..+. .+.|+ ...+..-..+|.+
T Consensus       103 N~~F~ngdyeeA~skY~~Ale--~cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaiel~pty~kAl~RRAeayek  180 (271)
T KOG4234|consen  103 NELFKNGDYEEANSKYQEALE--SCPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIELNPTYEKALERRAEAYEK  180 (271)
T ss_pred             HHhhhcccHHHHHHHHHHHHH--hCccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHhcCchhHHHHHHHHHHHHh
Confidence            446778999999999998887  34443     334555556677888888888776665 45553 2344444567778


Q ss_pred             cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHH--HHHHHHhhhCCC
Q 012108          386 HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEA--NRWRNMMNDTGI  439 (471)
Q Consensus       386 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A--~~~~~~m~~~~~  439 (471)
                      ...+++|+.-++++.+..|. ....-...++.--......+.  .+++.+++..|-
T Consensus       181 ~ek~eealeDyKki~E~dPs-~~ear~~i~rl~~~i~ernEkmKee~m~kLKdlGN  235 (271)
T KOG4234|consen  181 MEKYEEALEDYKKILESDPS-RREAREAIARLPPKINERNEKMKEEMMEKLKDLGN  235 (271)
T ss_pred             hhhHHHHHHHHHHHHHhCcc-hHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHhhh
Confidence            88889999999999888887 444444444433222222222  245555655553

>PF13512 TPR_18: Tetratricopeptide repeat

Probab=95.29  E-value=0.85  Score=34.78  Aligned_cols=55  Identities=16%  Similarity=0.156  Sum_probs=26.7

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          279 GLALHGYGYAALKLLGEMNDSCV--KADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       279 ~~~~~~~~~~a~~~~~~~~~~~~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      ...+.|++++|.+.|+.+..+=.  +-....-..++.++.+.++++.|...+++..+
T Consensus        19 ~~l~~~~Y~~A~~~le~L~~ryP~g~ya~qAqL~l~yayy~~~~y~~A~a~~~rFir   75 (142)
T PF13512_consen   19 EALQKGNYEEAIKQLEALDTRYPFGEYAEQAQLDLAYAYYKQGDYEEAIAAYDRFIR   75 (142)
T ss_pred             HHHHhCCHHHHHHHHHHHHhcCCCCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            33445555555555555554410  11223344455555555555555555555555

>KOG0403 consensus Neoplastic transformation suppressor Pdcd4/MA-3, contains MA3 domain [Signal transduction mechanisms]

Probab=95.22  E-value=2.4  Score=38.75  Aligned_cols=109  Identities=9%  Similarity=-0.025  Sum_probs=75.9

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhCCCC--CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAMPFE--PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~~~~--p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      ...|+.-|...|+..+|.+..++++.+  .....+.+++.+.-+.|+-.....+++.....+.-    |-+.+-+.|.+.
T Consensus       512 I~~LLeEY~~~GdisEA~~CikeLgmPfFhHEvVkkAlVm~mEkk~d~t~~ldLLk~cf~sglI----T~nQMtkGf~RV  587 (645)
T KOG0403|consen  512 IDMLLEEYELSGDISEACHCIKELGMPFFHHEVVKKALVMVMEKKGDSTMILDLLKECFKSGLI----TTNQMTKGFERV  587 (645)
T ss_pred             HHHHHHHHHhccchHHHHHHHHHhCCCcchHHHHHHHHHHHHHhcCcHHHHHHHHHHHHhcCce----eHHHhhhhhhhh
Confidence            345778899999999999999998643  35678889999998999988888888877776644    445555555553


Q ss_pred             C--------CHHHHHHHHHHhhhCCCcccCcceEEEEcCeEeEEe
Q 012108          422 G--------QWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFL  458 (471)
Q Consensus       422 g--------~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~  458 (471)
                      .        +...|.+.|+...+.+...  +..|..+...|..+.
T Consensus       588 ~dsl~DlsLDvPna~ekf~~~Ve~~~~~--G~i~~~l~~~~~s~l  630 (645)
T KOG0403|consen  588 YDSLPDLSLDVPNAYEKFERYVEECFQN--GIISKQLRDLCPSRL  630 (645)
T ss_pred             hccCcccccCCCcHHHHHHHHHHHHHHc--CchhHHhhhcchhhh
Confidence            2        2445666666665554432  567777777765443

>COG0457 NrfG FOG: TPR repeat [General function prediction only]

Probab=95.16  E-value=1.7  Score=36.64  Aligned_cols=196  Identities=20%  Similarity=0.088  Sum_probs=99.1

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCC-----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQ-----VKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLS  313 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  313 (471)
                      ..........+...+++..+...+....     ......+......+...+.+..+...+.........+ .........
T Consensus        59 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~  137 (291)
T COG0457          59 AGLLLLLALALLKLGRLEEALELLEKALELELLPNLAEALLNLGLLLEALGKYEEALELLEKALALDPDP-DLAEALLAL  137 (291)
T ss_pred             hHHHHHHHHHHHHcccHHHHHHHHHHHHhhhhccchHHHHHHHHHHHHHHhhHHHHHHHHHHHHcCCCCc-chHHHHHHH
Confidence            3445555555666666666655554432     1233444555555555556666666666655532222 111111222


Q ss_pred             -HHhccCcHHHHHHHHHHhHHhcCC--CCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC--HhHHHHHHHHHhhcC
Q 012108          314 -ACSHAGLVQEGCELFSRMEKDFGV--TRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT--ESILGALLSACVIHQ  387 (471)
Q Consensus       314 -~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~~g  387 (471)
                       .+...|+++.+...+.+... ...  ......+......+...++.+.+...+.+. ...++  ...+..+...+...+
T Consensus       138 ~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  216 (291)
T COG0457         138 GALYELGDYEEALELYEKALE-LDPELNELAEALLALGALLEALGRYEEALELLEKALKLNPDDDAEALLNLGLLYLKLG  216 (291)
T ss_pred             HHHHHcCCHHHHHHHHHHHHh-cCCCccchHHHHHHhhhHHHHhcCHHHHHHHHHHHHhhCcccchHHHHHhhHHHHHcc
Confidence             45566666666666666633 111  112333333333345556666666666555 22222  445555555555666


Q ss_pred             CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          388 DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      +++.|...+.......+. ....+..+...+...|.++++...+.+....
T Consensus       217 ~~~~a~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  265 (291)
T COG0457         217 KYEEALEYYEKALELDPD-NAEALYNLALLLLELGRYEEALEALEKALEL  265 (291)
T ss_pred             cHHHHHHHHHHHHhhCcc-cHHHHhhHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            666666666666665554 3444444454444555566666655555443

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=95.09  E-value=0.18  Score=37.32  Aligned_cols=90  Identities=10%  Similarity=-0.025  Sum_probs=54.2

Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCC--CCHhHHHHHHHHHhhcC
Q 012108          314 ACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM----PFE--PTESILGALLSACVIHQ  387 (471)
Q Consensus       314 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~--p~~~~~~~l~~~~~~~g  387 (471)
                      ++...|+.+.|++.|.+...  -.+..+..||.-.+++--.|+.++|++-+++.    +-+  .--..|..-...|...|
T Consensus        52 alaE~g~Ld~AlE~F~qal~--l~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g  129 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALC--LAPERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLG  129 (175)
T ss_pred             HHHhccchHHHHHHHHHHHH--hcccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhC
Confidence            45566777777777777765  34445666777777777777777776666654    111  01123333444456667


Q ss_pred             CchHHHHHHHHHHHcCCC
Q 012108          388 DLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~  405 (471)
                      +-+.|..-|+.+-+.|..
T Consensus       130 ~dd~AR~DFe~AA~LGS~  147 (175)
T KOG4555|consen  130 NDDAARADFEAAAQLGSK  147 (175)
T ss_pred             chHHHHHhHHHHHHhCCH
Confidence            777777777776666644

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=95.08  E-value=0.13  Score=44.38  Aligned_cols=58  Identities=16%  Similarity=0.140  Sum_probs=27.2

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHhhcCCchHHHHHHHHHH
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACVIHQDLEIGDRVAKMVC  400 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  400 (471)
                      ++..++..+...|+++.+.+.++++ ... -+...|..++.+|.+.|+...|+..++++.
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~dp~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~  214 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELDPYDEPAYLRLMEAYLVNGRQSAAIRAYRQLK  214 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCchHHHHHHHHHH
Confidence            3444444444555555555544444 112 244445555555555555555555544443

>KOG1941 consensus Acetylcholine receptor-associated protein of the synapse (rapsyn) [Extracellular structures]

Probab=95.08  E-value=0.26  Score=43.39  Aligned_cols=211  Identities=12%  Similarity=-0.002  Sum_probs=123.4

Q ss_pred             HhhccchhHHHHHHHHHHHhc--cCCchhHHHHHHHHHhccCCHhHHHHHhccc----CC--C---CcccHHHHHHHHHc
Q 012108           20 AGILSSSCIGLMLHGQTIKTG--FCGHVYVQTALLKMYGSLRCIDDAFKVFEKM----PE--K---DIIAWNSMLDAFAS   88 (471)
Q Consensus        20 ~~~~g~~~~a~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~--~---~~~~~~~li~~~~~   88 (471)
                      +....+.++|+..|.+-+.+-  ......++..+..+.++.|.++++...--.-    .+  .   --.+|..+.+++-+
T Consensus        16 Ly~s~~~~~al~~w~~~L~~l~~~~~Rf~~lG~l~~a~s~~g~y~~mL~~a~sqi~~a~~~~ds~~~~ea~lnlar~~e~   95 (518)
T KOG1941|consen   16 LYQSNQTEKALQVWTKVLEKLSDLMGRFRVLGCLVTAHSEMGRYKEMLKFAVSQIDTARELEDSDFLLEAYLNLARSNEK   95 (518)
T ss_pred             HhcCchHHHHHHHHHHHHHHHHHHHHHHHHhccchhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            335667788888887766442  1223356777788888888888776442211    11  1   12345555555555


Q ss_pred             CCCHHHHHHHHhcCCCC--------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC-----C----ChhhHHHHHHHHHhC
Q 012108           89 CGQMDHAMKLIDLMPLK--------DVTSFNIMISGYARIGKIHSARYIFDKVPA-----K----DVVSWNSLILAYTNA  151 (471)
Q Consensus        89 ~g~~~~A~~~~~~~~~~--------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~----~~~~~~~l~~~~~~~  151 (471)
                      .-++.+++.+-.+-...        ......++..++.-.+.++++++.|+....     .    ...++..|...|.+.
T Consensus        96 l~~f~kt~~y~k~~l~lpgt~~~~~~gq~~l~~~~Ahlgls~fq~~Lesfe~A~~~A~~~~D~~LElqvcv~Lgslf~~l  175 (518)
T KOG1941|consen   96 LCEFHKTISYCKTCLGLPGTRAGQLGGQVSLSMGNAHLGLSVFQKALESFEKALRYAHNNDDAMLELQVCVSLGSLFAQL  175 (518)
T ss_pred             HHHhhhHHHHHHHHhcCCCCCcccccchhhhhHHHHhhhHHHHHHHHHHHHHHHHHhhccCCceeeeehhhhHHHHHHHH
Confidence            55555555554332211        123445577777777888888888888722     1    235788888889998


Q ss_pred             CCHHHHHHHHHhc-------cccChH------HHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCHHHH----HHHHHH
Q 012108          152 GEMEKAGEMFKKM-------LVKNVI------TWNTMVTGYLRSQLYIEVVDLFDEMKAGNV-KPDYLTV----TSVLSA  213 (471)
Q Consensus       152 ~~~~~A~~~~~~~-------~~~~~~------~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~~~~~----~~l~~~  213 (471)
                      .|+++|.-+..+.       .-.|..      ....|..++...|....|.+..++..+..+ .-|..++    ..+.+.
T Consensus       176 ~D~~Kal~f~~kA~~lv~s~~l~d~~~kyr~~~lyhmaValR~~G~LgdA~e~C~Ea~klal~~Gdra~~arc~~~~aDI  255 (518)
T KOG1941|consen  176 KDYEKALFFPCKAAELVNSYGLKDWSLKYRAMSLYHMAVALRLLGRLGDAMECCEEAMKLALQHGDRALQARCLLCFADI  255 (518)
T ss_pred             HhhhHHhhhhHhHHHHHHhcCcCchhHHHHHHHHHHHHHHHHHhcccccHHHHHHHHHHHHHHhCChHHHHHHHHHHHHH
Confidence            8988887665554       112221      122344566677777777777666533211 1133333    345566


Q ss_pred             HHccCChHHHHHHHHHH
Q 012108          214 CANLGSLETGARIHVYA  230 (471)
Q Consensus       214 ~~~~~~~~~a~~~~~~~  230 (471)
                      |...|+.+.|+.-|+++
T Consensus       256 yR~~gd~e~af~rYe~A  272 (518)
T KOG1941|consen  256 YRSRGDLERAFRRYEQA  272 (518)
T ss_pred             HHhcccHhHHHHHHHHH
Confidence            66777777777766664

>PRK15180 Vi polysaccharide biosynthesis protein TviD; Provisional

Probab=94.96  E-value=0.51  Score=43.27  Aligned_cols=140  Identities=11%  Similarity=0.011  Sum_probs=91.6

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a  392 (471)
                      -...|+.-.|-+-+........-.|+.  .......+...|+++.+...+...  .+.....+...+++...+.|++++|
T Consensus       299 ~~~~gd~~aas~~~~~~lr~~~~~p~~--i~l~~~i~~~lg~ye~~~~~~s~~~~~~~s~~~~~~~~~r~~~~l~r~~~a  376 (831)
T PRK15180        299 QLADGDIIAASQQLFAALRNQQQDPVL--IQLRSVIFSHLGYYEQAYQDISDVEKIIGTTDSTLRCRLRSLHGLARWREA  376 (831)
T ss_pred             HhhccCHHHHHHHHHHHHHhCCCCchh--hHHHHHHHHHhhhHHHHHHHhhchhhhhcCCchHHHHHHHhhhchhhHHHH
Confidence            344577666655444444423333433  333334456678888888888766  2334556777788888888889999


Q ss_pred             HHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcceEEEEcCeEeEEee
Q 012108          393 DRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVIEVNGSYHKFLA  459 (471)
Q Consensus       393 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~~~~~~~~~~~~  459 (471)
                      ....+.|+..... ++......+..-...|-++++.-.|+++...+++.+.++  +-..+...-|..
T Consensus       377 ~s~a~~~l~~eie-~~ei~~iaa~sa~~l~~~d~~~~~wk~~~~~~~~~~~g~--v~~~~~~~~~~~  440 (831)
T PRK15180        377 LSTAEMMLSNEIE-DEEVLTVAAGSADALQLFDKSYHYWKRVLLLNPETQSGW--VNFLSSTQYFND  440 (831)
T ss_pred             HHHHHHHhccccC-ChhheeeecccHHHHhHHHHHHHHHHHHhccCChhcccc--eeeeccceeccC
Confidence            8888888888777 777776666666677888889888888877766555544  333444444433

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=94.95  E-value=2.9  Score=38.26  Aligned_cols=67  Identities=9%  Similarity=-0.022  Sum_probs=54.5

Q ss_pred             CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC---CchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          371 PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL---SDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       371 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      ....+|..++..+.+.|.++.|...+.++...++..   .+......++.+...|+..+|+..++.....
T Consensus       144 ~~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~  213 (352)
T PF02259_consen  144 ELAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC  213 (352)
T ss_pred             HHHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH
Confidence            345678888899999999999999999988765332   4667777888999999999999998888763

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>KOG4555 consensus TPR repeat-containing protein [Function unknown]

Probab=94.88  E-value=0.29  Score=36.21  Aligned_cols=88  Identities=18%  Similarity=0.013  Sum_probs=51.5

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHhhcCC
Q 012108          279 GLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK--LEHYGCMVDLLGRARL  356 (471)
Q Consensus       279 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~  356 (471)
                      ++...|+.+.|++.|.+.... .+-....|+.-..++.-+|+.++|++=+++..+-.|-...  ...|-.-...|-..|+
T Consensus        52 alaE~g~Ld~AlE~F~qal~l-~P~raSayNNRAQa~RLq~~~e~ALdDLn~AleLag~~trtacqa~vQRg~lyRl~g~  130 (175)
T KOG4555|consen   52 ALAEAGDLDGALELFGQALCL-APERASAYNNRAQALRLQGDDEEALDDLNKALELAGDQTRTACQAFVQRGLLYRLLGN  130 (175)
T ss_pred             HHHhccchHHHHHHHHHHHHh-cccchHhhccHHHHHHHcCChHHHHHHHHHHHHhcCccchHHHHHHHHHHHHHHHhCc
Confidence            456667777777777776654 2345566777777777777777777777777663332211  1122222334555666


Q ss_pred             HHHHHHHHHhC
Q 012108          357 LDRAIELIEAM  367 (471)
Q Consensus       357 ~~~A~~~~~~~  367 (471)
                      -+.|..-|+..
T Consensus       131 dd~AR~DFe~A  141 (175)
T KOG4555|consen  131 DDAARADFEAA  141 (175)
T ss_pred             hHHHHHhHHHH
Confidence            66666666544

>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=94.86  E-value=0.016  Score=45.07  Aligned_cols=130  Identities=13%  Similarity=0.104  Sum_probs=84.6

Q ss_pred             HHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHH
Q 012108           14 PLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMD   93 (471)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~   93 (471)
                      ..++..+...+.+....+.++.+...+...+....+.++..|++.++.++..++++....   .-...++..+.+.|.++
T Consensus        11 ~~vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~~---yd~~~~~~~c~~~~l~~   87 (143)
T PF00637_consen   11 SEVISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSNN---YDLDKALRLCEKHGLYE   87 (143)
T ss_dssp             CCCHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSSS---S-CTHHHHHHHTTTSHH
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHcccccc---cCHHHHHHHHHhcchHH
Confidence            456777778889999999999999877667789999999999999988999998884332   33455667777777777


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCC
Q 012108           94 HAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGE  153 (471)
Q Consensus        94 ~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~  153 (471)
                      +|.-++.++...+..     +..+...++++.|.+...+.  .++..|..+++.+...+.
T Consensus        88 ~a~~Ly~~~~~~~~a-----l~i~~~~~~~~~a~e~~~~~--~~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   88 EAVYLYSKLGNHDEA-----LEILHKLKDYEEAIEYAKKV--DDPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             HHHHHHHCCTTHTTC-----SSTSSSTHCSCCCTTTGGGC--SSSHHHHHHHHHHCTSTC
T ss_pred             HHHHHHHHcccHHHH-----HHHHHHHccHHHHHHHHHhc--CcHHHHHHHHHHHHhcCc
Confidence            777766665432110     11122334444444333333  346667777766665544

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.

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=94.83  E-value=0.061  Score=29.96  Aligned_cols=26  Identities=19%  Similarity=0.323  Sum_probs=21.2

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          410 ELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       410 ~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      +|..|+.+|.+.|++++|++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL   26 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQAL   26 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            46788999999999999999998854

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=94.67  E-value=0.95  Score=35.55  Aligned_cols=54  Identities=9%  Similarity=0.056  Sum_probs=26.6

Q ss_pred             HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 012108          179 YLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       179 ~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      +..+|.++++....+-+-..+-+.....-..|.-+..+.|++.+|.+.|..+..
T Consensus       142 LvD~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         142 LVDNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             HhccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            344555555555555444333222223333344444556666666666665544

>PRK09687 putative lyase; Provisional

Probab=94.67  E-value=2.8  Score=36.80  Aligned_cols=78  Identities=17%  Similarity=0.125  Sum_probs=32.2

Q ss_pred             CCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH----HHHHHHHhhc--CCCChhhHHHHHH
Q 012108           73 EKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKI----HSARYIFDKV--PAKDVVSWNSLIL  146 (471)
Q Consensus        73 ~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~----~~a~~~~~~~--~~~~~~~~~~l~~  146 (471)
                      ++|.......+.++...|..+-...+..-+..+|+..-...+.++.+.|+.    +++...+..+  ..++..+....+.
T Consensus        34 d~d~~vR~~A~~aL~~~~~~~~~~~l~~ll~~~d~~vR~~A~~aLg~lg~~~~~~~~a~~~L~~l~~~D~d~~VR~~A~~  113 (280)
T PRK09687         34 DHNSLKRISSIRVLQLRGGQDVFRLAIELCSSKNPIERDIGADILSQLGMAKRCQDNVFNILNNLALEDKSACVRASAIN  113 (280)
T ss_pred             CCCHHHHHHHHHHHHhcCcchHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHhcCCCHHHHHHHHH
Confidence            344444444444444444322222222222233444444555555555542    2344444433  2344444444444


Q ss_pred             HHHh
Q 012108          147 AYTN  150 (471)
Q Consensus       147 ~~~~  150 (471)
                      +++.
T Consensus       114 aLG~  117 (280)
T PRK09687        114 ATGH  117 (280)
T ss_pred             HHhc
Confidence            4433

>COG4105 ComL DNA uptake lipoprotein [General function prediction only]

Probab=94.60  E-value=2.5  Score=35.81  Aligned_cols=74  Identities=8%  Similarity=-0.042  Sum_probs=41.4

Q ss_pred             HHHHhcCCHHHHHHHHHHHHhCCC--CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 012108          177 TGYLRSQLYIEVVDLFDEMKAGNV--KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYA  250 (471)
Q Consensus       177 ~~~~~~~~~~~a~~~~~~m~~~g~--~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  250 (471)
                      ..-.+.|++++|.+.|+.+...-.  +-...+...++.++.+.++.+.|....++...........-|...+.+++
T Consensus        42 ~~~L~~gn~~~A~~~fe~l~~~~p~s~~~~qa~l~l~yA~Yk~~~y~~A~~~~drFi~lyP~~~n~dY~~YlkgLs  117 (254)
T COG4105          42 LTELQKGNYEEAIKYFEALDSRHPFSPYSEQAQLDLAYAYYKNGEYDLALAYIDRFIRLYPTHPNADYAYYLKGLS  117 (254)
T ss_pred             HHHHhcCCHHHHHHHHHHHHHcCCCCcccHHHHHHHHHHHHhcccHHHHHHHHHHHHHhCCCCCChhHHHHHHHHH
Confidence            344566777777777777765411  11223444455566677777777777777665543333334444555444

>PRK11906 transcriptional regulator; Provisional

Probab=94.59  E-value=3  Score=38.72  Aligned_cols=140  Identities=15%  Similarity=0.109  Sum_probs=94.6

Q ss_pred             ChHHHHHHHhcCC---CCC---hhhHHHHHHHHHhc---------CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 012108          254 SIEQSLEVFYKSQ---VKD---VFCWNAMILGLALH---------GYGYAALKLLGEMNDSCVKADDITFIGLLSACSHA  318 (471)
Q Consensus       254 ~~~~a~~~~~~~~---~~~---~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  318 (471)
                      ..+.|..+|.+..   +-|   ...|..+..++...         ....+|.++-++..+.+ +-|......+..+....
T Consensus       273 ~~~~Al~lf~ra~~~~~ldp~~a~a~~~lA~~h~~~~~~g~~~~~~~~~~a~~~A~rAveld-~~Da~a~~~~g~~~~~~  351 (458)
T PRK11906        273 SIYRAMTIFDRLQNKSDIQTLKTECYCLLAECHMSLALHGKSELELAAQKALELLDYVSDIT-TVDGKILAIMGLITGLS  351 (458)
T ss_pred             HHHHHHHHHHHHhhcccCCcccHHHHHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHhh
Confidence            3567888888876   433   45666665554332         23446667777777764 45777888888877888


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCC-hhHHHHHHHHHhhcCCHHHHHHHHHh-CCCCCCHh---HHHHHHHHHhhcCCchHHH
Q 012108          319 GLVQEGCELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLDRAIELIEA-MPFEPTES---ILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       319 ~~~~~a~~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~-~~~~p~~~---~~~~l~~~~~~~g~~~~a~  393 (471)
                      ++++.|...|++...   +.|| ...|........-.|+.++|.+.+++ +...|...   .....+..|.. ...++|+
T Consensus       352 ~~~~~a~~~f~rA~~---L~Pn~A~~~~~~~~~~~~~G~~~~a~~~i~~alrLsP~~~~~~~~~~~~~~~~~-~~~~~~~  427 (458)
T PRK11906        352 GQAKVSHILFEQAKI---HSTDIASLYYYRALVHFHNEKIEEARICIDKSLQLEPRRRKAVVIKECVDMYVP-NPLKNNI  427 (458)
T ss_pred             cchhhHHHHHHHHhh---cCCccHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCchhhHHHHHHHHHHHHcC-CchhhhH
Confidence            889999999999987   3454 55666666667778999999999998 46666533   33333445544 3567777


Q ss_pred             HHHHH
Q 012108          394 RVAKM  398 (471)
Q Consensus       394 ~~~~~  398 (471)
                      +++-+
T Consensus       428 ~~~~~  432 (458)
T PRK11906        428 KLYYK  432 (458)
T ss_pred             HHHhh
Confidence            77654

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.51  E-value=0.11  Score=28.41  Aligned_cols=30  Identities=13%  Similarity=-0.134  Sum_probs=14.9

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      +|..+..++...|++++|+..|+++++.+|
T Consensus         3 ~~~~~g~~~~~~~~~~~A~~~~~~al~~~p   32 (34)
T PF00515_consen    3 AYYNLGNAYFQLGDYEEALEYYQRALELDP   32 (34)
T ss_dssp             HHHHHHHHHHHTT-HHHHHHHHHHHHHHST
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHCc
Confidence            344445555555555555555555555544

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....

>COG3118 Thioredoxin domain-containing protein [Posttranslational modification, protein turnover, chaperones]

Probab=94.47  E-value=2.9  Score=36.14  Aligned_cols=139  Identities=14%  Similarity=0.094  Sum_probs=82.1

Q ss_pred             HHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC----hhhHHHHHHHHHhcCChHH
Q 012108          213 ACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD----VFCWNAMILGLALHGYGYA  288 (471)
Q Consensus       213 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~  288 (471)
                      .....|++..|...|....... +-+......+..+|...|+.+.|..++..+....    .....+-+..+.+.....+
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            3456778888888888877764 4445666678888888888888888888776531    1122233444555555555


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH-hcCCCCChhHHHHHHHHHhhcC
Q 012108          289 ALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK-DFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       289 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                      ...+-.+.-..  +-|...-..+...+...|+.+.|.+.+-.+.+ +.+. -|...-..|++.+.-.|
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--PDDVEAALALADQLHLVGRNEAALEHLLALLRRDRGF-EDGEARKTLLELFEAFG  286 (304)
T ss_pred             HHHHHHHHHhC--CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhcccc-cCcHHHHHHHHHHHhcC
Confidence            55544444432  22555566677777778888887765554444 2222 23334444444444333

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.40  E-value=0.12  Score=28.06  Aligned_cols=26  Identities=19%  Similarity=0.299  Sum_probs=11.8

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          411 LMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       411 ~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      +..++.+|.+.|++++|++.+++..+
T Consensus         4 ~~~lg~~~~~~~~~~~A~~~~~~al~   29 (34)
T PF07719_consen    4 WYYLGQAYYQLGNYEEAIEYFEKALE   29 (34)
T ss_dssp             HHHHHHHHHHTT-HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            34444444444444444444444443

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.39  E-value=1.8  Score=40.34  Aligned_cols=60  Identities=7%  Similarity=-0.063  Sum_probs=33.2

Q ss_pred             HHHHHHHhhcCCchHHHHHHHHHHHcCCCC-CchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          377 GALLSACVIHQDLEIGDRVAKMVCAKSNYL-SDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       377 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ..+..++.+.|+.++|++.++++.+..|.. +..+...|+.++...+.+.++..++.+-.+
T Consensus       263 rRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  263 RRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             HHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            334445555666666666666665554431 233445566666666666666666665533

The molecular function of this protein is uncertain.

>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=94.34  E-value=1.2  Score=35.95  Aligned_cols=97  Identities=13%  Similarity=0.044  Sum_probs=59.4

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHH--H
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD--ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG--C  346 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~--~  346 (471)
                      ..+..+...|++.|+.+.|.+.|.++.+....+..  ..+..+++.....+++..+...+.++........+...-+  .
T Consensus        37 ~~~~~l~~~~~~~Gd~~~A~k~y~~~~~~~~~~~~~id~~l~~irv~i~~~d~~~v~~~i~ka~~~~~~~~d~~~~nrlk  116 (177)
T PF10602_consen   37 MALEDLADHYCKIGDLEEALKAYSRARDYCTSPGHKIDMCLNVIRVAIFFGDWSHVEKYIEKAESLIEKGGDWERRNRLK  116 (177)
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhccchHHHHHHHH
Confidence            34666777778888888888888887776444433  3456677777778888888887777766211111111111  1


Q ss_pred             HHH--HHhhcCCHHHHHHHHHhC
Q 012108          347 MVD--LLGRARLLDRAIELIEAM  367 (471)
Q Consensus       347 l~~--~~~~~g~~~~A~~~~~~~  367 (471)
                      ...  .+...+++.+|-+.|-+.
T Consensus       117 ~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  117 VYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHhchHHHHHHHHHcc
Confidence            111  123467888888777666

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.

>KOG3941 consensus Intermediate in Toll signal transduction pathway (ECSIT) [Signal transduction mechanisms]

Probab=94.21  E-value=0.62  Score=39.65  Aligned_cols=97  Identities=19%  Similarity=0.156  Sum_probs=67.6

Q ss_pred             HHHhcCC--CCChhhHHHHHHHHHh-----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC-------------
Q 012108          260 EVFYKSQ--VKDVFCWNAMILGLAL-----HGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAG-------------  319 (471)
Q Consensus       260 ~~~~~~~--~~~~~~~~~l~~~~~~-----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~-------------  319 (471)
                      ..|..+.  ++|-.+|...+..+..     .+..+-....++.|.+-|+.-|..+|+.|++.+-+..             
T Consensus        55 ~~F~aa~~~~RdK~sfl~~V~~F~E~sVr~R~HveFIy~ALk~m~eyGVerDl~vYk~LlnvfPKgkfiP~nvfQ~~F~H  134 (406)
T KOG3941|consen   55 KQFEAAEPEKRDKDSFLAAVATFKEKSVRGRTHVEFIYTALKYMKEYGVERDLDVYKGLLNVFPKGKFIPQNVFQKVFLH  134 (406)
T ss_pred             hhhhccCcccccHHHHHHHHHHHHHhhhcccchHHHHHHHHHHHHHhcchhhHHHHHHHHHhCcccccccHHHHHHHHhh
Confidence            3444444  3466667666666653     3556666677778888888888888888887665421             


Q ss_pred             ---cHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCH
Q 012108          320 ---LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL  357 (471)
Q Consensus       320 ---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  357 (471)
                         +-+-+++++++|.. +|+.||..+-..|+.++.+.+..
T Consensus       135 YP~QQ~C~I~vLeqME~-hGVmPdkE~e~~lvn~FGr~~~p  174 (406)
T KOG3941|consen  135 YPQQQNCAIKVLEQMEW-HGVMPDKEIEDILVNAFGRWNFP  174 (406)
T ss_pred             CchhhhHHHHHHHHHHH-cCCCCchHHHHHHHHHhcccccc
Confidence               23346788888887 78888888888888888877654

>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.16  E-value=0.1  Score=28.43  Aligned_cols=32  Identities=9%  Similarity=-0.209  Sum_probs=27.8

Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ..+..+...+...|++++|++.++++++..|+
T Consensus         2 ~~~~~lg~~~~~~~~~~~A~~~~~~al~l~p~   33 (34)
T PF07719_consen    2 EAWYYLGQAYYQLGNYEEAIEYFEKALELDPN   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHCcC
Confidence            45777889999999999999999999999886

It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....

>PF04184 ST7: ST7 protein; InterPro: IPR007311 The ST7 (for suppression of tumorigenicity 7) protein is thought to be a tumour suppressor gene

Probab=94.14  E-value=5  Score=37.53  Aligned_cols=142  Identities=11%  Similarity=0.058  Sum_probs=71.7

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH--HhcCChHH
Q 012108          180 LRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMY--AKCGSIEQ  257 (471)
Q Consensus       180 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~~~~~~  257 (471)
                      -+..+++.-.+.-++.++  +.||..+.-+++ +--......++.+++++..+.|- .   .+   ....  ...|..-+
T Consensus       179 WRERnp~aRIkaA~eALe--i~pdCAdAYILL-AEEeA~Ti~Eae~l~rqAvkAgE-~---~l---g~s~~~~~~g~~~e  248 (539)
T PF04184_consen  179 WRERNPQARIKAAKEALE--INPDCADAYILL-AEEEASTIVEAEELLRQAVKAGE-A---SL---GKSQFLQHHGHFWE  248 (539)
T ss_pred             HhcCCHHHHHHHHHHHHH--hhhhhhHHHhhc-ccccccCHHHHHHHHHHHHHHHH-H---hh---chhhhhhcccchhh
Confidence            344455555555555544  345554433322 22234557788888888776541 0   00   0000  00111000


Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          258 SLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       258 a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      .  ...+-..+-..+-..+..++.+.|+.++|++.+.+|.+..... .......|+.++...+.+.++..++.+-.+
T Consensus       249 ~--~~~Rdt~~~~y~KrRLAmCarklGr~~EAIk~~rdLlke~p~~~~l~IrenLie~LLelq~Yad~q~lL~kYdD  323 (539)
T PF04184_consen  249 A--WHRRDTNVLVYAKRRLAMCARKLGRLREAIKMFRDLLKEFPNLDNLNIRENLIEALLELQAYADVQALLAKYDD  323 (539)
T ss_pred             h--hhccccchhhhhHHHHHHHHHHhCChHHHHHHHHHHHhhCCccchhhHHHHHHHHHHhcCCHHHHHHHHHHhcc
Confidence            0  0111111112233445566667788888888888876542111 223556677888888888888888777643

The molecular function of this protein is uncertain.

>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=94.11  E-value=1.1  Score=35.53  Aligned_cols=129  Identities=9%  Similarity=0.023  Sum_probs=66.7

Q ss_pred             HHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCC--CHHHHHHHHhcCCCCChh
Q 012108           31 MLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCG--QMDHAMKLIDLMPLKDVT  108 (471)
Q Consensus        31 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g--~~~~A~~~~~~~~~~~~~  108 (471)
                      +....+.+.+++|+...+..++..+.+.|++..-..+++--.-+|.......+-.+....  -..-|++++.++.    .
T Consensus        15 EYirSl~~~~i~~~~~L~~lli~lLi~~~~~~~L~qllq~~Vi~DSk~lA~~LLs~~~~~~~~~Ql~lDMLkRL~----~   90 (167)
T PF07035_consen   15 EYIRSLNQHNIPVQHELYELLIDLLIRNGQFSQLHQLLQYHVIPDSKPLACQLLSLGNQYPPAYQLGLDMLKRLG----T   90 (167)
T ss_pred             HHHHHHHHcCCCCCHHHHHHHHHHHHHcCCHHHHHHHHhhcccCCcHHHHHHHHHhHccChHHHHHHHHHHHHhh----h
Confidence            334444556666777777777777777777666666665433333322222221111110  1233444444443    1


Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHh
Q 012108          109 SFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKK  163 (471)
Q Consensus       109 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  163 (471)
                      .+..++..+...|++-+|.++.+.....+......++++..+.+|...=..+|+-
T Consensus        91 ~~~~iievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~~lf~~V~~f  145 (167)
T PF07035_consen   91 AYEEIIEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDDQLFYAVFRF  145 (167)
T ss_pred             hHHHHHHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCHHHHHHHHHH
Confidence            2445566666777777777776665444444445556666666655444444433

>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]

Probab=94.06  E-value=0.11  Score=28.43  Aligned_cols=32  Identities=19%  Similarity=0.192  Sum_probs=27.5

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          409 GELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      .+|..++.+|...|++++|+..+++..+.++.
T Consensus         2 ~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~   33 (34)
T PF00515_consen    2 EAYYNLGNAYFQLGDYEEALEYYQRALELDPD   33 (34)
T ss_dssp             HHHHHHHHHHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHhCCchHHHHHHHHHHHHCcC
Confidence            57889999999999999999999999887653

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 ....

>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=93.97  E-value=4.1  Score=35.87  Aligned_cols=18  Identities=0%  Similarity=-0.121  Sum_probs=11.5

Q ss_pred             HhhcCCchHHHHHHHHHH
Q 012108          383 CVIHQDLEIGDRVAKMVC  400 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~  400 (471)
                      +.+.++++.|.+.++-..
T Consensus       256 ~~~~k~y~~A~~w~~~al  273 (278)
T PF08631_consen  256 HYKAKNYDEAIEWYELAL  273 (278)
T ss_pred             HHhhcCHHHHHHHHHHHH
Confidence            446677777777776443

It is also involved in sporulation [].

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=93.86  E-value=2.1  Score=34.48  Aligned_cols=88  Identities=8%  Similarity=-0.031  Sum_probs=39.4

Q ss_pred             HHHhccCcHHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHhhcCCHHHHHHHHHhCCCC-CCHhHHHHHHHHHhhcC
Q 012108          313 SACSHAGLVQEGCELFSRMEKDFGVTRK----LEHYGCMVDLLGRARLLDRAIELIEAMPFE-PTESILGALLSACVIHQ  387 (471)
Q Consensus       313 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~-p~~~~~~~l~~~~~~~g  387 (471)
                      ..+...+++++|...++.....   +.|    ...-..|.......|.+++|+.+++....+ -.......-...+...|
T Consensus        97 k~~ve~~~~d~A~aqL~~~l~~---t~De~lk~l~~lRLArvq~q~~k~D~AL~~L~t~~~~~w~~~~~elrGDill~kg  173 (207)
T COG2976          97 KAEVEANNLDKAEAQLKQALAQ---TKDENLKALAALRLARVQLQQKKADAALKTLDTIKEESWAAIVAELRGDILLAKG  173 (207)
T ss_pred             HHHHhhccHHHHHHHHHHHHcc---chhHHHHHHHHHHHHHHHHHhhhHHHHHHHHhccccccHHHHHHHHhhhHHHHcC
Confidence            3445556666666555555431   111    111122333444555555555555544211 11222233334455555


Q ss_pred             CchHHHHHHHHHHHcC
Q 012108          388 DLEIGDRVAKMVCAKS  403 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~  403 (471)
                      +-++|..-|++.++.+
T Consensus       174 ~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         174 DKQEARAAYEKALESD  189 (207)
T ss_pred             chHHHHHHHHHHHHcc
Confidence            5555555555555544

>PF02259 FAT: FAT domain; InterPro: IPR003151 The FAT domain is a domain present in the PIK-related kinases

Probab=93.75  E-value=5.4  Score=36.50  Aligned_cols=148  Identities=10%  Similarity=-0.091  Sum_probs=79.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC---CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC--hhH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKA---DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK--LEH  343 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~  343 (471)
                      ...+|..++..+.+.|.++.|...+.++...+...   ++.....-+...-..|+..+|...++...+. ....+  ...
T Consensus       145 ~~~~~l~~a~~aRk~g~~~~A~~~l~~~~~~~~~~~~~~~~v~~e~akllw~~g~~~~Ai~~L~~~~~~-~~~~~~~~~~  223 (352)
T PF02259_consen  145 LAETWLKFAKLARKAGNFQLALSALNRLFQLNPSSESLLPRVFLEYAKLLWAQGEQEEAIQKLRELLKC-RLSKNIDSIS  223 (352)
T ss_pred             HHHHHHHHHHHHHHCCCcHHHHHHHHHHhccCCcccCCCcchHHHHHHHHHHcCCHHHHHHHHHHHHHH-Hhhhcccccc
Confidence            44677788888888888888888888877643211   2334444455666778888888888777761 11111  111


Q ss_pred             HHHHHHHHhhcCCHHHHHHHH-HhCCCCCCHhHHHHHHHHHhhc------CCchHHHHHHHHHHHcCCCCCchhHHHHHH
Q 012108          344 YGCMVDLLGRARLLDRAIELI-EAMPFEPTESILGALLSACVIH------QDLEIGDRVAKMVCAKSNYLSDGELMMFAN  416 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~~~~~l~~~~~~~------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  416 (471)
                      ...+...+..  ..+.....- .......-...+..+..-+...      +..+++...|+.+.+..|. ....|..++.
T Consensus       224 ~~~~~~~~~~--~~~~~~~~~~~~~~~~~~a~~~l~~a~w~~~~~~~~~~~~~~~~~~~~~~a~~~~~~-~~k~~~~~a~  300 (352)
T PF02259_consen  224 NAELKSGLLE--SLEVISSTNLDKESKELKAKAFLLLAKWLDELYSKLSSESSDEILKYYKEATKLDPS-WEKAWHSWAL  300 (352)
T ss_pred             HHHHhhcccc--ccccccccchhhhhHHHHHHHHHHHHHHHHhhccccccccHHHHHHHHHHHHHhChh-HHHHHHHHHH
Confidence            1111111100  000000000 0000000112233333333333      7788888888888888887 6777777776


Q ss_pred             HHHh
Q 012108          417 LYAS  420 (471)
Q Consensus       417 ~~~~  420 (471)
                      .+.+
T Consensus       301 ~~~~  304 (352)
T PF02259_consen  301 FNDK  304 (352)
T ss_pred             HHHH
Confidence            6554

Members of the family of PIK-related kinases may act as intracellular sensors that govern radial and horizontal pathways [].; GO: 0005515 protein binding

>PF13176 TPR_7: Tetratricopeptide repeat; PDB: 3SF4_C 3RO3_A 3RO2_A

Probab=93.68  E-value=0.065  Score=29.86  Aligned_cols=28  Identities=18%  Similarity=-0.035  Sum_probs=20.7

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHc
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAK  402 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~  402 (471)
                      +|..|...|.+.|++++|++++++++..
T Consensus         1 al~~Lg~~~~~~g~~~~Ai~~y~~aL~l   28 (36)
T PF13176_consen    1 ALNNLGRIYRQQGDYEKAIEYYEQALAL   28 (36)
T ss_dssp             HHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4667888888888888888888885543

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=93.16  E-value=0.26  Score=42.98  Aligned_cols=93  Identities=11%  Similarity=-0.107  Sum_probs=67.5

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC-C-CCCHhHHHHHHHHHhhcCC
Q 012108          311 LLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMP-F-EPTESILGALLSACVIHQD  388 (471)
Q Consensus       311 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~-~-~p~~~~~~~l~~~~~~~g~  388 (471)
                      -.+-|.++|.+++|+..|.....  -.+.++.++..-..+|.+..++..|+.-....- + ..-...|..-+.+-...|.
T Consensus       103 ~GN~yFKQgKy~EAIDCYs~~ia--~~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~AiaLd~~Y~KAYSRR~~AR~~Lg~  180 (536)
T KOG4648|consen  103 RGNTYFKQGKYEEAIDCYSTAIA--VYPHNPVYHINRALAYLKQKSFAQAEEDCEAAIALDKLYVKAYSRRMQARESLGN  180 (536)
T ss_pred             hhhhhhhccchhHHHHHhhhhhc--cCCCCccchhhHHHHHHHHHHHHHHHHhHHHHHHhhHHHHHHHHHHHHHHHHHhh
Confidence            45568889999999999988876  333488888888889999988888776665541 1 1223345555555556678


Q ss_pred             chHHHHHHHHHHHcCCC
Q 012108          389 LEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~  405 (471)
                      ..+|.+-++.++++.|.
T Consensus       181 ~~EAKkD~E~vL~LEP~  197 (536)
T KOG4648|consen  181 NMEAKKDCETVLALEPK  197 (536)
T ss_pred             HHHHHHhHHHHHhhCcc
Confidence            88888888888888887

>PF07035 Mic1: Colon cancer-associated protein Mic1-like; InterPro: IPR009755 This entry represents the C terminus (approximately 160 residues) of a number of proteins that resemble colon cancer-associated protein Mic1

Probab=92.82  E-value=4  Score=32.35  Aligned_cols=115  Identities=12%  Similarity=0.046  Sum_probs=51.9

Q ss_pred             ccCCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHH
Q 012108            3 ELGVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSM   82 (471)
Q Consensus         3 ~~g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l   82 (471)
                      +.|++|+...|..+++.+.+.|.+....++    +..++-+|.......+-.+.  +....+.++=-+|.++-...+..+
T Consensus        22 ~~~i~~~~~L~~lli~lLi~~~~~~~L~ql----lq~~Vi~DSk~lA~~LLs~~--~~~~~~~Ql~lDMLkRL~~~~~~i   95 (167)
T PF07035_consen   22 QHNIPVQHELYELLIDLLIRNGQFSQLHQL----LQYHVIPDSKPLACQLLSLG--NQYPPAYQLGLDMLKRLGTAYEEI   95 (167)
T ss_pred             HcCCCCCHHHHHHHHHHHHHcCCHHHHHHH----HhhcccCCcHHHHHHHHHhH--ccChHHHHHHHHHHHHhhhhHHHH
Confidence            345666666666666666666655433333    23333333322222221111  122222222222222222244555


Q ss_pred             HHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH
Q 012108           83 LDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKI  123 (471)
Q Consensus        83 i~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~  123 (471)
                      +..+...|++-+|+++.++....+......++.+..+.++.
T Consensus        96 ievLL~~g~vl~ALr~ar~~~~~~~~~~~~fLeAA~~~~D~  136 (167)
T PF07035_consen   96 IEVLLSKGQVLEALRYARQYHKVDSVPARKFLEAAANSNDD  136 (167)
T ss_pred             HHHHHhCCCHHHHHHHHHHcCCcccCCHHHHHHHHHHcCCH
Confidence            56666666666666666654433333334445555444443

>KOG1920 consensus IkappaB kinase complex, IKAP component [Transcription]

Probab=92.81  E-value=14  Score=38.62  Aligned_cols=141  Identities=16%  Similarity=0.112  Sum_probs=75.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 012108          242 TTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLV  321 (471)
Q Consensus       242 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  321 (471)
                      |.-.++.-.+.|-+++|+.++.--.+.-...|.+....+...+.+++|.-.|+..-+         ..-.+.+|...|+|
T Consensus       911 ~~e~~n~I~kh~Ly~~aL~ly~~~~e~~k~i~~~ya~hL~~~~~~~~Aal~Ye~~Gk---------lekAl~a~~~~~dW  981 (1265)
T KOG1920|consen  911 FPECKNYIKKHGLYDEALALYKPDSEKQKVIYEAYADHLREELMSDEAALMYERCGK---------LEKALKAYKECGDW  981 (1265)
T ss_pred             cHHHHHHHHhcccchhhhheeccCHHHHHHHHHHHHHHHHHhccccHHHHHHHHhcc---------HHHHHHHHHHhccH
Confidence            333444444556666666655444333444555556666666667776666655432         12244566667777


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHH
Q 012108          322 QEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKM  398 (471)
Q Consensus       322 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  398 (471)
                      .+|..+..++..  +-.--..+-..|+..+...+++-+|-++..+....|..     .+..+++...+++|.++...
T Consensus       982 r~~l~~a~ql~~--~~de~~~~a~~L~s~L~e~~kh~eAa~il~e~~sd~~~-----av~ll~ka~~~~eAlrva~~ 1051 (1265)
T KOG1920|consen  982 REALSLAAQLSE--GKDELVILAEELVSRLVEQRKHYEAAKILLEYLSDPEE-----AVALLCKAKEWEEALRVASK 1051 (1265)
T ss_pred             HHHHHHHHhhcC--CHHHHHHHHHHHHHHHHHcccchhHHHHHHHHhcCHHH-----HHHHHhhHhHHHHHHHHHHh
Confidence            777777666654  11111222355666667777777777777666433321     12223444455555555443

>COG2909 MalT ATP-dependent transcriptional regulator [Transcription]

Probab=92.77  E-value=12  Score=37.76  Aligned_cols=194  Identities=12%  Similarity=0.022  Sum_probs=105.5

Q ss_pred             HHHhcCChHHHHHHHhcCC----CCCh-------hhHHHHHH-HHHhcCChHHHHHHHHHHHhC----CCCCCHHHHHHH
Q 012108          248 MYAKCGSIEQSLEVFYKSQ----VKDV-------FCWNAMIL-GLALHGYGYAALKLLGEMNDS----CVKADDITFIGL  311 (471)
Q Consensus       248 ~~~~~~~~~~a~~~~~~~~----~~~~-------~~~~~l~~-~~~~~~~~~~a~~~~~~~~~~----~~~p~~~~~~~l  311 (471)
                      ......++++|..++.+..    .++.       ..|+++-. .....|+++.|.++.+.....    -..+....+..+
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            3445678888887776533    2221       24554433 234578889998888877654    122344556666


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHH---HHH--HHHhhcCCHHHH--HHHHHhC-----CCC----CCHhH
Q 012108          312 LSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG---CMV--DLLGRARLLDRA--IELIEAM-----PFE----PTESI  375 (471)
Q Consensus       312 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~---~l~--~~~~~~g~~~~A--~~~~~~~-----~~~----p~~~~  375 (471)
                      ..+..-.|++++|..+.+...+ ..-.-+...+.   .+.  ..+...|+...+  ...|...     +-+    +-..+
T Consensus       504 ~~a~~~~G~~~~Al~~~~~a~~-~a~~~~~~~l~~~~~~~~s~il~~qGq~~~a~~~~~~~~~~~q~l~q~~~~~f~~~~  582 (894)
T COG2909         504 GEAAHIRGELTQALALMQQAEQ-MARQHDVYHLALWSLLQQSEILEAQGQVARAEQEKAFNLIREQHLEQKPRHEFLVRI  582 (894)
T ss_pred             hHHHHHhchHHHHHHHHHHHHH-HHHHcccHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHHHHHHhhhcccchhHHHH
Confidence            7777778999999888777766 22222333332   222  224455632222  2222222     111    22344


Q ss_pred             HHHHHHHHhh-cCCchHHHHHHHHHHHcCCCCCchhHH--HHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          376 LGALLSACVI-HQDLEIGDRVAKMVCAKSNYLSDGELM--MFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       376 ~~~l~~~~~~-~g~~~~a~~~~~~~~~~~~~~~~~~~~--~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ...+..++.+ .+...++..-++-.....+.|-...+.  .|+.++...|+.++|...++++......+.
T Consensus       583 r~~ll~~~~r~~~~~~ear~~~~~~~~~~~~~~~~~~~~~~LA~l~~~~Gdl~~A~~~l~~~~~l~~~~~  652 (894)
T COG2909         583 RAQLLRAWLRLDLAEAEARLGIEVGSVYTPQPLLSRLALSMLAELEFLRGDLDKALAQLDELERLLLNGQ  652 (894)
T ss_pred             HHHHHHHHHHHhhhhHHhhhcchhhhhcccchhHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHhcCCC
Confidence            5555555544 222333333333333334443222333  678888889999999998888876554443

>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=92.49  E-value=1.6  Score=35.26  Aligned_cols=94  Identities=7%  Similarity=-0.076  Sum_probs=54.5

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhCC---CCC--CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC-chhHH--
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAMP---FEP--TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS-DGELM--  412 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~---~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~--  412 (471)
                      ...+..+...|.+.|+.++|.+.|.++.   ..+  -...+..++......+++..+.....++...-..+. ...-+  
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            3456666777777777777777777762   112  233556666777777777777777766654422211 11111  


Q ss_pred             --HHHHHHHhcCCHHHHHHHHHHh
Q 012108          413 --MFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       413 --~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                        .-+-.+...|++..|-+.|-..
T Consensus       116 k~~~gL~~l~~r~f~~AA~~fl~~  139 (177)
T PF10602_consen  116 KVYEGLANLAQRDFKEAAELFLDS  139 (177)
T ss_pred             HHHHHHHHHHhchHHHHHHHHHcc
Confidence              1222344567888887777655

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.

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=92.17  E-value=1.2  Score=34.02  Aligned_cols=82  Identities=13%  Similarity=0.188  Sum_probs=56.9

Q ss_pred             hhHHHHHHHHH---hhcCCHHHHHHHHHhC-CCCCC---HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHH
Q 012108          341 LEHYGCMVDLL---GRARLLDRAIELIEAM-PFEPT---ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMM  413 (471)
Q Consensus       341 ~~~~~~l~~~~---~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~  413 (471)
                      ....+.|++..   ...++++++..++..+ .+.|.   ..++...+  +...|++.+|.++|+...+..+. .+..-..
T Consensus         7 ~~iv~gLi~~~~~aL~~~d~~D~e~lLdALrvLrP~~~e~d~~dg~l--~i~rg~w~eA~rvlr~l~~~~~~-~p~~kAL   83 (153)
T TIGR02561         7 NRLLGGLIEVLMYALRSADPYDAQAMLDALRVLRPNLKELDMFDGWL--LIARGNYDEAARILRELLSSAGA-PPYGKAL   83 (153)
T ss_pred             HHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCccccchhHHHH--HHHcCCHHHHHHHHHhhhccCCC-chHHHHH
Confidence            34455555544   4578999999999888 34454   44554444  67899999999999999888776 4555555


Q ss_pred             HHHHHHhcCCHH
Q 012108          414 FANLYASCGQWE  425 (471)
Q Consensus       414 l~~~~~~~g~~~  425 (471)
                      +..++.-.|+.+
T Consensus        84 ~A~CL~al~Dp~   95 (153)
T TIGR02561        84 LALCLNAKGDAE   95 (153)
T ss_pred             HHHHHHhcCChH
Confidence            666666777754

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>PF13431 TPR_17: Tetratricopeptide repeat

Probab=92.14  E-value=0.28  Score=26.84  Aligned_cols=31  Identities=23%  Similarity=0.359  Sum_probs=19.2

Q ss_pred             HHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 012108          228 VYATDNGLASNPHATTALIDMYAKCGSIEQSL  259 (471)
Q Consensus       228 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  259 (471)
                      ++.++.. |.++..|..+...|...|++++|+
T Consensus         3 ~kAie~~-P~n~~a~~nla~~~~~~g~~~~A~   33 (34)
T PF13431_consen    3 KKAIELN-PNNAEAYNNLANLYLNQGDYEEAI   33 (34)
T ss_pred             HHHHHHC-CCCHHHHHHHHHHHHHCcCHHhhc
Confidence            3444443 556666777777777777776664

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=92.05  E-value=1.5  Score=34.20  Aligned_cols=99  Identities=16%  Similarity=0.095  Sum_probs=65.4

Q ss_pred             hhHHHHHHHHH---hhcCCHHHHHHHHHhC-CCCCCHhHHHH-HHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHH
Q 012108          341 LEHYGCMVDLL---GRARLLDRAIELIEAM-PFEPTESILGA-LLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFA  415 (471)
Q Consensus       341 ~~~~~~l~~~~---~~~g~~~~A~~~~~~~-~~~p~~~~~~~-l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  415 (471)
                      ..+.+.|+...   .+.++.+++..++..+ ...|....... -...+...|++.+|.++|+.+.+..|. .+..-..++
T Consensus         7 ~~iv~gLie~~~~al~~~~~~D~e~lL~ALrvLRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~-~p~~kALlA   85 (160)
T PF09613_consen    7 DEIVGGLIEVLSVALRLGDPDDAEALLDALRVLRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPG-FPYAKALLA   85 (160)
T ss_pred             HHHHHHHHHHHHHHHccCChHHHHHHHHHHHHhCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCC-ChHHHHHHH
Confidence            34455565554   5778999999999988 34555433322 233367899999999999999888877 666666677


Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          416 NLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       416 ~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      .++...|+.+- ..+-+++.+.+..+
T Consensus        86 ~CL~~~~D~~W-r~~A~evle~~~d~  110 (160)
T PF09613_consen   86 LCLYALGDPSW-RRYADEVLESGADP  110 (160)
T ss_pred             HHHHHcCChHH-HHHHHHHHhcCCCh
Confidence            77777777542 12224455555443

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=91.83  E-value=8.8  Score=34.02  Aligned_cols=136  Identities=9%  Similarity=0.107  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc--cC----cHHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHhhcCCHH
Q 012108          287 YAALKLLGEMNDSCVKADDITFIGLLSACSH--AG----LVQEGCELFSRMEKDFGVTR--KLEHYGCMVDLLGRARLLD  358 (471)
Q Consensus       287 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~  358 (471)
                      ++.+.+++.|.+.|..-+..+|.+.......  ..    ...++..+|+.|++.+.+-.  +-..+..++..  ..++.+
T Consensus        79 ~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H~fLTs~~D~~~a~lLA~--~~~~~e  156 (297)
T PF13170_consen   79 KEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKHPFLTSPEDYPFAALLAM--TSEDVE  156 (297)
T ss_pred             HHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhCccccCccchhHHHHHhc--ccccHH
Confidence            4556677888888877776666553322222  22    35567888888888554433  33344444332  334433


Q ss_pred             ----HHHHHHHhC---CCCC--CHhHHHHHHHHHhhcCC--chHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCH
Q 012108          359 ----RAIELIEAM---PFEP--TESILGALLSACVIHQD--LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQW  424 (471)
Q Consensus       359 ----~A~~~~~~~---~~~p--~~~~~~~l~~~~~~~g~--~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  424 (471)
                          .++.+|+.+   ++..  +......++..+-...+  ..++.++++.+.+.+.++....|..++-.-.-.+..
T Consensus       157 ~l~~~~E~~Y~~L~~~~f~kgn~LQ~LS~iLaL~~~~~~~~v~r~~~l~~~l~~~~~kik~~~yp~lGlLall~~~~  233 (297)
T PF13170_consen  157 ELAERMEQCYQKLADAGFKKGNDLQFLSHILALSEGDDQEKVARVIELYNALKKNGVKIKYMHYPTLGLLALLEDPE  233 (297)
T ss_pred             HHHHHHHHHHHHHHHhCCCCCcHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCccccccccHHHHHHhcCCch
Confidence                344444444   3333  22333333333222222  447788888888888886677776666554444433

>PF08631 SPO22: Meiosis protein SPO22/ZIP4 like; InterPro: IPR013940 SPO22 is a meiosis-specific protein with similarity to phospholipase A2, involved in completion of nuclear divisions during meiosis; induced early in meiosis []

Probab=91.79  E-value=8.6  Score=33.84  Aligned_cols=61  Identities=15%  Similarity=-0.014  Sum_probs=32.3

Q ss_pred             hHHHHHHHHHhcCChH---HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          272 CWNAMILGLALHGYGY---AALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~---~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      +...++.+|...+..+   +|..+++.+.... +-.+..+..-+..+.+.++.+.+.+++.+|..
T Consensus        86 iL~~La~~~l~~~~~~~~~ka~~~l~~l~~e~-~~~~~~~~L~l~il~~~~~~~~~~~~L~~mi~  149 (278)
T PF08631_consen   86 ILRLLANAYLEWDTYESVEKALNALRLLESEY-GNKPEVFLLKLEILLKSFDEEEYEEILMRMIR  149 (278)
T ss_pred             HHHHHHHHHHcCCChHHHHHHHHHHHHHHHhC-CCCcHHHHHHHHHHhccCChhHHHHHHHHHHH
Confidence            3444555555544433   3444555554431 11234444455555556777777777777776

It is also involved in sporulation [].

>KOG2066 consensus Vacuolar assembly/sorting protein VPS41 [Intracellular trafficking, secretion, and vesicular transport]

Probab=91.56  E-value=16  Score=36.39  Aligned_cols=99  Identities=9%  Similarity=0.141  Sum_probs=50.7

Q ss_pred             HHHHhccCCHhHHHHHhcccCC--C---CcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHH
Q 012108           52 LKMYGSLRCIDDAFKVFEKMPE--K---DIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSA  126 (471)
Q Consensus        52 ~~~~~~~g~~~~A~~~~~~~~~--~---~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a  126 (471)
                      ++.+.+.+.+++|+...+....  +   -...+...|..+...|++++|-...-.|...+..-|...+..++..++....
T Consensus       363 i~Wll~~k~yeeAl~~~k~~~~~~~~~~i~kv~~~yI~HLl~~~~y~~Aas~~p~m~gn~~~eWe~~V~~f~e~~~l~~I  442 (846)
T KOG2066|consen  363 IDWLLEKKKYEEALDAAKASIGNEERFVIKKVGKTYIDHLLFEGKYDEAASLCPKMLGNNAAEWELWVFKFAELDQLTDI  442 (846)
T ss_pred             HHHHHHhhHHHHHHHHHHhccCCccccchHHHHHHHHHHHHhcchHHHHHhhhHHHhcchHHHHHHHHHHhccccccchh
Confidence            3445555666666665554433  1   1234555566666666666666666666655555555555555555555443


Q ss_pred             HHHHhhcCC-CChhhHHHHHHHHHh
Q 012108          127 RYIFDKVPA-KDVVSWNSLILAYTN  150 (471)
Q Consensus       127 ~~~~~~~~~-~~~~~~~~l~~~~~~  150 (471)
                      ..++-.-.+ .++.+|..++..+..
T Consensus       443 a~~lPt~~~rL~p~vYemvLve~L~  467 (846)
T KOG2066|consen  443 APYLPTGPPRLKPLVYEMVLVEFLA  467 (846)
T ss_pred             hccCCCCCcccCchHHHHHHHHHHH
Confidence            333322222 234455554444443

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=91.55  E-value=16  Score=36.44  Aligned_cols=31  Identities=29%  Similarity=0.522  Sum_probs=20.3

Q ss_pred             hhHHHHHHHH-----HhhcCCHHHHHHHHHhCCCCC
Q 012108          341 LEHYGCMVDL-----LGRARLLDRAIELIEAMPFEP  371 (471)
Q Consensus       341 ~~~~~~l~~~-----~~~~g~~~~A~~~~~~~~~~p  371 (471)
                      ..++..|++.     +...|++++|++.++++++-|
T Consensus       500 ~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L~liP  535 (613)
T PF04097_consen  500 RETFQLLLDLAEFFDLYHAGQYEQALDIIEKLDLIP  535 (613)
T ss_dssp             HHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHTT-S-
T ss_pred             HHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhCCCCC
Confidence            4445555443     357899999999999997666

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=91.48  E-value=0.29  Score=26.26  Aligned_cols=27  Identities=22%  Similarity=0.342  Sum_probs=15.7

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          411 LMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       411 ~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      +..++.++.+.|++++|.+.|+++.+.
T Consensus         3 ~~~~a~~~~~~g~~~~A~~~~~~~~~~   29 (33)
T PF13174_consen    3 LYRLARCYYKLGDYDEAIEYFQRLIKR   29 (33)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHH
Confidence            344555666666666666666665543

>COG3629 DnrI DNA-binding transcriptional activator of the SARP family [Signal transduction mechanisms]

Probab=91.43  E-value=3.2  Score=36.00  Aligned_cols=77  Identities=9%  Similarity=0.087  Sum_probs=40.8

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH-----cCCCCchhHHHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATD-----NGLASNPHATTAL  245 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~~~~~l  245 (471)
                      ++..++..+...|+++.+...++++.... +-+...|..++.+|.+.|+...|+..|+.+.+     .|+.|...+...+
T Consensus       155 ~l~~lae~~~~~~~~~~~~~~l~~Li~~d-p~~E~~~~~lm~~y~~~g~~~~ai~~y~~l~~~~~edlgi~P~~~~~~~y  233 (280)
T COG3629         155 ALTKLAEALIACGRADAVIEHLERLIELD-PYDEPAYLRLMEAYLVNGRQSAAIRAYRQLKKTLAEELGIDPAPELRALY  233 (280)
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHcCCchHHHHHHHHHHHHhhhhcCCCccHHHHHHH
Confidence            34445555555555555555555555442 33455555555555555555555555555433     4555655555544


Q ss_pred             HHH
Q 012108          246 IDM  248 (471)
Q Consensus       246 ~~~  248 (471)
                      ...
T Consensus       234 ~~~  236 (280)
T COG3629         234 EEI  236 (280)
T ss_pred             HHH
Confidence            443

>PF09613 HrpB1_HrpK: Bacterial type III secretion protein (HrpB1_HrpK); InterPro: IPR013394 This family of proteins is encoded by genes found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia

Probab=91.24  E-value=6  Score=30.98  Aligned_cols=87  Identities=17%  Similarity=0.049  Sum_probs=41.6

Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCCh-hHHHHHHHHHhhcCCHHHHHHHHHhCC-CCCCHhHHHHHHHHHhhcCCchHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKL-EHYGCMVDLLGRARLLDRAIELIEAMP-FEPTESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p~~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      .+.++.+.+..++..+.-   ..|.. ..-..-...+...|++.+|..+|+++. -.|....-..|+..|....+-..=.
T Consensus        21 l~~~~~~D~e~lL~ALrv---LRP~~~e~~~~~~~l~i~r~~w~dA~rlLr~l~~~~~~~p~~kALlA~CL~~~~D~~Wr   97 (160)
T PF09613_consen   21 LRLGDPDDAEALLDALRV---LRPEFPELDLFDGWLHIVRGDWDDALRLLRELEERAPGFPYAKALLALCLYALGDPSWR   97 (160)
T ss_pred             HccCChHHHHHHHHHHHH---hCCCchHHHHHHHHHHHHhCCHHHHHHHHHHHhccCCCChHHHHHHHHHHHHcCChHHH
Confidence            455566666666666654   23321 111122233456667777777776662 2233333344444444433333333


Q ss_pred             HHHHHHHHcCCC
Q 012108          394 RVAKMVCAKSNY  405 (471)
Q Consensus       394 ~~~~~~~~~~~~  405 (471)
                      ..-+++.+.+++
T Consensus        98 ~~A~evle~~~d  109 (160)
T PF09613_consen   98 RYADEVLESGAD  109 (160)
T ss_pred             HHHHHHHhcCCC
Confidence            344455555544

>PF00637 Clathrin: Region in Clathrin and VPS; InterPro: IPR000547 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment

Probab=91.22  E-value=0.29  Score=37.97  Aligned_cols=128  Identities=10%  Similarity=-0.028  Sum_probs=82.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC
Q 012108          276 MILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                      ++..+.+.+.+.....+++.+...+...+....+.++..|++.+..+....+++...   .     .-...++..+.+.|
T Consensus        13 vi~~~~~~~~~~~l~~yLe~~~~~~~~~~~~~~~~L~~ly~~~~~~~~l~~~L~~~~---~-----yd~~~~~~~c~~~~   84 (143)
T PF00637_consen   13 VISAFEERNQPEELIEYLEALVKENKENNPDLHTLLLELYIKYDPYEKLLEFLKTSN---N-----YDLDKALRLCEKHG   84 (143)
T ss_dssp             CHHHCTTTT-GGGCTCCHHHHHHTSTC-SHHHHHHHHHHHHCTTTCCHHHHTTTSSS---S-----S-CTHHHHHHHTTT
T ss_pred             HHHHHHhCCCHHHHHHHHHHHHhcccccCHHHHHHHHHHHHhcCCchHHHHHccccc---c-----cCHHHHHHHHHhcc
Confidence            455666677888888888888877656667888888999998877777766666111   1     22334667778888


Q ss_pred             CHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          356 LLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       356 ~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      .+++|.-++.+++.......      .+...++++.|.+.+.+     .. ++..|..++..+...+.
T Consensus        85 l~~~a~~Ly~~~~~~~~al~------i~~~~~~~~~a~e~~~~-----~~-~~~l~~~l~~~~l~~~~  140 (143)
T PF00637_consen   85 LYEEAVYLYSKLGNHDEALE------ILHKLKDYEEAIEYAKK-----VD-DPELWEQLLKYCLDSKP  140 (143)
T ss_dssp             SHHHHHHHHHCCTTHTTCSS------TSSSTHCSCCCTTTGGG-----CS-SSHHHHHHHHHHCTSTC
T ss_pred             hHHHHHHHHHHcccHHHHHH------HHHHHccHHHHHHHHHh-----cC-cHHHHHHHHHHHHhcCc
Confidence            88888888888752222111      13355666666644332     22 57777777777766554

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.

>PF07721 TPR_4: Tetratricopeptide repeat; InterPro: IPR011717 This entry includes tetratricopeptide-like repeats not detected by the IPR001440 from INTERPRO, IPR013105 from INTERPRO and IPR011716 from INTERPRO models

Probab=91.13  E-value=0.43  Score=24.14  Aligned_cols=23  Identities=22%  Similarity=0.221  Sum_probs=16.6

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHH
Q 012108          410 ELMMFANLYASCGQWEEANRWRN  432 (471)
Q Consensus       410 ~~~~l~~~~~~~g~~~~A~~~~~  432 (471)
                      ....++.++...|++++|.++++
T Consensus         3 a~~~la~~~~~~G~~~eA~~~l~   25 (26)
T PF07721_consen    3 ARLALARALLAQGDPDEAERLLR   25 (26)
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHh
Confidence            45567777777888888777765

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

>KOG1586 consensus Protein required for fusion of vesicles in vesicular transport, alpha-SNAP [Intracellular trafficking, secretion, and vesicular transport]

Probab=90.98  E-value=8.4  Score=32.20  Aligned_cols=18  Identities=17%  Similarity=0.065  Sum_probs=11.9

Q ss_pred             HHHccCChHHHHHHHHHH
Q 012108          213 ACANLGSLETGARIHVYA  230 (471)
Q Consensus       213 ~~~~~~~~~~a~~~~~~~  230 (471)
                      .+...+++++|.+++.+.
T Consensus        23 lfgg~~k~eeAadl~~~A   40 (288)
T KOG1586|consen   23 LFGGSNKYEEAAELYERA   40 (288)
T ss_pred             ccCCCcchHHHHHHHHHH
Confidence            344556778888777664

>PRK09687 putative lyase; Provisional

Probab=90.76  E-value=11  Score=33.17  Aligned_cols=61  Identities=15%  Similarity=-0.097  Sum_probs=25.6

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      +...-...+.++.+.|+.+..-.+.+.+. .++  .....+.++...|+. +|...+..+.+..+
T Consensus       205 ~~~VR~~A~~aLg~~~~~~av~~Li~~L~-~~~--~~~~a~~ALg~ig~~-~a~p~L~~l~~~~~  265 (280)
T PRK09687        205 NEEIRIEAIIGLALRKDKRVLSVLIKELK-KGT--VGDLIIEAAGELGDK-TLLPVLDTLLYKFD  265 (280)
T ss_pred             ChHHHHHHHHHHHccCChhHHHHHHHHHc-CCc--hHHHHHHHHHhcCCH-hHHHHHHHHHhhCC
Confidence            44444444445555554332222223322 122  122344445555553 45555555554443

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.53  E-value=0.42  Score=25.93  Aligned_cols=29  Identities=17%  Similarity=0.315  Sum_probs=20.4

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          410 ELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       410 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      +|..++..|...|++++|.+.|++..+..
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~   31 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELN   31 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhC
Confidence            56667777777777777777777766543

...

>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A

Probab=90.34  E-value=0.59  Score=25.30  Aligned_cols=31  Identities=10%  Similarity=-0.220  Sum_probs=24.9

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +|..+...+...|++++|...|++..+..|+
T Consensus         3 ~~~~lg~~y~~~~~~~~A~~~~~~a~~~~~~   33 (34)
T PF13181_consen    3 AYYNLGKIYEQLGDYEEALEYFEKALELNPD   33 (34)
T ss_dssp             HHHHHHHHHHHTTSHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            5667778888888888998888888877663

...

>COG1747 Uncharacterized N-terminal domain of the transcription elongation factor GreA [Function unknown]

Probab=90.26  E-value=16  Score=34.39  Aligned_cols=45  Identities=4%  Similarity=-0.033  Sum_probs=25.4

Q ss_pred             HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          373 ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       373 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ...+.-+-.-|....++.+|++++...++.+-+ |...-..++.-+
T Consensus       205 ~Vl~qdv~~~Ys~~eN~~eai~Ilk~il~~d~k-~~~ar~~~i~~l  249 (711)
T COG1747         205 SVLMQDVYKKYSENENWTEAIRILKHILEHDEK-DVWARKEIIENL  249 (711)
T ss_pred             HHHHHHHHHHhccccCHHHHHHHHHHHhhhcch-hhhHHHHHHHHH
Confidence            334444445556666677777777666666555 555555444443

>KOG0890 consensus Protein kinase of the PI-3 kinase family involved in mitotic growth, DNA repair and meiotic recombination [Signal transduction mechanisms; Chromatin structure and dynamics; Replication, recombination and repair; Cell cycle control, cell division, chromosome partitioning]

Probab=90.10  E-value=40  Score=38.52  Aligned_cols=144  Identities=12%  Similarity=0.126  Sum_probs=87.5

Q ss_pred             HHHHHHHcCCCHHHHHHHHhcC----CCC--ChhhHHHHHHHHHhcCCHHHHHHHHhh-cCCCChhhHHHHHHHHHhCCC
Q 012108           81 SMLDAFASCGQMDHAMKLIDLM----PLK--DVTSFNIMISGYARIGKIHSARYIFDK-VPAKDVVSWNSLILAYTNAGE  153 (471)
Q Consensus        81 ~li~~~~~~g~~~~A~~~~~~~----~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~-~~~~~~~~~~~l~~~~~~~~~  153 (471)
                      .+..+-.+.+.+.+|+-.+++-    .+.  ....+..+...|+..+++|...-+... ...+  ..+. .+......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~--sl~~-qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADP--SLYQ-QILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCc--cHHH-HHHHHHhhcc
Confidence            3445556778888888888873    222  223444455588888888877776663 2222  2222 3344667788


Q ss_pred             HHHHHHHHHhcccc---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH-HHHHHHccCChHHHHHHHH
Q 012108          154 MEKAGEMFKKMLVK---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTS-VLSACANLGSLETGARIHV  228 (471)
Q Consensus       154 ~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~-l~~~~~~~~~~~~a~~~~~  228 (471)
                      +..|...|+.+.+.   ....++.++......|.++.++...+-.... ..+....++. -+.+.-+.++++.......
T Consensus      1465 ~~da~~Cye~~~q~~p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~-~se~~~~~~s~~~eaaW~l~qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKDPDKEKHHSGVLKSMLAIQHLSTEILHLDGLIIN-RSEEVDELNSLGVEAAWRLSQWDLLESYLS 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCCCccccchhhHHHhhhcccchhHHHhhhcchhhc-cCHHHHHHHHHHHHHHhhhcchhhhhhhhh
Confidence            88899999888443   3456777777777788888777765554433 2333333332 2334456677776666544

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=90.05  E-value=0.64  Score=26.56  Aligned_cols=28  Identities=29%  Similarity=0.324  Sum_probs=22.3

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          409 GELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      .+++.|+..|...|++++|..++++..+
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            4677888889999999999988888754

>KOG4234 consensus TPR repeat-containing protein [General function prediction only]

Probab=90.03  E-value=7.4  Score=31.65  Aligned_cols=93  Identities=13%  Similarity=0.018  Sum_probs=59.0

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHH
Q 012108          277 ILGLALHGYGYAALKLLGEMNDSCVKADD-----ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDL  350 (471)
Q Consensus       277 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~  350 (471)
                      ..-+...|++++|..-|.+.+.. +++..     ..|..-..++.+.+.++.|+.-..+..+   +.| .......-..+
T Consensus       102 GN~~F~ngdyeeA~skY~~Ale~-cp~~~~e~rsIly~Nraaa~iKl~k~e~aI~dcsKaie---l~pty~kAl~RRAea  177 (271)
T KOG4234|consen  102 GNELFKNGDYEEANSKYQEALES-CPSTSTEERSILYSNRAAALIKLRKWESAIEDCSKAIE---LNPTYEKALERRAEA  177 (271)
T ss_pred             HHHhhhcccHHHHHHHHHHHHHh-CccccHHHHHHHHhhhHHHHHHhhhHHHHHHHHHhhHh---cCchhHHHHHHHHHH
Confidence            34567788888888888888775 34332     2344444566777888888777777766   223 23333334556


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCCCH
Q 012108          351 LGRARLLDRAIELIEAM-PFEPTE  373 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~-~~~p~~  373 (471)
                      |.+..++++|++-|+.+ ...|..
T Consensus       178 yek~ek~eealeDyKki~E~dPs~  201 (271)
T KOG4234|consen  178 YEKMEKYEEALEDYKKILESDPSR  201 (271)
T ss_pred             HHhhhhHHHHHHHHHHHHHhCcch
Confidence            77778888888877777 334443

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=90.00  E-value=2.8  Score=29.32  Aligned_cols=63  Identities=13%  Similarity=0.209  Sum_probs=49.1

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      +.-++.+-++.+....+.|++......+++|.+.+++..|..+|+-++.+.+.  +...|..+++
T Consensus        22 D~we~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~K~~~--~~~~y~~~lq   84 (103)
T cd00923          22 DGWELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKDKCGA--HKEIYPYILQ   84 (103)
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHccC--chhhHHHHHH
Confidence            44567777777877888999999999999999999999999999988863333  4456666654

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.

>COG4649 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.94  E-value=8.4  Score=30.54  Aligned_cols=52  Identities=12%  Similarity=-0.026  Sum_probs=21.2

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          282 LHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       282 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      ..|.+++.....+.+-..+-+.-...-..|.-+-.+.|++..|.+.|..+..
T Consensus       144 D~gsy~dV~srvepLa~d~n~mR~sArEALglAa~kagd~a~A~~~F~qia~  195 (221)
T COG4649         144 DNGSYDDVSSRVEPLAGDGNPMRHSAREALGLAAYKAGDFAKAKSWFVQIAN  195 (221)
T ss_pred             ccccHHHHHHHhhhccCCCChhHHHHHHHHhHHHHhccchHHHHHHHHHHHc
Confidence            3444444444444433332222222223333334444555555555554444

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=89.91  E-value=2.5  Score=29.94  Aligned_cols=62  Identities=15%  Similarity=0.237  Sum_probs=45.4

Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          286 GYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       286 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      .-+..+-++.+....+.|++......+++|.+.+++..|..+|+-++.+.+  +....|..+++
T Consensus        26 ~we~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~~--~~~~~Y~~~lq   87 (108)
T PF02284_consen   26 GWELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKCG--NKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHTT--T-TTHHHHHHH
T ss_pred             HHHHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHcc--ChHHHHHHHHH
Confidence            336677777787888899999999999999999999999999999988544  33337777665

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 ....

>KOG2471 consensus TPR repeat-containing protein [General function prediction only]

Probab=89.83  E-value=17  Score=34.02  Aligned_cols=103  Identities=12%  Similarity=0.018  Sum_probs=63.7

Q ss_pred             HHHHhcCChHHHHHHHhcCCC---C---------ChhhHHHHHHHHHhcCChHHHHHHHHHHH-------hCCCCCCH--
Q 012108          247 DMYAKCGSIEQSLEVFYKSQV---K---------DVFCWNAMILGLALHGYGYAALKLLGEMN-------DSCVKADD--  305 (471)
Q Consensus       247 ~~~~~~~~~~~a~~~~~~~~~---~---------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-------~~~~~p~~--  305 (471)
                      +.+.-.|++.+|.+++.....   +         .-..||.|...+.+.|.+..+..+|.+..       ..|++|..  
T Consensus       248 q~eY~~gn~~kA~KlL~~sni~~~~g~~~T~q~~~cif~NNlGcIh~~~~~y~~~~~~F~kAL~N~c~qL~~g~~~~~~~  327 (696)
T KOG2471|consen  248 QLEYAHGNHPKAMKLLLVSNIHKEAGGTITPQLSSCIFNNNLGCIHYQLGCYQASSVLFLKALRNSCSQLRNGLKPAKTF  327 (696)
T ss_pred             HHHHHhcchHHHHHHHHhcccccccCccccchhhhheeecCcceEeeehhhHHHHHHHHHHHHHHHHHHHhccCCCCcce
Confidence            344556777777777654321   1         12335666555556666666655555544       24544432  


Q ss_pred             ---------HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHh
Q 012108          306 ---------ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLG  352 (471)
Q Consensus       306 ---------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  352 (471)
                               .+|+ ..-.+...|++-.|.+.|.+...  -+..++..|..|..+|.
T Consensus       328 tls~nks~eilYN-cG~~~Lh~grPl~AfqCf~~av~--vfh~nPrlWLRlAEcCi  380 (696)
T KOG2471|consen  328 TLSQNKSMEILYN-CGLLYLHSGRPLLAFQCFQKAVH--VFHRNPRLWLRLAECCI  380 (696)
T ss_pred             ehhcccchhhHHh-hhHHHHhcCCcHHHHHHHHHHHH--HHhcCcHHHHHHHHHHH
Confidence                     1222 33356778999999999998887  56778888988888875

>PF13170 DUF4003: Protein of unknown function (DUF4003)

Probab=89.67  E-value=9.5  Score=33.83  Aligned_cols=50  Identities=14%  Similarity=0.205  Sum_probs=31.7

Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc--cC----ChHHHHHHHHHHHHcC
Q 012108          185 YIEVVDLFDEMKAGNVKPDYLTVTSVLSACAN--LG----SLETGARIHVYATDNG  234 (471)
Q Consensus       185 ~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~--~~----~~~~a~~~~~~~~~~~  234 (471)
                      +++.+.+++.|.+.|..-+..+|....-....  ..    ....+..+|+.|++..
T Consensus        78 ~~~~~~~y~~L~~~gFk~~~y~~laA~~i~~~~~~~~~~~~~~ra~~iy~~mKk~H  133 (297)
T PF13170_consen   78 FKEVLDIYEKLKEAGFKRSEYLYLAALIILEEEEKEDYDEIIQRAKEIYKEMKKKH  133 (297)
T ss_pred             HHHHHHHHHHHHHhccCccChHHHHHHHHHHhcccccHHHHHHHHHHHHHHHHHhC
Confidence            34566788888888888777766553332222  22    2456778888887764

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=89.25  E-value=3.1  Score=36.27  Aligned_cols=96  Identities=10%  Similarity=0.038  Sum_probs=67.9

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHhcc-cc------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH
Q 012108          137 DVVSWNSLILAYTNAGEMEKAGEMFKKML-VK------NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTS  209 (471)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~-~~------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~  209 (471)
                      ...+...++..-....+++.++..+-++. .|      +... ..+++.+ ..-++++++.++..=++.|+-||..+++.
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~~~~-~~~irll-lky~pq~~i~~l~npIqYGiF~dqf~~c~  140 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRNWTI-HTWIRLL-LKYDPQKAIYTLVNPIQYGIFPDQFTFCL  140 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhccccH-HHHHHHH-HccChHHHHHHHhCcchhccccchhhHHH
Confidence            44445555555556677888887777762 22      1111 1223333 23467789988888889999999999999


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcC
Q 012108          210 VLSACANLGSLETGARIHVYATDNG  234 (471)
Q Consensus       210 l~~~~~~~~~~~~a~~~~~~~~~~~  234 (471)
                      +++.+.+.+++..|.++.-.|....
T Consensus       141 l~D~flk~~n~~~aa~vvt~~~~qe  165 (418)
T KOG4570|consen  141 LMDSFLKKENYKDAASVVTEVMMQE  165 (418)
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHHH
Confidence            9999999999999998887776554

>COG2976 Uncharacterized protein conserved in bacteria [Function unknown]

Probab=89.10  E-value=11  Score=30.63  Aligned_cols=55  Identities=7%  Similarity=-0.023  Sum_probs=25.5

Q ss_pred             HHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      .....|.+++|...++.....+-.  +.....-++++...|+-++|+.-|++....+
T Consensus       135 vq~q~~k~D~AL~~L~t~~~~~w~--~~~~elrGDill~kg~k~~Ar~ay~kAl~~~  189 (207)
T COG2976         135 VQLQQKKADAALKTLDTIKEESWA--AIVAELRGDILLAKGDKQEARAAYEKALESD  189 (207)
T ss_pred             HHHHhhhHHHHHHHHhccccccHH--HHHHHHhhhHHHHcCchHHHHHHHHHHHHcc
Confidence            344455555555555443332221  2223334455555555555555555554444

>PRK10941 hypothetical protein; Provisional

Probab=88.98  E-value=2.3  Score=36.90  Aligned_cols=67  Identities=13%  Similarity=0.017  Sum_probs=52.0

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ..+.+-.+|.+.++++.|.++.+.++...|+ ++.-+.--+-.|.+.|.+..|..=++...+.-+..+
T Consensus       183 ml~nLK~~~~~~~~~~~AL~~~e~ll~l~P~-dp~e~RDRGll~~qL~c~~~A~~DL~~fl~~~P~dp  249 (269)
T PRK10941        183 LLDTLKAALMEEKQMELALRASEALLQFDPE-DPYEIRDRGLIYAQLDCEHVALSDLSYFVEQCPEDP  249 (269)
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCcHHHHHHHHHHHHhCCCch
Confidence            4455666778888888888888888888888 888888888888888888888887777766655444

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.83  E-value=11  Score=36.14  Aligned_cols=151  Identities=15%  Similarity=0.135  Sum_probs=93.9

Q ss_pred             HcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccc
Q 012108           87 ASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV  166 (471)
Q Consensus        87 ~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  166 (471)
                      .-.|+++.|-.++..+.++   ..+.++..+.+.|-.++|+++-     +|+...   .....+.|+++.|.++..+.  
T Consensus       597 vmrrd~~~a~~vLp~I~k~---~rt~va~Fle~~g~~e~AL~~s-----~D~d~r---Felal~lgrl~iA~~la~e~--  663 (794)
T KOG0276|consen  597 VLRRDLEVADGVLPTIPKE---IRTKVAHFLESQGMKEQALELS-----TDPDQR---FELALKLGRLDIAFDLAVEA--  663 (794)
T ss_pred             hhhccccccccccccCchh---hhhhHHhHhhhccchHhhhhcC-----CChhhh---hhhhhhcCcHHHHHHHHHhh--
Confidence            4457777777766666532   3445666677777777776543     222211   23345678888887776553  


Q ss_pred             cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 012108          167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALI  246 (471)
Q Consensus       167 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  246 (471)
                      .+..-|..|..+....+++..|.+.|.+...         |..|+-.+...|+-+....+-....+.| ..|.     -.
T Consensus       664 ~s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d---------~~~LlLl~t~~g~~~~l~~la~~~~~~g-~~N~-----AF  728 (794)
T KOG0276|consen  664 NSEVKWRQLGDAALSAGELPLASECFLRARD---------LGSLLLLYTSSGNAEGLAVLASLAKKQG-KNNL-----AF  728 (794)
T ss_pred             cchHHHHHHHHHHhhcccchhHHHHHHhhcc---------hhhhhhhhhhcCChhHHHHHHHHHHhhc-ccch-----HH
Confidence            3556688888888888888888888776543         4455556666777666665655555555 2222     23


Q ss_pred             HHHHhcCChHHHHHHHhcC
Q 012108          247 DMYAKCGSIEQSLEVFYKS  265 (471)
Q Consensus       247 ~~~~~~~~~~~a~~~~~~~  265 (471)
                      .+|...|+++++.+++.+-
T Consensus       729 ~~~~l~g~~~~C~~lLi~t  747 (794)
T KOG0276|consen  729 LAYFLSGDYEECLELLIST  747 (794)
T ss_pred             HHHHHcCCHHHHHHHHHhc
Confidence            3455567777777666543

>PF10345 Cohesin_load: Cohesin loading factor; InterPro: IPR019440 Cohesin loading factor is a conserved protein that has been characterised in fungi

Probab=88.64  E-value=28  Score=34.81  Aligned_cols=49  Identities=14%  Similarity=0.038  Sum_probs=34.3

Q ss_pred             hhcCCchHHHHHHHHHHHcCCC-C-------CchhHHHHHHHHHhcCCHHHHHHHHH
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNY-L-------SDGELMMFANLYASCGQWEEANRWRN  432 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~-~-------~~~~~~~l~~~~~~~g~~~~A~~~~~  432 (471)
                      +-.+++..|...++.+.+.... |       .+..+...+-.+...|+.+.|...|.
T Consensus       372 ~~~~~~~~a~~~l~~~~~~~~~~~~~~~~~~~~~~~yL~gl~~q~~g~l~~A~~~y~  428 (608)
T PF10345_consen  372 FIRGDWSKATQELEFMRQLCQRSPSKLYESLYPLLHYLLGLYYQSTGDLEAALYQYQ  428 (608)
T ss_pred             HHCcCHHHHHHHHHHHHHHHhcCccchhhhhhHHHHHHHHHHHHHcCCHHHHHHHHh
Confidence            3568888899999888765322 1       23344455555667899999999997

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 [].

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=88.53  E-value=27  Score=34.42  Aligned_cols=275  Identities=9%  Similarity=0.053  Sum_probs=150.6

Q ss_pred             HHHHHHHHHhcccc-ChHHHHHHHHH-----HHhcCCHHHHHHHHHHHHh-------CCCCCCHHHHHHHHHHHHccC--
Q 012108          154 MEKAGEMFKKMLVK-NVITWNTMVTG-----YLRSQLYIEVVDLFDEMKA-------GNVKPDYLTVTSVLSACANLG--  218 (471)
Q Consensus       154 ~~~A~~~~~~~~~~-~~~~~~~l~~~-----~~~~~~~~~a~~~~~~m~~-------~g~~p~~~~~~~l~~~~~~~~--  218 (471)
                      ...|.++++...+. +...-..+..+     +....+.+.|+.+|+.+.+       .|.   ......+..+|.+..  
T Consensus       228 ~~~a~~~~~~~a~~g~~~a~~~~g~~y~~G~~g~~~d~e~a~~~l~~aa~~~~~~a~~~~---~~a~~~lg~~Y~~g~~~  304 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLGHSEAQYALGICYLAGTYGVTQDLESAIEYLKLAAESFKKAATKGL---PPAQYGLGRLYLQGLGV  304 (552)
T ss_pred             hhHHHHHHHHHHhhcchHHHHHHHHHHhhccccccccHHHHHHHHHHHHHHHHHHHhhcC---CccccHHHHHHhcCCCC
Confidence            45677777776433 33333333322     3455788888888888766       442   224445555565532  


Q ss_pred             ---ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-cCChHHHHHHHhcCCCC-ChhhHHHHHHHHHh----cCChHHH
Q 012108          219 ---SLETGARIHVYATDNGLASNPHATTALIDMYAK-CGSIEQSLEVFYKSQVK-DVFCWNAMILGLAL----HGYGYAA  289 (471)
Q Consensus       219 ---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a  289 (471)
                         +.+.|..++...-+.| .|+....-..+..... ..+...|.++|...... .+.++-.+...|..    ..+...|
T Consensus       305 ~~~d~~~A~~~~~~aA~~g-~~~a~~~lg~~~~~g~~~~d~~~A~~yy~~Aa~~G~~~A~~~la~~y~~G~gv~r~~~~A  383 (552)
T KOG1550|consen  305 EKIDYEKALKLYTKAAELG-NPDAQYLLGVLYETGTKERDYRRAFEYYSLAAKAGHILAIYRLALCYELGLGVERNLELA  383 (552)
T ss_pred             ccccHHHHHHHHHHHHhcC-CchHHHHHHHHHHcCCccccHHHHHHHHHHHHHcCChHHHHHHHHHHHhCCCcCCCHHHH
Confidence               5677888888888887 4555444333332222 24567888888776553 33343333333332    3467888


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHH---hh----cCCHHHHHH
Q 012108          290 LKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLL---GR----ARLLDRAIE  362 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~---~~----~g~~~~A~~  362 (471)
                      ..++.+.-+.| .|...--...+..+.. +..+.+.-.+..+.+ .+.......-..++...   ..    ..+.+.+..
T Consensus       384 ~~~~k~aA~~g-~~~A~~~~~~~~~~g~-~~~~~~~~~~~~~a~-~g~~~~q~~a~~l~~~~~~~~~~~~~~~~~~~~~~  460 (552)
T KOG1550|consen  384 FAYYKKAAEKG-NPSAAYLLGAFYEYGV-GRYDTALALYLYLAE-LGYEVAQSNAAYLLDQSEEDLFSRGVISTLERAFS  460 (552)
T ss_pred             HHHHHHHHHcc-ChhhHHHHHHHHHHcc-ccccHHHHHHHHHHH-hhhhHHhhHHHHHHHhccccccccccccchhHHHH
Confidence            88888888877 3332222223333333 666666655555554 33332211111111111   11    235566667


Q ss_pred             HHHhCCCCCCHhHHHHHHHHHhhc----CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc-C--CHHHHHHHHHHhh
Q 012108          363 LIEAMPFEPTESILGALLSACVIH----QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC-G--QWEEANRWRNMMN  435 (471)
Q Consensus       363 ~~~~~~~~p~~~~~~~l~~~~~~~----g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g--~~~~A~~~~~~m~  435 (471)
                      .+.+...+-+......+...|..-    .+++.|...+......+    ......++..+... |  .+..|.+++++..
T Consensus       461 ~~~~a~~~g~~~a~~~lgd~y~~g~g~~~d~~~a~~~y~~a~~~~----~~~~~nlg~~~e~g~g~~~~~~a~~~~~~~~  536 (552)
T KOG1550|consen  461 LYSRAAAQGNADAILKLGDYYYYGLGTGRDPEKAAAQYARASEQG----AQALFNLGYMHEHGEGIKVLHLAKRYYDQAS  536 (552)
T ss_pred             HHHHHHhccCHHHHhhhcceeeecCCCCCChHHHHHHHHHHHHhh----hHHHhhhhhHHhcCcCcchhHHHHHHHHHHH
Confidence            776665455555555555554432    35777777777776665    34444555554432 1  1677888888776


Q ss_pred             hCCC
Q 012108          436 DTGI  439 (471)
Q Consensus       436 ~~~~  439 (471)
                      +.+.
T Consensus       537 ~~~~  540 (552)
T KOG1550|consen  537 EEDS  540 (552)
T ss_pred             hcCc
Confidence            5443

>KOG0276 consensus Vesicle coat complex COPI, beta' subunit [Intracellular trafficking, secretion, and vesicular transport]

Probab=88.43  E-value=14  Score=35.58  Aligned_cols=97  Identities=19%  Similarity=0.107  Sum_probs=44.1

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHH
Q 012108          282 LHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAI  361 (471)
Q Consensus       282 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  361 (471)
                      +.|+++.|.++..+..      +..-|..|..+....+++..|.+.|.+...          |..|+-.+...|+.+...
T Consensus       649 ~lgrl~iA~~la~e~~------s~~Kw~~Lg~~al~~~~l~lA~EC~~~a~d----------~~~LlLl~t~~g~~~~l~  712 (794)
T KOG0276|consen  649 KLGRLDIAFDLAVEAN------SEVKWRQLGDAALSAGELPLASECFLRARD----------LGSLLLLYTSSGNAEGLA  712 (794)
T ss_pred             hcCcHHHHHHHHHhhc------chHHHHHHHHHHhhcccchhHHHHHHhhcc----------hhhhhhhhhhcCChhHHH
Confidence            4455555554444322      334455555555555665555555555544          344444455555544333


Q ss_pred             HHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHH
Q 012108          362 ELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAK  397 (471)
Q Consensus       362 ~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~  397 (471)
                      .+-....   .....|...-++...|+++++.+++.
T Consensus       713 ~la~~~~---~~g~~N~AF~~~~l~g~~~~C~~lLi  745 (794)
T KOG0276|consen  713 VLASLAK---KQGKNNLAFLAYFLSGDYEECLELLI  745 (794)
T ss_pred             HHHHHHH---hhcccchHHHHHHHcCCHHHHHHHHH
Confidence            2222221   00011222334445566666655543

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=88.25  E-value=16  Score=31.68  Aligned_cols=39  Identities=10%  Similarity=-0.005  Sum_probs=21.1

Q ss_pred             HHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHHH
Q 012108           92 MDHAMKLIDLMPLK--DVTSFNIMISGYARIGKIHSARYIF  130 (471)
Q Consensus        92 ~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~  130 (471)
                      ..+|+++|--+...  .+.+-..++..+-...+..+|...+
T Consensus       149 s~KA~ELFayLv~hkgk~v~~~~~ie~lwpe~D~kka~s~l  189 (361)
T COG3947         149 SRKALELFAYLVEHKGKEVTSWEAIEALWPEKDEKKASSLL  189 (361)
T ss_pred             hhHHHHHHHHHHHhcCCcccHhHHHHHHccccchhhHHHHH
Confidence            35667776665543  2444455555555555555554444

>cd00923 Cyt_c_Oxidase_Va Cytochrome c oxidase subunit Va

Probab=88.02  E-value=4.9  Score=28.20  Aligned_cols=46  Identities=17%  Similarity=0.288  Sum_probs=31.4

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 012108          187 EVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       187 ~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      ++.+-++.+....+.|+.......+++|.+.+++..|.++++-.+.
T Consensus        25 e~rr~mN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~vK~   70 (103)
T cd00923          25 ELRRGLNNLFGYDLVPEPKVIEAALRACRRVNDFALAVRILEAIKD   70 (103)
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence            4455556666666677777777777777777777777777776653

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.

>PF13174 TPR_6: Tetratricopeptide repeat; PDB: 3QKY_A 2XEV_A 3URZ_B 2Q7F_A

Probab=87.94  E-value=0.94  Score=24.14  Aligned_cols=29  Identities=7%  Similarity=-0.141  Sum_probs=23.6

Q ss_pred             HHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          377 GALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       377 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      -.+..++.+.|++++|.+.|+++++..|+
T Consensus         4 ~~~a~~~~~~g~~~~A~~~~~~~~~~~P~   32 (33)
T PF13174_consen    4 YRLARCYYKLGDYDEAIEYFQRLIKRYPD   32 (33)
T ss_dssp             HHHHHHHHHHCHHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHccCHHHHHHHHHHHHHHCcC
Confidence            34666777889999999999999888775

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=87.90  E-value=0.92  Score=26.56  Aligned_cols=25  Identities=20%  Similarity=0.227  Sum_probs=15.7

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          413 MFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       413 ~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      .|+++|...|+.+.|.++++++...
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~   28 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEE   28 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHc
Confidence            4566666666666666666666543

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.

>KOG2396 consensus HAT (Half-A-TPR) repeat-containing protein [General function prediction only]

Probab=87.67  E-value=25  Score=33.14  Aligned_cols=242  Identities=8%  Similarity=-0.022  Sum_probs=130.7

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc------CChHHHHHHHHHHHHcC-C-CCchhHHHHHHHHHHhcCChHH
Q 012108          186 IEVVDLFDEMKAGNVKPDYLTVTSVLSACANL------GSLETGARIHVYATDNG-L-ASNPHATTALIDMYAKCGSIEQ  257 (471)
Q Consensus       186 ~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~~~-~-~~~~~~~~~l~~~~~~~~~~~~  257 (471)
                      +....+|++..+.  .|+...+...|..|...      ..+.....+++...+.+ . +.....|..+...++......+
T Consensus       299 s~~~~v~ee~v~~--l~t~sm~e~YI~~~lE~~~~~r~~~I~h~~~~~~~~~~~~~l~~~~~~~ys~~~l~~~t~~~~r~  376 (568)
T KOG2396|consen  299 SRCCAVYEEAVKT--LPTESMWECYITFCLERFTFLRGKRILHTMCVFRKAHELKLLSECLYKQYSVLLLCLNTLNEARE  376 (568)
T ss_pred             HHHHHHHHHHHHH--hhHHHHHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHhccchHhH
Confidence            3444667666653  46666666666665432      13344445555554433 2 2345566666666666555433


Q ss_pred             -HHHHHhcCCCCChhhHHHHHHHHHhc-CChHH-HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH--HHHHHHhH
Q 012108          258 -SLEVFYKSQVKDVFCWNAMILGLALH-GYGYA-ALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEG--CELFSRME  332 (471)
Q Consensus       258 -a~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~-a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a--~~~~~~~~  332 (471)
                       |..+..+....+...|..-++...+. .+++- -..++...+..-..+....++...    +....+..  ..++..+.
T Consensus       377 ~a~~l~~e~f~~s~k~~~~kl~~~~~s~sD~q~~f~~l~n~~r~~~~s~~~~~w~s~~----~~dsl~~~~~~~Ii~a~~  452 (568)
T KOG2396|consen  377 VAVKLTTELFRDSGKMWQLKLQVLIESKSDFQMLFEELFNHLRKQVCSELLISWASAS----EGDSLQEDTLDLIISALL  452 (568)
T ss_pred             HHHHhhHHHhcchHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHhcchhHHHHHHHh----hccchhHHHHHHHHHHHH
Confidence             33333344455666665555554432 12221 112233333321122222233222    11112221  12333333


Q ss_pred             HhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHh--hcCCchHHHHHHHHHHHcCCCCCc
Q 012108          333 KDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACV--IHQDLEIGDRVAKMVCAKSNYLSD  408 (471)
Q Consensus       333 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~~~~  408 (471)
                      . .+.......-+.+++.+...|-..+|...+..+ .. +|+...|..++..-.  ..-+...+..+++.+...-.. ++
T Consensus       453 s-~~~~~~~tl~s~~l~~~~e~~~~~~ark~y~~l~~lpp~sl~l~r~miq~e~~~~sc~l~~~r~~yd~a~~~fg~-d~  530 (568)
T KOG2396|consen  453 S-VIGADSVTLKSKYLDWAYESGGYKKARKVYKSLQELPPFSLDLFRKMIQFEKEQESCNLANIREYYDRALREFGA-DS  530 (568)
T ss_pred             H-hcCCceeehhHHHHHHHHHhcchHHHHHHHHHHHhCCCccHHHHHHHHHHHhhHhhcCchHHHHHHHHHHHHhCC-Ch
Confidence            3 233333444466777888888899999998887 22 346677777775422  223477888889888765445 78


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          409 GELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      ..|......-...|..+.+-.++.+..
T Consensus       531 ~lw~~y~~~e~~~g~~en~~~~~~ra~  557 (568)
T KOG2396|consen  531 DLWMDYMKEELPLGRPENCGQIYWRAM  557 (568)
T ss_pred             HHHHHHHHhhccCCCcccccHHHHHHH
Confidence            899888887778888888777665554

>PF13374 TPR_10: Tetratricopeptide repeat; PDB: 3CEQ_B 3EDT_H 3NF1_A

Probab=87.57  E-value=1.3  Score=25.23  Aligned_cols=29  Identities=17%  Similarity=0.029  Sum_probs=23.3

Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHc
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAK  402 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  402 (471)
                      .+++.|...|...|++++|..+++++.+.
T Consensus         3 ~~~~~la~~~~~~g~~~~A~~~~~~al~~   31 (42)
T PF13374_consen    3 SALNNLANAYRAQGRYEEALELLEEALEI   31 (42)
T ss_dssp             HHHHHHHHHHHHCT-HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcchhhHHHHHHHHH
Confidence            46788888899999999999998888764

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=87.31  E-value=18  Score=31.02  Aligned_cols=58  Identities=7%  Similarity=0.038  Sum_probs=31.5

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-----------HHHHHHHHHHHHccCChHHHHHHHHHHH
Q 012108          174 TMVTGYLRSQLYIEVVDLFDEMKAGNVKPD-----------YLTVTSVLSACANLGSLETGARIHVYAT  231 (471)
Q Consensus       174 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-----------~~~~~~l~~~~~~~~~~~~a~~~~~~~~  231 (471)
                      .|...|...+.+.+..++++++.+.-...|           ...|..-|..|....+-.....+|++..
T Consensus       150 KLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQmYT~qKnNKkLK~lYeqal  218 (440)
T KOG1464|consen  150 KLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQMYTEQKNNKKLKALYEQAL  218 (440)
T ss_pred             hHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhhhhhhhcccHHHHHHHHHHH
Confidence            345555556666666666665543211111           1345555666666666666666776654

>KOG4648 consensus Uncharacterized conserved protein, contains LRR repeats [Function unknown]

Probab=87.29  E-value=2.5  Score=37.25  Aligned_cols=93  Identities=11%  Similarity=-0.086  Sum_probs=64.7

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC
Q 012108          277 ILGLALHGYGYAALKLLGEMNDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       277 ~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                      ..-|.++|.+++|+..|......  .| +.+++..-..+|.+...+..|+.=...+..  -...-...|..-+.+-...|
T Consensus       104 GN~yFKQgKy~EAIDCYs~~ia~--~P~NpV~~~NRA~AYlk~K~FA~AE~DC~~Aia--Ld~~Y~KAYSRR~~AR~~Lg  179 (536)
T KOG4648|consen  104 GNTYFKQGKYEEAIDCYSTAIAV--YPHNPVYHINRALAYLKQKSFAQAEEDCEAAIA--LDKLYVKAYSRRMQARESLG  179 (536)
T ss_pred             hhhhhhccchhHHHHHhhhhhcc--CCCCccchhhHHHHHHHHHHHHHHHHhHHHHHH--hhHHHHHHHHHHHHHHHHHh
Confidence            45699999999999999998875  55 889999999999999999988877776665  11122334444444444455


Q ss_pred             CHHHHHHHHHhC-CCCCCH
Q 012108          356 LLDRAIELIEAM-PFEPTE  373 (471)
Q Consensus       356 ~~~~A~~~~~~~-~~~p~~  373 (471)
                      ...+|.+-++.. .+.|..
T Consensus       180 ~~~EAKkD~E~vL~LEP~~  198 (536)
T KOG4648|consen  180 NNMEAKKDCETVLALEPKN  198 (536)
T ss_pred             hHHHHHHhHHHHHhhCccc
Confidence            666666555544 456663

>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=87.18  E-value=1.7  Score=34.60  Aligned_cols=108  Identities=11%  Similarity=0.048  Sum_probs=50.5

Q ss_pred             HHHHHHHHHHhHHhcCCCCChhHHHHHHHH---HhhcCCHHHHHHHHHhC--------CCCCCH-hHHHHHHHHHhhcCC
Q 012108          321 VQEGCELFSRMEKDFGVTRKLEHYGCMVDL---LGRARLLDRAIELIEAM--------PFEPTE-SILGALLSACVIHQD  388 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~---~~~~g~~~~A~~~~~~~--------~~~p~~-~~~~~l~~~~~~~g~  388 (471)
                      ++.|.+..+....  ..+.|...++.-..+   +++.....++.+++++.        .+.|+. .++..+..++...+.
T Consensus         7 FE~ark~aea~y~--~nP~DadnL~~WG~ALLELAqfk~g~es~~miedAisK~eeAL~I~P~~hdAlw~lGnA~ts~A~   84 (186)
T PF06552_consen    7 FEHARKKAEAAYA--KNPLDADNLTNWGGALLELAQFKQGPESKKMIEDAISKFEEALKINPNKHDALWCLGNAYTSLAF   84 (186)
T ss_dssp             HHHHHHHHHHHHH--H-TT-HHHHHHHHHHHHHHHHHS-HHHHHHHHHHHHHHHHHHHHH-TT-HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH--hCcHhHHHHHHHHHHHHHHHhccCcchHHHHHHHHHHHHHHHHhcCCchHHHHHHHHHHHHHHHh
Confidence            4455555555443  223344444333333   33333434444444433        355653 566667776664432


Q ss_pred             -----------chHHHHHHHHHHHcCCCCCchhHHHHHHHHHh-cCCHHHHHHHHHHhhhCCC
Q 012108          389 -----------LEIGDRVAKMVCAKSNYLSDGELMMFANLYAS-CGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       389 -----------~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~A~~~~~~m~~~~~  439 (471)
                                 +++|...|+++...+|.         -..|.+ .+-..+|-++..++.+.+.
T Consensus        85 l~~d~~~A~~~F~kA~~~FqkAv~~~P~---------ne~Y~ksLe~~~kap~lh~e~~~~~~  138 (186)
T PF06552_consen   85 LTPDTAEAEEYFEKATEYFQKAVDEDPN---------NELYRKSLEMAAKAPELHMEIHKQGL  138 (186)
T ss_dssp             H---HHHHHHHHHHHHHHHHHHHHH-TT----------HHHHHHHHHHHTHHHHHHHHHHSSS
T ss_pred             hcCChHHHHHHHHHHHHHHHHHHhcCCC---------cHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence                       55566666666666666         233333 2334456666666655543

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.

>PF14669 Asp_Glu_race_2: Putative aspartate racemase

Probab=87.09  E-value=14  Score=29.75  Aligned_cols=175  Identities=11%  Similarity=0.003  Sum_probs=92.0

Q ss_pred             ccCCCCCcccHHHHHHHHhh----ccchhHHHHHHHHHHHhccCCch----hHHHHHHHHHhccCCHhHHHHHhcccCCC
Q 012108            3 ELGVHADNYSFPLLLKAAGI----LSSSCIGLMLHGQTIKTGFCGHV----YVQTALLKMYGSLRCIDDAFKVFEKMPEK   74 (471)
Q Consensus         3 ~~g~~p~~~~~~~ll~~~~~----~g~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~~~~~   74 (471)
                      +.|.-+|...++.++.-+..    .+..+.+..+-.+....++..+-    .....-+..|-..||+.+--.+|-.... 
T Consensus         1 eAGm~l~~Eh~~yiiklL~qlq~s~qEi~~vl~~KsR~~~~~~~~~~~~~l~~~~~eie~Ckek~DW~klg~ly~nv~~-   79 (233)
T PF14669_consen    1 EAGMVLDPEHFNYIIKLLYQLQASKQEIDAVLEIKSRLQARQFKKNWLSDLASAVVEIEHCKEKGDWTKLGNLYINVKM-   79 (233)
T ss_pred             CCcccCCHHHHHHHHHHHHhhcCchhhhHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHhhhccHHHHhhHHhhHHh-
Confidence            46888888899888877654    44566666666666666655432    2222334556667777776666654321 


Q ss_pred             CcccHHHHHHHHHcCCCHHH-----HHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHH
Q 012108           75 DIIAWNSMLDAFASCGQMDH-----AMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYT  149 (471)
Q Consensus        75 ~~~~~~~li~~~~~~g~~~~-----A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~  149 (471)
                                ++-+.+++++     |..+.+.........|...+.+-++.-+.+++-+.+      =-.+--+++-.|.
T Consensus        80 ----------gce~~~dlq~~~~~va~~Ltkd~Kdk~~vPFceFAetV~k~~q~~e~dK~~------LGRiGiS~m~~Yh  143 (233)
T PF14669_consen   80 ----------GCEKFADLQRFCACVAEALTKDSKDKPGVPFCEFAETVCKDPQNDEVDKTL------LGRIGISLMYSYH  143 (233)
T ss_pred             ----------hcCCHHHHHHHHHHHHHHHHhcccccCCCCHHHHHHHHhcCCccchhhhhh------hhHHHHHHHHHHH
Confidence                      1111111111     222333333333344555555555544333332221      1112234555566


Q ss_pred             hCCCHHHHHHHHHhccc------------------cChHHHHHHHHHHHhcCCHHHHHHHHHH
Q 012108          150 NAGEMEKAGEMFKKMLV------------------KNVITWNTMVTGYLRSQLYIEVVDLFDE  194 (471)
Q Consensus       150 ~~~~~~~A~~~~~~~~~------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~  194 (471)
                      +..++.+.+++++.+..                  +--..-|.-...+.+.|..+.|+.++++
T Consensus       144 k~~qW~KGrkvLd~l~el~i~ft~LKGL~g~e~~asrCqivn~AaEiFL~sgsidGA~~vLre  206 (233)
T PF14669_consen  144 KTLQWSKGRKVLDKLHELQIHFTSLKGLTGPEKLASRCQIVNIAAEIFLKSGSIDGALWVLRE  206 (233)
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhhhccCccCccccCchhhhHHHHHHHHHHcCCchHHHHHHhc
Confidence            66666666666666511                  1113455666677777777777777663

>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=86.98  E-value=64  Score=37.06  Aligned_cols=310  Identities=8%  Similarity=-0.015  Sum_probs=170.4

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhc----CCC--ChhhHHHHHHHHHhCCCHHHHHHHHHh-ccccChHHHHHHHHHHHhcCC
Q 012108          112 IMISGYARIGKIHSARYIFDKV----PAK--DVVSWNSLILAYTNAGEMEKAGEMFKK-MLVKNVITWNTMVTGYLRSQL  184 (471)
Q Consensus       112 ~l~~~~~~~g~~~~a~~~~~~~----~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~-~~~~~~~~~~~l~~~~~~~~~  184 (471)
                      .+..+=.+.+.+..|...+++-    .+.  ...-+..+...|..-+++|...-+... ...|+  .+. -|......|+
T Consensus      1388 tLa~aSfrc~~y~RalmylEs~~~~ek~~~~~e~l~fllq~lY~~i~dpDgV~Gv~~~r~a~~s--l~~-qil~~e~~g~ 1464 (2382)
T KOG0890|consen 1388 TLARASFRCKAYARALMYLESHRSTEKEKETEEALYFLLQNLYGSIHDPDGVEGVSARRFADPS--LYQ-QILEHEASGN 1464 (2382)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHHhcCCcchhhhHHHHhhcCcc--HHH-HHHHHHhhcc
Confidence            4555666778888888888883    111  122334444588888888888777763 33333  222 3344567899


Q ss_pred             HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHH-HHHHHHHHhcCChHHHHHHHh
Q 012108          185 YIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHAT-TALIDMYAKCGSIEQSLEVFY  263 (471)
Q Consensus       185 ~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~  263 (471)
                      ++.|...|+.+.+.+ ++...+++-++......+.++.+.-..+-..... .+....+ +.=+.+--+.++++.......
T Consensus      1465 ~~da~~Cye~~~q~~-p~~~~~~~g~l~sml~~~~l~t~i~~~dg~~~~~-se~~~~~~s~~~eaaW~l~qwD~~e~~l~ 1542 (2382)
T KOG0890|consen 1465 WADAAACYERLIQKD-PDKEKHHSGVLKSMLAIQHLSTEILHLDGLIINR-SEEVDELNSLGVEAAWRLSQWDLLESYLS 1542 (2382)
T ss_pred             HHHHHHHHHHhhcCC-CccccchhhHHHhhhcccchhHHHhhhcchhhcc-CHHHHHHHHHHHHHHhhhcchhhhhhhhh
Confidence            999999999998764 3336677777777777777777666554444332 2222223 333345567777777777665


Q ss_pred             cCCCCChhhHHHH--HHHHHhcCChH--HHHHHHHHHHhCCCCC--------C-HHHHHHHHHHHhccCcHHHHHHHHHH
Q 012108          264 KSQVKDVFCWNAM--ILGLALHGYGY--AALKLLGEMNDSCVKA--------D-DITFIGLLSACSHAGLVQEGCELFSR  330 (471)
Q Consensus       264 ~~~~~~~~~~~~l--~~~~~~~~~~~--~a~~~~~~~~~~~~~p--------~-~~~~~~l~~~~~~~~~~~~a~~~~~~  330 (471)
                         ..+...|...  +..+.+..+-+  .-.+.++.+++.-+.|        + ...|..++....-. +.+.-.+.+  
T Consensus      1543 ---~~n~e~w~~~~~g~~ll~~~~kD~~~~~~~i~~~r~~~i~~lsa~s~~~Sy~~~Y~~~~kLH~l~-el~~~~~~l-- 1616 (2382)
T KOG0890|consen 1543 ---DRNIEYWSVESIGKLLLRNKKKDEIATLDLIENSRELVIENLSACSIEGSYVRSYEILMKLHLLL-ELENSIEEL-- 1616 (2382)
T ss_pred             ---cccccchhHHHHHHHHHhhcccchhhHHHHHHHHHHHhhhhHHHhhccchHHHHHHHHHHHHHHH-HHHHHHHHh--
Confidence               3445555444  23333322211  1112333333221111        0 01222222221110 011111111  


Q ss_pred             hHHhcCCCCC------hhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCC-----CHhHHHHHHHHHhhcCCchHHHHH
Q 012108          331 MEKDFGVTRK------LEHYGCMVDLLGRARLLDRAIELIEAM----PFEP-----TESILGALLSACVIHQDLEIGDRV  395 (471)
Q Consensus       331 ~~~~~~~~~~------~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p-----~~~~~~~l~~~~~~~g~~~~a~~~  395 (471)
                          .++.++      ...|..-+..-....+..+-+--+++.    ...|     -..+|....+.....|.++.|...
T Consensus      1617 ----~~~s~~~~s~~~sd~W~~Rl~~tq~s~~~~epILa~RRs~l~~~~~~~~~~~~ge~wLqsAriaR~aG~~q~A~na 1692 (2382)
T KOG0890|consen 1617 ----KKVSYDEDSANNSDNWKNRLERTQPSFRIKEPILAFRRSMLDLRMRSNLKSRLGECWLQSARIARLAGHLQRAQNA 1692 (2382)
T ss_pred             ----hccCccccccccchhHHHHHHHhchhHHHHhHHHHHHHHHHHHhccccccchhHHHHHHHHHHHHhcccHHHHHHH
Confidence                122222      222222222211112222211112211    1122     245788888888899999999998


Q ss_pred             HHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          396 AKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      +-.+.+..   -+..+...++.+...|+...|+.++++......
T Consensus      1693 ll~A~e~r---~~~i~~E~AK~lW~~gd~~~Al~~Lq~~l~~~~ 1733 (2382)
T KOG0890|consen 1693 LLNAKESR---LPEIVLERAKLLWQTGDELNALSVLQEILSKNF 1733 (2382)
T ss_pred             HHhhhhcc---cchHHHHHHHHHHhhccHHHHHHHHHHHHHhhc
Confidence            87777766   377888999999999999999999998875443

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=86.77  E-value=2.8  Score=34.45  Aligned_cols=74  Identities=14%  Similarity=0.020  Sum_probs=53.5

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC--CCchhHHHHHHH
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY--LSDGELMMFANL  417 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~  417 (471)
                      .+.-+..+.+.+.+++++...++- +.+| |...-..++..++-.|++++|..-++-.-+..|.  +-...|..++++
T Consensus         4 l~~t~seLL~~~sL~dai~~a~~qVkakPtda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           4 LRDTISELLDDNSLQDAIGLARDQVKAKPTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             hHHHHHHHHHhccHHHHHHHHHHHHhcCCccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            344566777888899998887654 5556 4556677888899999999999988888887766  223455555554

>PF02284 COX5A: Cytochrome c oxidase subunit Va; InterPro: IPR003204 Cytochrome c oxidase (1

Probab=86.69  E-value=5.6  Score=28.22  Aligned_cols=60  Identities=13%  Similarity=0.222  Sum_probs=34.9

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 012108          187 EVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALID  247 (471)
Q Consensus       187 ~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  247 (471)
                      +..+-++.+....+.|+.......+++|.+.+++..|.++++.++..- .+....|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aALrAcRRvND~a~AVR~lE~iK~K~-~~~~~~Y~~~lq   87 (108)
T PF02284_consen   28 ELRRGLNNLFGYDLVPEPKIIEAALRACRRVNDFALAVRILEGIKDKC-GNKKEIYPYILQ   87 (108)
T ss_dssp             HHHHHHHHHTTSSB---HHHHHHHHHHHHHTT-HHHHHHHHHHHHHHT-TT-TTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCChHHHHHHHHHHHHhhhHHHHHHHHHHHHHHc-cChHHHHHHHHH
Confidence            345556666666677777777777777777777777777777766542 222225555443

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 ....

>KOG4570 consensus Uncharacterized conserved protein [Function unknown]

Probab=86.52  E-value=5.6  Score=34.73  Aligned_cols=96  Identities=8%  Similarity=-0.020  Sum_probs=61.2

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC---CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSC---VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG  345 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  345 (471)
                      ...+...++..-....+++.++..+-+++...   ..|+ .+-..+++.|.+ -+.++++.++..-.. +|+-||..+++
T Consensus        63 s~~~Vd~~V~v~~~~~~idd~~~~LyKlRhs~~a~~~~~-~~~~~~irlllk-y~pq~~i~~l~npIq-YGiF~dqf~~c  139 (418)
T KOG4570|consen   63 SSLTVDRLVDVISSREEIDDAEYYLYKLRHSPNAWYLRN-WTIHTWIRLLLK-YDPQKAIYTLVNPIQ-YGIFPDQFTFC  139 (418)
T ss_pred             ceeehhhhhhccccccchhHHHHHHHHHhcCcchhhhcc-ccHHHHHHHHHc-cChHHHHHHHhCcch-hccccchhhHH
Confidence            44445555555555677888888777776531   1122 122233343333 456677777777776 78888888888


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC
Q 012108          346 CMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      .+++.+.+.+++.+|.++...|
T Consensus       140 ~l~D~flk~~n~~~aa~vvt~~  161 (418)
T KOG4570|consen  140 LLMDSFLKKENYKDAASVVTEV  161 (418)
T ss_pred             HHHHHHHhcccHHHHHHHHHHH
Confidence            8888888888888887776655

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=86.52  E-value=9.4  Score=27.03  Aligned_cols=78  Identities=12%  Similarity=0.007  Sum_probs=54.8

Q ss_pred             chhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 012108           25 SSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPL  104 (471)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  104 (471)
                      .-++|.-|-+.+...+- ....+-..-+..+.+.|++++|..+.+...-||...|-+|-.  .+.|-.+++..-+..+..
T Consensus        20 cHqEA~tIAdwL~~~~~-~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~   96 (115)
T TIGR02508        20 CHQEANTIADWLHLKGE-SEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAA   96 (115)
T ss_pred             HHHHHHHHHHHHhcCCc-hHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHh
Confidence            45778888887776542 244444555667788999999999999988888888887765  456666666666655554


Q ss_pred             C
Q 012108          105 K  105 (471)
Q Consensus       105 ~  105 (471)
                      .
T Consensus        97 s   97 (115)
T TIGR02508        97 S   97 (115)
T ss_pred             C
Confidence            4

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.

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=86.46  E-value=47  Score=35.08  Aligned_cols=253  Identities=9%  Similarity=-0.030  Sum_probs=136.0

Q ss_pred             HHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCH-HHHHHHHhhcCCCChhhHHHH
Q 012108           66 KVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKI-HSARYIFDKVPAKDVVSWNSL  144 (471)
Q Consensus        66 ~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~a~~~~~~~~~~~~~~~~~l  144 (471)
                      .+.+.+.++++.+-...+..+.+.+..+..-.+...+..++...-...+.++.+.+.. .....+...+..+|..+....
T Consensus       625 ~L~~~L~D~d~~VR~~Av~~L~~~~~~~~~~~L~~aL~D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~~d~~VR~~A  704 (897)
T PRK13800        625 ELAPYLADPDPGVRRTAVAVLTETTPPGFGPALVAALGDGAAAVRRAAAEGLRELVEVLPPAPALRDHLGSPDPVVRAAA  704 (897)
T ss_pred             HHHHHhcCCCHHHHHHHHHHHhhhcchhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhccCchHHHHHHhcCCCHHHHHHH
Confidence            4444455667666666677776666544333344444444555555555555544321 111222222334566666666


Q ss_pred             HHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHH-H
Q 012108          145 ILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLET-G  223 (471)
Q Consensus       145 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~-a  223 (471)
                      +..+...+.-+ ...+...+..+|...-...+.++.+.+..+.    +.....   .++...-.....++...+..+. +
T Consensus       705 ~~aL~~~~~~~-~~~l~~~L~D~d~~VR~~Av~aL~~~~~~~~----l~~~l~---D~~~~VR~~aa~aL~~~~~~~~~~  776 (897)
T PRK13800        705 LDVLRALRAGD-AALFAAALGDPDHRVRIEAVRALVSVDDVES----VAGAAT---DENREVRIAVAKGLATLGAGGAPA  776 (897)
T ss_pred             HHHHHhhccCC-HHHHHHHhcCCCHHHHHHHHHHHhcccCcHH----HHHHhc---CCCHHHHHHHHHHHHHhccccchh
Confidence            66655443211 2234445556666655556666665554332    122222   3455555556666666555432 2


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH-HHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 012108          224 ARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSL-EVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVK  302 (471)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  302 (471)
                      ...+..+.+   .++..+-...+.++...|..+.+. .+...+..++...-...+.++...+. +++...+..+..   .
T Consensus       777 ~~~L~~ll~---D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~d~d~~VR~~Aa~aL~~l~~-~~a~~~L~~~L~---D  849 (897)
T PRK13800        777 GDAVRALTG---DPDPLVRAAALAALAELGCPPDDVAAATAALRASAWQVRQGAARALAGAAA-DVAVPALVEALT---D  849 (897)
T ss_pred             HHHHHHHhc---CCCHHHHHHHHHHHHhcCCcchhHHHHHHHhcCCChHHHHHHHHHHHhccc-cchHHHHHHHhc---C
Confidence            333444433   356777777778888877765543 33344445566566666777777665 345566655554   4


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          303 ADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       303 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      |+...-...+.++.+.+....+...+..+.+
T Consensus       850 ~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~  880 (897)
T PRK13800        850 PHLDVRKAAVLALTRWPGDPAARDALTTALT  880 (897)
T ss_pred             CCHHHHHHHHHHHhccCCCHHHHHHHHHHHh
Confidence            5666666667777665434456666666665

>KOG1550 consensus Extracellular protein SEL-1 and related proteins [Cell wall/membrane/envelope biogenesis; Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=85.77  E-value=38  Score=33.36  Aligned_cols=15  Identities=20%  Similarity=0.102  Sum_probs=8.8

Q ss_pred             hHHHHHHHHHHHHcC
Q 012108          220 LETGARIHVYATDNG  234 (471)
Q Consensus       220 ~~~a~~~~~~~~~~~  234 (471)
                      ...+.++++...+.|
T Consensus       228 ~~~a~~~~~~~a~~g  242 (552)
T KOG1550|consen  228 LSEAFKYYREAAKLG  242 (552)
T ss_pred             hhHHHHHHHHHHhhc
Confidence            345666666666555

>KOG1464 consensus COP9 signalosome, subunit CSN2 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=85.58  E-value=22  Score=30.47  Aligned_cols=242  Identities=14%  Similarity=0.140  Sum_probs=124.0

Q ss_pred             CCCHHHHHHHHHhccc--c-----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC---CC--CCCHHHHHHHHHHHHccC
Q 012108          151 AGEMEKAGEMFKKMLV--K-----NVITWNTMVTGYLRSQLYIEVVDLFDEMKAG---NV--KPDYLTVTSVLSACANLG  218 (471)
Q Consensus       151 ~~~~~~A~~~~~~~~~--~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~---g~--~p~~~~~~~l~~~~~~~~  218 (471)
                      ..++++|+.-|.++.+  +     .-.+...++....+.+++++....|.+++.-   .+  .-+..+.+.++...+.+.
T Consensus        40 e~~p~~Al~sF~kVlelEgEKgeWGFKALKQmiKI~f~l~~~~eMm~~Y~qlLTYIkSAVTrNySEKsIN~IlDyiStS~  119 (440)
T KOG1464|consen   40 EDEPKEALSSFQKVLELEGEKGEWGFKALKQMIKINFRLGNYKEMMERYKQLLTYIKSAVTRNYSEKSINSILDYISTSK  119 (440)
T ss_pred             ccCHHHHHHHHHHHHhcccccchhHHHHHHHHHHHHhccccHHHHHHHHHHHHHHHHHHHhccccHHHHHHHHHHHhhhh
Confidence            3456666666666622  1     1223445666677777777777766666431   11  123344555555555555


Q ss_pred             ChHHHHHHHHHHHH----cC-CCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC----C-----------ChhhHHHHHH
Q 012108          219 SLETGARIHVYATD----NG-LASNPHATTALIDMYAKCGSIEQSLEVFYKSQV----K-----------DVFCWNAMIL  278 (471)
Q Consensus       219 ~~~~a~~~~~~~~~----~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~-----------~~~~~~~l~~  278 (471)
                      +.+....+|+.-.+    .. -..--.+-..|...|...+++.+..++++++..    .           -...|..-|+
T Consensus       120 ~m~LLQ~FYeTTL~ALkdAKNeRLWFKTNtKLgkl~fd~~e~~kl~KIlkqLh~SCq~edGedD~kKGtQLLEiYAlEIQ  199 (440)
T KOG1464|consen  120 NMDLLQEFYETTLDALKDAKNERLWFKTNTKLGKLYFDRGEYTKLQKILKQLHQSCQTEDGEDDQKKGTQLLEIYALEIQ  199 (440)
T ss_pred             hhHHHHHHHHHHHHHHHhhhcceeeeeccchHhhhheeHHHHHHHHHHHHHHHHHhccccCchhhhccchhhhhHhhHhh
Confidence            55444444433221    10 011112233466666666666666666654432    0           1245667788


Q ss_pred             HHHhcCChHHHHHHHHHHHhC-CCCCCHHHHHHHHHHH-----hccCcHHHHHHHHHHhHHhc---CCCCChh--HHHHH
Q 012108          279 GLALHGYGYAALKLLGEMNDS-CVKADDITFIGLLSAC-----SHAGLVQEGCELFSRMEKDF---GVTRKLE--HYGCM  347 (471)
Q Consensus       279 ~~~~~~~~~~a~~~~~~~~~~-~~~p~~~~~~~l~~~~-----~~~~~~~~a~~~~~~~~~~~---~~~~~~~--~~~~l  347 (471)
                      .|...++-.+...++++.... ...|.+.... +|+-|     .+.|++++|..=|-++.+.+   |.+....  -|..|
T Consensus       200 mYT~qKnNKkLK~lYeqalhiKSAIPHPlImG-vIRECGGKMHlreg~fe~AhTDFFEAFKNYDEsGspRRttCLKYLVL  278 (440)
T KOG1464|consen  200 MYTEQKNNKKLKALYEQALHIKSAIPHPLIMG-VIRECGGKMHLREGEFEKAHTDFFEAFKNYDESGSPRRTTCLKYLVL  278 (440)
T ss_pred             hhhhhcccHHHHHHHHHHHHhhccCCchHHHh-HHHHcCCccccccchHHHHHhHHHHHHhcccccCCcchhHHHHHHHH
Confidence            888888888888888876543 2345554443 44444     35688887764433333312   3333222  24444


Q ss_pred             HHHHhhcCC----HHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHH
Q 012108          348 VDLLGRARL----LDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKM  398 (471)
Q Consensus       348 ~~~~~~~g~----~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  398 (471)
                      ..++.+.|-    .++|.    -.+..|.......++.+|. .++..+-+++++.
T Consensus       279 ANMLmkS~iNPFDsQEAK----PyKNdPEIlAMTnlv~aYQ-~NdI~eFE~Il~~  328 (440)
T KOG1464|consen  279 ANMLMKSGINPFDSQEAK----PYKNDPEILAMTNLVAAYQ-NNDIIEFERILKS  328 (440)
T ss_pred             HHHHHHcCCCCCcccccC----CCCCCHHHHHHHHHHHHHh-cccHHHHHHHHHh
Confidence            555554431    11111    0123455567788888884 4465555555543

>smart00028 TPR Tetratricopeptide repeats

Probab=84.99  E-value=1.9  Score=22.16  Aligned_cols=28  Identities=21%  Similarity=0.348  Sum_probs=17.3

Q ss_pred             hHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          410 ELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       410 ~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      .+..++.++...|++++|...+++..+.
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~   30 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALEL   30 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHcc
Confidence            4555666666666666666666665543

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>PF14561 TPR_20: Tetratricopeptide repeat; PDB: 3QOU_A 2R5S_A 3QDN_B

Probab=84.98  E-value=4.6  Score=28.22  Aligned_cols=52  Identities=13%  Similarity=0.050  Sum_probs=25.2

Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-CchhHHHHHHHHHhcCC
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-SDGELMMFANLYASCGQ  423 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~  423 (471)
                      |...-..+...+...|++++|.+.+-.+++.++.. +...-..|+..+.-.|.
T Consensus        21 D~~ar~~lA~~~~~~g~~e~Al~~Ll~~v~~dr~~~~~~ar~~ll~~f~~lg~   73 (90)
T PF14561_consen   21 DLDARYALADALLAAGDYEEALDQLLELVRRDRDYEDDAARKRLLDIFELLGP   73 (90)
T ss_dssp             -HHHHHHHHHHHHHTT-HHHHHHHHHHHHCC-TTCCCCHHHHHHHHHHHHH-T
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCccccccHHHHHHHHHHHHcCC
Confidence            34444555555556666666666665555555442 23344455555555554

>PF04097 Nic96: Nup93/Nic96; InterPro: IPR007231 Nup93/Nic96 is a component of the nuclear pore complex

Probab=84.97  E-value=44  Score=33.40  Aligned_cols=163  Identities=13%  Similarity=0.019  Sum_probs=71.6

Q ss_pred             hhHHHHHHHHHh---cCChHHHHHHHHHHHhCCCCCCHHHHHHHH-HHHhccCcHHHHH-----------HHHHHhHHhc
Q 012108          271 FCWNAMILGLAL---HGYGYAALKLLGEMNDSCVKADDITFIGLL-SACSHAGLVQEGC-----------ELFSRMEKDF  335 (471)
Q Consensus       271 ~~~~~l~~~~~~---~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~-~~~~~~~~~~~a~-----------~~~~~~~~~~  335 (471)
                      .-+..||..|.+   ..++.+|.++|--+....-+.....+...+ ......++++.-+           -++++-.+-.
T Consensus       325 ln~arLI~~Y~~~F~~td~~~Al~Y~~li~~~~~~~~~~l~~~~l~eLvletref~~LLG~i~~dG~r~~G~i~~~~~Li  404 (613)
T PF04097_consen  325 LNFARLIGQYTRSFEITDPREALQYLYLICLFKDPEQRNLFHECLRELVLETREFDLLLGDINPDGSRTPGLIERRLSLI  404 (613)
T ss_dssp             --HHHHHHHHHHTTTTT-HHHHHHHHHGGGGS-SCCHHHHHHHHHHHHHHHH--HHHHHEEE-TTS-EEE-HHHHTGGGG
T ss_pred             cCHHHHHHHHHHHHhccCHHHHHHHHHHHHHcCCchHHHHHHHHHHHHHHccCCHHHHCCCCCCCCccccceeecccccc
Confidence            456777777776   457778888877766543221222222222 2222222221111           1222211101


Q ss_pred             CCCCChhHHH----HHHHHHhhcCCHHHHHHHHHhCCCCCC-HhHHHHHHHHHhhcC-C-----------chHHHHHHHH
Q 012108          336 GVTRKLEHYG----CMVDLLGRARLLDRAIELIEAMPFEPT-ESILGALLSACVIHQ-D-----------LEIGDRVAKM  398 (471)
Q Consensus       336 ~~~~~~~~~~----~l~~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~g-~-----------~~~a~~~~~~  398 (471)
                      ++..+.....    ....-+...|++++|..+|+-.+.-.. ....+.++.-..... .           ...|..+.+.
T Consensus       405 ~~~~~~~~~~~i~~~~A~~~e~~g~~~dAi~Ly~La~~~d~vl~lln~~Ls~~l~~~~~~~~~~s~~~~l~~la~~i~~~  484 (613)
T PF04097_consen  405 KFDDDEDFLREIIEQAAREAEERGRFEDAILLYHLAEEYDKVLSLLNRLLSQVLSQPSSSSLSDSERERLIELAKEILER  484 (613)
T ss_dssp             T-SSSSHHHHHHHHHHHHHHHHCT-HHHHHHHHHHTT-HHHHHHHHHHHHHHHHHCSSTSSSSSTTTTSHHHHHHHHHHH
T ss_pred             CCCCcHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHhhHHHHHHHHHHHHHHHHcCccccccccchhhhHHHHHHHHHHH
Confidence            2222222222    223345677999999999988862211 223444443332222 2           2234444433


Q ss_pred             HHHcC-------CCCCchhHHHHHH-----HHHhcCCHHHHHHHHHHh
Q 012108          399 VCAKS-------NYLSDGELMMFAN-----LYASCGQWEEANRWRNMM  434 (471)
Q Consensus       399 ~~~~~-------~~~~~~~~~~l~~-----~~~~~g~~~~A~~~~~~m  434 (471)
                      .....       .. ...++..|.+     -+...|+|++|.+.++++
T Consensus       485 y~~~~~~~~~~~~~-~~~t~~~Ll~L~~ff~~~~~g~~~~AL~~i~~L  531 (613)
T PF04097_consen  485 YKSNPHISSKVSRK-NRETFQLLLDLAEFFDLYHAGQYEQALDIIEKL  531 (613)
T ss_dssp             HTTSHHHHTTS-HH-HHHHHHHHHHHHHHHHHHHTT-HHHHHHHHHHT
T ss_pred             HHhCcchHhhccHH-HHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHhC
Confidence            32211       11 2334444443     355789999998877766

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.

>COG4785 NlpI Lipoprotein NlpI, contains TPR repeats [General function prediction only]

Probab=84.55  E-value=22  Score=29.51  Aligned_cols=61  Identities=16%  Similarity=0.095  Sum_probs=33.0

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHhcCCCCCh-hhHHHHHH--HHHhcCChHHHHHHHHHHHh
Q 012108          238 NPHATTALIDMYAKCGSIEQSLEVFYKSQVKDV-FCWNAMIL--GLALHGYGYAALKLLGEMND  298 (471)
Q Consensus       238 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~l~~--~~~~~~~~~~a~~~~~~~~~  298 (471)
                      -+.+||-|.-.+...|+++.|.+.|+...+-|+ .-|..+=+  ++--.|++.-|.+-+...-.
T Consensus        98 m~~vfNyLG~Yl~~a~~fdaa~eaFds~~ELDp~y~Ya~lNRgi~~YY~gR~~LAq~d~~~fYQ  161 (297)
T COG4785          98 MPEVFNYLGIYLTQAGNFDAAYEAFDSVLELDPTYNYAHLNRGIALYYGGRYKLAQDDLLAFYQ  161 (297)
T ss_pred             cHHHHHHHHHHHHhcccchHHHHHhhhHhccCCcchHHHhccceeeeecCchHhhHHHHHHHHh
Confidence            355666666666677777777777766555322 12222211  22334666666665555443

>PRK11619 lytic murein transglycosylase; Provisional

Probab=84.37  E-value=48  Score=33.31  Aligned_cols=299  Identities=8%  Similarity=-0.084  Sum_probs=148.1

Q ss_pred             hccchhHHHHHHHHHHHhccCCch-hHHHHHHHHHhccCCHhHHHHHhcccCC-CCcc-cHHHHHHHHHcCCCHHHHHHH
Q 012108           22 ILSSSCIGLMLHGQTIKTGFCGHV-YVQTALLKMYGSLRCIDDAFKVFEKMPE-KDII-AWNSMLDAFASCGQMDHAMKL   98 (471)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~~-~~~~li~~~~~~g~~~~A~~~   98 (471)
                      +.|+...+.++...+...  +... ..|..+.... .....++...++++-.. |-.. .-...+..+.+.+++...+..
T Consensus        45 ~~g~~~~~~~~~~~l~d~--pL~~yl~y~~L~~~l-~~~~~~ev~~Fl~~~~~~P~~~~Lr~~~l~~La~~~~w~~~~~~  121 (644)
T PRK11619         45 DNRQMDVVEQLMPTLKDY--PLYPYLEYRQLTQDL-MNQPAVQVTNFIRANPTLPPARSLQSRFVNELARREDWRGLLAF  121 (644)
T ss_pred             HCCCHHHHHHHHHhccCC--CcHhHHHHHHHHhcc-ccCCHHHHHHHHHHCCCCchHHHHHHHHHHHHHHccCHHHHHHh
Confidence            445666665555554322  1111 1222222211 23356777777766554 3222 223345556678888888884


Q ss_pred             HhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhc---CCCChhhHHHHHHHHHhCCCHH------------------HH
Q 012108           99 IDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKV---PAKDVVSWNSLILAYTNAGEME------------------KA  157 (471)
Q Consensus        99 ~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~------------------~A  157 (471)
                      +..- ..+.......+.+....|+.++|......+   ....+.....+++.+.+.|.+.                  .|
T Consensus       122 ~~~~-p~~~~~~c~~~~A~~~~G~~~~A~~~a~~lW~~g~~~p~~cd~l~~~~~~~g~lt~~d~w~R~~~al~~~~~~lA  200 (644)
T PRK11619        122 SPEK-PKPVEARCNYYYAKWATGQQQEAWQGAKELWLTGKSLPNACDKLFSVWQQSGKQDPLAYLERIRLAMKAGNTGLV  200 (644)
T ss_pred             cCCC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCCChHHHHHHHHHHHcCCCCHHHHHHHHHHHHHCCCHHHH
Confidence            4332 336666677888888889887776666665   2234556666666666555433                  33


Q ss_pred             HHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--ccCChHHHHHHHHHHHHcC-
Q 012108          158 GEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACA--NLGSLETGARIHVYATDNG-  234 (471)
Q Consensus       158 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~--~~~~~~~a~~~~~~~~~~~-  234 (471)
                      ..+...+..........++..+   .+...+...+..     +.|+...-..++.++.  ...+.+.|...+....... 
T Consensus       201 ~~l~~~l~~~~~~~a~a~~al~---~~p~~~~~~~~~-----~~~~~~~~~~~~~~l~Rlar~d~~~A~~~~~~~~~~~~  272 (644)
T PRK11619        201 TYLAKQLPADYQTIASALIKLQ---NDPNTVETFART-----TGPTDFTRQMAAVAFASVARQDAENARLMIPSLVRAQK  272 (644)
T ss_pred             HHHHHhcChhHHHHHHHHHHHH---HCHHHHHHHhhc-----cCCChhhHHHHHHHHHHHHHhCHHHHHHHHHHHHHhcC
Confidence            3332222111111111111111   112222221111     1222211111111221  3445677777777764433 


Q ss_pred             CCCc--hhHHHHHHHHHHhcCChHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHH
Q 012108          235 LASN--PHATTALIDMYAKCGSIEQSLEVFYKSQVK--DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIG  310 (471)
Q Consensus       235 ~~~~--~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~  310 (471)
                      ..+.  ..+...+.......+...++...++.....  +.....--+..-...++++.+...+..|.... .-...-..-
T Consensus       273 ~~~~~~~~~~~~lA~~~a~~~~~~~a~~w~~~~~~~~~~~~~~e~r~r~Al~~~dw~~~~~~i~~L~~~~-~~~~rw~YW  351 (644)
T PRK11619        273 LNEDQRQELRDIVAWRLMGNDVTDEQAKWRDDVIMRSQSTSLLERRVRMALGTGDRRGLNTWLARLPMEA-KEKDEWRYW  351 (644)
T ss_pred             CCHHHHHHHHHHHHHHHHhccCCHHHHHHHHhcccccCCcHHHHHHHHHHHHccCHHHHHHHHHhcCHhh-ccCHhhHHH
Confidence            2221  122333333333333355666666654432  33444444445557778888777777775432 223344555


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHH
Q 012108          311 LLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       311 l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      +.+++...|+.++|..+|+.+..
T Consensus       352 ~aRa~~~~g~~~~A~~~~~~~a~  374 (644)
T PRK11619        352 QADLLLEQGRKAEAEEILRQLMQ  374 (644)
T ss_pred             HHHHHHHcCCHHHHHHHHHHHhc
Confidence            66776667888888888777653

>KOG0545 consensus Aryl-hydrocarbon receptor-interacting protein [Posttranslational modification, protein turnover, chaperones]

Probab=84.25  E-value=7.6  Score=32.67  Aligned_cols=25  Identities=8%  Similarity=-0.051  Sum_probs=15.0

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhH
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRME  332 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~  332 (471)
                      ...=.+-+.+.|++.+|..-|+++.
T Consensus       181 l~q~GN~lfk~~~ykEA~~~YreAi  205 (329)
T KOG0545|consen  181 LHQEGNRLFKLGRYKEASSKYREAI  205 (329)
T ss_pred             HHHhhhhhhhhccHHHHHHHHHHHH
Confidence            3333445566677777777666654

>COG3947 Response regulator containing CheY-like receiver and SARP domains [Signal transduction mechanisms]

Probab=84.07  E-value=28  Score=30.36  Aligned_cols=60  Identities=12%  Similarity=0.024  Sum_probs=51.1

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      ++....+.|...|.+.+|.++.++.+..+|- +...+-.|+..+...|+--.|..-++++.
T Consensus       281 llgkva~~yle~g~~neAi~l~qr~ltldpL-~e~~nk~lm~~la~~gD~is~~khyerya  340 (361)
T COG3947         281 LLGKVARAYLEAGKPNEAIQLHQRALTLDPL-SEQDNKGLMASLATLGDEISAIKHYERYA  340 (361)
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHhhcChh-hhHHHHHHHHHHHHhccchhhhhHHHHHH
Confidence            3444556788999999999999999999998 89999999999999999777777777663

>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=84.05  E-value=14  Score=30.30  Aligned_cols=73  Identities=10%  Similarity=0.002  Sum_probs=30.1

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc--CCCCChhHHHHHHHHHhhcCCHHHH
Q 012108          287 YAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDF--GVTRKLEHYGCMVDLLGRARLLDRA  360 (471)
Q Consensus       287 ~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A  360 (471)
                      +.|.+.|-.+...+.--++.....|...|. ..+.+++.+++.++.+-.  +..+|+..+..|+..|.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLAtyY~-krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALATYYT-KRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHHHHHH-ccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            344444444444433333333333333332 344445555444444311  1123444444444444444444443

>TIGR02508 type_III_yscG type III secretion protein, YscG family

Probab=83.66  E-value=13  Score=26.31  Aligned_cols=86  Identities=19%  Similarity=0.145  Sum_probs=54.8

Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 012108          220 LETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDS  299 (471)
Q Consensus       220 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  299 (471)
                      -++|..+-+.+...+ .....+--+-+..+...|++++|..+.+...-||...|-+|..  .+.|..+++..-+.+|..+
T Consensus        21 HqEA~tIAdwL~~~~-~~~E~v~lIRlsSLmNrG~Yq~Al~l~~~~~~pdlepw~ALce--~rlGl~s~l~~rl~rla~s   97 (115)
T TIGR02508        21 HQEANTIADWLHLKG-ESEEAVQLIRLSSLMNRGDYQSALQLGNKLCYPDLEPWLALCE--WRLGLGSALESRLNRLAAS   97 (115)
T ss_pred             HHHHHHHHHHHhcCC-chHHHHHHHHHHHHHccchHHHHHHhcCCCCCchHHHHHHHHH--HhhccHHHHHHHHHHHHhC
Confidence            455555555554443 1122223333456778899999999988888888888876654  3567777777777777777


Q ss_pred             CCCCCHHHHH
Q 012108          300 CVKADDITFI  309 (471)
Q Consensus       300 ~~~p~~~~~~  309 (471)
                      | .|....|.
T Consensus        98 g-~p~lq~Fa  106 (115)
T TIGR02508        98 G-DPRLQTFV  106 (115)
T ss_pred             C-CHHHHHHH
Confidence            6 44444443

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.

>PRK13800 putative oxidoreductase/HEAT repeat-containing protein; Provisional

Probab=83.63  E-value=64  Score=34.16  Aligned_cols=265  Identities=11%  Similarity=-0.020  Sum_probs=156.5

Q ss_pred             HHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCH-HHHHHHHHhccccChHHHHH
Q 012108           96 MKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEM-EKAGEMFKKMLVKNVITWNT  174 (471)
Q Consensus        96 ~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~A~~~~~~~~~~~~~~~~~  174 (471)
                      -.+.+.+..+|+.+-...+..+.+.+..+-...+...+..++..+....+.++.+.+.. .....+...+..+|...-..
T Consensus       624 ~~L~~~L~D~d~~VR~~Av~~L~~~~~~~~~~~L~~aL~D~d~~VR~~Aa~aL~~l~~~~~~~~~L~~~L~~~d~~VR~~  703 (897)
T PRK13800        624 AELAPYLADPDPGVRRTAVAVLTETTPPGFGPALVAALGDGAAAVRRAAAEGLRELVEVLPPAPALRDHLGSPDPVVRAA  703 (897)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHhhhcchhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhccCchHHHHHHhcCCCHHHHHH
Confidence            34555556778888888999999888755444455555556766666666666555332 11222223334466665555


Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 012108          175 MVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGS  254 (471)
Q Consensus       175 l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  254 (471)
                      .+..+...+..+ .. .+-++++   .+|...-...+.++.+.+..+.   + ..+.   -.++..+-...+.++...+.
T Consensus       704 A~~aL~~~~~~~-~~-~l~~~L~---D~d~~VR~~Av~aL~~~~~~~~---l-~~~l---~D~~~~VR~~aa~aL~~~~~  771 (897)
T PRK13800        704 ALDVLRALRAGD-AA-LFAAALG---DPDHRVRIEAVRALVSVDDVES---V-AGAA---TDENREVRIAVAKGLATLGA  771 (897)
T ss_pred             HHHHHHhhccCC-HH-HHHHHhc---CCCHHHHHHHHHHHhcccCcHH---H-HHHh---cCCCHHHHHHHHHHHHHhcc
Confidence            666655443211 12 2333333   4565555566667766655432   2 2222   25667777777778877776


Q ss_pred             hHH-HHHHH-hcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhH
Q 012108          255 IEQ-SLEVF-YKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRME  332 (471)
Q Consensus       255 ~~~-a~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  332 (471)
                      .+. +...+ .-+..++...-...+.++...|....+...+..+..   .++...-...+.++...+. +++...+..+.
T Consensus       772 ~~~~~~~~L~~ll~D~d~~VR~aA~~aLg~~g~~~~~~~~l~~aL~---d~d~~VR~~Aa~aL~~l~~-~~a~~~L~~~L  847 (897)
T PRK13800        772 GGAPAGDAVRALTGDPDPLVRAAALAALAELGCPPDDVAAATAALR---ASAWQVRQGAARALAGAAA-DVAVPALVEAL  847 (897)
T ss_pred             ccchhHHHHHHHhcCCCHHHHHHHHHHHHhcCCcchhHHHHHHHhc---CCChHHHHHHHHHHHhccc-cchHHHHHHHh
Confidence            543 33333 334557888888889999999887666555555554   3465666667778777765 44556666666


Q ss_pred             HhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHH
Q 012108          333 KDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALL  380 (471)
Q Consensus       333 ~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~  380 (471)
                      +    .|+...-...+.++.+.+....+...+...-..+|..+-....
T Consensus       848 ~----D~~~~VR~~A~~aL~~~~~~~~a~~~L~~al~D~d~~Vr~~A~  891 (897)
T PRK13800        848 T----DPHLDVRKAAVLALTRWPGDPAARDALTTALTDSDADVRAYAR  891 (897)
T ss_pred             c----CCCHHHHHHHHHHHhccCCCHHHHHHHHHHHhCCCHHHHHHHH
Confidence            5    3677777777777877643445666665553345554433333

>TIGR02561 HrpB1_HrpK type III secretion protein HrpB1/HrpK

Probab=83.61  E-value=18  Score=27.91  Aligned_cols=17  Identities=18%  Similarity=0.202  Sum_probs=8.5

Q ss_pred             HhhcCCHHHHHHHHHhC
Q 012108          351 LGRARLLDRAIELIEAM  367 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~  367 (471)
                      +...|++++|..+|++.
T Consensus        54 ~i~rg~w~eA~rvlr~l   70 (153)
T TIGR02561        54 LIARGNYDEAARILREL   70 (153)
T ss_pred             HHHcCCHHHHHHHHHhh
Confidence            34445555555555555

This gene is found within type III secretion operons in a limited range of species including Xanthomonas, Ralstonia and Burkholderia.

>TIGR03504 FimV_Cterm FimV C-terminal domain

Probab=83.56  E-value=2.5  Score=24.72  Aligned_cols=26  Identities=19%  Similarity=-0.003  Sum_probs=21.6

Q ss_pred             HHHHHHhhccchhHHHHHHHHHHHhc
Q 012108           15 LLLKAAGILSSSCIGLMLHGQTIKTG   40 (471)
Q Consensus        15 ~ll~~~~~~g~~~~a~~~~~~~~~~~   40 (471)
                      .|..+|...|+.+.|.++++++.+.|
T Consensus         4 dLA~ayie~Gd~e~Ar~lL~evl~~~   29 (44)
T TIGR03504         4 DLARAYIEMGDLEGARELLEEVIEEG   29 (44)
T ss_pred             HHHHHHHHcCChHHHHHHHHHHHHcC
Confidence            46778889999999999999888655

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.

>KOG0686 consensus COP9 signalosome, subunit CSN1 [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=83.44  E-value=36  Score=31.19  Aligned_cols=59  Identities=8%  Similarity=0.012  Sum_probs=26.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHhCC--CCCCHHHHHHHHHHHHccCChHHHHHHHHHH
Q 012108          172 WNTMVTGYLRSQLYIEVVDLFDEMKAGN--VKPDYLTVTSVLSACANLGSLETGARIHVYA  230 (471)
Q Consensus       172 ~~~l~~~~~~~~~~~~a~~~~~~m~~~g--~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  230 (471)
                      +.-+...|...|+.+.|++.|.+...--  .+-....|..+|....-.|+|..+..+..+.
T Consensus       153 ~~Dl~dhy~~cG~l~~Alr~YsR~RdYCTs~khvInm~ln~i~VSI~~~nw~hv~sy~~~A  213 (466)
T KOG0686|consen  153 LEDLGDHYLDCGQLDNALRCYSRARDYCTSAKHVINMCLNLILVSIYMGNWGHVLSYISKA  213 (466)
T ss_pred             HHHHHHHHHHhccHHHHHhhhhhhhhhhcchHHHHHHHHHHHHHHHhhcchhhhhhHHHHH
Confidence            4445555555566666655555533221  0111223333444444445555444444443

>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=83.30  E-value=16  Score=29.91  Aligned_cols=72  Identities=15%  Similarity=0.096  Sum_probs=36.5

Q ss_pred             HHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc---CCCCchhHHHHHHHHHHhcCChHHH
Q 012108          186 IEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDN---GLASNPHATTALIDMYAKCGSIEQS  258 (471)
Q Consensus       186 ~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~l~~~~~~~~~~~~a  258 (471)
                      +.|.+.|-++...+.--+......+. .|....+.+++..++....+.   +-.+|+..+.+|+..|.+.|+++.|
T Consensus       123 ~~A~~~fL~~E~~~~l~t~elq~aLA-tyY~krD~~Kt~~ll~~~L~l~~~~~~~n~eil~sLas~~~~~~~~e~A  197 (203)
T PF11207_consen  123 QEALRRFLQLEGTPELETAELQYALA-TYYTKRDPEKTIQLLLRALELSNPDDNFNPEILKSLASIYQKLKNYEQA  197 (203)
T ss_pred             HHHHHHHHHHcCCCCCCCHHHHHHHH-HHHHccCHHHHHHHHHHHHHhcCCCCCCCHHHHHHHHHHHHHhcchhhh
Confidence            34555555555554333333333333 333355566666665555442   1244566666666666666666554

>KOG3364 consensus Membrane protein involved in organellar division [Cell wall/membrane/envelope biogenesis]

Probab=83.10  E-value=6  Score=29.80  Aligned_cols=25  Identities=4%  Similarity=-0.086  Sum_probs=12.9

Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      -++.+.++++++.++.+..++..|+
T Consensus        79 vg~yRlkeY~~s~~yvd~ll~~e~~  103 (149)
T KOG3364|consen   79 VGHYRLKEYSKSLRYVDALLETEPN  103 (149)
T ss_pred             HHHHHHhhHHHHHHHHHHHHhhCCC
Confidence            3444555555555555555555444

>KOG0687 consensus 26S proteasome regulatory complex, subunit RPN7/PSMD6 [Posttranslational modification, protein turnover, chaperones]

Probab=82.34  E-value=35  Score=30.25  Aligned_cols=22  Identities=9%  Similarity=0.003  Sum_probs=9.9

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHH
Q 012108          344 YGCMVDLLGRARLLDRAIELIE  365 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~  365 (471)
                      +......|++.|+.+.|++.++
T Consensus       107 ~~~kaeYycqigDkena~~~~~  128 (393)
T KOG0687|consen  107 MLRKAEYYCQIGDKENALEALR  128 (393)
T ss_pred             HHHHHHHHHHhccHHHHHHHHH
Confidence            3334444444444444444443

>KOG1308 consensus Hsp70-interacting protein Hip/Transient component of progesterone receptor complexes and an Hsp70-binding protein [Posttranslational modification, protein turnover, chaperones; Signal transduction mechanisms]

Probab=82.16  E-value=1.2  Score=39.08  Aligned_cols=117  Identities=13%  Similarity=0.090  Sum_probs=66.2

Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH-hHHHHHHHHHhhcCCchHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTE-SILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~-~~~~~l~~~~~~~g~~~~a~  393 (471)
                      ...|.++.|++.|...++  --++....|.--...+.+.++...|++=+... .+.||. .-|-.-..+....|++++|.
T Consensus       125 ln~G~~~~ai~~~t~ai~--lnp~~a~l~~kr~sv~lkl~kp~~airD~d~A~ein~Dsa~~ykfrg~A~rllg~~e~aa  202 (377)
T KOG1308|consen  125 LNDGEFDTAIELFTSAIE--LNPPLAILYAKRASVFLKLKKPNAAIRDCDFAIEINPDSAKGYKFRGYAERLLGNWEEAA  202 (377)
T ss_pred             hcCcchhhhhcccccccc--cCCchhhhcccccceeeeccCCchhhhhhhhhhccCcccccccchhhHHHHHhhchHHHH
Confidence            345667777777776665  33445555555556666666666666655544 445543 23433344445567777777


Q ss_pred             HHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          394 RVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       394 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ..|..+.+++.+  ..+-..|-...-..+..++-...+++..+
T Consensus       203 ~dl~~a~kld~d--E~~~a~lKeV~p~a~ki~e~~~k~er~~~  243 (377)
T KOG1308|consen  203 HDLALACKLDYD--EANSATLKEVFPNAGKIEEHRRKYERARE  243 (377)
T ss_pred             HHHHHHHhcccc--HHHHHHHHHhccchhhhhhchhHHHHHHH
Confidence            777777776665  33333344444445555555555544433

>smart00028 TPR Tetratricopeptide repeats

Probab=82.01  E-value=2.5  Score=21.67  Aligned_cols=30  Identities=13%  Similarity=-0.083  Sum_probs=21.6

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      .+..+...+...|+++.|...++..++..|
T Consensus         3 ~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~   32 (34)
T smart00028        3 ALYNLGNAYLKLGDYDEALEYYEKALELDP   32 (34)
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHccCC
Confidence            455666677777888888888887776654

Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.

>TIGR02270 conserved hypothetical protein

Probab=81.34  E-value=48  Score=31.10  Aligned_cols=54  Identities=11%  Similarity=0.007  Sum_probs=23.3

Q ss_pred             HHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHH
Q 012108           65 FKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYA  118 (471)
Q Consensus        65 ~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~  118 (471)
                      ..+.+.+..++.........++...+.....-.+...+...++......+.++.
T Consensus        89 ~~L~~~L~d~~~~vr~aaa~ALg~i~~~~a~~~L~~~L~~~~p~vR~aal~al~  142 (410)
T TIGR02270        89 RSVLAVLQAGPEGLCAGIQAALGWLGGRQAEPWLEPLLAASEPPGRAIGLAALG  142 (410)
T ss_pred             HHHHHHhcCCCHHHHHHHHHHHhcCCchHHHHHHHHHhcCCChHHHHHHHHHHH
Confidence            333333334444444455555555444444444333333334444434444443

Members are found in Myxococcus xanthus (six members), Geobacter sulfurreducens, and Pseudomonas aeruginosa; a short protein homologous to the N-terminal region is found in Mesorhizobium loti. All sequence are from Proteobacteria. The function is unknown.

>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function

Probab=81.23  E-value=21  Score=29.89  Aligned_cols=51  Identities=14%  Similarity=0.226  Sum_probs=32.8

Q ss_pred             hHHHHHHHHHHHcCCCCC-----chhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          390 EIGDRVAKMVCAKSNYLS-----DGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       390 ~~a~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ..|.+.|+++.+....|.     ......++....+.|++++|.+.|.++...+-.
T Consensus       142 ~~Al~~y~~a~~~e~~~~~~~~~~~l~YLigeL~rrlg~~~eA~~~fs~vi~~~~~  197 (214)
T PF09986_consen  142 RKALEFYEEAYENEDFPIEGMDEATLLYLIGELNRRLGNYDEAKRWFSRVIGSKKA  197 (214)
T ss_pred             HHHHHHHHHHHHhCcCCCCCchHHHHHHHHHHHHHHhCCHHHHHHHHHHHHcCCCC
Confidence            345666666655543322     345556777788888888888888888765433

>COG4455 ImpE Protein of avirulence locus involved in temperature-dependent protein secretion [General function prediction only]

Probab=80.57  E-value=12  Score=30.99  Aligned_cols=126  Identities=14%  Similarity=-0.026  Sum_probs=74.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh-cCCCCChhHHHHHHHH
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKD-FGVTRKLEHYGCMVDL  350 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~~~~~~~~~~l~~~  350 (471)
                      +.+.-++.+.+.+...+++...++-++.+ +.|..+-..+++.++-.|++++|..-++-..+- ....+-...|..+|.+
T Consensus         3 Tl~~t~seLL~~~sL~dai~~a~~qVkak-Ptda~~RhflfqLlcvaGdw~kAl~Ql~l~a~l~p~~t~~a~lyr~lir~   81 (273)
T COG4455           3 TLRDTISELLDDNSLQDAIGLARDQVKAK-PTDAGGRHFLFQLLCVAGDWEKALAQLNLAATLSPQDTVGASLYRHLIRC   81 (273)
T ss_pred             chHHHHHHHHHhccHHHHHHHHHHHHhcC-CccccchhHHHHHHhhcchHHHHHHHHHHHhhcCcccchHHHHHHHHHHH
Confidence            34556778889999999999988877762 334556667889999999999998877766540 1233345566666653


Q ss_pred             HhhcCCHHHHH-HHHHhC---C--CCCCHhHHHHHHHHHh-hcC-CchHHHHHHHHHHHcCCC
Q 012108          351 LGRARLLDRAI-ELIEAM---P--FEPTESILGALLSACV-IHQ-DLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       351 ~~~~g~~~~A~-~~~~~~---~--~~p~~~~~~~l~~~~~-~~g-~~~~a~~~~~~~~~~~~~  405 (471)
                      -       .+. ++|.--   +  ..|.+.-...+..+.. ..+ .-+.+..+-+...+..|.
T Consensus        82 e-------a~R~evfag~~~Pgflg~p~p~wva~L~aala~h~dg~gea~~alreqal~aa~~  137 (273)
T COG4455          82 E-------AARNEVFAGGAVPGFLGGPSPEWVAALLAALALHSDGAGEARTALREQALKAAPV  137 (273)
T ss_pred             H-------HHHHHHhccCCCCCCcCCCCHHHHHHHHHHHhcccCCcchHHHHHHHHHHhhCCC
Confidence            2       222 233221   1  1133322233333332 333 344455555677777776

>PRK12798 chemotaxis protein; Reviewed

Probab=80.48  E-value=49  Score=30.65  Aligned_cols=187  Identities=16%  Similarity=0.119  Sum_probs=114.5

Q ss_pred             cCChHHHHHHHhcCCCC----ChhhHHHHHHHHH-hcCChHHHHHHHHHHHhCCCCCCH----HHHHHHHHHHhccCcHH
Q 012108          252 CGSIEQSLEVFYKSQVK----DVFCWNAMILGLA-LHGYGYAALKLLGEMNDSCVKADD----ITFIGLLSACSHAGLVQ  322 (471)
Q Consensus       252 ~~~~~~a~~~~~~~~~~----~~~~~~~l~~~~~-~~~~~~~a~~~~~~~~~~~~~p~~----~~~~~l~~~~~~~~~~~  322 (471)
                      .|+..++.+.+..+...    ....+-.|+.+-. ...++.+|+++|+..+-.  -|..    .....-+....+.|+.+
T Consensus       125 ~Gr~~~a~~~La~i~~~~l~~~lg~~laLv~a~l~~~~dP~~Al~~lD~aRLl--aPGTLvEEAALRRsi~la~~~g~~~  202 (421)
T PRK12798        125 SGRGREARKLLAGVAPEYLPAELGAYLALVQGNLMVATDPATALKLLDQARLL--APGTLVEEAALRRSLFIAAQLGDAD  202 (421)
T ss_pred             cCCHHHHHHHhhcCChhhcCchhhhHHHHHHHHHhcccCHHHHHHHHHHHHHh--CCchHHHHHHHHHhhHHHHhcCcHH
Confidence            57888888888777653    3455666666543 456788899999887653  3332    23444455567888888


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHH-HHHHHHhh---cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHH
Q 012108          323 EGCELFSRMEKDFGVTRKLEHYG-CMVDLLGR---ARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKM  398 (471)
Q Consensus       323 ~a~~~~~~~~~~~~~~~~~~~~~-~l~~~~~~---~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~  398 (471)
                      ++..+-......+...|-..-|. .+...+.+   .-..+.-..++..|.-.--..+|..+.+.-...|+.+-|...-++
T Consensus       203 rf~~la~~Y~rRF~~S~YA~~F~~~F~~~~~~~~d~~~~~~l~~~ls~~d~~~q~~lYL~iAR~Ali~Gk~~lA~~As~~  282 (421)
T PRK12798        203 KFEALARNYLRRFRHSPYASQFAQRFVDLVVRLDDEIRDARLVEILSFMDPERQRELYLRIARAALIDGKTELARFASER  282 (421)
T ss_pred             HHHHHHHHHHHHhccCchHHHHHHHHHHHHHhccccccHHHHHHHHHhcCchhHHHHHHHHHHHHHHcCcHHHHHHHHHH
Confidence            88777666665444455433332 22333333   334455666666765223356888888888889999999888888


Q ss_pred             HHHcCCCCCchhHHHHHHHHH-----hcCCHHHHHHHHHHhhhCCCccc
Q 012108          399 VCAKSNYLSDGELMMFANLYA-----SCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       399 ~~~~~~~~~~~~~~~l~~~~~-----~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      +......  ...-...+..|.     -..+++++.+.+..+-.....+.
T Consensus       283 A~~L~~~--~~~~~~ra~LY~aaa~v~s~~~~~al~~L~~I~~~~L~~~  329 (421)
T PRK12798        283 ALKLADP--DSADAARARLYRGAALVASDDAESALEELSQIDRDKLSER  329 (421)
T ss_pred             HHHhccC--CCcchHHHHHHHHHHccCcccHHHHHHHHhcCChhhCChh
Confidence            8887633  233333333333     23557777776666655444433

>PF04190 DUF410: Protein of unknown function (DUF410) ; InterPro: IPR007317 This is a family of conserved eukaryotic proteins with undetermined function

Probab=80.31  E-value=39  Score=29.40  Aligned_cols=157  Identities=15%  Similarity=0.168  Sum_probs=74.1

Q ss_pred             hCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHH----HHHHHHhCCCCCCHHHHHHHHHHHHccCChH-HHH
Q 012108          150 NAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVD----LFDEMKAGNVKPDYLTVTSVLSACANLGSLE-TGA  224 (471)
Q Consensus       150 ~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~----~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~-~a~  224 (471)
                      +++++++|.+++..-           ...+.+.|+...|-+    +++-..+.+++++......++..+...+.-+ .-.
T Consensus         2 ~~kky~eAidLL~~G-----------a~~ll~~~Q~~sg~DL~~lliev~~~~~~~~~~~~~~rl~~l~~~~~~~~p~r~   70 (260)
T PF04190_consen    2 KQKKYDEAIDLLYSG-----------ALILLKHGQYGSGADLALLLIEVYEKSEDPVDEESIARLIELISLFPPEEPERK   70 (260)
T ss_dssp             HTT-HHHHHHHHHHH-----------HHHHHHTT-HHHHHHHHHHHHHHHHHTT---SHHHHHHHHHHHHHS-TT-TTHH
T ss_pred             ccccHHHHHHHHHHH-----------HHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHhCCCCcchHH
Confidence            456777777776542           223444444433332    2333334455666655555555444332211 112


Q ss_pred             HHHHHHH---HcCC--CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 012108          225 RIHVYAT---DNGL--ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDS  299 (471)
Q Consensus       225 ~~~~~~~---~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  299 (471)
                      ++.+.++   +.+-  .-++..+..+...|.+.|++.+|+..|-....++...+..++......|.              
T Consensus        71 ~fi~~ai~WS~~~~~~~Gdp~LH~~~a~~~~~e~~~~~A~~Hfl~~~~~~~~~~~~ll~~~~~~~~--------------  136 (260)
T PF04190_consen   71 KFIKAAIKWSKFGSYKFGDPELHHLLAEKLWKEGNYYEAERHFLLGTDPSAFAYVMLLEEWSTKGY--------------  136 (260)
T ss_dssp             HHHHHHHHHHHTSS-TT--HHHHHHHHHHHHHTT-HHHHHHHHHTS-HHHHHHHHHHHHHHHHHTS--------------
T ss_pred             HHHHHHHHHHccCCCCCCCHHHHHHHHHHHHhhccHHHHHHHHHhcCChhHHHHHHHHHHHHHhcC--------------
Confidence            2222222   2222  24678889999999999999999988765544333333222222222222              


Q ss_pred             CCCCCHHHHH-HHHHHHhccCcHHHHHHHHHHhHH
Q 012108          300 CVKADDITFI-GLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       300 ~~~p~~~~~~-~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                        +.+...|. ..+--|...++...|...+....+
T Consensus       137 --~~e~dlfi~RaVL~yL~l~n~~~A~~~~~~f~~  169 (260)
T PF04190_consen  137 --PSEADLFIARAVLQYLCLGNLRDANELFDTFTS  169 (260)
T ss_dssp             --S--HHHHHHHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             --CcchhHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence              22222222 122334556888888887777765

; PDB: 3LKU_E 2WPV_G.

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

No homologous structure with e-value below 0.005

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	471
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-12
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	6e-05
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	8e-04
3ugm_A	1047	TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xan	2e-05
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	3e-05
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	8e-05
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	1e-04
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	2e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	5e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	5e-04
3v6t_A	499	DHAX3; tandem repeats, DNA specific binding protei	6e-04

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 67.1 bits (162), Expect = 6e-12
 Identities = 24/225 (10%), Positives = 64/225 (28%), Gaps = 21/225 (9%)

Query: 75  DIIAWNSMLDAFASCGQMDHAMKLIDLM-------PLKDVTSFNIMISGYARIGKIHSAR 127
                 +         Q+  A  L+ +         L  +  +N ++ G+AR G      
Sbjct: 126 QQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELV 185

Query: 128 YIFDKVPAK----DVVSWNSLILAYTNAGEMEKA-----GEMFKKMLVKNVITWNTMVTG 178
           Y+   V       D++S+ + +       +          +M ++ L    +    +++ 
Sbjct: 186 YVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSE 245

Query: 179 YLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASN 238
             R+ +   V  +          P  +  + +L          +  ++H+          
Sbjct: 246 EDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPKLHLPLKTLQCLFE 305

Query: 239 PH-----ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMIL 278
                  A+   +    K     + ++   K+       W   + 
Sbjct: 306 KQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEKALC 350

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 44.8 bits (104), Expect = 6e-05
 Identities = 29/240 (12%), Positives = 68/240 (28%), Gaps = 18/240 (7%)

Query: 195 MKAGNVKPDYLTVTSVLSACANLGSLETGARI---HVYATDNGLASNPHATTALIDMYAK 251
                +      + +    C     L     +   H                A++  +A+
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 252 CGSIEQSLEVFY---KSQVK-DVFCWNAMILGLALHG-YGYAALKLLGEMNDSCVKADDI 306
            G+ ++ + V +    + +  D+  + A +  +           + L +M+   +K   +
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEA 366
               LLS    A +++   ++                   +   +  ++LL         
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLP----------PQLPPPVNTSKLLRDVYAKDGR 287

Query: 367 MPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEE 426
           + +      L  L         +E+  RV  +   K    S         L     QWE+
Sbjct: 288 VSYPKLHLPLKTLQCLFEKQLHMELASRVCVVSVEKPTLPSKEVKHARKTLKTLRDQWEK 347

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens} Length = 1134

 Score = 41.0 bits (94), Expect = 8e-04
 Identities = 17/195 (8%), Positives = 54/195 (27%), Gaps = 9/195 (4%)

Query: 1   MQELGVHADNYSFPLLLKA---AGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGS 57
             +  +           K       L  +   L++H    +      + +  A++  +  
Sbjct: 118 HSQAQLSGQQQRLLAFFKCCLLTDQLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWAR 177

Query: 58  LRCIDDAFKVFEKMPEK----DIIAWNSMLDAFASCGQMDHAM-KLIDLMPLKDVTSFNI 112
                +   V   + +     D++++ + L       Q    + + ++ M  + +    +
Sbjct: 178 QGAFKELVYVLFMVKDAGLTPDLLSYAAALQCMGRQDQDAGTIERCLEQMSQEGLKLQAL 237

Query: 113 MISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITW 172
             +         +      KV     +         T+    +   +  +    K +   
Sbjct: 238 FTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDGRVSYPK-LHLP 296

Query: 173 NTMVTGYLRSQLYIE 187
              +      QL++E
Sbjct: 297 LKTLQCLFEKQLHME 311

>3ugm_A TAL effector avrbs3/PTHA; TAL effector; 3.00A {Xanthomonas oryzae} Length = 1047

 Score = 46.2 bits (109), Expect = 2e-05
 Identities = 32/285 (11%), Positives = 86/285 (30%), Gaps = 27/285 (9%)

Query: 55  YGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAM----KLIDLMPLKDV 107
             +L  +     V  +        ++A  S +    +   +   +    +   L P   V
Sbjct: 236 KQALETMQRLLPVLCQAHGLPPDQVVAIASNIGGKQALETVQRLLPVLCQAHGLTP-DQV 294

Query: 108 TSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKM 164
            +      G   +  +     +  +        VV+  S          +++   +  + 
Sbjct: 295 VAIASHGGGKQALETVQRLLPVLCQAHGLTPDQVVAIASHDGGKQALETVQRLLPVLCQA 354

Query: 165 LV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLE 221
                  V+   +   G    +    ++ +    +A  + PD +   +       L +++
Sbjct: 355 HGLTPDQVVAIASNGGGKQALETVQRLLPVLC--QAHGLTPDQVVAIASNGGKQALETVQ 412

Query: 222 TGARIHVYATDNGLASNPHATTALIDM---YAKCGSIEQSLEVFYKSQVKDVFCWNAMIL 278
                            P    A+           ++++ L V  ++         A ++
Sbjct: 413 RLLP----VLCQAHGLTPDQVVAIASHDGGKQALETVQRLLPVLCQTHGLT----PAQVV 464

Query: 279 GLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQE 323
            +A H  G  AL+ + ++     +A  +T   +++  S+ G  Q 
Sbjct: 465 AIASHDGGKQALETVQQLLPVLCQAHGLTPDQVVAIASNIGGKQA 509

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 46.0 bits (108), Expect = 3e-05
 Identities = 56/394 (14%), Positives = 102/394 (25%), Gaps = 91/394 (23%)

Query: 45  VYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQM---------DHA 95
            +V+  L   Y  L       K  ++ P      +    D   +  Q+            
Sbjct: 81  KFVEEVLRINYKFLM---SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPY 137

Query: 96  MKLID-LMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILA------Y 148
           +KL   L+ L+     N++I G    GK            A DV     +         +
Sbjct: 138 LKLRQALLELRPAK--NVLIDGVLGSGK---------TWVALDVCLSYKVQCKMDFKIFW 186

Query: 149 TNAGEMEKAG---EMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYL 205
            N           EM +K+L +    W +        +L I    +  E++       Y 
Sbjct: 187 LNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIH--SIQAELRRLLKSKPYE 244

Query: 206 TVTSVLSACANLGSLET---GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVF 262
               VL    N  +        +I +      +      T  L        S++      
Sbjct: 245 NCLLVLLNVQNAKAWNAFNLSCKILLTTRFKQV------TDFLSAATTTHISLDHHSMTL 298

Query: 263 YKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQ 322
              +VK +                   LK L        +  D+         +      
Sbjct: 299 TPDEVKSLL------------------LKYLD------CRPQDLP----REVLTTNPRR- 329

Query: 323 EGCELFSRMEKDFGVTRK-LEHYGCMVDLLGRARLLDRAIEL-IEAMPFEPTESILGALL 380
               + +   +D   T    +H  C          L   IE  +     EP E     + 
Sbjct: 330 --LSIIAESIRDGLATWDNWKHVNCDK--------LTTIIESSLNV--LEPAE--YRKMF 375

Query: 381 SACVIHQ-DLEIGDRVAKMVCAKSNYLSDGELMM 413
               +      I   +  ++       SD  +++
Sbjct: 376 DRLSVFPPSAHIPTILLSLIWFDVIK-SDVMVVV 408

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus} Length = 208

 Score = 42.8 bits (101), Expect = 8e-05
 Identities = 19/121 (15%), Positives = 39/121 (32%), Gaps = 10/121 (8%)

Query: 55  YGSLRCIDDAFKVFEKMPEKD---IIAWNSMLDAFASCGQMDHAM----KLIDLMPLKDV 107
           Y   R  D A+  ++++ +K    +    +  +     GQ   A+    K++ L      
Sbjct: 64  YKKNRNYDKAYLFYKELLQKAPNNVDCLEACAEMQVCRGQEKDALRMYEKILQLEADNLA 123

Query: 108 TSFNIMISGYARIGKIHSARYIFDKV---PAKDVVSWNSLILAYTNAGEMEKAGEMFKKM 164
            +  +    Y    +         K    P K   +     L+       EKA    +K+
Sbjct: 124 ANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSKLFTTRYEKARNSLQKV 183

Query: 165 L 165
           +
Sbjct: 184 I 184

>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 Length = 388

 Score = 42.9 bits (102), Expect = 1e-04
 Identities = 25/174 (14%), Positives = 56/174 (32%), Gaps = 24/174 (13%)

Query: 61  IDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAM----KLIDLMPLKDVTSFNIM 113
            + A +   ++      +      +      C ++D +       I   P     +++ +
Sbjct: 15  FEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNP-LLAEAYSNL 73

Query: 114 ISGYARIGKIHSARYIFDKV----PAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV--- 166
            + Y   G++  A   +       P   +  + +L  A   AG+ME A + +   L    
Sbjct: 74  GNVYKERGQLQEAIEHYRHALRLKP-DFIDGYINLAAALVAAGDMEGAVQAYVSALQYNP 132

Query: 167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSL 220
                 + +           E    +   KA   +P++        A +NLG +
Sbjct: 133 DLYCVRSDLGNLLKALGRLEEAKACYL--KAIETQPNFAV------AWSNLGCV 178

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe} Length = 597

 Score = 42.5 bits (100), Expect = 2e-04
 Identities = 16/122 (13%), Positives = 42/122 (34%), Gaps = 11/122 (9%)

Query: 50  ALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAM----KLIDLMPLK 105
                   LR  +D       +  K         D      +    +    K++++ P  
Sbjct: 280 NKTSHEDELRRAEDYLSSINGLE-KSSDLLLCKADTLFVRSRFIDVLAITTKILEIDP-Y 337

Query: 106 DVTSFNIMISGYARIGKIHSARYIFDKV----PAKDVVSWNSLILAYTNAGEMEKAGEMF 161
           ++  + + ++     G+ +    I + +    P +  V+W ++ + Y    ++ +A   F
Sbjct: 338 NLDVYPLHLASLHESGEKNKLYLISNDLVDRHP-EKAVTWLAVGIYYLCVNKISEARRYF 396

Query: 162 KK 163
            K
Sbjct: 397 SK 398

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 41.3 bits (97), Expect = 5e-04
 Identities = 19/178 (10%), Positives = 53/178 (29%), Gaps = 24/178 (13%)

Query: 55  YGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAM----KLIDLMPLKDV 107
             +L  +     V  +      + ++A  S      +   +   +    +   L P + V
Sbjct: 150 KQALETVQALLPVLCQAHGLTPEQVVAIASNGGGKQALETVQRLLPVLCQAHGLTP-QQV 208

Query: 108 TSFNIMISGYARIGKIHSARYIFDKV----PAKDVVSWNSLILAYTNAGEMEKAGEMFKK 163
            +      G   +  +     +  +     P + VV+  S          +++   +  +
Sbjct: 209 VAIASNGGGKQALETVQRLLPVLCQAHGLTP-QQVVAIASNGGGKQALETVQRLLPVLCQ 267

Query: 164 MLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLG 218
                 + V+   +   G    +    ++ +    +A  + P  +       A A+ G
Sbjct: 268 AHGLTPQQVVAIASNSGGKQALETVQRLLPVLC--QAHGLTPQQVV------AIASNG 317

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 41.3 bits (97), Expect = 5e-04
 Identities = 20/177 (11%), Positives = 50/177 (28%), Gaps = 21/177 (11%)

Query: 55  YGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMDHAM----KLIDLMPLKDV 107
             +L  +     V  +      + ++A  S      +   +   +    +   L P + V
Sbjct: 320 KQALETVQRLLPVLCQAHGLTPQQVVAIASHDGGKQALETVQRLLPVLCQAHGLTP-EQV 378

Query: 108 TSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKM 164
            +      G   +  +     +  +      + VV+  S          +++   +  + 
Sbjct: 379 VAIASNGGGKQALETVQRLLPVLCQAHGLTPEQVVAIASHDGGKQALETVQRLLPVLCQA 438

Query: 165 LV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLG 218
                + V+   +   G    +  +  +   D   A     +   V     A A LG
Sbjct: 439 HGLTPQQVVAIASNGGGRPALESIVAQLSRPD--PALAALTNDHLV-----ALACLG 488

>3v6t_A DHAX3; tandem repeats, DNA specific binding protein, DNA binding DNA complex; HET: DNA; 1.85A {Xanthomonas} PDB: 3v6p_A 2kq5_A Length = 499

 Score = 41.3 bits (97), Expect = 6e-04
 Identities = 13/141 (9%), Positives = 41/141 (29%), Gaps = 13/141 (9%)

Query: 74  KDIIAWNSMLDAFASCGQMDHAM----KLIDLMPLKDVTSFNIMISGYARIGKIHSARYI 129
           + ++A  S      +   +   +    +   L P + V +      G   +  +     +
Sbjct: 70  EQVVAIASHDGGKQALETVQRLLPVLCQAHGLTP-QQVVAIASHDGGKQALETVQRLLPV 128

Query: 130 FDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQ 183
             +      + VV+  S          ++    +  +      + V+   +   G    +
Sbjct: 129 LCQAHGLTPEQVVAIASHDGGKQALETVQALLPVLCQAHGLTPEQVVAIASNGGGKQALE 188

Query: 184 LYIEVVDLFDEMKAGNVKPDY 204
               ++ +    +A  + P  
Sbjct: 189 TVQRLLPVLC--QAHGLTPQQ 207

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	471
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
2xpi_A	597	Anaphase-promoting complex subunit CUT9; cell cycl	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	100.0
1w3b_A	388	UDP-N-acetylglucosamine--peptide N-acetylglucosami	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.97
4g26_A	501	Pentatricopeptide repeat-containing protein AT2G3	99.96
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
2gw1_A	514	Mitochondrial precursor proteins import receptor;	99.95
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.95
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.94
2y4t_A	450	DNAJ homolog subfamily C member 3; chaperone, endo	99.93
3fp2_A	537	TPR repeat-containing protein YHR117W; TOM71, mito	99.92
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.91
3ieg_A	359	DNAJ homolog subfamily C member 3; TPR motif, chap	99.9
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.87
3hym_B	330	Cell division cycle protein 16 homolog; APC, anaph	99.87
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.87
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.86
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.86
2xm6_A	490	Protein corresponding to locus C5321 from CFT073 s	99.86
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.85
1b89_A	449	Protein (clathrin heavy chain); triskelion, coated	99.84
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.84
1fch_A	368	Peroxisomal targeting signal 1 receptor; protein-p	99.83
2ooe_A	530	Cleavage stimulation factor 77 kDa subunit; HAT do	99.83
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.83
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.83
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.82
3mkr_A	291	Coatomer subunit epsilon; tetratricopeptide repeat	99.81
1xi4_A	1630	Clathrin heavy chain; alpha-ZIG-ZAG, beta-propelle	99.81
4eqf_A	365	PEX5-related protein; accessory protein, tetratric	99.8
4g1t_A	472	Interferon-induced protein with tetratricopeptide	99.79
3cv0_A	327	Peroxisome targeting signal 1 receptor PEX5; TPR m	99.78
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.73
3uq3_A	258	Heat shock protein STI1; HSP90, peptide binding, c	99.72
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.72
3e4b_A	452	ALGK; tetratricopeptide repeat, superhelix, algina	99.72
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.72
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.71
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.69
3spa_A	1134	Mtrpol, DNA-directed RNA polymerase, mitochondrial	99.69
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.69
2pl2_A	217	Hypothetical conserved protein TTC0263; TPR, prote	99.67
3u4t_A	272	TPR repeat-containing protein; structural genomics	99.67
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.66
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.65
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.65
1ouv_A	273	Conserved hypothetical secreted protein; TPR repea	99.65
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.64
2q7f_A	243	YRRB protein; TPR, protein binding; 2.49A {Bacillu	99.64
2ho1_A	252	Type 4 fimbrial biogenesis protein PILF; type IV p	99.63
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.63
2h6f_A	382	Protein farnesyltransferase/geranylgeranyltransfer	99.62
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.62
2vq2_A	225	PILW, putative fimbrial biogenesis and twitching m	99.62
1xnf_A	275	Lipoprotein NLPI; TPR, tetratricopeptide, structur	99.61
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.61
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.61
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.6
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.59
3sf4_A	406	G-protein-signaling modulator 2; tetratricopeptide	99.59
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.58
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.56
3ulq_A	383	Response regulator aspartate phosphatase F; tetrat	99.55
4a1s_A	411	PINS, partner of inscuteable; cell cycle, LGN, mit	99.55
4e6h_A	679	MRNA 3'-END-processing protein RNA14; HAT domain,	99.54
3ro2_A	338	PINS homolog, G-protein-signaling modulator 2; TPR	99.52
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.52
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.51
2ond_A	308	Cleavage stimulation factor 77 kDa subunit; HAT do	99.5
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.47
3vtx_A	184	MAMA; tetratricopeptide repeats (TPR) containing p	99.46
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.46
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3q15_A	378	PSP28, response regulator aspartate phosphatase H;	99.43
3nf1_A	311	KLC 1, kinesin light chain 1; TPR, structural geno	99.42
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.41
4abn_A	474	Tetratricopeptide repeat protein 5; P53 cofactor,	99.41
3as5_A	186	MAMA; tetratricopeptide repeats (TPR) containing p	99.37
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.37
1hz4_A	373	MALT regulatory protein; two-helix bundles, helix	99.36
4i17_A	228	Hypothetical protein; TPR repeats protein, structu	99.33
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.32
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.31
4gyw_A	723	UDP-N-acetylglucosamine--peptide N- acetylglucosam	99.25
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.23
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.23
3edt_B	283	KLC 2, kinesin light chain 2; superhelical, struct	99.22
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.21
3mv2_B	310	Coatomer subunit epsilon; vesicular membrane coat	99.2
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	99.19
1qqe_A	292	Vesicular transport protein SEC17; helix-turn-heli	99.18
3qky_A	261	Outer membrane assembly lipoprotein YFIO; membrane	99.17
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	99.15
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.14
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.11
2fo7_A	136	Synthetic consensus TPR protein; tetratricopeptide	99.1
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	99.08
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	99.07
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	99.07
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.06
4ga2_A	150	E3 SUMO-protein ligase ranbp2; TPR motif, nuclear	99.05
3urz_A	208	Uncharacterized protein; tetratricopeptide repeats	99.05
2pzi_A	681	Probable serine/threonine-protein kinase PKNG; ATP	99.03
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	99.01
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.99
3qou_A	287	Protein YBBN; thioredoxin-like fold, tetratricopep	98.98
2r5s_A	176	Uncharacterized protein VP0806; APC090868.1, vibri	98.97
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.97
2uy1_A	493	Cleavage stimulation factor 77; RNA-binding protei	98.97
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.97
2ifu_A	307	Gamma-SNAP; membrane fusion, snare complex disasse	98.96
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.96
3dra_A	306	Protein farnesyltransferase/geranylgeranyltransfer	98.95
2vsy_A	568	XCC0866; transferase, glycosyl transferase, GT-B,	98.94
2yhc_A	225	BAMD, UPF0169 lipoprotein YFIO; essential BAM comp	98.93
3rjv_A	212	Putative SEL1 repeat protein; alpha-alpha superhel	98.92
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.92
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.92
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.91
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.89
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.89
4gco_A	126	Protein STI-1; structural genomics, PSI-biology, m	98.88
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.86
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.85
1hh8_A	213	P67PHOX, NCF-2, neutrophil cytosol factor 2; cell	98.85
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.84
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.83
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.81
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.79
3u3w_A	293	Transcriptional activator PLCR protein; ternary co	98.75
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.75
2qfc_A	293	PLCR protein; TPR, HTH, transcription regulation;	98.73
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.71
4f3v_A	282	ESX-1 secretion system protein ECCA1; tetratricope	98.71
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.69
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.69
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.69
2c2l_A	281	CHIP, carboxy terminus of HSP70-interacting protei	98.67
2vgx_A	148	Chaperone SYCD; alternative dimer assembly, tetrat	98.67
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.65
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.65
2lni_A	133	Stress-induced-phosphoprotein 1; structural genomi	98.65
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.65
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.65
1na0_A	125	Designed protein CTPR3; de novo protein; HET: IPT;	98.64
3gyz_A	151	Chaperone protein IPGC; asymmetric homodimer, tetr	98.64
1elw_A	118	TPR1-domain of HOP; HOP, TPR-domain, peptide-compl	98.63
3gw4_A	203	Uncharacterized protein; structural genomics, PSI-	98.62
3upv_A	126	Heat shock protein STI1; TPR-fold, adaptor protein	98.62
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.62
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.62
1a17_A	166	Serine/threonine protein phosphatase 5; hydrolase,	98.61
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.6
2xcb_A	142	PCRH, regulatory protein PCRH; protein transport,	98.58
2e2e_A	177	Formate-dependent nitrite reductase complex NRFG;	98.58
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.57
2vyi_A	131	SGTA protein; chaperone, TPR repeat, phosphoprotei	98.57
3q7a_A	349	Farnesyltransferase alpha subunit; protein prenylt	98.54
3sz7_A	164	HSC70 cochaperone (SGT); TPR domain, GET4, GET5, G	98.54
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.51
2dba_A	148	Smooth muscle cell associated protein-1, isoform 2	98.49
4gcn_A	127	Protein STI-1; structural genomics, PSI-biology, m	98.48
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.46
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.46
3dss_A	331	Geranylgeranyl transferase type-2 subunit alpha; p	98.44
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.44
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.43
2kck_A	112	TPR repeat; tetratricopeptide repeat, structural g	98.42
1p5q_A	336	FKBP52, FK506-binding protein 4; isomerase; 2.80A	98.42
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.42
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.41
2fbn_A	198	70 kDa peptidylprolyl isomerase, putative; sulfur	98.41
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.41
3q49_B	137	STIP1 homology and U box-containing protein 1; E3	98.41
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.38
1elr_A	131	TPR2A-domain of HOP; HOP, TPR-domain, peptide-comp	98.37
2xev_A	129	YBGF; tetratricopeptide, alpha-helical, metal bind	98.35
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.35
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.32
1hxi_A	121	PEX5, peroxisome targeting signal 1 receptor PEX5;	98.31
4b4t_Q	434	26S proteasome regulatory subunit RPN6; hydrolase,	98.3
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.25
3rkv_A	162	Putative peptidylprolyl isomerase; structural geno	98.23
3ro3_A	164	PINS homolog, G-protein-signaling modulator 2; asy	98.2
3k9i_A	117	BH0479 protein; putative protein binding protein,	98.2
2if4_A	338	ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha,	98.13
1wao_1	477	Serine/threonine protein phosphatase 5; hydrolase,	98.12
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	98.11
2l6j_A	111	TPR repeat-containing protein associated with HSP;	98.11
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	98.1
1ihg_A	370	Cyclophilin 40; ppiase immunophilin tetratricopept	98.07
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	98.03
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	98.03
1kt0_A	457	FKBP51, 51 kDa FK506-binding protein; FKBP-like pp	98.0
2hr2_A	159	Hypothetical protein; alpha-alpha superhelix fold,	98.0
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.99
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.98
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.96
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.96
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	97.95
2l6j_A	111	TPR repeat-containing protein associated with HSP;	97.9
3n71_A	490	Histone lysine methyltransferase SMYD1; heart deve	97.89
1dce_A	567	Protein (RAB geranylgeranyltransferase alpha subun	97.8
1na3_A	91	Designed protein CTPR2; de novo protein; HET: IPT;	97.78
1klx_A	138	Cysteine rich protein B; structural genomics, heli	97.73
2kat_A	115	Uncharacterized protein; NESG, structure, structur	97.69
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.66
2kc7_A	99	BFR218_protein; tetratricopeptide repeat, all-alph	97.52
1zu2_A	158	Mitochondrial import receptor subunit TOM20-3; TPR	97.49
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.45
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.45
3ma5_A	100	Tetratricopeptide repeat domain protein; NESG, str	97.35
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.32
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.13
3qww_A	433	SET and MYND domain-containing protein 2; methyltr	97.11
3mkq_A	814	Coatomer beta'-subunit; beta-propeller, alpha-sole	97.09
3ly7_A	372	Transcriptional activator CADC; alpha/beta domain,	97.07
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	97.04
3qwp_A	429	SET and MYND domain-containing protein 3; SMYD3,SE	97.0
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.92
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	96.89
3lvg_A	624	Clathrin heavy chain 1; SELF assembly, coated PIT,	96.88
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.77
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	96.73
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.58
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	96.57
1wy6_A	172	Hypothetical protein ST1625; helical repeat protei	96.43
3bee_A	93	Putative YFRE protein; putaive YFRE protein, struc	96.31
3mkq_B	177	Coatomer subunit alpha; beta-propeller, alpha-sole	96.31
1pc2_A	152	Mitochondria fission protein; unknown function; NM	96.22
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	96.13
3u64_A	301	Protein TP_0956; tetratrico peptide repeat, protei	96.04
2v5f_A	104	Prolyl 4-hydroxylase subunit alpha-1; endoplasmic	95.96
4ady_A	963	RPN2, 26S proteasome regulatory subunit RPN2; prot	95.77
4h7y_A	161	Dual specificity protein kinase TTK; mitotic check	95.65
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	95.34
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	95.3
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	95.2
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	94.97
3ltm_A	211	Alpha-REP4; protein engineering, heat-like repeat,	94.94
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	94.84
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	94.83
3ltj_A	201	Alpharep-4; protein engineering, heat-like repeat,	94.77
1y8m_A	144	FIS1; mitochondria, unknown function; NMR {Sacchar	94.6
1nzn_A	126	CGI-135 protein, fission protein FIS1P; TPR, unkno	94.53
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	94.44
4b4t_P	445	26S proteasome regulatory subunit RPN5; hydrolase,	94.19
3o48_A	134	Mitochondria fission 1 protein; tetratricopeptide	93.64
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	93.42
3lpz_A	336	GET4 (YOR164C homolog); protein targeting, tail-an	92.02
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	91.76
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	91.43
4gns_B	754	Protein CSD3, chitin biosynthesis protein CHS6; FN	91.11
3ffl_A	167	Anaphase-promoting complex subunit 7; tetratricope	90.83
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.64
3txn_A	394	26S proteasome regulatory complex subunit P42B; PC	90.13
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.94
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	89.85
2ff4_A	388	Probable regulatory protein EMBR; winged-helix, te	89.85
4fhn_B	1139	Nucleoporin NUP120; protein complex,structural pro	89.78
2p58_C	116	Putative type III secretion protein YSCG; type III	89.77
1qsa_A	618	Protein (soluble lytic transglycosylase SLT70); al	89.63
1v54_E	109	Cytochrome C oxidase polypeptide VA; oxidoreductas	89.02
2wpv_A	312	GET4, UPF0363 protein YOR164C; golgi-ER traffickin	88.37
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	87.77
2uwj_G	115	Type III export protein PSCG; virulence, chaperone	87.75
2p58_C	116	Putative type III secretion protein YSCG; type III	87.28
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	86.32
2y69_E	152	Cytochrome C oxidase subunit 5A; electron transpor	82.97
1zbp_A	273	Hypothetical protein VPA1032; alpha-beta protein,	82.26
4b4t_R	429	RPN7, 26S proteasome regulatory subunit RPN7; hydr	82.03
3esl_A	202	Checkpoint serine/threonine-protein kinase BUB1; m	81.66
1oyz_A	280	Hypothetical protein YIBA; structural genomics, PS	81.59

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=5.6e-42  Score=336.59  Aligned_cols=426  Identities=10%  Similarity=-0.016  Sum_probs=381.3

Q ss_pred             CCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccC--CCCcccHHHHHHH
Q 012108            8 ADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMP--EKDIIAWNSMLDA   85 (471)
Q Consensus         8 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~--~~~~~~~~~li~~   85 (471)
                      ++...|+.++..+.+.|++++|..+++++.+.  .|+..++..++.+|.+.|++++|..+|+.+.  .+++.+++.++.+
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~  159 (597)
T 2xpi_A           82 SREDYLRLWRHDALMQQQYKCAAFVGEKVLDI--TGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLYNRSSACRYLAAFC  159 (597)
T ss_dssp             CHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGGGTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHccCchHHHHHHHHHHhh--CCCchHHHHHHHHHHHcCcHHHHHHHHHHHhccccchhHHHHHHHH
Confidence            56678999999999999999999999999965  4677889999999999999999999999984  5788999999999


Q ss_pred             HHcCCCHHHHHHHHhcCCCCC-------------------hhhHHHHHHHHHhcCCHHHHHHHHhhcCC--C-ChhhHHH
Q 012108           86 FASCGQMDHAMKLIDLMPLKD-------------------VTSFNIMISGYARIGKIHSARYIFDKVPA--K-DVVSWNS  143 (471)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~~-------------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~~~~~~  143 (471)
                      |.+.|++++|+++|+++...+                   ..+|+.++.+|.+.|++++|.+.|+++..  | +...+..
T Consensus       160 ~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~  239 (597)
T 2xpi_A          160 LVKLYDWQGALNLLGETNPFRKDEKNANKLLMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQ  239 (597)
T ss_dssp             HHHTTCHHHHHHHHCSSCTTC----------CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHHhhHHHHHHHHhccCCccccccccccccccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHH
Confidence            999999999999999654333                   78999999999999999999999999943  2 2223222


Q ss_pred             H--------------------------------------HHHHHhCCCHHHHHHHHHhccc--cChHHHHHHHHHHHhcC
Q 012108          144 L--------------------------------------ILAYTNAGEMEKAGEMFKKMLV--KNVITWNTMVTGYLRSQ  183 (471)
Q Consensus       144 l--------------------------------------~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~  183 (471)
                      +                                      +..|.+.|++++|.++|+++..  ++..+|+.++..|.+.|
T Consensus       240 l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g  319 (597)
T 2xpi_A          240 LVSNHLLTADEEWDLVLKLNYSTYSKEDAAFLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRS  319 (597)
T ss_dssp             HHHTTCSCHHHHHHHHHHSCTHHHHGGGHHHHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTT
T ss_pred             HHHhhcccchhHHHHHHhcCCcccccchHHHHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhc
Confidence            2                                      4456678999999999999965  79999999999999999


Q ss_pred             CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHh
Q 012108          184 LYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFY  263 (471)
Q Consensus       184 ~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  263 (471)
                      ++++|.++|+++.+.+ +.+..++..++.++.+.|++++|..+++.+.+.. +.+..++..++..|.+.|++++|.++|+
T Consensus       320 ~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~  397 (597)
T 2xpi_A          320 RFIDVLAITTKILEID-PYNLDVYPLHLASLHESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFS  397 (597)
T ss_dssp             CHHHHHHHHHHHHHHC-TTCCTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcC-cccHHHHHHHHHHHHHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHH
Confidence            9999999999998765 3477889999999999999999999999999765 6788999999999999999999999999


Q ss_pred             cCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC
Q 012108          264 KSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK  340 (471)
Q Consensus       264 ~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~  340 (471)
                      ++..   .+..+|+.++.+|.+.|++++|+++|+++...+ +.+..++..++.+|.+.|++++|.++|+++.+  ..+.+
T Consensus       398 ~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~  474 (597)
T 2xpi_A          398 KSSTMDPQFGPAWIGFAHSFAIEGEHDQAISAYTTAARLF-QGTHLPYLFLGMQHMQLGNILLANEYLQSSYA--LFQYD  474 (597)
T ss_dssp             HHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCCCC
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCC
Confidence            8653   467899999999999999999999999999864 45778999999999999999999999999998  34567


Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC--HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-------PFEPT--ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGEL  411 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~  411 (471)
                      +.+|..++.+|.+.|++++|.++|+++       +..|+  ..+|..++.+|.+.|++++|.+.++++.+.+|. ++.+|
T Consensus       475 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~-~~~~~  553 (597)
T 2xpi_A          475 PLLLNELGVVAFNKSDMQTAINHFQNALLLVKKTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTN-DANVH  553 (597)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSC-CHHHH
T ss_pred             hHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhhccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ChHHH
Confidence            899999999999999999999999988       44677  789999999999999999999999999999998 99999


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          412 MMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       412 ~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ..++.+|.+.|++++|.++++++.+.++..
T Consensus       554 ~~l~~~~~~~g~~~~A~~~~~~~l~~~p~~  583 (597)
T 2xpi_A          554 TAIALVYLHKKIPGLAITHLHESLAISPNE  583 (597)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHHHHhCCHHHHHHHHHHHHhcCCCC
Confidence            999999999999999999999999877654

>2xpi_A Anaphase-promoting complex subunit CUT9; cell cycle, TPR, ubiquitin ligase; 2.60A {Schizosaccharomyces pombe}

Probab=100.00  E-value=2.4e-38  Score=310.76  Aligned_cols=409  Identities=8%  Similarity=-0.029  Sum_probs=361.4

Q ss_pred             CCCCCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCC----------
Q 012108            5 GVHADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEK----------   74 (471)
Q Consensus         5 g~~p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~----------   74 (471)
                      +..|+..++..++.+|...|++++|..+++.+...  +++..+++.++.+|.+.|++++|.++|+++...          
T Consensus       112 ~~~p~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~  189 (597)
T 2xpi_A          112 DITGNPNDAFWLAQVYCCTGDYARAKCLLTKEDLY--NRSSACRYLAAFCLVKLYDWQGALNLLGETNPFRKDEKNANKL  189 (597)
T ss_dssp             HHHCCHHHHHHHHHHHHHTTCHHHHHHHHHHTCGG--GTCHHHHHHHHHHHHHTTCHHHHHHHHCSSCTTC---------
T ss_pred             hhCCCchHHHHHHHHHHHcCcHHHHHHHHHHHhcc--ccchhHHHHHHHHHHHHhhHHHHHHHHhccCCccccccccccc
Confidence            35688889999999999999999999999988654  678899999999999999999999999965433          


Q ss_pred             ---------CcccHHHHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHH-----------------------------
Q 012108           75 ---------DIIAWNSMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIM-----------------------------  113 (471)
Q Consensus        75 ---------~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l-----------------------------  113 (471)
                               +..+|+.++.+|.+.|++++|+++|+++.+.   +...+..+                             
T Consensus       190 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  269 (597)
T 2xpi_A          190 LMQDGGIKLEASMCYLRGQVYTNLSNFDRAKECYKEALMVDAKCYEAFDQLVSNHLLTADEEWDLVLKLNYSTYSKEDAA  269 (597)
T ss_dssp             -CCCSSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHTTCSCHHHHHHHHHHSCTHHHHGGGHH
T ss_pred             cccccccchhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCchhhHHHHHHHHhhcccchhHHHHHHhcCCcccccchHH
Confidence                     3678999999999999999999999999644   22333222                             


Q ss_pred             ---------HHHHHhcCCHHHHHHHHhhcCC--CChhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHH
Q 012108          114 ---------ISGYARIGKIHSARYIFDKVPA--KDVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGY  179 (471)
Q Consensus       114 ---------~~~~~~~g~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~  179 (471)
                               +..|.+.|++++|.++|+++..  ++..++..++.+|.+.|++++|.++|+++..   .+..+|+.++.++
T Consensus       270 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~  349 (597)
T 2xpi_A          270 FLRSLYMLKLNKTSHEDELRRAEDYLSSINGLEKSSDLLLCKADTLFVRSRFIDVLAITTKILEIDPYNLDVYPLHLASL  349 (597)
T ss_dssp             HHHHHHHTTSCTTTTHHHHHHHHHHHHTSTTGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCCTTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCcchHHHHHHHHHHhhcCCchHHHHHHHHHHHHHhcCHHHHHHHHHHHHHcCcccHHHHHHHHHHH
Confidence                     4456678999999999999976  7899999999999999999999999999942   3678899999999


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 012108          180 LRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSL  259 (471)
Q Consensus       180 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  259 (471)
                      .+.|++++|..+++++.+.. +.+..++..++..|.+.|++++|.++|+.+.+.. +.+..+++.++.+|.+.|++++|+
T Consensus       350 ~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~  427 (597)
T 2xpi_A          350 HESGEKNKLYLISNDLVDRH-PEKAVTWLAVGIYYLCVNKISEARRYFSKSSTMD-PQFGPAWIGFAHSFAIEGEHDQAI  427 (597)
T ss_dssp             HHHTCHHHHHHHHHHHHHHC-TTSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHhCCHHHHHHHHHHHHhhC-cccHHHHHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHH
Confidence            99999999999999998653 5578889999999999999999999999999875 667889999999999999999999


Q ss_pred             HHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc-
Q 012108          260 EVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDF-  335 (471)
Q Consensus       260 ~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-  335 (471)
                      ++|+++..   .+..+|..++.+|.+.|++++|.++|+++.+.. +.+..+|..++..|.+.|++++|.++|+++.+.. 
T Consensus       428 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~  506 (597)
T 2xpi_A          428 SAYTTAARLFQGTHLPYLFLGMQHMQLGNILLANEYLQSSYALF-QYDPLLLNELGVVAFNKSDMQTAINHFQNALLLVK  506 (597)
T ss_dssp             HHHHHHHHTTTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCccchHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHhhh
Confidence            99987643   477899999999999999999999999998763 4478899999999999999999999999998722 


Q ss_pred             --CCCCC--hhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCch
Q 012108          336 --GVTRK--LEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDG  409 (471)
Q Consensus       336 --~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  409 (471)
                        +..|+  ..+|..++.+|.+.|++++|.+.|+++ .. +.+..+|..++.+|...|++++|.+.++++.+.+|. ++.
T Consensus       507 ~~~~~p~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~~~p~-~~~  585 (597)
T 2xpi_A          507 KTQSNEKPWAATWANLGHAYRKLKMYDAAIDALNQGLLLSTNDANVHTAIALVYLHKKIPGLAITHLHESLAISPN-EIM  585 (597)
T ss_dssp             HSCCCSGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHH
T ss_pred             ccccchhhHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHhcCCC-ChH
Confidence              55676  789999999999999999999999987 33 447899999999999999999999999999999999 899


Q ss_pred             hHHHHHHHHH
Q 012108          410 ELMMFANLYA  419 (471)
Q Consensus       410 ~~~~l~~~~~  419 (471)
                      .+..++.+|.
T Consensus       586 ~~~~l~~~~~  595 (597)
T 2xpi_A          586 ASDLLKRALE  595 (597)
T ss_dssp             HHHHHHHTTC
T ss_pred             HHHHHHHHHh
Confidence            9998888764

>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=100.00  E-value=1.9e-29  Score=233.82  Aligned_cols=372  Identities=10%  Similarity=-0.011  Sum_probs=260.5

Q ss_pred             HHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHHcCCCHH
Q 012108           17 LKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFASCGQMD   93 (471)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~~~g~~~   93 (471)
                      ...+...|++++|.+.+..+.+.. +.+...+..+...+...|++++|...++...+   .+..+|..+..++.+.|+++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~   84 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHH
Confidence            345566777777777777776664 33445556666666677777777776665442   23445555556666666666


Q ss_pred             HHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccc--c-ChH
Q 012108           94 HAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV--K-NVI  170 (471)
Q Consensus        94 ~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~  170 (471)
                      +|+..|+++...                            .+.+...|..+..++.+.|++++|.+.|+++..  | +..
T Consensus        85 ~A~~~~~~al~~----------------------------~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~  136 (388)
T 1w3b_A           85 EAIEHYRHALRL----------------------------KPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLYC  136 (388)
T ss_dssp             HHHHHHHHHHHH----------------------------CTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCTH
T ss_pred             HHHHHHHHHHHc----------------------------CcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCcHH
Confidence            665555554311                            112233455555555555566666555555522  2 334


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYA  250 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  250 (471)
                      .+..+...+...|++++|.+.|+++.+.. +.+..+|..+...+...|++++|...++++.+.+ +.+...+..+...+.
T Consensus       137 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~  214 (388)
T 1w3b_A          137 VRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVLK  214 (388)
T ss_dssp             HHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHHHH
Confidence            45556666666666666666666666542 2234566666666667777777777777776654 445666677777777


Q ss_pred             hcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHH
Q 012108          251 KCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCEL  327 (471)
Q Consensus       251 ~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~  327 (471)
                      ..|++++|+..|++...   .+..++..+...+.+.|++++|+..|+++.+.+ +.+..++..+...+.+.|++++|.+.
T Consensus       215 ~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~  293 (388)
T 1w3b_A          215 EARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAEDC  293 (388)
T ss_dssp             TTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHhhCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            77777777777765432   356677788888888888888888888888763 33567888899999999999999999


Q ss_pred             HHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          328 FSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       328 ~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      |+++.+  ..+.+..++..+...+.+.|++++|.+.++++ ...| +..++..+...+.+.|++++|...++++.+..|.
T Consensus       294 ~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~  371 (388)
T 1w3b_A          294 YNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT  371 (388)
T ss_dssp             HHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT
T ss_pred             HHHHHh--hCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            999988  35667888999999999999999999999987 4444 5778999999999999999999999999999998


Q ss_pred             CCchhHHHHHHHHHhcCC
Q 012108          406 LSDGELMMFANLYASCGQ  423 (471)
Q Consensus       406 ~~~~~~~~l~~~~~~~g~  423 (471)
                       ++..|..++.++...|+
T Consensus       372 -~~~a~~~lg~~~~~~~~  388 (388)
T 1w3b_A          372 -FADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             -CHHHHHHHHHHHHHTCC
T ss_pred             -CHHHHHhHHHHHHHccC
Confidence             89999999998887764

>1w3b_A UDP-N-acetylglucosamine--peptide N-acetylglucosaminyltransferase 110; OGT, glcnac, nucleoporin, O-linked glycosylation, TPR repeat, protein binding; 2.85A {Homo sapiens} SCOP: a.118.8.1

Probab=99.97  E-value=1e-28  Score=228.90  Aligned_cols=351  Identities=12%  Similarity=0.034  Sum_probs=300.8

Q ss_pred             HHHHHcCCCHHHHHHHHhcCCC--C-ChhhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHH
Q 012108           83 LDAFASCGQMDHAMKLIDLMPL--K-DVTSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEK  156 (471)
Q Consensus        83 i~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~  156 (471)
                      ...+.+.|++++|.+.++.+..  | +...+..+...+...|++++|...++...   +.+..+|..+..++.+.|++++
T Consensus         6 a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~~l~~~~~~~~~~~~a~~~~~~a~~~~p~~~~~~~~lg~~~~~~g~~~~   85 (388)
T 1w3b_A            6 AHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQE   85 (388)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHCCCHHH
Confidence            4556677788888777776642  2 45566677777788888888888887763   3466789999999999999999


Q ss_pred             HHHHHHhcc--cc-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 012108          157 AGEMFKKML--VK-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD-YLTVTSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       157 A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      |.+.|+++.  .| +..+|..+..++.+.|++++|.+.|+++.+.  .|+ ...+..+...+...|++++|.+.|+.+.+
T Consensus        86 A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  163 (388)
T 1w3b_A           86 AIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQY--NPDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHH--CTTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            999999983  33 5668999999999999999999999999885  344 45566777888899999999999999998


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 012108          233 NGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFI  309 (471)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  309 (471)
                      .. +.+..++..+...+...|++++|+..|+++..   .+...|..+...+...|++++|...+++..... +.+..++.
T Consensus       164 ~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~  241 (388)
T 1w3b_A          164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             hC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhC-cCCHHHHH
Confidence            75 66788999999999999999999999998654   356789999999999999999999999998752 33578889


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcC
Q 012108          310 GLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQ  387 (471)
Q Consensus       310 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g  387 (471)
                      .+...+...|++++|.+.|+++.+  ..+.++.++..+..++.+.|++++|.+.|+++  ..+++..++..+...+...|
T Consensus       242 ~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g  319 (388)
T 1w3b_A          242 NLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHcC
Confidence            999999999999999999999998  34556888999999999999999999999988  33557889999999999999


Q ss_pred             CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          388 DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ++++|...++++.+..|. +..++..++.+|.+.|++++|.+.++++.+..+.
T Consensus       320 ~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~  371 (388)
T 1w3b_A          320 NIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPT  371 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTT
T ss_pred             CHHHHHHHHHHHHhcCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            999999999999999998 8999999999999999999999999999886654

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.97  E-value=4.1e-29  Score=235.33  Aligned_cols=183  Identities=12%  Similarity=0.148  Sum_probs=151.4

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCC---------hHHHHHHHHHHHHcCCCCchh
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGS---------LETGARIHVYATDNGLASNPH  240 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~---------~~~a~~~~~~~~~~~~~~~~~  240 (471)
                      ..++.+|.+|++.|++++|+++|++|.+.|+.||..||+.+|.+|++.+.         ++.|.++|++|.+.|+.||..
T Consensus        27 ~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~~~~~~l~~A~~lf~~M~~~G~~Pd~~  106 (501)
T 4g26_A           27 ALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATESSPNPGLSRGFDIFKQMIVDKVVPNEA  106 (501)
T ss_dssp             HHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSSSCCHHHHHHHHHHHHHHHTTCCCCHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhhhhcchHHHHHHHHHHHHHhCCCCCHH
Confidence            34677788888888888888888888888888888888888888876554         567888888888888888888


Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhcCCC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHh
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYKSQV----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACS  316 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~  316 (471)
                      +|++++.+|++.|++++|.++|++|..    ||..+|+++|.+|++.|+.++|.++|++|.+.|+.||..||+.|+.+|+
T Consensus       107 tyn~lI~~~~~~g~~~~A~~l~~~M~~~g~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~  186 (501)
T 4g26_A          107 TFTNGARLAVAKDDPEMAFDMVKQMKAFGIQPRLRSYGPALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSM  186 (501)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHcCCCCccceehHHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHh
Confidence            888888888888888888888877654    6788888888888888888888888888888888888888888888888


Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh
Q 012108          317 HAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR  353 (471)
Q Consensus       317 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  353 (471)
                      +.|++++|.+++++|.+ .+..|+..||+.++..|..
T Consensus       187 ~~g~~d~A~~ll~~Mr~-~g~~ps~~T~~~l~~~F~s  222 (501)
T 4g26_A          187 DTKNADKVYKTLQRLRD-LVRQVSKSTFDMIEEWFKS  222 (501)
T ss_dssp             HTTCHHHHHHHHHHHHH-HTSSBCHHHHHHHHHHHHS
T ss_pred             hCCCHHHHHHHHHHHHH-hCCCcCHHHHHHHHHHHhc
Confidence            88888888888888888 5888888888888888765

>4g26_A Pentatricopeptide repeat-containing protein AT2G3 mitochondrial; metallonuclease, prorp, ribonuclease, PIN, tRNA processing, NYN domain; 1.75A {Arabidopsis thaliana} PDB: 4g23_A* 4g25_A 4g24_A

Probab=99.96  E-value=3.7e-29  Score=235.60  Aligned_cols=212  Identities=17%  Similarity=0.169  Sum_probs=177.4

Q ss_pred             HHHHHHHHHHhCCCCCCH-HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcC
Q 012108          187 EVVDLFDEMKAGNVKPDY-LTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKS  265 (471)
Q Consensus       187 ~a~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  265 (471)
                      .+..+.+++.+.++.+.. ..++.+|.+|++.|++++|.++|++|.+.|+.||..+|+.|+.+|++.+...++       
T Consensus         8 ~~e~L~~~~~~k~~~~spe~~l~~~id~c~k~G~~~~A~~lf~~M~~~Gv~pd~~tyn~Li~~c~~~~~~~~~-------   80 (501)
T 4g26_A            8 PSENLSRKAKKKAIQQSPEALLKQKLDMCSKKGDVLEALRLYDEARRNGVQLSQYHYNVLLYVCSLAEAATES-------   80 (501)
T ss_dssp             ----------------CHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTTCCCCSSS-------
T ss_pred             hHHHHHHHHHHhcccCCCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCCCCHhHHHHHHHHHHhCCchhhh-------
Confidence            455666777777765543 457889999999999999999999999999999999999999999887764321       


Q ss_pred             CCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHH
Q 012108          266 QVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYG  345 (471)
Q Consensus       266 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  345 (471)
                                     .+.+..++|.++|++|...|+.||..||+.+|.+|++.|++++|.++|++|.+ .|+.||..+|+
T Consensus        81 ---------------~~~~~l~~A~~lf~~M~~~G~~Pd~~tyn~lI~~~~~~g~~~~A~~l~~~M~~-~g~~Pd~~tyn  144 (501)
T 4g26_A           81 ---------------SPNPGLSRGFDIFKQMIVDKVVPNEATFTNGARLAVAKDDPEMAFDMVKQMKA-FGIQPRLRSYG  144 (501)
T ss_dssp             ---------------SCCHHHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH-TTCCCCHHHHH
T ss_pred             ---------------hhcchHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH-cCCCCccceeh
Confidence                           12345688999999999999999999999999999999999999999999998 69999999999


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC---CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          346 CMVDLLGRARLLDRAIELIEAM---PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~---~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      .+|.+|++.|++++|.++|++|   ++.||..||+.|+.+|++.|+.++|.+++++|.+.+..|+..||..+...|...
T Consensus       145 ~lI~~~~~~g~~~~A~~l~~~M~~~G~~Pd~~ty~~Li~~~~~~g~~d~A~~ll~~Mr~~g~~ps~~T~~~l~~~F~s~  223 (501)
T 4g26_A          145 PALFGFCRKGDADKAYEVDAHMVESEVVPEEPELAALLKVSMDTKNADKVYKTLQRLRDLVRQVSKSTFDMIEEWFKSE  223 (501)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSSBCHHHHHHHHHHHHSH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHhhCCCHHHHHHHHHHHHHhCCCcCHHHHHHHHHHHhcC
Confidence            9999999999999999999998   789999999999999999999999999999999999999999999999888764

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=2e-25  Score=214.76  Aligned_cols=422  Identities=9%  Similarity=-0.050  Sum_probs=253.0

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHH
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFA   87 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~   87 (471)
                      ..+......+...|++++|...|+++++..  |+..++..+..++.+.|++++|...++++.+  | +..+|..+..++.
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~--p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~   84 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELK--EDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANE   84 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHC--CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcC--ccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHH
Confidence            356677788899999999999999999886  6888999999999999999999999998764  3 5568889999999


Q ss_pred             cCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC----CChhhHHH---HHHHHHhCCCHHHH
Q 012108           88 SCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPA----KDVVSWNS---LILAYTNAGEMEKA  157 (471)
Q Consensus        88 ~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~~~~~~---l~~~~~~~~~~~~A  157 (471)
                      +.|++++|...|+++...   +.......+..+........+.+.+..+..    ++......   .............+
T Consensus        85 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  164 (514)
T 2gw1_A           85 GLGKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSM  164 (514)
T ss_dssp             HTTCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHH
T ss_pred             HHhhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHH
Confidence            999999999999887543   333344444444433322222222211100    00000000   00000000111111


Q ss_pred             HHHHHhcc----------ccChHHHHHHHHHHHh---cCCHHHHHHHHHHHHh-----CCCCC--------CHHHHHHHH
Q 012108          158 GEMFKKML----------VKNVITWNTMVTGYLR---SQLYIEVVDLFDEMKA-----GNVKP--------DYLTVTSVL  211 (471)
Q Consensus       158 ~~~~~~~~----------~~~~~~~~~l~~~~~~---~~~~~~a~~~~~~m~~-----~g~~p--------~~~~~~~l~  211 (471)
                      ...+....          ..+...+......+..   .|++++|...|+++.+     ....|        +...+..+.
T Consensus       165 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  244 (514)
T 2gw1_A          165 ASFFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTG  244 (514)
T ss_dssp             HHHHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHH
Confidence            11111110          0123333333333333   5666666666666655     21111        223455555


Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHH
Q 012108          212 SACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYA  288 (471)
Q Consensus       212 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  288 (471)
                      ..+...|++++|...++.+.+....  ...+..+...+...|++++|+..++++..   .+..++..+...+...|++++
T Consensus       245 ~~~~~~~~~~~A~~~~~~~l~~~~~--~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  322 (514)
T 2gw1_A          245 IFKFLKNDPLGAHEDIKKAIELFPR--VNSYIYMALIMADRNDSTEYYNYFDKALKLDSNNSSVYYHRGQMNFILQNYDQ  322 (514)
T ss_dssp             HHHHHSSCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHHTSSCCTTGGGHHHHHHTTCTTCTHHHHHHHHHHHHTTCTTH
T ss_pred             HHHHHCCCHHHHHHHHHHHHhhCcc--HHHHHHHHHHHHHCCCHHHHHHHHHHHhhcCcCCHHHHHHHHHHHHHhCCHHH
Confidence            6666666666666666666665422  56666666666666666666666665433   245566666666666777777


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-
Q 012108          289 ALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-  367 (471)
Q Consensus       289 a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-  367 (471)
                      |...++++.... +.+...+..+...+...|++++|...++++.+  ..+.+...+..+...+.+.|++++|...++++ 
T Consensus       323 A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~  399 (514)
T 2gw1_A          323 AGKDFDKAKELD-PENIFPYIQLACLAYRENKFDDCETLFSEAKR--KFPEAPEVPNFFAEILTDKNDFDKALKQYDLAI  399 (514)
T ss_dssp             HHHHHHHHHHTC-SSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHH--HSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhC-hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--HcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHH
Confidence            777776666542 22345566666666677777777777776665  23334556666666677777777777766665 


Q ss_pred             C---CCCC----HhHHHHHHHHHhh---cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          368 P---FEPT----ESILGALLSACVI---HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       368 ~---~~p~----~~~~~~l~~~~~~---~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      .   ..++    ...+..+...+..   .|++++|...++++.+..|. ++.++..++.+|.+.|++++|.+.++++.+.
T Consensus       400 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~  478 (514)
T 2gw1_A          400 ELENKLDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPR-SEQAKIGLAQMKLQQEDIDEAITLFEESADL  478 (514)
T ss_dssp             HHHHTSSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HhhhccchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHh
Confidence            1   1111    2266666666666   67777777777777776666 6666667777777777777777777766665


Q ss_pred             CCc
Q 012108          438 GIV  440 (471)
Q Consensus       438 ~~~  440 (471)
                      ++.
T Consensus       479 ~~~  481 (514)
T 2gw1_A          479 ART  481 (514)
T ss_dssp             CSS
T ss_pred             ccc
Confidence            554

>2gw1_A Mitochondrial precursor proteins import receptor; TPR, protein transport; 3.00A {Saccharomyces cerevisiae}

Probab=99.95  E-value=9e-26  Score=217.13  Aligned_cols=391  Identities=11%  Similarity=-0.007  Sum_probs=275.3

Q ss_pred             hHHHHHHHHHhccCCHhHHHHHhcccCC--CCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhc
Q 012108           46 YVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARI  120 (471)
Q Consensus        46 ~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~  120 (471)
                      ..+......+.+.|++++|+..|+++.+  |+..+|..+..++.+.|++++|+..++++...   +..++..++.++.+.
T Consensus         7 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~   86 (514)
T 2gw1_A            7 LALKDKGNQFFRNKKYDDAIKYYNWALELKEDPVFYSNLSACYVSVGDLKKVVEMSTKALELKPDYSKVLLRRASANEGL   86 (514)
T ss_dssp             HHHHHHHHHHHHTSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhcCccHHHHHhHHHHHHHHhhHHHHHHHHHHHhccChHHHHHHHHHHHHHHHH
Confidence            4556667777888888888888888764  77777888888888888888888888776532   556777788888888


Q ss_pred             CCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHHHHHHHHHhcc----ccChHHHHHHHHHHHhcCCHHHHHHHHH
Q 012108          121 GKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEMEKAGEMFKKML----VKNVITWNTMVTGYLRSQLYIEVVDLFD  193 (471)
Q Consensus       121 g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~----~~~~~~~~~l~~~~~~~~~~~~a~~~~~  193 (471)
                      |++++|...|+++..   ++......++..+........+.+.+..+.    .++...++.-...............+..
T Consensus        87 g~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  166 (514)
T 2gw1_A           87 GKFADAMFDLSVLSLNGDFNDASIEPMLERNLNKQAMSKLKEKFGDIDTATATPTELSTQPAKERKDKQENLPSVTSMAS  166 (514)
T ss_dssp             TCHHHHHHHHHHHHHSSSCCGGGTHHHHHHHHHHHHHHHHTTC---------------------------CCCCHHHHHH
T ss_pred             hhHHHHHHHHHHHHhcCCCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhhHHHhhccCCchhHHHHH
Confidence            888888888877732   233333334433333322222222221110    0000000000000001111111111111


Q ss_pred             HHHhCCCC--------CC-HHHHHHHHHHHHc---cCChHHHHHHHHHHHH-----cCC--------CCchhHHHHHHHH
Q 012108          194 EMKAGNVK--------PD-YLTVTSVLSACAN---LGSLETGARIHVYATD-----NGL--------ASNPHATTALIDM  248 (471)
Q Consensus       194 ~m~~~g~~--------p~-~~~~~~l~~~~~~---~~~~~~a~~~~~~~~~-----~~~--------~~~~~~~~~l~~~  248 (471)
                      .+......        |+ ...+......+..   .|++++|...++.+.+     ..-        +.+..++..+...
T Consensus       167 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  246 (514)
T 2gw1_A          167 FFGIFKPELTFANYDESNEADKELMNGLSNLYKRSPESYDKADESFTKAARLFEEQLDKNNEDEKLKEKLAISLEHTGIF  246 (514)
T ss_dssp             HHTTSCCCCCCSSCCSSCHHHHHHHHHHHHHSSCCTTHHHHHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHhhcCHHHHHHHhcCCcHHHHHHHHHHHHHHhhhhccHHHHHHHHHHHHHHhhhhhccCccccccChHHHHHHHHHHHH
Confidence            11111111        22 3344444444443   8999999999999988     311        2346678889999


Q ss_pred             HHhcCChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 012108          249 YAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       249 ~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                      +...|++++|...|+++..  |+...+..+...+...|++++|...++++.... +.+...+..+...+...|++++|..
T Consensus       247 ~~~~~~~~~A~~~~~~~l~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~  325 (514)
T 2gw1_A          247 KFLKNDPLGAHEDIKKAIELFPRVNSYIYMALIMADRNDSTEYYNYFDKALKLD-SNNSSVYYHRGQMNFILQNYDQAGK  325 (514)
T ss_dssp             HHHSSCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHTSSCCTTGGGHHHHHHTTC-TTCTHHHHHHHHHHHHTTCTTHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHhhCccHHHHHHHHHHHHHCCCHHHHHHHHHHHhhcC-cCCHHHHHHHHHHHHHhCCHHHHHH
Confidence            9999999999999987653  347788889999999999999999999998863 4466788889999999999999999


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          327 LFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      .++++.+  ..+.+...+..+...+...|++++|...++++ . .+.+..++..+...+...|++++|...++++.+..|
T Consensus       326 ~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~  403 (514)
T 2gw1_A          326 DFDKAKE--LDPENIFPYIQLACLAYRENKFDDCETLFSEAKRKFPEAPEVPNFFAEILTDKNDFDKALKQYDLAIELEN  403 (514)
T ss_dssp             HHHHHHH--TCSSCSHHHHHHHHHTTTTTCHHHHHHHHHHHHHHSTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHH--hChhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhh
Confidence            9999998  44557888999999999999999999999987 2 234567888999999999999999999999999888


Q ss_pred             CCCch------hHHHHHHHHHh---cCCHHHHHHHHHHhhhCCCc
Q 012108          405 YLSDG------ELMMFANLYAS---CGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       405 ~~~~~------~~~~l~~~~~~---~g~~~~A~~~~~~m~~~~~~  440 (471)
                      . ++.      .+..++.+|..   .|++++|.+.++++.+..+.
T Consensus       404 ~-~~~~~~~~~~~~~l~~~~~~~~~~~~~~~A~~~~~~a~~~~~~  447 (514)
T 2gw1_A          404 K-LDGIYVGIAPLVGKATLLTRNPTVENFIEATNLLEKASKLDPR  447 (514)
T ss_dssp             T-SSSCSSCSHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCTT
T ss_pred             c-cchHHHHHHHHHHHHHHHhhhhhcCCHHHHHHHHHHHHHhCcc
Confidence            7 544      89999999999   99999999999999887654

>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=99.95  E-value=3.2e-25  Score=214.58  Aligned_cols=422  Identities=11%  Similarity=-0.016  Sum_probs=290.1

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC---CCcccHHHHHHHHH
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE---KDIIAWNSMLDAFA   87 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~---~~~~~~~~li~~~~   87 (471)
                      ..|..+...+...|++++|.+.|+++++.. +.+..++..+..+|.+.|++++|+..|+++.+   .+..++..+..++.
T Consensus        26 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~  104 (537)
T 3fp2_A           26 VQLKNRGNHFFTAKNFNEAIKYYQYAIELD-PNEPVFYSNISACYISTGDLEKVIEFTTKALEIKPDHSKALLRRASANE  104 (537)
T ss_dssp             HHHHHHHHHHHHTTCCC-CHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHhhC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHH
Confidence            456777888899999999999999999886 45778899999999999999999999998764   35678888999999


Q ss_pred             cCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCC------ChhhHHHHHHHHHhCCCHHHHHHHH
Q 012108           88 SCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAK------DVVSWNSLILAYTNAGEMEKAGEMF  161 (471)
Q Consensus        88 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~------~~~~~~~l~~~~~~~~~~~~A~~~~  161 (471)
                      ..|++++|+..|+.+ ..++......+..+...+....|...++.+...      ........+..+....+.+.+...+
T Consensus       105 ~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  183 (537)
T 3fp2_A          105 SLGNFTDAMFDLSVL-SLNGDFDGASIEPMLERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSV  183 (537)
T ss_dssp             HHTCHHHHHHHHHHH-C-----------CHHHHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTS
T ss_pred             HcCCHHHHHHHHHHH-hcCCCCChHHHHHHHHHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHH
Confidence            999999999999744 333333344455666666677888888887442      1122233444555666666666665


Q ss_pred             HhccccChH---HHHHHHHHHHh--------cCCHHHHHHHHHHHHhCCCCCC--------HHHHHHHHHHHHccCChHH
Q 012108          162 KKMLVKNVI---TWNTMVTGYLR--------SQLYIEVVDLFDEMKAGNVKPD--------YLTVTSVLSACANLGSLET  222 (471)
Q Consensus       162 ~~~~~~~~~---~~~~l~~~~~~--------~~~~~~a~~~~~~m~~~g~~p~--------~~~~~~l~~~~~~~~~~~~  222 (471)
                      ......+..   ....+...+..        .|++++|..+|+++.+..  |+        ..++..+...+...|++++
T Consensus       184 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a~~~~~~A~~~~~~~l~~~--p~~~~~~~~~~~~~~~~g~~~~~~~~~~~  261 (537)
T 3fp2_A          184 NTSSNYDTAYALLSDALQRLYSATDEGYLVANDLLTKSTDMYHSLLSAN--TVDDPLRENAALALCYTGIFHFLKNNLLD  261 (537)
T ss_dssp             CCCCSSCSSHHHHHHHHHHHHTCSHHHHHHHHHHHHHHHHHHHHHHC----CCCHHHHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             hhccccccHHHHHHHHHHHHHHhhhhhhHHHHHHHHHHHHHHHHHHHHC--CCcchhhHHHHHHHHHHHHHHHhcccHHH
Confidence            555333222   23333333222        246777888888777643  33        2235555666777788888


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhC
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDS  299 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  299 (471)
                      |...++.+.+..  |+...+..+...+...|++++|+..++++..   .+..+|..+...+...|++++|...++++...
T Consensus       262 A~~~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~  339 (537)
T 3fp2_A          262 AQVLLQESINLH--PTPNSYIFLALTLADKENSQEFFKFFQKAVDLNPEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSL  339 (537)
T ss_dssp             HHHHHHHHHHHC--CCHHHHHHHHHHTCCSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcC--CCchHHHHHHHHHHHhcCHHHHHHHHHHHhccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHh
Confidence            888888887764  4467777777888888888888888776543   35667777888888888888888888887765


Q ss_pred             CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-------CCC
Q 012108          300 CVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-------FEP  371 (471)
Q Consensus       300 ~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-------~~p  371 (471)
                      . +.+...+..+...+...|++++|...++++.+  ..+.+...+..+...+...|++++|.+.|+++ .       ...
T Consensus       340 ~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~  416 (537)
T 3fp2_A          340 N-PENVYPYIQLACLLYKQGKFTESEAFFNETKL--KFPTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHV  416 (537)
T ss_dssp             C-TTCSHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSS
T ss_pred             C-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHH
Confidence            3 22456677777788888888888888888877  23455667777888888888888888888775 1       111


Q ss_pred             CHhHHHHHHHHHhhc----------CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          372 TESILGALLSACVIH----------QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ....+..+...+...          |++++|...++++.+..|. ++..+..++.+|.+.|++++|.+.++++.+..+..
T Consensus       417 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~  495 (537)
T 3fp2_A          417 GIGPLIGKATILARQSSQDPTQLDEEKFNAAIKLLTKACELDPR-SEQAKIGLAQLKLQMEKIDEAIELFEDSAILARTM  495 (537)
T ss_dssp             TTHHHHHHHHHHHHHHTC----CCHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--C
T ss_pred             HHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCc
Confidence            122234445556666          8888888888888888887 77888888888888888888888888887766543


Q ss_pred             c
Q 012108          442 T  442 (471)
Q Consensus       442 ~  442 (471)
                      +
T Consensus       496 ~  496 (537)
T 3fp2_A          496 D  496 (537)
T ss_dssp             H
T ss_pred             H
Confidence            3

>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=99.94  E-value=1.1e-23  Score=199.16  Aligned_cols=329  Identities=10%  Similarity=0.025  Sum_probs=225.8

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHH
Q 012108          106 DVTSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGY  179 (471)
Q Consensus       106 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~  179 (471)
                      +...+..++..+.+.|++++|..+|+++.   +.+..++..+..++...|++++|.+.|+++..   .+..++..+..++
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~  104 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLKMDFTAARLQRGHLL  104 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcHHHHHHHHHHH
Confidence            34455556666666666666666666552   23455666666666677777777777766632   2455666677777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCH----HHHHHH------------HHHHHccCChHHHHHHHHHHHHcCCCCchhHHH
Q 012108          180 LRSQLYIEVVDLFDEMKAGNVKPDY----LTVTSV------------LSACANLGSLETGARIHVYATDNGLASNPHATT  243 (471)
Q Consensus       180 ~~~~~~~~a~~~~~~m~~~g~~p~~----~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~  243 (471)
                      .+.|++++|.+.|+++.+.  .|+.    ..+..+            ...+...|++++|...++.+.+.. +.+..++.
T Consensus       105 ~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  181 (450)
T 2y4t_A          105 LKQGKLDEAEDDFKKVLKS--NPSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVC-VWDAELRE  181 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHhc--CCCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCChHHHH
Confidence            7777777777777776654  2332    233333            334677788888888888887765 55677778


Q ss_pred             HHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHH--------
Q 012108          244 ALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKAD-DITFIGL--------  311 (471)
Q Consensus       244 ~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l--------  311 (471)
                      .++..|...|++++|++.|+++..   .+..+|..++..|...|++++|+..|+++...  .|+ ...+..+        
T Consensus       182 ~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~--~p~~~~~~~~~~~~~~~~~  259 (450)
T 2y4t_A          182 LRAECFIKEGEPRKAISDLKAASKLKNDNTEAFYKISTLYYQLGDHELSLSEVRECLKL--DQDHKRCFAHYKQVKKLNK  259 (450)
T ss_dssp             HHHHHHHHTTCGGGGHHHHHHHHHHHCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCChHHHHHHHHHHHHHHH
Confidence            888888888888888888877643   46677888888888888888888888888764  333 3333333        


Q ss_pred             ----HHHHhccCcHHHHHHHHHHhHHhcCCCCC--hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 012108          312 ----LSACSHAGLVQEGCELFSRMEKDFGVTRK--LEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSAC  383 (471)
Q Consensus       312 ----~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  383 (471)
                          ...+...|++++|...|+++.+.....+.  ...+..+..++.+.|++++|...++++ ...| +..+|..+..+|
T Consensus       260 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~~~~~~~~l~~~~  339 (450)
T 2y4t_A          260 LIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPDNVNALKDRAEAY  339 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence                67788888888888888888873111111  346778888888888999988888886 3334 677888888888


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH------------HHhcC-----CHHHHHHHHHH-hhhCCCc
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL------------YASCG-----QWEEANRWRNM-MNDTGIV  440 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~------------~~~~g-----~~~~A~~~~~~-m~~~~~~  440 (471)
                      ...|++++|...++++++..|. ++..+..+..+            |...|     +.+++.+.+++ ..+..+.
T Consensus       340 ~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~~~y~~lg~~~~~~~~~~~~~y~~~~l~~~pd  413 (450)
T 2y4t_A          340 LIEEMYDEAIQDYETAQEHNEN-DQQIREGLEKAQRLLKQSQKRDYYKILGVKRNAKKQEIIKAYRKLALQWHPD  413 (450)
T ss_dssp             HHTTCHHHHHHHHHHHHTTSSS-CHHHHHHHHHHHHHHHHHHSCCSGGGSCSSTTCCTTHHHHHHHHHHHHSCGG
T ss_pred             HHhcCHHHHHHHHHHHHHhCcc-hHHHHHHHHHHHHHhhcccchhHHHHhCCCccCCHHHHHHHHHHHHHHhCCC
Confidence            8889999999999998888888 78888877743            44444     55666777765 4444443

>2y4t_A DNAJ homolog subfamily C member 3; chaperone, endoplasmic reticulum, protein folding, tetratricopeptiderepeat, J domain, unfolded protein respons; 3.00A {Homo sapiens} PDB: 2y4u_A

Probab=99.93  E-value=2.2e-23  Score=197.03  Aligned_cols=299  Identities=13%  Similarity=-0.009  Sum_probs=257.9

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012108          137 DVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSA  213 (471)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~  213 (471)
                      +...+..+...+.+.|++++|.++|+++..   .+..+|..+..++...|++++|...|+++.+.+ +.+...+..+..+
T Consensus        25 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~  103 (450)
T 2y4t_A           25 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIQLK-MDFTAARLQRGHL  103 (450)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCcHHHHHHHHHH
Confidence            567788899999999999999999999843   477889999999999999999999999998864 3457788899999


Q ss_pred             HHccCChHHHHHHHHHHHHcCCCCch---hHHHHH------------HHHHHhcCChHHHHHHHhcCCC---CChhhHHH
Q 012108          214 CANLGSLETGARIHVYATDNGLASNP---HATTAL------------IDMYAKCGSIEQSLEVFYKSQV---KDVFCWNA  275 (471)
Q Consensus       214 ~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~  275 (471)
                      +.+.|++++|...++.+.+.. +.+.   ..+..+            ...+...|++++|+..|+++..   .+..++..
T Consensus       104 ~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  182 (450)
T 2y4t_A          104 LLKQGKLDEAEDDFKKVLKSN-PSENEEKEAQSQLIKSDEMQRLRSQALNAFGSGDYTAAIAFLDKILEVCVWDAELREL  182 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTSC-CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHhcC-CCChhhHHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHH
Confidence            999999999999999999875 4444   555555            4458999999999999988654   46788999


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHH--------
Q 012108          276 MILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCM--------  347 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l--------  347 (471)
                      ++..|.+.|++++|...|+++.... +.+..++..+...+...|++++|...|+++.+  ..+.+...+..+        
T Consensus       183 l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~p~~~~~~~~~~~~~~~~~  259 (450)
T 2y4t_A          183 RAECFIKEGEPRKAISDLKAASKLK-NDNTEAFYKISTLYYQLGDHELSLSEVRECLK--LDQDHKRCFAHYKQVKKLNK  259 (450)
T ss_dssp             HHHHHHHTTCGGGGHHHHHHHHHHH-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCChHHHHHHHHHHHHHHH
Confidence            9999999999999999999998753 45678999999999999999999999999987  233445555555        


Q ss_pred             ----HHHHhhcCCHHHHHHHHHhC-CCCCC-----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH
Q 012108          348 ----VDLLGRARLLDRAIELIEAM-PFEPT-----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL  417 (471)
Q Consensus       348 ----~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  417 (471)
                          ...+.+.|++++|.+.|+++ ...|+     ...+..+...+.+.|++++|...++++.+..|. ++..|..++.+
T Consensus       260 ~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~  338 (450)
T 2y4t_A          260 LIESAEELIRDGRYTDATSKYESVMKTEPSIAEYTVRSKERICHCFSKDEKPVEAIRVCSEVLQMEPD-NVNALKDRAEA  338 (450)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHH
Confidence                78899999999999999988 33444     447888899999999999999999999999998 89999999999


Q ss_pred             HHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          418 YASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       418 ~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      |...|++++|.+.++++.+..+..
T Consensus       339 ~~~~~~~~~A~~~~~~al~~~p~~  362 (450)
T 2y4t_A          339 YLIEEMYDEAIQDYETAQEHNEND  362 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTSSSC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCcch
Confidence            999999999999999998876654

>3fp2_A TPR repeat-containing protein YHR117W; TOM71, mitochondria translocation, allosteric REG phosphoprotein, TPR repeat, ATP-binding; 1.98A {Saccharomyces cerevisiae} PDB: 3fp3_A 3fp4_A 3lca_A

Probab=99.92  E-value=3.6e-22  Score=193.09  Aligned_cols=398  Identities=12%  Similarity=0.020  Sum_probs=308.1

Q ss_pred             CCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHH
Q 012108            8 ADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFA   87 (471)
Q Consensus         8 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~   87 (471)
                      .+...|..+...+...|++++|.+.++++++.+ +.+..++..+..++...|++++|...|+.+ ..++......+..+.
T Consensus        57 ~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~~-~~~~~~~~~~~~~~~  134 (537)
T 3fp2_A           57 NEPVFYSNISACYISTGDLEKVIEFTTKALEIK-PDHSKALLRRASANESLGNFTDAMFDLSVL-SLNGDFDGASIEPML  134 (537)
T ss_dssp             TCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHH-C-----------CHH
T ss_pred             CCcHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CchHHHHHHHHHHHHHcCCHHHHHHHHHHH-hcCCCCChHHHHHHH
Confidence            355788889999999999999999999999986 447788999999999999999999999744 322333333455666


Q ss_pred             cCCCHHHHHHHHhcCCCC------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChh---hHHHHHHHHHhC-------
Q 012108           88 SCGQMDHAMKLIDLMPLK------DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVV---SWNSLILAYTNA-------  151 (471)
Q Consensus        88 ~~g~~~~A~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~-------  151 (471)
                      ..+...+|...++.+...      ........+..+....+.+.+...+......+..   ....+...+...       
T Consensus       135 ~~~~~~~a~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~a  214 (537)
T 3fp2_A          135 ERNLNKQAMKVLNENLSKDEGRGSQVLPSNTSLASFFGIFDSHLEVSSVNTSSNYDTAYALLSDALQRLYSATDEGYLVA  214 (537)
T ss_dssp             HHHHHHHHHHHHHHHCC-------CCCCCHHHHHHHHHTSCHHHHHHTSCCCCSSCSSHHHHHHHHHHHHTCSHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCccccccccchHhHHHHHHHhcChHHHHHHHhhccccccHHHHHHHHHHHHHHhhhhhhHHH
Confidence            667778899999888653      1223345566677788888888887777655443   444444443333       


Q ss_pred             -CCHHHHHHHHHhcccc--C--------hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCCh
Q 012108          152 -GEMEKAGEMFKKMLVK--N--------VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSL  220 (471)
Q Consensus       152 -~~~~~A~~~~~~~~~~--~--------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~  220 (471)
                       |++++|..+|+++...  +        ..++..+...+...|++++|...|++..+.  .|+...+..+...+...|++
T Consensus       215 ~~~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~  292 (537)
T 3fp2_A          215 NDLLTKSTDMYHSLLSANTVDDPLRENAALALCYTGIFHFLKNNLLDAQVLLQESINL--HPTPNSYIFLALTLADKENS  292 (537)
T ss_dssp             HHHHHHHHHHHHHHHC--CCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCHHHHHHHHHHTCCSSCC
T ss_pred             HHHHHHHHHHHHHHHHHCCCcchhhHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHhcCH
Confidence             4889999999998443  2        235777778899999999999999999885  56678888899999999999


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 012108          221 ETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMN  297 (471)
Q Consensus       221 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  297 (471)
                      ++|...++.+.+.. +.+..++..+...+...|++++|+..|+++..   .+...+..+...+...|++++|...++++.
T Consensus       293 ~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~  371 (537)
T 3fp2_A          293 QEFFKFFQKAVDLN-PEYPPTYYHRGQMYFILQDYKNAKEDFQKAQSLNPENVYPYIQLACLLYKQGKFTESEAFFNETK  371 (537)
T ss_dssp             HHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCSHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            99999999999886 66788999999999999999999999987654   456789999999999999999999999998


Q ss_pred             hCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC----ChhHHHHHHHHHhhc----------CCHHHHHHH
Q 012108          298 DSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR----KLEHYGCMVDLLGRA----------RLLDRAIEL  363 (471)
Q Consensus       298 ~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~----------g~~~~A~~~  363 (471)
                      ... +.+...+..+...+...|++++|...|+++.+.....+    ....+..+..++...          |++++|...
T Consensus       372 ~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~A~~~  450 (537)
T 3fp2_A          372 LKF-PTLPEVPTFFAEILTDRGDFDTAIKQYDIAKRLEEVQEKIHVGIGPLIGKATILARQSSQDPTQLDEEKFNAAIKL  450 (537)
T ss_dssp             HHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHCSSCSSTTHHHHHHHHHHHHHHTC----CCHHHHHHHHHH
T ss_pred             HhC-CCChHHHHHHHHHHHHhCCHHHHHHHHHHHHHcCCcchhhHHHHHHHHHHHHHHHHHhhccchhhhHhHHHHHHHH
Confidence            863 44567888899999999999999999999887321111    122244555677777          999999999


Q ss_pred             HHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHH
Q 012108          364 IEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELM  412 (471)
Q Consensus       364 ~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  412 (471)
                      |+++ . .+.+...+..+...+...|++++|...|+++.+..|. +.....
T Consensus       451 ~~~a~~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~  500 (537)
T 3fp2_A          451 LTKACELDPRSEQAKIGLAQLKLQMEKIDEAIELFEDSAILART-MDEKLQ  500 (537)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC---CHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-cHHHHH
Confidence            9988 3 3346788999999999999999999999999999988 554433

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.91  E-value=3.8e-21  Score=175.73  Aligned_cols=295  Identities=11%  Similarity=-0.011  Sum_probs=151.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHhccc--c-ChHHHHHHHHHHH
Q 012108          107 VTSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV--K-NVITWNTMVTGYL  180 (471)
Q Consensus       107 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~  180 (471)
                      +..+..+...+...|++++|...|+++.   +.+...+..+..++...|++++|...|+++..  | +...|..+...+.
T Consensus         3 ~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~   82 (359)
T 3ieg_A            3 VEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLLL   82 (359)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHHH
Confidence            3445556666666666666666666652   23445556666666666666666666666522  2 4455666666666


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCC----CHHHHHHH------------HHHHHccCChHHHHHHHHHHHHcCCCCchhHHHH
Q 012108          181 RSQLYIEVVDLFDEMKAGNVKP----DYLTVTSV------------LSACANLGSLETGARIHVYATDNGLASNPHATTA  244 (471)
Q Consensus       181 ~~~~~~~a~~~~~~m~~~g~~p----~~~~~~~l------------~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~  244 (471)
                      ..|++++|...|++..+.  .|    +...+..+            ...+...|++++|...++.+.+.. +.+.     
T Consensus        83 ~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~-----  154 (359)
T 3ieg_A           83 KQGKLDEAEDDFKKVLKS--NPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDA-----  154 (359)
T ss_dssp             HHTCHHHHHHHHHHHHTS--CCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH-----
T ss_pred             HcCChHHHHHHHHHHHhc--CCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCch-----
Confidence            666666666666666553  23    22222222            233444444444444444444433 3334     


Q ss_pred             HHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 012108          245 LIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEG  324 (471)
Q Consensus       245 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  324 (471)
                                                ..+..+...+...|++++|...++++.... +.+...+..+...+...|++++|
T Consensus       155 --------------------------~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A  207 (359)
T 3ieg_A          155 --------------------------ELRELRAECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELS  207 (359)
T ss_dssp             --------------------------HHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHH
T ss_pred             --------------------------HHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHH
Confidence                                      444444555555555555555555554431 22344445555555555555555


Q ss_pred             HHHHHHhHHhcCCCCChhHHH------------HHHHHHhhcCCHHHHHHHHHhC-CCCCC-H----hHHHHHHHHHhhc
Q 012108          325 CELFSRMEKDFGVTRKLEHYG------------CMVDLLGRARLLDRAIELIEAM-PFEPT-E----SILGALLSACVIH  386 (471)
Q Consensus       325 ~~~~~~~~~~~~~~~~~~~~~------------~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~----~~~~~l~~~~~~~  386 (471)
                      ...++++.+.  .+.+...+.            .+...+.+.|++++|.+.++++ ...|+ .    ..+..+...+...
T Consensus       208 ~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~  285 (359)
T 3ieg_A          208 LSEVRECLKL--DQDHKRCFAHYKQVKKLNKLIESAEELIRDGRYTDATSKYESVMKTEPSVAEYTVRSKERICHCFSKD  285 (359)
T ss_dssp             HHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHhh--CccchHHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCchHHHHHHHHHHHHHHHHc
Confidence            5555555441  112222221            1234455555566655555554 11222 1    1233344555566


Q ss_pred             CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      |++++|...++++.+..|. ++..+..++.+|.+.|++++|.+.++++.+..+
T Consensus       286 ~~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p  337 (359)
T 3ieg_A          286 EKPVEAIRICSEVLQMEPD-NVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNE  337 (359)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCT
T ss_pred             cCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCC
Confidence            6666666666666666555 555666666666666666666666666655543

>3ieg_A DNAJ homolog subfamily C member 3; TPR motif, chaperone, endoplasmic reticulum, TPR repeat, UNF protein response; 2.51A {Mus musculus}

Probab=99.90  E-value=1.5e-20  Score=171.75  Aligned_cols=322  Identities=12%  Similarity=0.047  Sum_probs=240.3

Q ss_pred             CcccHHHHHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHH
Q 012108           75 DIIAWNSMLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAY  148 (471)
Q Consensus        75 ~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~  148 (471)
                      ++..+..+...+...|++++|+..|+++...   ++.++..+..++...|++++|...++++..   .+...+..+..++
T Consensus         2 ~~~~~~~~~~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~   81 (359)
T 3ieg_A            2 DVEKHLELGKKLLAAGQLADALSQFHAAVDGDPDNYIAYYRRATVFLAMGKSKAALPDLTKVIALKMDFTAARLQRGHLL   81 (359)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCcchHHHHHHHHH
Confidence            3456788889999999999999999988633   677899999999999999999999999843   4667889999999


Q ss_pred             HhCCCHHHHHHHHHhccc--c----ChHHHHHH------------HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 012108          149 TNAGEMEKAGEMFKKMLV--K----NVITWNTM------------VTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSV  210 (471)
Q Consensus       149 ~~~~~~~~A~~~~~~~~~--~----~~~~~~~l------------~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  210 (471)
                      ...|++++|...|++...  |    +...+..+            ...+...|++++|.+.++++.+.. +.+...+..+
T Consensus        82 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~  160 (359)
T 3ieg_A           82 LKQGKLDEAEDDFKKVLKSNPSEQEEKEAESQLVKADEMQRLRSQALDAFDGADYTAAITFLDKILEVC-VWDAELRELR  160 (359)
T ss_dssp             HHHTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHH
T ss_pred             HHcCChHHHHHHHHHHHhcCCcccChHHHHHHHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCchHHHHHH
Confidence            999999999999999944  3    34445444            578899999999999999998764 4567788888


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHH
Q 012108          211 LSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAAL  290 (471)
Q Consensus       211 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  290 (471)
                      ...+...|++++|...++.+.+.. +.+..++..+...+...|++++|...+++....++              +...+.
T Consensus       161 ~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~--------------~~~~~~  225 (359)
T 3ieg_A          161 AECFIKEGEPRKAISDLKAASKLK-SDNTEAFYKISTLYYQLGDHELSLSEVRECLKLDQ--------------DHKRCF  225 (359)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHTTC-SCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCT--------------TCHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCc--------------cchHHH
Confidence            899999999999999999998875 66777778888888888888877777765433111              011111


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCCh----hHHHHHHHHHhhcCCHHHHHHHHHh
Q 012108          291 KLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKL----EHYGCMVDLLGRARLLDRAIELIEA  366 (471)
Q Consensus       291 ~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~  366 (471)
                      ..+..+.      .......+...+...|++++|...++++.+.  .+.+.    ..+..+..++...|++++|.+.+++
T Consensus       226 ~~~~~~~------~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~  297 (359)
T 3ieg_A          226 AHYKQVK------KLNKLIESAEELIRDGRYTDATSKYESVMKT--EPSVAEYTVRSKERICHCFSKDEKPVEAIRICSE  297 (359)
T ss_dssp             HHHHHHH------HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCSSHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHH------HHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CCCchHHHHHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            1111111      1112223355667778888888888777762  12222    2344566777788888888888877


Q ss_pred             C-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          367 M-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       367 ~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      . ...| +..++..+...+...|++++|...++++.+..|. ++..+..+..++...
T Consensus       298 ~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~~~~  353 (359)
T 3ieg_A          298 VLQMEPDNVNALKDRAEAYLIEEMYDEAIQDYEAAQEHNEN-DQQIREGLEKAQRLL  353 (359)
T ss_dssp             HHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHH
T ss_pred             HHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-ChHHHHHHHHHHHHH
Confidence            6 2233 6778888888888889999999999999888888 777777777765543

>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=99.87  E-value=1.1e-19  Score=164.01  Aligned_cols=284  Identities=10%  Similarity=-0.009  Sum_probs=173.7

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHhcccc---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012108          137 DVVSWNSLILAYTNAGEMEKAGEMFKKMLVK---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSA  213 (471)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~  213 (471)
                      +...+..+...+...|++++|.++|+++...   +...+..++.++...|++++|..+++++.+.. +.+...+..+...
T Consensus        21 ~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~   99 (330)
T 3hym_B           21 NLDVVVSLAERHYYNCDFKMCYKLTSVVMEKDPFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAVGCY   99 (330)
T ss_dssp             CCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHHHHH
Confidence            4445555556666666666666666665221   33444555556666666666666666665532 2234455555566


Q ss_pred             HHccC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHH
Q 012108          214 CANLG-SLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAA  289 (471)
Q Consensus       214 ~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a  289 (471)
                      +...| ++++|...++.+.+.. +.+...+..+...+...|++++|+..++++..   .+...+..+...+...|++++|
T Consensus       100 ~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (330)
T 3hym_B          100 YLMVGHKNEHARRYLSKATTLE-KTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLMKGCHLPMLYIGLEYGLTNNSKLA  178 (330)
T ss_dssp             HHHSCSCHHHHHHHHHHHHTTC-TTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCSHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhhhhHHHHHHHHHHHHHhC-CccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhccccHHHHHHHHHHHHHHhhHHHH
Confidence            66666 6666666666666554 34455566666666666666666666655433   2345555566666777777777


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcC-------CCCChhHHHHHHHHHhhcCCHHHHHH
Q 012108          290 LKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFG-------VTRKLEHYGCMVDLLGRARLLDRAIE  362 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-------~~~~~~~~~~l~~~~~~~g~~~~A~~  362 (471)
                      ...+++..... +.+...+..+...+...|++++|...++++.+...       .+.....+..+..+|...|++++|.+
T Consensus       179 ~~~~~~al~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~  257 (330)
T 3hym_B          179 ERFFSQALSIA-PEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYAEALD  257 (330)
T ss_dssp             HHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhC-CCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHHHHHH
Confidence            77777766652 33456666677777777777777777777665211       12335566677777777777777777


Q ss_pred             HHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH-HhcCCH
Q 012108          363 LIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY-ASCGQW  424 (471)
Q Consensus       363 ~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~  424 (471)
                      .+++. .. +.+...+..+...+...|++++|...++++.+..|. ++..+..++.++ ...|+.
T Consensus       258 ~~~~a~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~~g~~  321 (330)
T 3hym_B          258 YHRQALVLIPQNASTYSAIGYIHSLMGNFENAVDYFHTALGLRRD-DTFSVTMLGHCIEMYIGDS  321 (330)
T ss_dssp             HHHHHHHHSTTCSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSC-CHHHHHHHHHHHHTTTTC-
T ss_pred             HHHHHHhhCccchHHHHHHHHHHHHhccHHHHHHHHHHHHccCCC-chHHHHHHHHHHHHHhCch
Confidence            77665 22 234556666777777777777777777777777776 677777777766 344443

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.87  E-value=4.9e-19  Score=168.77  Aligned_cols=376  Identities=13%  Similarity=-0.001  Sum_probs=302.5

Q ss_pred             HHHHHHHHHHhccCCchhHHHHHHHHHhc----cCCHhHHHHHhcccCC-CCcccHHHHHHHHHc----CCCHHHHHHHH
Q 012108           29 GLMLHGQTIKTGFCGHVYVQTALLKMYGS----LRCIDDAFKVFEKMPE-KDIIAWNSMLDAFAS----CGQMDHAMKLI   99 (471)
Q Consensus        29 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~-~~~~~~~~li~~~~~----~g~~~~A~~~~   99 (471)
                      +.+.+....+.   .+..++..+...|..    .+++++|...|++..+ .++..+..|...|..    .+++++|...|
T Consensus        26 ~~~~~~~~a~~---g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~  102 (490)
T 2xm6_A           26 NLEQLKQKAES---GEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWY  102 (490)
T ss_dssp             CHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHH
T ss_pred             HHHHHHHHHHC---CCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHH
Confidence            34445544443   377778888888887    8999999999998764 467788888899988    89999999999


Q ss_pred             hcCCCC-ChhhHHHHHHHHHh----cCCHHHHHHHHhhcCCC-ChhhHHHHHHHHHh----CCCHHHHHHHHHhccc-cC
Q 012108          100 DLMPLK-DVTSFNIMISGYAR----IGKIHSARYIFDKVPAK-DVVSWNSLILAYTN----AGEMEKAGEMFKKMLV-KN  168 (471)
Q Consensus       100 ~~~~~~-~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~A~~~~~~~~~-~~  168 (471)
                      ++.... ++..+..+...|..    .+++++|...|++.... ++..+..|...|..    .+++++|.+.|++... .+
T Consensus       103 ~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~~  182 (490)
T 2xm6_A          103 KKAALKGLPQAQQNLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQGN  182 (490)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCC
Confidence            987655 77888888899988    88999999999998554 56778888888887    8899999999999844 47


Q ss_pred             hHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCCCchh
Q 012108          169 VITWNTMVTGYLR----SQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACAN----LGSLETGARIHVYATDNGLASNPH  240 (471)
Q Consensus       169 ~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~  240 (471)
                      ...+..+...|..    .+++++|.++|++..+.|   +...+..+...+..    .+++++|..+++...+.|   ++.
T Consensus       183 ~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~---~~~  256 (490)
T 2xm6_A          183 VWSCNQLGYMYSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQG---NSI  256 (490)
T ss_dssp             HHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTT---CHH
T ss_pred             HHHHHHHHHHHhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHH
Confidence            7788888888888    899999999999998865   45666677777765    789999999999998765   455


Q ss_pred             HHHHHHHHHHh----cCChHHHHHHHhcCCC-CChhhHHHHHHHHHhc-----CChHHHHHHHHHHHhCCCCCCHHHHHH
Q 012108          241 ATTALIDMYAK----CGSIEQSLEVFYKSQV-KDVFCWNAMILGLALH-----GYGYAALKLLGEMNDSCVKADDITFIG  310 (471)
Q Consensus       241 ~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~p~~~~~~~  310 (471)
                      .+..+...|..    .++.++|+..|++... .+...+..+...|...     +++++|...|++..+.|   +...+..
T Consensus       257 a~~~lg~~y~~g~~~~~d~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~~~---~~~a~~~  333 (490)
T 2xm6_A          257 AQFRLGYILEQGLAGAKEPLKALEWYRKSAEQGNSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAEQG---DATAQAN  333 (490)
T ss_dssp             HHHHHHHHHHHTTTSSCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHHTT---CHHHHHH
T ss_pred             HHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHhcC---CHHHHHH
Confidence            67778888887    8999999999988665 4677888888888887     89999999999998865   4566777


Q ss_pred             HHHHHhccC---cHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012108          311 LLSACSHAG---LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----ARLLDRAIELIEAMPFEPTESILGALLSAC  383 (471)
Q Consensus       311 l~~~~~~~~---~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~  383 (471)
                      +...+...|   +.++|.+.|++..+ .   .++..+..|...|..    .+++++|.+.|++.-...++..+..|...|
T Consensus       334 lg~~y~~~g~~~~~~~A~~~~~~a~~-~---~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~~~~a~~~Lg~~y  409 (490)
T 2xm6_A          334 LGAIYFRLGSEEEHKKAVEWFRKAAA-K---GEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQGLSAAQVQLGEIY  409 (490)
T ss_dssp             HHHHHHHSCCHHHHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHhCCCcccHHHHHHHHHHHHH-C---CCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCCCHHHHHHHHHHH
Confidence            777777656   88999999999988 2   467788888888988    899999999999883334677888888888


Q ss_pred             hh----cCCchHHHHHHHHHHHcCCCC--CchhHHHHHHHHHh
Q 012108          384 VI----HQDLEIGDRVAKMVCAKSNYL--SDGELMMFANLYAS  420 (471)
Q Consensus       384 ~~----~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~  420 (471)
                      ..    .+++++|...|+++.+.++.+  ++.....+..++..
T Consensus       410 ~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~~a~~~l~~~~~~  452 (490)
T 2xm6_A          410 YYGLGVERDYVQAWAWFDTASTNDMNLFGTENRNITEKKLTAK  452 (490)
T ss_dssp             HHTSSSCCCHHHHHHHHHHHHHHHCCHHHHHHHHHHHTTSCHH
T ss_pred             HcCCCCCCCHHHHHHHHHHHHHCCCCCcCCHHHHHHHHhcCHh
Confidence            87    899999999999999998541  45555555555443

>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=99.87  E-value=7.8e-20  Score=164.96  Aligned_cols=271  Identities=10%  Similarity=-0.036  Sum_probs=235.1

Q ss_pred             ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 012108          166 VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTAL  245 (471)
Q Consensus       166 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  245 (471)
                      ..+...+..++..+...|++++|.++|+++.+.. +.+...+..++..+...|++++|..+++.+.+.. +.+...+..+
T Consensus        19 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~-p~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l   96 (330)
T 3hym_B           19 QENLDVVVSLAERHYYNCDFKMCYKLTSVVMEKD-PFHASCLPVHIGTLVELNKANELFYLSHKLVDLY-PSNPVSWFAV   96 (330)
T ss_dssp             -CCCTTHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCTTTHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTSTHHHHHH
T ss_pred             hhhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCChhhHHHHHHHHHHhhhHHHHHHHHHHHHHhC-cCCHHHHHHH
Confidence            3466777888899999999999999999998764 3445566677888899999999999999999875 6678899999


Q ss_pred             HHHHHhcC-ChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcH
Q 012108          246 IDMYAKCG-SIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLV  321 (471)
Q Consensus       246 ~~~~~~~~-~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~  321 (471)
                      ...+...| ++++|+..|++...   .+...|..+...+...|++++|...++++.... +.+...+..+...+...|++
T Consensus        97 ~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~  175 (330)
T 3hym_B           97 GCYYLMVGHKNEHARRYLSKATTLEKTYGPAWIAYGHSFAVESEHDQAMAAYFTAAQLM-KGCHLPMLYIGLEYGLTNNS  175 (330)
T ss_dssp             HHHHHHSCSCHHHHHHHHHHHHTTCTTCTHHHHHHHHHHHHHTCHHHHHHHHHHHHHHT-TTCSHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHhhhhHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhc-cccHHHHHHHHHHHHHHhhH
Confidence            99999999 99999999988654   356789999999999999999999999998763 33456677789999999999


Q ss_pred             HHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C----------CCCCHhHHHHHHHHHhhcCCch
Q 012108          322 QEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P----------FEPTESILGALLSACVIHQDLE  390 (471)
Q Consensus       322 ~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~----------~~p~~~~~~~l~~~~~~~g~~~  390 (471)
                      ++|...++++.+  ..+.+...+..+...+...|++++|...++++ .          .+....++..+...+...|+++
T Consensus       176 ~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~  253 (330)
T 3hym_B          176 KLAERFFSQALS--IAPEDPFVMHEVGVVAFQNGEWKTAEKWFLDALEKIKAIGNEVTVDKWEPLLNNLGHVCRKLKKYA  253 (330)
T ss_dssp             HHHHHHHHHHHT--TCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTTSCSCTTTTCCHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcccHHHHHHHHHHHHHHhhhccccccccHHHHHHHHHHHHHHHhcCHH
Confidence            999999999997  45667889999999999999999999999876 1          1334578899999999999999


Q ss_pred             HHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          391 IGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       391 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      +|...++++.+..|. ++..+..++.+|.+.|++++|.+.++++.+..+..+
T Consensus       254 ~A~~~~~~a~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  304 (330)
T 3hym_B          254 EALDYHRQALVLIPQ-NASTYSAIGYIHSLMGNFENAVDYFHTALGLRRDDT  304 (330)
T ss_dssp             HHHHHHHHHHHHSTT-CSHHHHHHHHHHHHHTCHHHHHHHHHTTTTTCSCCH
T ss_pred             HHHHHHHHHHhhCcc-chHHHHHHHHHHHHhccHHHHHHHHHHHHccCCCch
Confidence            999999999999999 999999999999999999999999999988765433

>1fch_A Peroxisomal targeting signal 1 receptor; protein-peptide complex, tetratricopeptide repeat, TPR, helical repeat, signaling protein; 2.20A {Homo sapiens} SCOP: a.118.8.1 PDB: 2j9q_A 3imz_B* 3r9a_B* 2c0m_A 2c0l_A

Probab=99.87  E-value=2.2e-20  Score=171.47  Aligned_cols=296  Identities=9%  Similarity=-0.044  Sum_probs=192.3

Q ss_pred             hcCCHHHHHH-HHhhcCC--C-----ChhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHH
Q 012108          119 RIGKIHSARY-IFDKVPA--K-----DVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIE  187 (471)
Q Consensus       119 ~~g~~~~a~~-~~~~~~~--~-----~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  187 (471)
                      ..|++++|.. .+++...  |     +...+..+...+.+.|++++|...|+++..   .+..+|..+..++...|++++
T Consensus        37 ~~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~  116 (368)
T 1fch_A           37 WLSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELL  116 (368)
T ss_dssp             ---------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHH
Confidence            3456666665 5554422  1     233455555666666666666666666522   244555556666666666666


Q ss_pred             HHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC
Q 012108          188 VVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV  267 (471)
Q Consensus       188 a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  267 (471)
                      |...|+++.+.. +.+..++..+...+...|++++|...++.+.+.. +.+...+..+...       ..        ..
T Consensus       117 A~~~~~~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~-------~~--------~~  179 (368)
T 1fch_A          117 AISALRRCLELK-PDNQTALMALAVSFTNESLQRQACEILRDWLRYT-PAYAHLVTPAEEG-------AG--------GA  179 (368)
T ss_dssp             HHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTS-TTTGGGCC------------------------
T ss_pred             HHHHHHHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-cCcHHHHHHHHHH-------hh--------hh
Confidence            666666655542 2344555555555666666666666666655543 2222211111000       00        00


Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHH
Q 012108          268 KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGC  346 (471)
Q Consensus       268 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~  346 (471)
                      .....+..+. .+...|++++|...++++....... +..++..+...+...|++++|...++++.+  ..+.+...+..
T Consensus       180 ~~~~~~~~~~-~~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~~~~~~~~~~  256 (368)
T 1fch_A          180 GLGPSKRILG-SLLSDSLFLEVKELFLAAVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALS--VRPNDYLLWNK  256 (368)
T ss_dssp             ------CTTH-HHHHHHHHHHHHHHHHHHHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHH
T ss_pred             cccHHHHHHH-HHhhcccHHHHHHHHHHHHHhCcCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcCCHHHHHH
Confidence            0000111223 3338899999999999998753211 478888999999999999999999999987  34556788999


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC-----------chhHHH
Q 012108          347 MVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS-----------DGELMM  413 (471)
Q Consensus       347 l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-----------~~~~~~  413 (471)
                      +..++...|++++|.+.|+++ .. +.+..++..+..++...|++++|...++++.+..|. +           ..+|..
T Consensus       257 l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~-~~~~~~~~~~~~~~~~~~  335 (368)
T 1fch_A          257 LGATLANGNQSEEAVAAYRRALELQPGYIRSRYNLGISCINLGAHREAVEHFLEALNMQRK-SRGPRGEGGAMSENIWST  335 (368)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHT-C------CCCCCHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCC-CCCccccccchhhHHHHH
Confidence            999999999999999999987 33 346788999999999999999999999999998877 4           789999


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhh
Q 012108          414 FANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       414 l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      ++.+|.+.|++++|..++++..
T Consensus       336 l~~~~~~~g~~~~A~~~~~~~l  357 (368)
T 1fch_A          336 LRLALSMLGQSDAYGAADARDL  357 (368)
T ss_dssp             HHHHHHHHTCGGGHHHHHTTCH
T ss_pred             HHHHHHHhCChHhHHHhHHHHH
Confidence            9999999999999998877543

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.86  E-value=3.6e-18  Score=164.48  Aligned_cols=404  Identities=9%  Similarity=0.003  Sum_probs=258.6

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCcccHHHHHHHH-H
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIAWNSMLDAF-A   87 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~-~   87 (471)
                      ..|..++.. ...|+++.|..+++++++.. |.+...|..++..+.+.|++++|..+|++...  |+...|...+... .
T Consensus        14 ~~w~~l~~~-~~~~~~~~a~~~~e~al~~~-P~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~p~~~lw~~~~~~~~~   91 (530)
T 2ooe_A           14 DAWSILIRE-AQNQPIDKARKTYERLVAQF-PSSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKVLHIDLWKCYLSYVRE   91 (530)
T ss_dssp             HHHHHHHHH-HHSSCHHHHHHHHHHHHTTC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTCCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHH-HHhCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcCCChHHHHHHHHHHHH
Confidence            456666653 55667777777777776653 34556666777777777777777777776654  5555555555322 2


Q ss_pred             cCCCHHHHHH----HHhcCCC------CChhhHHHHHHHHHh---------cCCHHHHHHHHhhcCC-CCh---hhHHHH
Q 012108           88 SCGQMDHAMK----LIDLMPL------KDVTSFNIMISGYAR---------IGKIHSARYIFDKVPA-KDV---VSWNSL  144 (471)
Q Consensus        88 ~~g~~~~A~~----~~~~~~~------~~~~~~~~l~~~~~~---------~g~~~~a~~~~~~~~~-~~~---~~~~~l  144 (471)
                      ..|+.+.|.+    +|+....      .+...|...+....+         .|+++.|..+|++.+. |+.   ..|...
T Consensus        92 ~~~~~~~a~~~~~~~~~~al~~~g~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~  171 (530)
T 2ooe_A           92 TKGKLPSYKEKMAQAYDFALDKIGMEIMSYQIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDY  171 (530)
T ss_dssp             HTTTSTTHHHHHHHHHHHHHHHTTTSTTCHHHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHH
T ss_pred             HccchhhHHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHH
Confidence            3455544443    3433211      133344444444333         4455555555555533 111   111111


Q ss_pred             HHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHH------HhCC---CCCCH--------HHH
Q 012108          145 ILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEM------KAGN---VKPDY--------LTV  207 (471)
Q Consensus       145 ~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m------~~~g---~~p~~--------~~~  207 (471)
                      .......|.                .+...++.  .+.+++..|..++.++      .+..   ++|+.        ..|
T Consensus       172 ~~~e~~~~~----------------~~~~~~l~--~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w  233 (530)
T 2ooe_A          172 NKYEEGINI----------------HLAKKMIE--DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMW  233 (530)
T ss_dssp             HHHHHHHCH----------------HHHHHHHH--TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHH
T ss_pred             HHHHHhhch----------------hHHHHHHH--HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHH
Confidence            110000000                00000110  1234566677666653      2221   24431        344


Q ss_pred             HHHHHHHHc----cCCh----HHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-------cCChH-------HHHHHHhcC
Q 012108          208 TSVLSACAN----LGSL----ETGARIHVYATDNGLASNPHATTALIDMYAK-------CGSIE-------QSLEVFYKS  265 (471)
Q Consensus       208 ~~l~~~~~~----~~~~----~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~  265 (471)
                      ...+.....    .++.    +.+..+|++++... +.++..|..++..+.+       .|+++       +|..+|++.
T Consensus       234 ~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~A  312 (530)
T 2ooe_A          234 KKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERA  312 (530)
T ss_dssp             HHHHHHHHHCSSCCSCSHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCccCCcchhHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHH
Confidence            444432221    1232    36778899988874 6678899999988876       79987       899999886


Q ss_pred             CC---C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC-H-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC
Q 012108          266 QV---K-DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKAD-D-ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR  339 (471)
Q Consensus       266 ~~---~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~-~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  339 (471)
                      ..   | +...|..++..+.+.|++++|..+|+++.+.  .|+ . ..|..++..+.+.|++++|.++|+++.+.  .+.
T Consensus       313 l~~~~p~~~~l~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~--~~~  388 (530)
T 2ooe_A          313 ISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARED--ART  388 (530)
T ss_dssp             TTTTCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHS--SSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTC--TTC
T ss_pred             HHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHhCc--cccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhc--cCC
Confidence            53   3 5778999999999999999999999999985  554 2 47888888888999999999999999872  223


Q ss_pred             ChhHHHHHHHH-HhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCch----hHH
Q 012108          340 KLEHYGCMVDL-LGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDG----ELM  412 (471)
Q Consensus       340 ~~~~~~~l~~~-~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~----~~~  412 (471)
                      +...|...... +...|+.++|..+|++. ...| +...|..++..+.+.|+.++|..+|++++...|. ++.    .|.
T Consensus       389 ~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~-~~~~~~~lw~  467 (530)
T 2ooe_A          389 RHHVYVTAALMEYYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL-PPEKSGEIWA  467 (530)
T ss_dssp             CTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCS-CGGGCHHHHH
T ss_pred             chHHHHHHHHHHHHHcCChhHHHHHHHHHHHHCCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCC-CHHHHHHHHH
Confidence            33444333222 34689999999999987 3334 5788999999999999999999999999998765 444    788


Q ss_pred             HHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          413 MFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       413 ~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ..+......|+.+.+..+.+++.+.-+.
T Consensus       468 ~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          468 RFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             HHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence            8888888999999999999999876653

>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=99.86  E-value=3.2e-20  Score=166.86  Aligned_cols=284  Identities=14%  Similarity=0.115  Sum_probs=107.9

Q ss_pred             ccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCC-
Q 012108           57 SLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPA-  135 (471)
Q Consensus        57 ~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-  135 (471)
                      +.|++++|.++++++..|  .+|+.|+.++.+.|++++|++.|.+.  +|+.+|..++.++...|++++|+..++...+ 
T Consensus        15 ~~~~ld~A~~fae~~~~~--~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~ark~   90 (449)
T 1b89_A           15 HIGNLDRAYEFAERCNEP--AVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQMARKK   90 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCCCh--HHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHHHHHh
Confidence            455666666666666333  36666666666666666666666543  3555666666666666666666665555533 


Q ss_pred             -CChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          136 -KDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSAC  214 (471)
Q Consensus       136 -~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~  214 (471)
                       +++.+.+.++.+|.+.|+++++.++++.   |+..+|+.+...|...|++++|...|..+         ..|..++.++
T Consensus        91 ~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a---------~n~~~LA~~L  158 (449)
T 1b89_A           91 ARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV---------SNFGRLASTL  158 (449)
T ss_dssp             ------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT---------TCHHHHHHHH
T ss_pred             CccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh---------hhHHHHHHHH
Confidence             3345566666667777776666666642   55556777777777777777777777654         2566667777


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHH
Q 012108          215 ANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLG  294 (471)
Q Consensus       215 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~  294 (471)
                      .+.|++++|.+.+..+      .++.+|..++.+|...|+++.|......+. .++.-...++..|.+.|++++|..+++
T Consensus       159 ~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~L~-~~ad~l~~lv~~Yek~G~~eEai~lLe  231 (449)
T 1b89_A          159 VHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLHIV-VHADELEELINYYQDRGYFEELITMLE  231 (449)
T ss_dssp             HTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTTTT-TCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHHHH-hCHhhHHHHHHHHHHCCCHHHHHHHHH
Confidence            7777777777666665      256667777777777777777766555543 233334456677777777777777777


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHhc--cCcHHHHHHHHHHhHHhcCCCC------ChhHHHHHHHHHhhcCCHHHHHHHHHh
Q 012108          295 EMNDSCVKADDITFIGLLSACSH--AGLVQEGCELFSRMEKDFGVTR------KLEHYGCMVDLLGRARLLDRAIELIEA  366 (471)
Q Consensus       295 ~~~~~~~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~~~~~~------~~~~~~~l~~~~~~~g~~~~A~~~~~~  366 (471)
                      ...... +.....|+.+..+|++  .++..+.++.|.   +..+++|      +...|..++-.|...++++.|....-+
T Consensus       232 ~aL~le-~ah~~~ftel~il~~ky~p~k~~ehl~~~~---~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~tm~~  307 (449)
T 1b89_A          232 AALGLE-RAHMGMFTELAILYSKFKPQKMREHLELFW---SRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMN  307 (449)
T ss_dssp             HHTTST-TCCHHHHHHHHHHHHTTCHHHHHHHHHHHS---TTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHhCCc-HHHHHHHHHHHHHHHhcCHHHHHHHHHHHH---HHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHHHHHh
Confidence            776543 3345555555555544  334444444333   2223333      456677777788888888877765544


Q ss_pred             C
Q 012108          367 M  367 (471)
Q Consensus       367 ~  367 (471)
                      -
T Consensus       308 h  308 (449)
T 1b89_A          308 H  308 (449)
T ss_dssp             S
T ss_pred             C
Confidence            4

>2xm6_A Protein corresponding to locus C5321 from CFT073 strain; unknown function, SEL1-like repeats; 1.68A {Escherichia coli}

Probab=99.86  E-value=4.9e-18  Score=161.86  Aligned_cols=352  Identities=10%  Similarity=0.046  Sum_probs=298.5

Q ss_pred             CCCcccHHHHHHHHHc----CCCHHHHHHHHhcCCCC-ChhhHHHHHHHHHh----cCCHHHHHHHHhhcCCC-ChhhHH
Q 012108           73 EKDIIAWNSMLDAFAS----CGQMDHAMKLIDLMPLK-DVTSFNIMISGYAR----IGKIHSARYIFDKVPAK-DVVSWN  142 (471)
Q Consensus        73 ~~~~~~~~~li~~~~~----~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~-~~~~~~  142 (471)
                      ..++..+..+...|..    .+++++|+..|++..+. ++..+..+...|..    .++.++|.+.|++..+. ++..+.
T Consensus        36 ~g~~~a~~~lg~~y~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~  115 (490)
T 2xm6_A           36 SGEAKAQLELGYRYFQGNETTKDLTQAMDWFRRAAEQGYTPAEYVLGLRYMNGEGVPQDYAQAVIWYKKAALKGLPQAQQ  115 (490)
T ss_dssp             TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             CCCHHHHHHHHHHHHcCCCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHH
Confidence            3577778888888887    89999999999987655 78889999999999    99999999999998554 667788


Q ss_pred             HHHHHHHh----CCCHHHHHHHHHhcccc-ChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012108          143 SLILAYTN----AGEMEKAGEMFKKMLVK-NVITWNTMVTGYLR----SQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSA  213 (471)
Q Consensus       143 ~l~~~~~~----~~~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~  213 (471)
                      .|...|..    .+++++|.+.|++...+ ++..+..+...|..    .+++++|.+.|++..+.|   +...+..+...
T Consensus       116 ~Lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~  192 (490)
T 2xm6_A          116 NLGVMYHEGNGVKVDKAESVKWFRLAAEQGRDSGQQSMGDAYFEGDGVTRDYVMAREWYSKAAEQG---NVWSCNQLGYM  192 (490)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCC---CHHHHHHHHHH
Confidence            88888888    88999999999998554 67788888888887    789999999999998865   56777778888


Q ss_pred             HHc----cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh----cCChHHHHHHHhcCCC-CChhhHHHHHHHHHh--
Q 012108          214 CAN----LGSLETGARIHVYATDNGLASNPHATTALIDMYAK----CGSIEQSLEVFYKSQV-KDVFCWNAMILGLAL--  282 (471)
Q Consensus       214 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~--  282 (471)
                      +..    .++.++|..+|+...+.|   ++..+..+...|..    .+++++|..+|++... .+...+..+...|..  
T Consensus       193 y~~g~g~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~y~~g~g~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~y~~g~  269 (490)
T 2xm6_A          193 YSRGLGVERNDAISAQWYRKSATSG---DELGQLHLADMYYFGIGVTQDYTQSRVLFSQSAEQGNSIAQFRLGYILEQGL  269 (490)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTT
T ss_pred             HhcCCCCCcCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCC
Confidence            877    899999999999998875   45677788888886    8899999999998655 467788888888888  


Q ss_pred             --cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc-----CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC
Q 012108          283 --HGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHA-----GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       283 --~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~-----~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                        .+++++|+..|++..+.|   +...+..+...+...     +++++|...|++..+ .   .++..+..+...|...|
T Consensus       270 ~~~~d~~~A~~~~~~a~~~~---~~~a~~~Lg~~y~~~~~g~~~~~~~A~~~~~~a~~-~---~~~~a~~~lg~~y~~~g  342 (490)
T 2xm6_A          270 AGAKEPLKALEWYRKSAEQG---NSDGQYYLAHLYDKGAEGVAKNREQAISWYTKSAE-Q---GDATAQANLGAIYFRLG  342 (490)
T ss_dssp             TSSCCHHHHHHHHHHHHTTT---CHHHHHHHHHHHHHCBTTBCCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHcCCCCCcCCHHHHHHHHHHHHh-c---CCHHHHHHHHHHHHhCC
Confidence              899999999999998764   456777777777776     899999999999988 2   34567778888887766


Q ss_pred             ---CHHHHHHHHHhCCCCCCHhHHHHHHHHHhh----cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh----cCCH
Q 012108          356 ---LLDRAIELIEAMPFEPTESILGALLSACVI----HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS----CGQW  424 (471)
Q Consensus       356 ---~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~  424 (471)
                         ++++|.+.|++.-...++..+..+...|..    .+++++|...|+++.+.+   ++..+..|+.+|.+    .+++
T Consensus       343 ~~~~~~~A~~~~~~a~~~~~~~a~~~Lg~~y~~g~g~~~~~~~A~~~~~~A~~~~---~~~a~~~Lg~~y~~g~g~~~d~  419 (490)
T 2xm6_A          343 SEEEHKKAVEWFRKAAAKGEKAAQFNLGNALLQGKGVKKDEQQAAIWMRKAAEQG---LSAAQVQLGEIYYYGLGVERDY  419 (490)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCH
T ss_pred             CcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHhCC---CHHHHHHHHHHHHcCCCCCCCH
Confidence               889999999988333577888889999888    899999999999999875   58899999999998    8999


Q ss_pred             HHHHHHHHHhhhCCCc
Q 012108          425 EEANRWRNMMNDTGIV  440 (471)
Q Consensus       425 ~~A~~~~~~m~~~~~~  440 (471)
                      ++|.+.|++..+.++.
T Consensus       420 ~~A~~~~~~A~~~~~~  435 (490)
T 2xm6_A          420 VQAWAWFDTASTNDMN  435 (490)
T ss_dssp             HHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHHHHHCCCC
Confidence            9999999999988854

>1xi4_A Clathrin heavy chain; alpha-ZIG-ZAG, beta-propeller, endocytosis-exocyto complex; 7.90A {Bos taurus} SCOP: i.23.1.1 PDB: 1xi5_A 3iyv_A

Probab=99.85  E-value=2e-17  Score=165.56  Aligned_cols=381  Identities=12%  Similarity=0.079  Sum_probs=293.7

Q ss_pred             ccHHHHHHHHhhccchhHHHHHHHHHHHhcc--CCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHc
Q 012108           11 YSFPLLLKAAGILSSSCIGLMLHGQTIKTGF--CGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFAS   88 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~   88 (471)
                      .--...++++...|.+.+|.++++++.-.+-  ..+....+.++....+. +........++...-+   ...+...+..
T Consensus       986 eeVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai~ 1061 (1630)
T 1xi4_A          986 EEVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAIS 1061 (1630)
T ss_pred             HHhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHHh
Confidence            3446778889999999999999999983321  12446677777766665 4555555555544322   4558888999


Q ss_pred             CCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccC
Q 012108           89 CGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKN  168 (471)
Q Consensus        89 ~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~  168 (471)
                      .|.+++|..+|++.... ....+.+   +...+++++|.++.++.  .++.+|..+..++...|++++|.+.|.+.  .|
T Consensus      1062 lglyEEAf~IYkKa~~~-~~A~~VL---ie~i~nldrAiE~Aerv--n~p~vWsqLAKAql~~G~~kEAIdsYiKA--dD 1133 (1630)
T 1xi4_A         1062 NELFEEAFAIFRKFDVN-TSAVQVL---IEHIGNLDRAYEFAERC--NEPAVWSQLAKAQLQKGMVKEAIDSYIKA--DD 1133 (1630)
T ss_pred             CCCHHHHHHHHHHcCCH-HHHHHHH---HHHHhhHHHHHHHHHhc--CCHHHHHHHHHHHHhCCCHHHHHHHHHhc--CC
Confidence            99999999999997522 2222222   23788999999999987  45778889999999999999999999775  67


Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 012108          169 VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDM  248 (471)
Q Consensus       169 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  248 (471)
                      ...|..++.++.+.|++++|.+.|....+..  ++....+.++.+|++.++++....+.    +   .++...+..+...
T Consensus      1134 ~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI----~---~~n~ad~~~iGd~ 1204 (1630)
T 1xi4_A         1134 PSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI----N---GPNNAHIQQVGDR 1204 (1630)
T ss_pred             hHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH----h---CCCHHHHHHHHHH
Confidence            8888999999999999999999999877754  33333345888999999888644442    2   4566677789999


Q ss_pred             HHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 012108          249 YAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELF  328 (471)
Q Consensus       249 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  328 (471)
                      |...|++++|..+|...     ..|..+...|++.|++++|.+.+++..      +..+|..+..+|...|++..|....
T Consensus      1205 le~eg~YeeA~~~Y~kA-----~ny~rLA~tLvkLge~q~AIEaarKA~------n~~aWkev~~acve~~Ef~LA~~cg 1273 (1630)
T 1xi4_A         1205 CYDEKMYDAAKLLYNNV-----SNFGRLASTLVHLGEYQAAVDGARKAN------STRTWKEVCFACVDGKEFRLAQMCG 1273 (1630)
T ss_pred             HHhcCCHHHHHHHHHhh-----hHHHHHHHHHHHhCCHHHHHHHHHHhC------CHHHHHHHHHHHhhhhHHHHHHHHH
Confidence            99999999999999985     589999999999999999999999863      5688999999999999999998766


Q ss_pred             HHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhh--cCCchHHHHHHHHHHHcCC
Q 012108          329 SRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVI--HQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       329 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~--~g~~~~a~~~~~~~~~~~~  404 (471)
                      ..+      ..++..+..++..|.+.|.+++|+.+++.. +..| ....|+-+...+++  .++..++.+.|..-....+
T Consensus      1274 l~I------iv~~deLeeli~yYe~~G~feEAI~LlE~aL~LeraH~gmftELaiLyaKy~peklmEhlk~f~~rini~k 1347 (1630)
T 1xi4_A         1274 LHI------VVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFKPQKMREHLELFWSRVNIPK 1347 (1630)
T ss_pred             Hhh------hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChhHhHHHHHHHHHHHhCCHHHHHHHHHHHHHhcccch
Confidence            543      245667789999999999999999999776 4444 34566666666664  4566666666665444333


Q ss_pred             -----CCCchhHHHHHHHHHhcCCHHHHHHH
Q 012108          405 -----YLSDGELMMFANLYASCGQWEEANRW  430 (471)
Q Consensus       405 -----~~~~~~~~~l~~~~~~~g~~~~A~~~  430 (471)
                           . +...|..+.-.|.+.|+++.|...
T Consensus      1348 ~~r~~e-~~~lW~elv~LY~~~~e~dnA~~t 1377 (1630)
T 1xi4_A         1348 VLRAAE-QAHLWAELVFLYDKYEEYDNAIIT 1377 (1630)
T ss_pred             HhHHHH-HHHHHHHHHHHHHhcccHHHHHHH
Confidence                 3 567899999999999999999843

>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=99.84  E-value=3.7e-18  Score=153.56  Aligned_cols=277  Identities=10%  Similarity=0.066  Sum_probs=106.2

Q ss_pred             hccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhc
Q 012108           22 ILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDL  101 (471)
Q Consensus        22 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~  101 (471)
                      +.|++++|.+.++++.      ++.+|..+..++.+.|++++|++.|.+.  +|..+|..++..+...|++++|.+.++.
T Consensus        15 ~~~~ld~A~~fae~~~------~~~vWs~La~A~l~~g~~~eAIdsfika--~D~~~y~~V~~~ae~~g~~EeAi~yl~~   86 (449)
T 1b89_A           15 HIGNLDRAYEFAERCN------EPAVWSQLAKAQLQKGMVKEAIDSYIKA--DDPSSYMEVVQAANTSGNWEELVKYLQM   86 (449)
T ss_dssp             --------------------------------------------------------------------------------
T ss_pred             HccCHHHHHHHHHhCC------ChHHHHHHHHHHHHcCCHHHHHHHHHcC--CCHHHHHHHHHHHHhCCCHHHHHHHHHH
Confidence            4566777777777762      2247777777777777777777777553  5556777777777777777777776666


Q ss_pred             CCCC--ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHH
Q 012108          102 MPLK--DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGY  179 (471)
Q Consensus       102 ~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~  179 (471)
                      .++.  ++.+.+.++.+|.+.|+++++.++++.   |+..+|..+...|...|++++|...|..+     ..|..++.++
T Consensus        87 ark~~~~~~i~~~Li~~Y~Klg~l~e~e~f~~~---pn~~a~~~IGd~~~~~g~yeeA~~~Y~~a-----~n~~~LA~~L  158 (449)
T 1b89_A           87 ARKKARESYVETELIFALAKTNRLAELEEFING---PNNAHIQQVGDRCYDEKMYDAAKLLYNNV-----SNFGRLASTL  158 (449)
T ss_dssp             ----------------------CHHHHTTTTTC---C----------------CTTTHHHHHHHT-----TCHHHHHHHH
T ss_pred             HHHhCccchhHHHHHHHHHHhCCHHHHHHHHcC---CcHHHHHHHHHHHHHcCCHHHHHHHHHHh-----hhHHHHHHHH
Confidence            5543  445667777777777777777766643   56667777777777777777777777765     4677777777


Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 012108          180 LRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSL  259 (471)
Q Consensus       180 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  259 (471)
                      .+.|++++|.+.++++      .+..+|..++.+|...|+++.|......     +...+.-...++..|.+.|++++|+
T Consensus       159 ~~Lg~yq~AVea~~KA------~~~~~Wk~v~~aCv~~~ef~lA~~~~l~-----L~~~ad~l~~lv~~Yek~G~~eEai  227 (449)
T 1b89_A          159 VHLGEYQAAVDGARKA------NSTRTWKEVCFACVDGKEFRLAQMCGLH-----IVVHADELEELINYYQDRGYFEELI  227 (449)
T ss_dssp             HTTTCHHHHHHHHHHH------TCHHHHHHHHHHHHHTTCHHHHHHTTTT-----TTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhccHHHHHHHHHHc------CCchhHHHHHHHHHHcCcHHHHHHHHHH-----HHhCHhhHHHHHHHHHHCCCHHHHH
Confidence            7777777777777776      2567777777777777777777443332     2233344556777777777777777


Q ss_pred             HHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC-CCCC------CHHHHHHHHHHHhccCcHHHHHH
Q 012108          260 EVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDS-CVKA------DDITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       260 ~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-~~~p------~~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                      .+++....-   ....|+-|.-+|++- ++++.++.++..... +++|      +...|..+...|.+.++++.|..
T Consensus       228 ~lLe~aL~le~ah~~~ftel~il~~ky-~p~k~~ehl~~~~~~ini~k~~~~~~~~~~w~e~~~ly~~~~e~d~A~~  303 (449)
T 1b89_A          228 TMLEAALGLERAHMGMFTELAILYSKF-KPQKMREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  303 (449)
T ss_dssp             HHHHHHTTSTTCCHHHHHHHHHHHHTT-CHHHHHHHHHHHSTTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHhCCcHHHHHHHHHHHHHHHhc-CHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHHHHHhhchHHHHHH
Confidence            777765442   345566666666554 233433333332222 2222      23456677777777777777654

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.84  E-value=2e-18  Score=164.05  Aligned_cols=378  Identities=13%  Similarity=-0.018  Sum_probs=181.8

Q ss_pred             hhHHHHHHHHHhccCCHhHHHHHhcccCC-----------C-CcccHHHHHHHHHcCCCHHHHHHHHhcCCC-------C
Q 012108           45 VYVQTALLKMYGSLRCIDDAFKVFEKMPE-----------K-DIIAWNSMLDAFASCGQMDHAMKLIDLMPL-------K  105 (471)
Q Consensus        45 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----------~-~~~~~~~li~~~~~~g~~~~A~~~~~~~~~-------~  105 (471)
                      ...|+.+..++...|++++|++.|++..+           | ...+|+.+..+|...|++++|...+++...       +
T Consensus        51 a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~~  130 (472)
T 4g1t_A           51 ATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSSP  130 (472)
T ss_dssp             CHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCS
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhcccc
Confidence            45566666666667777777666665321           1 223455566666666666666655544321       0


Q ss_pred             ----ChhhHHHHHHHHHhc--CCHHHHHHHHhhcCC--C-ChhhHHHHHHH---HHhCCCHHHHHHHHHhccc--c-ChH
Q 012108          106 ----DVTSFNIMISGYARI--GKIHSARYIFDKVPA--K-DVVSWNSLILA---YTNAGEMEKAGEMFKKMLV--K-NVI  170 (471)
Q Consensus       106 ----~~~~~~~l~~~~~~~--g~~~~a~~~~~~~~~--~-~~~~~~~l~~~---~~~~~~~~~A~~~~~~~~~--~-~~~  170 (471)
                          .+.++.....++...  +++++|++.|++..+  | ++..+..+..+   +...++.++|++.|++..+  | +..
T Consensus       131 ~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~~  210 (472)
T 4g1t_A          131 YRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQY  210 (472)
T ss_dssp             SCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCHH
T ss_pred             cchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcchH
Confidence                123333333333332  234555555555421  1 22233322222   2233444444444444311  1 233


Q ss_pred             HHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 012108          171 TWNTMVTGYLR----SQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALI  246 (471)
Q Consensus       171 ~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  246 (471)
                      ++..+...+..    .|++++|.+.+++..... +.+...+..+...+...|++++|...++++.+.. |.+..++..+.
T Consensus       211 ~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg  288 (472)
T 4g1t_A          211 LKVLLALKLHKMREEGEEEGEGEKLVEEALEKA-PGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIG  288 (472)
T ss_dssp             HHHHHHHHHHHCC------CHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhC-ccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHH
Confidence            33333322222    233444555554444332 2233344444444455555555555555544443 33334444444


Q ss_pred             HHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 012108          247 DMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       247 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                      ..|...+....+...            ..........+..+.|...+++..... +.+...+..+...+...|++++|.+
T Consensus       289 ~~y~~~~~~~~~~~~------------~~~~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~lg~~~~~~~~~~~A~~  355 (472)
T 4g1t_A          289 CCYRAKVFQVMNLRE------------NGMYGKRKLLELIGHAVAHLKKADEAN-DNLFRVCSILASLHALADQYEEAEY  355 (472)
T ss_dssp             HHHHHHHHHHHHC------------------CHHHHHHHHHHHHHHHHHHHHHC-TTTCCCHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHhhhHHH------------HHHHHHHHHHhhHHHHHHHHHHHhhcC-CchhhhhhhHHHHHHHhccHHHHHH
Confidence            333221111000000            000000111233567888888777652 3345567888889999999999999


Q ss_pred             HHHHhHHhcCCCCCh--hHHHHHHH-HHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHc
Q 012108          327 LFSRMEKDFGVTRKL--EHYGCMVD-LLGRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAK  402 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~--~~~~~l~~-~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  402 (471)
                      .|+++.+ ....+..  ..+..+.. .+...|++++|+..|++. .+.|+......         ....+.+++++.++.
T Consensus       356 ~~~kaL~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~i~~~~~~~~~---------~~~~l~~~~~~~l~~  425 (472)
T 4g1t_A          356 YFQKEFS-KELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVKINQKSREKEK---------MKDKLQKIAKMRLSK  425 (472)
T ss_dssp             HHHHHHH-SCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHHSCCCCHHHHH---------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHh-cCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCcccHHHHH---------HHHHHHHHHHHHHHh
Confidence            9999887 2222221  12233332 234678999999999876 55665443322         234456778888899


Q ss_pred             CCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCcceEE
Q 012108          403 SNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAGSSVI  448 (471)
Q Consensus       403 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~~~~~  448 (471)
                      +|. ++.+|..|+.+|...|++++|++.|++..+.+...|.+.+|+
T Consensus       426 ~p~-~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~~p~a~~~~  470 (472)
T 4g1t_A          426 NGA-DSEALHVLAFLQELNEKMQQADEDSERGLESGSLIPSASSWN  470 (472)
T ss_dssp             CC--CTTHHHHHHHHHHHHHHCC-----------------------
T ss_pred             CCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCCcHhhcC
Confidence            999 999999999999999999999999999999998888887775

>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=99.83  E-value=7.4e-19  Score=161.20  Aligned_cols=242  Identities=14%  Similarity=0.103  Sum_probs=138.2

Q ss_pred             CCCHHHHHH-HHhcCCCC-------ChhhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHHH
Q 012108           89 CGQMDHAMK-LIDLMPLK-------DVTSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEKA  157 (471)
Q Consensus        89 ~g~~~~A~~-~~~~~~~~-------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A  157 (471)
                      .|++++|++ .+++....       +...+..+...+.+.|++++|...|+++.   +.+..++..+..++...|++++|
T Consensus        38 ~~~~~~a~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A  117 (368)
T 1fch_A           38 LSDYDDLTSATYDKGYQFEEENPLRDHPQPFEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLA  117 (368)
T ss_dssp             --------CHHHHCCCCCCSSCTTTTCSSHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHHHHHHhhhhhHHHhcCCCCcccchHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCcCHHHH
Confidence            356666666 66544322       23456667777777777777777777763   23556777778888888888888


Q ss_pred             HHHHHhcc---ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHH---------------HHHHHHccCC
Q 012108          158 GEMFKKML---VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTS---------------VLSACANLGS  219 (471)
Q Consensus       158 ~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~---------------l~~~~~~~~~  219 (471)
                      .+.|+++.   +.+..++..+...+...|++++|.+.++++.+.... +...+..               .+..+...|+
T Consensus       118 ~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  196 (368)
T 1fch_A          118 ISALRRCLELKPDNQTALMALAVSFTNESLQRQACEILRDWLRYTPA-YAHLVTPAEEGAGGAGLGPSKRILGSLLSDSL  196 (368)
T ss_dssp             HHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSTT-TGGGCC---------------CTTHHHHHHHH
T ss_pred             HHHHHHHHhcCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcC-cHHHHHHHHHHhhhhcccHHHHHHHHHhhccc
Confidence            88888773   236677888888888888888888888888775321 1111111               1222336666


Q ss_pred             hHHHHHHHHHHHHcCCCC--chhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHH
Q 012108          220 LETGARIHVYATDNGLAS--NPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLG  294 (471)
Q Consensus       220 ~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~  294 (471)
                      +++|...++.+.+.. +.  +..++..+...|...|++++|+..|+++..   .+..+|..+...+...|++++|...++
T Consensus       197 ~~~A~~~~~~a~~~~-p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  275 (368)
T 1fch_A          197 FLEVKELFLAAVRLD-PTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYR  275 (368)
T ss_dssp             HHHHHHHHHHHHHHS-TTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhC-cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHcCCHHHHHHHHH
Confidence            667777766666654 22  355555566666666666666555554322   233445555555555555555555555


Q ss_pred             HHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          295 EMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       295 ~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      ++.... +.+...+..+..++...|++++|...|+++.+
T Consensus       276 ~al~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~  313 (368)
T 1fch_A          276 RALELQ-PGYIRSRYNLGISCINLGAHREAVEHFLEALN  313 (368)
T ss_dssp             HHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHhC-CCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            554431 22344445555555555555555555555443

>2ooe_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 3.00A {Mus musculus} SCOP: a.118.8.7

Probab=99.83  E-value=1.8e-17  Score=159.60  Aligned_cols=374  Identities=11%  Similarity=0.011  Sum_probs=254.8

Q ss_pred             CCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHH-hccCCHhHHHH----HhcccC-----C-CCc
Q 012108            8 ADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMY-GSLRCIDDAFK----VFEKMP-----E-KDI   76 (471)
Q Consensus         8 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~-~~~g~~~~A~~----~~~~~~-----~-~~~   76 (471)
                      -+...|..++..+.+.|+++.|..+|+++++..  |+...|..++... ...|+.++|++    +|+...     . ++.
T Consensus        44 ~~~~~w~~~~~~~~~~~~~~~a~~~~~ral~~~--p~~~lw~~~~~~~~~~~~~~~~a~~~~~~~~~~al~~~g~~~~~~  121 (530)
T 2ooe_A           44 SSGRFWKLYIEAEIKAKNYDKVEKLFQRCLMKV--LHIDLWKCYLSYVRETKGKLPSYKEKMAQAYDFALDKIGMEIMSY  121 (530)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTTC--CCHHHHHHHHHHHHHHTTTSTTHHHHHHHHHHHHHHHTTTSTTCH
T ss_pred             CCHHHHHHHHHHHHhcCCHHHHHHHHHHHHhcC--CChHHHHHHHHHHHHHccchhhHHHHHHHHHHHHHHHCCCCcccH
Confidence            344578899999999999999999999999875  5777888777543 35677777665    666542     1 345


Q ss_pred             ccHHHHHHHHHc---------CCCHHHHHHHHhcCCCC-Ch---hhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHH
Q 012108           77 IAWNSMLDAFAS---------CGQMDHAMKLIDLMPLK-DV---TSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNS  143 (471)
Q Consensus        77 ~~~~~li~~~~~---------~g~~~~A~~~~~~~~~~-~~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  143 (471)
                      ..|...+....+         .|++++|..+|++.... +.   ..|..........|. ..+..++.            
T Consensus       122 ~~w~~~~~~~~~~~~~~~~~~~~~~~~a~~~y~~al~~P~~~~~~~~~~~~~~e~~~~~-~~~~~~l~------------  188 (530)
T 2ooe_A          122 QIWVDYINFLKGVEAVGSYAENQRITAVRRVYQRGCVNPMINIEQLWRDYNKYEEGINI-HLAKKMIE------------  188 (530)
T ss_dssp             HHHHHHHHHHHHSCCCSSTTHHHHHHHHHHHHHHHTTSCCTTHHHHHHHHHHHHHHHCH-HHHHHHHH------------
T ss_pred             HHHHHHHHHHhcCCCcccHHHHhHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHhhch-hHHHHHHH------------
Confidence            678888777655         78999999999987753 11   122222211111111 11111111            


Q ss_pred             HHHHHHhCCCHHHHHHHHHhc------c-------ccC--------hHHHHHHHHHHHhc----CCH----HHHHHHHHH
Q 012108          144 LILAYTNAGEMEKAGEMFKKM------L-------VKN--------VITWNTMVTGYLRS----QLY----IEVVDLFDE  194 (471)
Q Consensus       144 l~~~~~~~~~~~~A~~~~~~~------~-------~~~--------~~~~~~l~~~~~~~----~~~----~~a~~~~~~  194 (471)
                           .+.+++..|..+++..      .       .|+        ...|...+......    ++.    .++..+|++
T Consensus       189 -----~~~~~~~~A~~~~~~~~~~~~~l~~~~~~~~p~~~~~~~~~~~~w~~~~~~e~~~~~~~~~~~~~~~~a~~~y~~  263 (530)
T 2ooe_A          189 -----DRSRDYMNARRVAKEYETVMKGLDRNAPSVPPQNTPQEAQQVDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQ  263 (530)
T ss_dssp             -----TTHHHHHHHHHHHHHHHHHHHHCCSSSCCCCCC--CCHHHHHHHHHHHHHHHHHCSSCCSCSHHHHHHHHHHHHH
T ss_pred             -----HhhHHHHHHHHHHHHHHHHHHHhccccccCCCCCChhHHHHHHHHHHHHHHHHcCCccCCcchhHHHHHHHHHHH
Confidence                 1223455555554431      1       111        23455544333222    222    367778888


Q ss_pred             HHhCCCCCCHHHHHHHHHHHHc-------cCChH-------HHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHH
Q 012108          195 MKAGNVKPDYLTVTSVLSACAN-------LGSLE-------TGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLE  260 (471)
Q Consensus       195 m~~~g~~p~~~~~~~l~~~~~~-------~~~~~-------~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  260 (471)
                      .+... +-+...|...+..+.+       .|+++       +|..+++...+.-.+.+...+..++..+.+.|++++|..
T Consensus       264 al~~~-p~~~~~w~~~~~~~~~~~~~~~~~g~~~~a~~~~~~A~~~~~~Al~~~~p~~~~l~~~~~~~~~~~g~~~~A~~  342 (530)
T 2ooe_A          264 CLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHS  342 (530)
T ss_dssp             HHHHH-TTCHHHHHHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHhC-CCCHHHHHHHHHHHHHhchhhhhccchhhhhhhhHHHHHHHHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHH
Confidence            77652 3355667666666654       68876       888888888863235568888889999999999999999


Q ss_pred             HHhcCCC--C-Ch-hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH-HhccCcHHHHHHHHHHhHHhc
Q 012108          261 VFYKSQV--K-DV-FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSA-CSHAGLVQEGCELFSRMEKDF  335 (471)
Q Consensus       261 ~~~~~~~--~-~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~  335 (471)
                      +|+++..  | +. ..|..++..+.+.|+.++|..+|++..+.. +.+...+...+.. +...|+.++|..+|++..+. 
T Consensus       343 ~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~Al~~~-~~~~~~~~~~a~~~~~~~~~~~~A~~~~e~al~~-  420 (530)
T 2ooe_A          343 IYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK-  420 (530)
T ss_dssp             HHHHHHHSSSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCT-TCCTHHHHHHHHHHHHHTCCHHHHHHHHHHHHHH-
T ss_pred             HHHHHhCccccCchHHHHHHHHHHHHhcCHHHHHHHHHHHHhcc-CCchHHHHHHHHHHHHHcCChhHHHHHHHHHHHH-
Confidence            9987554  2 33 478888888888999999999999998752 2223333332222 33589999999999999883 


Q ss_pred             CCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CCCCC--HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          336 GVTRKLEHYGCMVDLLGRARLLDRAIELIEAM----PFEPT--ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       336 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                       .+.++..|..++..+.+.|+.++|..+|++.    +..|+  ...|...+......|+.+.+..+.+++.+..|.
T Consensus       421 -~p~~~~~~~~~~~~~~~~g~~~~Ar~~~~~al~~~~~~~~~~~~lw~~~~~~e~~~G~~~~~~~~~~r~~~~~p~  495 (530)
T 2ooe_A          421 -YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  495 (530)
T ss_dssp             -HTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHSCCSCGGGCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHTHH
T ss_pred             -CCCCHHHHHHHHHHHHhCCCHhhHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCch
Confidence             3456888999999999999999999999987    22332  347888888888899999999999999988763

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.83  E-value=1.6e-17  Score=146.23  Aligned_cols=271  Identities=11%  Similarity=0.007  Sum_probs=214.5

Q ss_pred             HHHHhCCCHHHHHHHHHhccccC----hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChH
Q 012108          146 LAYTNAGEMEKAGEMFKKMLVKN----VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLE  221 (471)
Q Consensus       146 ~~~~~~~~~~~A~~~~~~~~~~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~  221 (471)
                      +-....|++..|++.+++....+    ......+.++|...|+++.|+..++.   . -+|+..++..+...+...++.+
T Consensus         7 ~~~~~~g~y~~ai~~~~~~~~~~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~~~~   82 (291)
T 3mkr_A            7 KNAFYIGSYQQCINEAQRVKPSSPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHSRRD   82 (291)
T ss_dssp             HHHHHTTCHHHHHHHHHHSCCCSHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCSTTHH
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCCcHH
Confidence            44567889999999888764332    23455678899999999999886654   1 3566777888888889999999


Q ss_pred             HHHHHHHHHHHcCC-CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 012108          222 TGARIHVYATDNGL-ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSC  300 (471)
Q Consensus       222 ~a~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  300 (471)
                      +|.+.++.+...+. |.+...+..+..++...|++++|++.+++  ..+...+..++..+.+.|++++|.+.|+++... 
T Consensus        83 ~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~--~~~~~~~~~l~~~~~~~g~~~~A~~~l~~~~~~-  159 (291)
T 3mkr_A           83 AIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ--GDSLECMAMTVQILLKLDRLDLARKELKKMQDQ-  159 (291)
T ss_dssp             HHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT--CCSHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC--CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhh-
Confidence            99999999988764 44677788888999999999999999998  567888999999999999999999999999886 


Q ss_pred             CCCCHHHH---HHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhH
Q 012108          301 VKADDITF---IGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESI  375 (471)
Q Consensus       301 ~~p~~~~~---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~  375 (471)
                       .|+....   ...+..+...|++++|..+|+++.+  ..+.++..++.+..++.+.|++++|.+.|+++ ...| ++.+
T Consensus       160 -~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~--~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~p~~~~~  236 (291)
T 3mkr_A          160 -DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMAD--KCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKDSGHPET  236 (291)
T ss_dssp             -CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             -CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHH
Confidence             3553211   2233445566999999999999998  36678889999999999999999999999997 3344 6778


Q ss_pred             HHHHHHHHhhcCCchH-HHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHH
Q 012108          376 LGALLSACVIHQDLEI-GDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWR  431 (471)
Q Consensus       376 ~~~l~~~~~~~g~~~~-a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~  431 (471)
                      +..++..+...|+.++ +.++++++.+.+|. ++.+.    +...+.+.++++..-|
T Consensus       237 l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~-~~~~~----d~~~~~~~fd~~~~~~  288 (291)
T 3mkr_A          237 LINLVVLSQHLGKPPEVTNRYLSQLKDAHRS-HPFIK----EYRAKENDFDRLVLQY  288 (291)
T ss_dssp             HHHHHHHHHHTTCCHHHHHHHHHHHHHHCTT-CHHHH----HHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCCHHHHHHHHHHHHHhCCC-ChHHH----HHHHHHHHHHHHHHHc
Confidence            9999999999999976 67899999999998 66544    3455666666665433

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.83  E-value=8.6e-19  Score=160.63  Aligned_cols=270  Identities=8%  Similarity=-0.081  Sum_probs=179.3

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012108          139 VSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACA  215 (471)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~  215 (471)
                      ..+..+...+.+.|++++|.+.|+++..   .+..+|..+...+...|++++|...|+++.+.. +.+...+..+...+.
T Consensus        66 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~  144 (365)
T 4eqf_A           66 PGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQ-PNNLKALMALAVSYT  144 (365)
T ss_dssp             TTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHH
Confidence            3455555556666666666666665522   244555555555555566666666555555432 223444555555555


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHH
Q 012108          216 NLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGE  295 (471)
Q Consensus       216 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~  295 (471)
                      ..|++++|...++.+.+.. +.+...+..+.                     .....+..+...+...|++++|...+++
T Consensus       145 ~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~---------------------~~~~~~~~l~~~~~~~g~~~~A~~~~~~  202 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQN-PKYKYLVKNKK---------------------GSPGLTRRMSKSPVDSSVLEGVKELYLE  202 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHHC-HHHHCC----------------------------------------CCHHHHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHhC-ccchHHHhhhc---------------------cchHHHHHHHHHHhhhhhHHHHHHHHHH
Confidence            5555555555555555432 11111111110                     0122344557788888999999999999


Q ss_pred             HHhCCCC-CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-C
Q 012108          296 MNDSCVK-ADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-T  372 (471)
Q Consensus       296 ~~~~~~~-p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~  372 (471)
                      +...... ++..++..+...+...|++++|.+.|+++.+  ..+.+..+|..+..+|...|++++|.+.|+++ ...| +
T Consensus       203 al~~~p~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  280 (365)
T 4eqf_A          203 AAHQNGDMIDPDLQTGLGVLFHLSGEFNRAIDAFNAALT--VRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQPGF  280 (365)
T ss_dssp             HHHHSCSSCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHHhCcCccCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCc
Confidence            8876321 1578888999999999999999999999988  34557889999999999999999999999987 3344 5


Q ss_pred             HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-----------CchhHHHHHHHHHhcCCHHHHHHHHHH
Q 012108          373 ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-----------SDGELMMFANLYASCGQWEEANRWRNM  433 (471)
Q Consensus       373 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~  433 (471)
                      ..++..+..+|...|++++|...++++++..|..           +...|..+..++...|+.+.+..+.++
T Consensus       281 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          281 IRSRYNLGISCINLGAYREAVSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHHHTCCHHHHHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             hHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            7889999999999999999999999999887551           367899999999999999999887765

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.82  E-value=1.8e-18  Score=155.76  Aligned_cols=276  Identities=7%  Similarity=-0.082  Sum_probs=193.5

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          138 VVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSAC  214 (471)
Q Consensus       138 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~  214 (471)
                      ...+..+...+...|++++|..+|+++..   .+...+..+..++...|++++|...++++.+.. +.+...+..+...+
T Consensus        21 ~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~   99 (327)
T 3cv0_A           21 HENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLD-PKDIAVHAALAVSH   99 (327)
T ss_dssp             SSCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-cCCHHHHHHHHHHH
Confidence            34455666666777777777777766622   245566666666677777777777777666542 23455566666666


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHH-HH-HHHhcCChHHHHHH
Q 012108          215 ANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAM-IL-GLALHGYGYAALKL  292 (471)
Q Consensus       215 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l-~~-~~~~~~~~~~a~~~  292 (471)
                      ...|++++|...++.+.+.. +.+...+..+....                  ++......+ .. .+...|++++|...
T Consensus       100 ~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~------------------~~~~~~~~~~~~~~~~~~~~~~~A~~~  160 (327)
T 3cv0_A          100 TNEHNANAALASLRAWLLSQ-PQYEQLGSVNLQAD------------------VDIDDLNVQSEDFFFAAPNEYRECRTL  160 (327)
T ss_dssp             HHTTCHHHHHHHHHHHHHTS-TTTTTC--------------------------------------CCTTSHHHHHHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CccHHHHHHHhHHH------------------HHHHHHHHHHHhHHHHHcccHHHHHHH
Confidence            66666666666666666543 22222222221100                  000011112 22 26677888999999


Q ss_pred             HHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-C
Q 012108          293 LGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-E  370 (471)
Q Consensus       293 ~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~  370 (471)
                      ++++.... +.+...+..+...+...|++++|...++++.+  ..+.+...+..+...+...|++++|.+.++++ .. +
T Consensus       161 ~~~~~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~  237 (327)
T 3cv0_A          161 LHAALEMN-PNDAQLHASLGVLYNLSNNYDSAAANLRRAVE--LRPDDAQLWNKLGATLANGNRPQEALDAYNRALDINP  237 (327)
T ss_dssp             HHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHhhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            99988763 34677888899999999999999999999987  34556788999999999999999999999987 33 3


Q ss_pred             CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-----------CchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          371 PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-----------SDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       371 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----------~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      .+..++..+...+...|++++|...++++.+..|..           ++..+..++.+|.+.|++++|..++++..+
T Consensus       238 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~l~  314 (327)
T 3cv0_A          238 GYVRVMYNMAVSYSNMSQYDLAAKQLVRAIYMQVGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQNVE  314 (327)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCCSH
T ss_pred             CCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH
Confidence            457788999999999999999999999999988773           477888999999999999999999887654

>3mkr_A Coatomer subunit epsilon; tetratricopeptide repeats (TPR), beta-hairpin, alpha-solenoi transport protein; 2.60A {Bos taurus}

Probab=99.81  E-value=2.7e-18  Score=151.24  Aligned_cols=251  Identities=13%  Similarity=0.058  Sum_probs=207.2

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCH--HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 012108          176 VTGYLRSQLYIEVVDLFDEMKAGNVKPDY--LTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG  253 (471)
Q Consensus       176 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  253 (471)
                      ++-....|++..|+..+++....  .|+.  .....+.+++...|+++.|...++.   . -+|+..++..+...+...+
T Consensus         6 ~~~~~~~g~y~~ai~~~~~~~~~--~p~~~~e~~~~l~r~yi~~g~~~~al~~~~~---~-~~~~~~a~~~la~~~~~~~   79 (291)
T 3mkr_A            6 VKNAFYIGSYQQCINEAQRVKPS--SPERDVERDVFLYRAYLAQRKYGVVLDEIKP---S-SAPELQAVRMFAEYLASHS   79 (291)
T ss_dssp             HHHHHHTTCHHHHHHHHHHSCCC--SHHHHHHHHHHHHHHHHHTTCHHHHHHHSCT---T-SCHHHHHHHHHHHHHHCST
T ss_pred             HHHHHHHHHHHHHHHHHHhcccC--CchhhHHHHHHHHHHHHHCCCHHHHHHHhcc---c-CChhHHHHHHHHHHHcCCC
Confidence            34566789999999998876543  4443  3456678899999999999986654   2 3677888999999999999


Q ss_pred             ChHHHHHHHhcCC-----CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 012108          254 SIEQSLEVFYKSQ-----VKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELF  328 (471)
Q Consensus       254 ~~~~a~~~~~~~~-----~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  328 (471)
                      +.++|++.++++.     +.+...+..+...+...|++++|++.+++      +.+...+..++..+.+.|++++|.+.+
T Consensus        80 ~~~~A~~~l~~ll~~~~~P~~~~~~~~la~~~~~~g~~~~Al~~l~~------~~~~~~~~~l~~~~~~~g~~~~A~~~l  153 (291)
T 3mkr_A           80 RRDAIVAELDREMSRSVDVTNTTFLLMAASIYFYDQNPDAALRTLHQ------GDSLECMAMTVQILLKLDRLDLARKEL  153 (291)
T ss_dssp             THHHHHHHHHHHHHSCCCCSCHHHHHHHHHHHHHTTCHHHHHHHHTT------CCSHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHhcccCCCCHHHHHHHHHHHHHCCCHHHHHHHHhC------CCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            9999999998753     23567788888999999999999999987      457788999999999999999999999


Q ss_pred             HHhHHhcCCCCChhH---HHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          329 SRMEKDFGVTRKLEH---YGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       329 ~~~~~~~~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      +++.+.   .|+...   ...++..+...|++++|..+|+++  ..+.+...++.+..++...|++++|+..++++++..
T Consensus       154 ~~~~~~---~p~~~~~~l~~a~~~l~~~~~~~~eA~~~~~~~l~~~p~~~~~~~~la~~~~~~g~~~eA~~~l~~al~~~  230 (291)
T 3mkr_A          154 KKMQDQ---DEDATLTQLATAWVSLAAGGEKLQDAYYIFQEMADKCSPTLLLLNGQAACHMAQGRWEAAEGVLQEALDKD  230 (291)
T ss_dssp             HHHHHH---CTTCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHhh---CcCcHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC
Confidence            999983   244321   123344555669999999999998  345678899999999999999999999999999999


Q ss_pred             CCCCchhHHHHHHHHHhcCCHHH-HHHHHHHhhhCCCccc
Q 012108          404 NYLSDGELMMFANLYASCGQWEE-ANRWRNMMNDTGIVKT  442 (471)
Q Consensus       404 ~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~m~~~~~~~~  442 (471)
                      |. ++.++..++.++...|+.++ +.++++++.+.+|..+
T Consensus       231 p~-~~~~l~~l~~~~~~~g~~~eaa~~~~~~~~~~~P~~~  269 (291)
T 3mkr_A          231 SG-HPETLINLVVLSQHLGKPPEVTNRYLSQLKDAHRSHP  269 (291)
T ss_dssp             TT-CHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCH
T ss_pred             CC-CHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCCCh
Confidence            99 99999999999999999976 5789999988877654

>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=99.81  E-value=5.8e-16  Score=155.26  Aligned_cols=346  Identities=14%  Similarity=0.052  Sum_probs=274.9

Q ss_pred             HHHHHHHHHhccCCHhHHHHHhcccCC-CC-----cccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhc
Q 012108           47 VQTALLKMYGSLRCIDDAFKVFEKMPE-KD-----IIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARI  120 (471)
Q Consensus        47 ~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-----~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~  120 (471)
                      --...++.|...|.+.+|+++++++.- |+     ....+.++.+..+. +..+..+..++...-+   ...+...+...
T Consensus       987 eVs~~vKaf~~aglp~EaieLLEKivl~~s~fs~n~~LqnlLi~tAIka-D~~Rv~eyI~kLd~~d---~~eIA~Iai~l 1062 (1630)
T 1xi4_A          987 EVSVTVKAFMTADLPNELIELLEKIVLDNSVFSEHRNLQNLLILTAIKA-DRTRVMEYINRLDNYD---APDIANIAISN 1062 (1630)
T ss_pred             HhHHHHHHHHhCCCHHHHHHHHHHHHcCCCcccccHHHHHHHHHHHHHh-ChhhHHHHHHHhhhcc---HHHHHHHHHhC
Confidence            345667888899999999999998762 32     24566677776666 5566666666665333   44588889999


Q ss_pred             CCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 012108          121 GKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV  200 (471)
Q Consensus       121 g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  200 (471)
                      |.+++|..+|++... .....+.+   +-..+++++|.++.+++.  ++.+|..+..++.+.|++++|.+.|.+.     
T Consensus      1063 glyEEAf~IYkKa~~-~~~A~~VL---ie~i~nldrAiE~Aervn--~p~vWsqLAKAql~~G~~kEAIdsYiKA----- 1131 (1630)
T 1xi4_A         1063 ELFEEAFAIFRKFDV-NTSAVQVL---IEHIGNLDRAYEFAERCN--EPAVWSQLAKAQLQKGMVKEAIDSYIKA----- 1131 (1630)
T ss_pred             CCHHHHHHHHHHcCC-HHHHHHHH---HHHHhhHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCHHHHHHHHHhc-----
Confidence            999999999999742 11112222   237889999999999873  4678889999999999999999999663     


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHH
Q 012108          201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGL  280 (471)
Q Consensus       201 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~  280 (471)
                       -|...|..++.++.+.|++++|.+++...++..  +++...+.++.+|.+.+++++...+.   ..++...|..+...|
T Consensus      1132 -dD~say~eVa~~~~~lGkyEEAIeyL~mArk~~--~e~~Idt~LafaYAKl~rleele~fI---~~~n~ad~~~iGd~l 1205 (1630)
T 1xi4_A         1132 -DDPSSYMEVVQAANTSGNWEELVKYLQMARKKA--RESYVETELIFALAKTNRLAELEEFI---NGPNNAHIQQVGDRC 1205 (1630)
T ss_pred             -CChHHHHHHHHHHHHcCCHHHHHHHHHHHHhhc--ccccccHHHHHHHHhhcCHHHHHHHH---hCCCHHHHHHHHHHH
Confidence             467788889999999999999999999988764  44444556999999999999655543   345667788899999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHH
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA  360 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  360 (471)
                      ...|++++|..+|...         ..|..+...+.+.|+++.|.+.+++..       +..+|..+..+|...|++..|
T Consensus      1206 e~eg~YeeA~~~Y~kA---------~ny~rLA~tLvkLge~q~AIEaarKA~-------n~~aWkev~~acve~~Ef~LA 1269 (1630)
T 1xi4_A         1206 YDEKMYDAAKLLYNNV---------SNFGRLASTLVHLGEYQAAVDGARKAN-------STRTWKEVCFACVDGKEFRLA 1269 (1630)
T ss_pred             HhcCCHHHHHHHHHhh---------hHHHHHHHHHHHhCCHHHHHHHHHHhC-------CHHHHHHHHHHHhhhhHHHHH
Confidence            9999999999999985         379999999999999999999998873       357899999999999999999


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc--CCHHHHHHHHH
Q 012108          361 IELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC--GQWEEANRWRN  432 (471)
Q Consensus       361 ~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--g~~~~A~~~~~  432 (471)
                      ......+  ..++..+..++..|.+.|.+++|+++++..+..++. ....|..|+.+|.+.  ++..++.++|.
T Consensus      1270 ~~cgl~I--iv~~deLeeli~yYe~~G~feEAI~LlE~aL~Lera-H~gmftELaiLyaKy~peklmEhlk~f~ 1340 (1630)
T 1xi4_A         1270 QMCGLHI--VVHADELEELINYYQDRGYFEELITMLEAALGLERA-HMGMFTELAILYSKFKPQKMREHLELFW 1340 (1630)
T ss_pred             HHHHHhh--hcCHHHHHHHHHHHHHcCCHHHHHHHHHHHhccChh-HhHHHHHHHHHHHhCCHHHHHHHHHHHH
Confidence            9887754  345566678999999999999999999999999877 888888888888764  45555666555

>4eqf_A PEX5-related protein; accessory protein, tetratricopeptide repeat, TPR; 3.00A {Mus musculus}

Probab=99.80  E-value=5.6e-18  Score=155.21  Aligned_cols=256  Identities=12%  Similarity=0.075  Sum_probs=169.3

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHH
Q 012108          107 VTSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYL  180 (471)
Q Consensus       107 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~  180 (471)
                      ...+......+.+.|++++|...|+++.   +.+..++..+..++...|++++|.+.|+++..   .+..+|..+..++.
T Consensus        65 ~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~  144 (365)
T 4eqf_A           65 WPGAFEEGLKRLKEGDLPVTILFMEAAILQDPGDAEAWQFLGITQAENENEQAAIVALQRCLELQPNNLKALMALAVSYT  144 (365)
T ss_dssp             CTTHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHCCCHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHH
Confidence            3446666677777777777777777663   34566777777888888888888888877732   35677888888888


Q ss_pred             hcCCHHHHHHHHHHHHhCCCCCCH-----------HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC--chhHHHHHHH
Q 012108          181 RSQLYIEVVDLFDEMKAGNVKPDY-----------LTVTSVLSACANLGSLETGARIHVYATDNGLAS--NPHATTALID  247 (471)
Q Consensus       181 ~~~~~~~a~~~~~~m~~~g~~p~~-----------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~  247 (471)
                      ..|++++|...|+++.+.  .|+.           ..+..+...+...|++++|...++++.+.. +.  +..++..+..
T Consensus       145 ~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~l~~  221 (365)
T 4eqf_A          145 NTSHQQDACEALKNWIKQ--NPKYKYLVKNKKGSPGLTRRMSKSPVDSSVLEGVKELYLEAAHQN-GDMIDPDLQTGLGV  221 (365)
T ss_dssp             HTTCHHHHHHHHHHHHHH--CHHHHCC-------------------CCHHHHHHHHHHHHHHHHS-CSSCCHHHHHHHHH
T ss_pred             ccccHHHHHHHHHHHHHh--CccchHHHhhhccchHHHHHHHHHHhhhhhHHHHHHHHHHHHHhC-cCccCHHHHHHHHH
Confidence            888888888888887764  2322           122334667777888888888888887765 33  5677777777


Q ss_pred             HHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHH
Q 012108          248 MYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEG  324 (471)
Q Consensus       248 ~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a  324 (471)
                      .|...|++++|++.|+++..   .+..+|..+...|...|++++|+..|+++.... +.+..++..+..+|...|++++|
T Consensus       222 ~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A  300 (365)
T 4eqf_A          222 LFHLSGEFNRAIDAFNAALTVRPEDYSLWNRLGATLANGDRSEEAVEAYTRALEIQ-PGFIRSRYNLGISCINLGAYREA  300 (365)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCchHHHHHHHHHHHHCCCHHHH
Confidence            77777888877777776443   356677777777777777777777777777642 33466777777777777888888


Q ss_pred             HHHHHHhHHhcCCC----------CChhHHHHHHHHHhhcCCHHHHHHHHHh
Q 012108          325 CELFSRMEKDFGVT----------RKLEHYGCMVDLLGRARLLDRAIELIEA  366 (471)
Q Consensus       325 ~~~~~~~~~~~~~~----------~~~~~~~~l~~~~~~~g~~~~A~~~~~~  366 (471)
                      ...|+++.+...-.          .+...|..+..++...|+.+.+..+.++
T Consensus       301 ~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~  352 (365)
T 4eqf_A          301 VSNFLTALSLQRKSRNQQQVPHPAISGNIWAALRIALSLMDQPELFQAANLG  352 (365)
T ss_dssp             HHHHHHHHHHHHCC------------CHHHHHHHHHHHHHTCHHHHHHHHTT
T ss_pred             HHHHHHHHHhCcccCCCcccchhhhHHHHHHHHHHHHHHcCcHHHHHHHHHh
Confidence            87777776521110          0245566666666666666666665544

>4g1t_A Interferon-induced protein with tetratricopeptide 2; ISG, all alpha helix, antivirus, antiviral protein; 2.80A {Homo sapiens}

Probab=99.79  E-value=3.9e-17  Score=155.12  Aligned_cols=376  Identities=8%  Similarity=-0.095  Sum_probs=232.4

Q ss_pred             CcccHHHHHHHHhhccchhHHHHHHHHHHHh-----c--cCC-chhHHHHHHHHHhccCCHhHHHHHhcccCC-------
Q 012108            9 DNYSFPLLLKAAGILSSSCIGLMLHGQTIKT-----G--FCG-HVYVQTALLKMYGSLRCIDDAFKVFEKMPE-------   73 (471)
Q Consensus         9 ~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~-----~--~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-------   73 (471)
                      ....|+.|...+...|++++|++.+++.++.     +  ..| ...+|+.+..+|...|++++|...+++..+       
T Consensus        50 ~a~~yn~Lg~~~~~~G~~~eAl~~~~kAl~~~~~~~~~~~~~~~~~~~~nla~~y~~~g~~~~A~~~~~ka~~i~~~~~~  129 (472)
T 4g1t_A           50 KATMCNLLAYLKHLKGQNEAALECLRKAEELIQQEHADQAEIRSLVTWGNYAWVYYHMGRLSDVQIYVDKVKHVCEKFSS  129 (472)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSGGGCTTTTHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhcCccccchHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhHhccc
Confidence            3456888999999999999999999987653     1  122 346789999999999999999999887542       


Q ss_pred             C----CcccHHHHHHHHHc--CCCHHHHHHHHhcCCC--C-ChhhHHHHHHH---HHhcCCHHHHHHHHhhcCC---CCh
Q 012108           74 K----DIIAWNSMLDAFAS--CGQMDHAMKLIDLMPL--K-DVTSFNIMISG---YARIGKIHSARYIFDKVPA---KDV  138 (471)
Q Consensus        74 ~----~~~~~~~li~~~~~--~g~~~~A~~~~~~~~~--~-~~~~~~~l~~~---~~~~g~~~~a~~~~~~~~~---~~~  138 (471)
                      +    ...++..+..++..  .+++++|++.|++...  | ++..+..+..+   +...++.++|++.+++..+   .+.
T Consensus       130 ~~~~~~~~~~~~~g~~~~~~~~~~y~~A~~~~~kal~~~p~~~~~~~~~~~~~~~l~~~~~~~~al~~~~~al~l~p~~~  209 (472)
T 4g1t_A          130 PYRIESPELDCEEGWTRLKCGGNQNERAKVCFEKALEKKPKNPEFTSGLAIASYRLDNWPPSQNAIDPLRQAIRLNPDNQ  209 (472)
T ss_dssp             SSCCCCHHHHHHHHHHHHHHCTTHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHSCCCCCTHHHHHHHHHHCSSCH
T ss_pred             ccchhhHHHHHHHHHHHHHHccccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcCchHHHHHHHHHHHHhhcCCcch
Confidence            1    23456655555554  4579999999998763  3 55566655555   3456777888888888733   345


Q ss_pred             hhHHHHHHHHHh----CCCHHHHHHHHHhcc---ccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012108          139 VSWNSLILAYTN----AGEMEKAGEMFKKML---VKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVL  211 (471)
Q Consensus       139 ~~~~~l~~~~~~----~~~~~~A~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~  211 (471)
                      .++..+...+..    .+++++|.+.+++..   ..+..++..+...+...|++++|...+++..+.. +-+...+..+.
T Consensus       210 ~~~~~l~~~~~~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg  288 (472)
T 4g1t_A          210 YLKVLLALKLHKMREEGEEEGEGEKLVEEALEKAPGVTDVLRSAAKFYRRKDEPDKAIELLKKALEYI-PNNAYLHCQIG  288 (472)
T ss_dssp             HHHHHHHHHHHHCC------CHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHcCchHHHHHHHHHHHHhC-CChHHHHHHHH
Confidence            566555554444    467889999999873   3467789999999999999999999999998753 23445555555


Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHH
Q 012108          212 SACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYA  288 (471)
Q Consensus       212 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~  288 (471)
                      .++...+...         .... .      ..........+..+.|...+++...   .+..++..+...+...|++++
T Consensus       289 ~~y~~~~~~~---------~~~~-~------~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~lg~~~~~~~~~~~  352 (472)
T 4g1t_A          289 CCYRAKVFQV---------MNLR-E------NGMYGKRKLLELIGHAVAHLKKADEANDNLFRVCSILASLHALADQYEE  352 (472)
T ss_dssp             HHHHHHHHHH---------HHC-------------CHHHHHHHHHHHHHHHHHHHHHCTTTCCCHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHh---------hhHH-H------HHHHHHHHHHhhHHHHHHHHHHHhhcCCchhhhhhhHHHHHHHhccHHH
Confidence            5543211110         0000 0      0011111112235667777665433   456788889999999999999


Q ss_pred             HHHHHHHHHhCCCCCCHH--HHHHHHH-HHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHH
Q 012108          289 ALKLLGEMNDSCVKADDI--TFIGLLS-ACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIE  365 (471)
Q Consensus       289 a~~~~~~~~~~~~~p~~~--~~~~l~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  365 (471)
                      |+..|++.......|...  .+..+.. .....|+.++|+..|++..+   +.|+.......+         ..+.++++
T Consensus       353 A~~~~~kaL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Ai~~y~kal~---i~~~~~~~~~~~---------~~l~~~~~  420 (472)
T 4g1t_A          353 AEYYFQKEFSKELTPVAKQLLHLRYGNFQLYQMKCEDKAIHHFIEGVK---INQKSREKEKMK---------DKLQKIAK  420 (472)
T ss_dssp             HHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHH---SCCCCHHHHHHH---------HHHHHHHH
T ss_pred             HHHHHHHHHhcCCCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHh---cCcccHHHHHHH---------HHHHHHHH
Confidence            999999998764333221  2233332 23567999999999999887   344433222222         23333443


Q ss_pred             hC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHH
Q 012108          366 AM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMF  414 (471)
Q Consensus       366 ~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  414 (471)
                      +. . .+.++.+|..+...+...|++++|++.|+++++.++. +|....-+
T Consensus       421 ~~l~~~p~~~~~~~~LG~~~~~~g~~~~A~~~y~kALe~~~~-~p~a~~~~  470 (472)
T 4g1t_A          421 MRLSKNGADSEALHVLAFLQELNEKMQQADEDSERGLESGSL-IPSASSWN  470 (472)
T ss_dssp             HHHHHCC-CTTHHHHHHHHHHHHHHCC------------------------
T ss_pred             HHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CCcHhhcC
Confidence            33 2 2446789999999999999999999999999999887 55554433

>3cv0_A Peroxisome targeting signal 1 receptor PEX5; TPR motifs, TPR protein, peroxin 5, PEX5, PTS1 binding domain, protein-peptide complex, receptor; 2.00A {Trypanosoma brucei} PDB: 3cvl_A 3cvn_A 3cvp_A 3cvq_A

Probab=99.78  E-value=5.4e-17  Score=146.06  Aligned_cols=254  Identities=11%  Similarity=0.024  Sum_probs=170.1

Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHh
Q 012108          108 TSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLR  181 (471)
Q Consensus       108 ~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~  181 (471)
                      ..+......+...|++++|..+|+++.   +.+...+..+..++...|++++|.+.|+++..   .+..++..+...+..
T Consensus        22 ~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~  101 (327)
T 3cv0_A           22 ENPMEEGLSMLKLANLAEAALAFEAVCQAAPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN  101 (327)
T ss_dssp             SCHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcCCHHHHHHHHHHHHH
Confidence            345555666666666666666666652   23556666777777778888888887777632   356677778888888


Q ss_pred             cCCHHHHHHHHHHHHhCCCCCCH-HHHHHH--------------HH-HHHccCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 012108          182 SQLYIEVVDLFDEMKAGNVKPDY-LTVTSV--------------LS-ACANLGSLETGARIHVYATDNGLASNPHATTAL  245 (471)
Q Consensus       182 ~~~~~~a~~~~~~m~~~g~~p~~-~~~~~l--------------~~-~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  245 (471)
                      .|++++|.+.++++.+..  |+. ..+..+              .. .+...|++++|...++.+.+.. +.+...+..+
T Consensus       102 ~~~~~~A~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l  178 (327)
T 3cv0_A          102 EHNANAALASLRAWLLSQ--PQYEQLGSVNLQADVDIDDLNVQSEDFFFAAPNEYRECRTLLHAALEMN-PNDAQLHASL  178 (327)
T ss_dssp             TTCHHHHHHHHHHHHHTS--TTTTTC--------------------CCTTSHHHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhC--CccHHHHHHHhHHHHHHHHHHHHHHhHHHHHcccHHHHHHHHHHHHhhC-CCCHHHHHHH
Confidence            888888888888877653  222 222222              22 3667788888888888887765 5567777778


Q ss_pred             HHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH
Q 012108          246 IDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQ  322 (471)
Q Consensus       246 ~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  322 (471)
                      ...|...|++++|++.++++..   .+..++..+...+...|++++|...++++.... +.+...+..+...+...|+++
T Consensus       179 a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~g~~~  257 (327)
T 3cv0_A          179 GVLYNLSNNYDSAAANLRRAVELRPDDAQLWNKLGATLANGNRPQEALDAYNRALDIN-PGYVRVMYNMAVSYSNMSQYD  257 (327)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHH
T ss_pred             HHHHHHhccHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHhccHH
Confidence            8888888888888877776543   345667777777777777777777777776642 334566777777777777777


Q ss_pred             HHHHHHHHhHHhcCCCC------------ChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          323 EGCELFSRMEKDFGVTR------------KLEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       323 ~a~~~~~~~~~~~~~~~------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      +|.+.++++.+..  +.            +...+..+..++.+.|++++|..++++.
T Consensus       258 ~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  312 (327)
T 3cv0_A          258 LAAKQLVRAIYMQ--VGGTTPTGEASREATRSMWDFFRMLLNVMNRPDLVELTYAQN  312 (327)
T ss_dssp             HHHHHHHHHHHHH--TTSCC-----CCTHHHHHHHHHHHHHHHTTCHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhC--CccccccccchhhcCHHHHHHHHHHHHhcCCHHHHHHHHHHH
Confidence            7777777776621  11            3556666666777777777777666544

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.73  E-value=5.6e-16  Score=134.24  Aligned_cols=229  Identities=7%  Similarity=-0.078  Sum_probs=149.0

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC--CchhHHHHHH
Q 012108          169 VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA--SNPHATTALI  246 (471)
Q Consensus       169 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~--~~~~~~~~l~  246 (471)
                      ...|..+...+...|++++|...|++..+..  .+...+..+..++...|++++|...++.+.+....  ++..      
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~--~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~------   76 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELH--KDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYK------   76 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS--CCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHH------
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhh--ccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchH------
Confidence            3455566666666666666666666666554  45555666666666666666666666665543210  0000      


Q ss_pred             HHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 012108          247 DMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       247 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                                           ....++..+...+...|++++|...+++....  .|+.       ..+...|++++|..
T Consensus        77 ---------------------~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~--~~~~-------~~~~~~~~~~~a~~  126 (258)
T 3uq3_A           77 ---------------------VISKSFARIGNAYHKLGDLKKTIEYYQKSLTE--HRTA-------DILTKLRNAEKELK  126 (258)
T ss_dssp             ---------------------HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CCCH-------HHHHHHHHHHHHHH
T ss_pred             ---------------------HHHHHHHHHHHHHHHcccHHHHHHHHHHHHhc--Cchh-------HHHHHHhHHHHHHH
Confidence                                 00244555556666666666666666666653  3332       23445567777777


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          327 LFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      .++++..  ..+.+...+..+...+...|++++|...++++ . .+.+..++..+...+...|++++|...++++++..|
T Consensus       127 ~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~  204 (258)
T 3uq3_A          127 KAEAEAY--VNPEKAEEARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDP  204 (258)
T ss_dssp             HHHHHHH--CCHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHH--cCcchHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCH
Confidence            7777766  33345666777777777777777777777776 2 233566777777888888888888888888888887


Q ss_pred             CCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          405 YLSDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       405 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      . ++..+..++.+|.+.|++++|.+.+++..+..
T Consensus       205 ~-~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          205 N-FVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             T-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             H-HHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            7 77888888888888888888888888876655

>3uq3_A Heat shock protein STI1; HSP90, peptide binding, chaperone; 2.60A {Saccharomyces cerevisiae}

Probab=99.72  E-value=3.6e-16  Score=135.50  Aligned_cols=223  Identities=10%  Similarity=-0.001  Sum_probs=155.4

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHhccc--cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC--CCC----HHHHHH
Q 012108          138 VVSWNSLILAYTNAGEMEKAGEMFKKMLV--KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV--KPD----YLTVTS  209 (471)
Q Consensus       138 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~--~p~----~~~~~~  209 (471)
                      ...+..+...+...|++++|.+.|++...  .+...|..+..++...|++++|...+++..+...  .|+    ...+..
T Consensus         5 a~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~   84 (258)
T 3uq3_A            5 ADKEKAEGNKFYKARQFDEAIEHYNKAWELHKDITYLNNRAAAEYEKGEYETAISTLNDAVEQGREMRADYKVISKSFAR   84 (258)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccHHHHHHHHHHHHHhhccHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccccchHHHHHHHHH
Confidence            45778889999999999999999999832  6788999999999999999999999999876421  122    467778


Q ss_pred             HHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHH
Q 012108          210 VLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAA  289 (471)
Q Consensus       210 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  289 (471)
                      +...+...|++++|...++.+.+..  |+.       ..+.                               ..|++++|
T Consensus        85 l~~~~~~~~~~~~A~~~~~~a~~~~--~~~-------~~~~-------------------------------~~~~~~~a  124 (258)
T 3uq3_A           85 IGNAYHKLGDLKKTIEYYQKSLTEH--RTA-------DILT-------------------------------KLRNAEKE  124 (258)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC--CCH-------HHHH-------------------------------HHHHHHHH
T ss_pred             HHHHHHHcccHHHHHHHHHHHHhcC--chh-------HHHH-------------------------------HHhHHHHH
Confidence            8888889999999999999888764  332       2233                               33444555


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C
Q 012108          290 LKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P  368 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~  368 (471)
                      ...++++.... +.+...+..+...+...|++++|...++++.+  ..+.+...+..+..+|...|++++|.+.+++. .
T Consensus       125 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~  201 (258)
T 3uq3_A          125 LKKAEAEAYVN-PEKAEEARLEGKEYFTKSDWPNAVKAYTEMIK--RAPEDARGYSNRAAALAKLMSFPEAIADCNKAIE  201 (258)
T ss_dssp             HHHHHHHHHCC-HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcC-cchHHHHHHHHHHHHHhcCHHHHHHHHHHHHh--cCcccHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence            55555555431 12334455566666666666666666666665  23344566666666666667777766666665 2


Q ss_pred             C-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          369 F-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       369 ~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      . +.+...+..+..++...|++++|...++++.+..
T Consensus       202 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~  237 (258)
T 3uq3_A          202 KDPNFVRAYIRKATAQIAVKEYASALETLDAARTKD  237 (258)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC
Confidence            2 2345667777777777777777877777777776

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.72  E-value=3.3e-16  Score=147.03  Aligned_cols=378  Identities=11%  Similarity=0.013  Sum_probs=190.4

Q ss_pred             HHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCH---hHHHHHhcccCCCCcccHHHHHHHHHcCC
Q 012108           14 PLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCI---DDAFKVFEKMPEKDIIAWNSMLDAFASCG   90 (471)
Q Consensus        14 ~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~---~~A~~~~~~~~~~~~~~~~~li~~~~~~g   90 (471)
                      ..+...+.+.|++++|.+.|++..+.|   +..++..+...|...|+.   ++|...|++..+.++..+..+...+...|
T Consensus         7 ~~la~~~~~~g~~~~A~~~~~~aa~~g---~~~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~~~~A~~~Lg~~~~~~~   83 (452)
T 3e4b_A            7 QRLANEALKRGDTVTAQQNYQQLAELG---YSEAQVGLADIQVGTRDPAQIKQAEATYRAAADTSPRAQARLGRLLAAKP   83 (452)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHT---CCTGGGTCC----------------------------CHHHHHHHHHTC-
T ss_pred             HHHHHHHHhCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHccCCCCCHHHHHHHHHHHHhCCHHHHHHHHHHHHhCC
Confidence            345666778889999999999888776   334455566666667777   88888888877667777777777555554


Q ss_pred             -----CHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHH---HHHHhhcC-CCChhhHHHHHHHHHhCCC----HHH
Q 012108           91 -----QMDHAMKLIDLMPLK-DVTSFNIMISGYARIGKIHSA---RYIFDKVP-AKDVVSWNSLILAYTNAGE----MEK  156 (471)
Q Consensus        91 -----~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a---~~~~~~~~-~~~~~~~~~l~~~~~~~~~----~~~  156 (471)
                           ++++|+..|++...+ ++..+..+...|...+..+++   .+.+.... ..++.....|...|...+.    .++
T Consensus        84 ~~~~~~~~~A~~~~~~Aa~~g~~~A~~~Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~  163 (452)
T 3e4b_A           84 GATEAEHHEAESLLKKAFANGEGNTLIPLAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDD  163 (452)
T ss_dssp             -CCHHHHHHHHHHHHHHHHTTCSSCHHHHHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHH
T ss_pred             CCCCcCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHH
Confidence                 677888888776655 555666666666665543332   22222221 1233344444444444442    222


Q ss_pred             HHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 012108          157 AGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA  236 (471)
Q Consensus       157 A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  236 (471)
                      +..+++.....++..+..+...|...|..                                .+.++|...|+...+.| +
T Consensus       164 a~~~~~~a~~~~~~a~~~Lg~~~~~~g~~--------------------------------~~~~~A~~~~~~aa~~g-~  210 (452)
T 3e4b_A          164 VERICKAALNTTDICYVELATVYQKKQQP--------------------------------EQQAELLKQMEAGVSRG-T  210 (452)
T ss_dssp             HHHHHHHHTTTCTTHHHHHHHHHHHTTCH--------------------------------HHHHHHHHHHHHHHHTT-C
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHcCCc--------------------------------ccHHHHHHHHHHHHHCC-C
Confidence            22333333333333444444444444400                                04455555555555544 3


Q ss_pred             CchhHHHHHHHHHHhc----CChHHHHHHHhcCCCCChhhHHHHHHH-H--HhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 012108          237 SNPHATTALIDMYAKC----GSIEQSLEVFYKSQVKDVFCWNAMILG-L--ALHGYGYAALKLLGEMNDSCVKADDITFI  309 (471)
Q Consensus       237 ~~~~~~~~l~~~~~~~----~~~~~a~~~~~~~~~~~~~~~~~l~~~-~--~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  309 (471)
                      ++...+..|...|...    +++++|+..|++....++..+..+... +  ...+++++|...|++..+.|   +...+.
T Consensus       211 ~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~g~~~a~~~Lg~~~~~~~~~~d~~~A~~~~~~Aa~~g---~~~A~~  287 (452)
T 3e4b_A          211 VTAQRVDSVARVLGDATLGTPDEKTAQALLEKIAPGYPASWVSLAQLLYDFPELGDVEQMMKYLDNGRAAD---QPRAEL  287 (452)
T ss_dssp             SCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHGGGSTHHHHHHHHHHHHSGGGCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHcCCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            3343334444444333    455555555555442244455555554 2  34566777777777766655   445555


Q ss_pred             HHHHHHhccC-----cHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHhHHHHHH
Q 012108          310 GLLSACSHAG-----LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----ARLLDRAIELIEAMPFEPTESILGALL  380 (471)
Q Consensus       310 ~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~  380 (471)
                      .+...|. .|     ++++|...|++..     +-++.....|..+|..    ..++++|...|++.-...+......|.
T Consensus       288 ~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa-----~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~~~A~~~Lg  361 (452)
T 3e4b_A          288 LLGKLYY-EGKWVPADAKAAEAHFEKAV-----GREVAADYYLGQIYRRGYLGKVYPQKALDHLLTAARNGQNSADFAIA  361 (452)
T ss_dssp             HHHHHHH-HCSSSCCCHHHHHHHHHTTT-----TTCHHHHHHHHHHHHTTTTSSCCHHHHHHHHHHHHTTTCTTHHHHHH
T ss_pred             HHHHHHH-cCCCCCCCHHHHHHHHHHHh-----CCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHhhChHHHHHHHH
Confidence            5555555 34     7777777777665     2345556666666655    337777777777663233444555555


Q ss_pred             HHHhh----cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          381 SACVI----HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       381 ~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      ..|..    ..+.++|..+++++.+.|.. +.......+......++..+|.++.++..+.
T Consensus       362 ~~y~~G~g~~~d~~~A~~~~~~A~~~g~~-~a~~~l~~l~~~~~~~~~~~a~~~~~~~~~~  421 (452)
T 3e4b_A          362 QLFSQGKGTKPDPLNAYVFSQLAKAQDTP-EANDLATQLEAPLTPAQRAEGQRLVQQELAA  421 (452)
T ss_dssp             HHHHSCTTBCCCHHHHHHHHHHHHTTCCH-HHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHhCCCCCCCHHHHHHHHHHHHHCCCH-HHHHHHHHHHHhCCHHHHHHHHHHHHHHHHh
Confidence            55553    34777888888888777654 2222222222222234566676666665543

>3e4b_A ALGK; tetratricopeptide repeat, superhelix, alginate biosynt pseudomonas, protein binding; 2.50A {Pseudomonas fluorescens}

Probab=99.72  E-value=1.8e-15  Score=142.00  Aligned_cols=308  Identities=10%  Similarity=-0.033  Sum_probs=199.7

Q ss_pred             ccHHHHHHHHhhccch---hHHHHHHHHHHHhccCCchhHHHHHHHHHhccC-----CHhHHHHHhcccCCC-CcccHHH
Q 012108           11 YSFPLLLKAAGILSSS---CIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLR-----CIDDAFKVFEKMPEK-DIIAWNS   81 (471)
Q Consensus        11 ~~~~~ll~~~~~~g~~---~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----~~~~A~~~~~~~~~~-~~~~~~~   81 (471)
                      ..+..|-..+...|+.   ++|.+.|++..+.    +...+..+...+...+     ++++|...|++..++ +...+..
T Consensus        36 ~A~~~Lg~~y~~~g~~~d~~~A~~~~~~A~~~----~~~A~~~Lg~~~~~~~~~~~~~~~~A~~~~~~Aa~~g~~~A~~~  111 (452)
T 3e4b_A           36 EAQVGLADIQVGTRDPAQIKQAEATYRAAADT----SPRAQARLGRLLAAKPGATEAEHHEAESLLKKAFANGEGNTLIP  111 (452)
T ss_dssp             TGGGTCC--------------------------------CHHHHHHHHHTC--CCHHHHHHHHHHHHHHHHTTCSSCHHH
T ss_pred             HHHHHHHHHHHccCCCCCHHHHHHHHHHHHhC----CHHHHHHHHHHHHhCCCCCCcCHHHHHHHHHHHHHCCCHHHHHH
Confidence            3444455556667777   8999999988854    4455666666455444     788999999987653 5568888


Q ss_pred             HHHHHHcCCCHHHH---HHHHhcCCCC-ChhhHHHHHHHHHhcCC----HHHHHHHHhhcCCCChhhHHHHHHHHHhCC-
Q 012108           82 MLDAFASCGQMDHA---MKLIDLMPLK-DVTSFNIMISGYARIGK----IHSARYIFDKVPAKDVVSWNSLILAYTNAG-  152 (471)
Q Consensus        82 li~~~~~~g~~~~A---~~~~~~~~~~-~~~~~~~l~~~~~~~g~----~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~-  152 (471)
                      |...|...+..+++   .+.+...... ++.....+...|...+.    .+.+..+++.....++..+..|...|...| 
T Consensus       112 Lg~~y~~~~~~~~~~~a~~~~~~a~~~g~~~a~~~Lg~~y~~~~~~~~~~~~a~~~~~~a~~~~~~a~~~Lg~~~~~~g~  191 (452)
T 3e4b_A          112 LAMLYLQYPHSFPNVNAQQQISQWQAAGYPEAGLAQVLLYRTQGTYDQHLDDVERICKAALNTTDICYVELATVYQKKQQ  191 (452)
T ss_dssp             HHHHHHHCGGGCTTCCHHHHHHHHHHHTCTTHHHHHHHHHHHHTCGGGGHHHHHHHHHHHTTTCTTHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCCCCCCCHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcccCHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            88888877664443   4444433322 67788888999988884    455556666667777779999999999999 


Q ss_pred             --CHHHHHHHHHhcccc---ChHHHHHHHHHHHhc----CCHHHHHHHHHHHHhCCCCCCHHHHHHHHHH-H--HccCCh
Q 012108          153 --EMEKAGEMFKKMLVK---NVITWNTMVTGYLRS----QLYIEVVDLFDEMKAGNVKPDYLTVTSVLSA-C--ANLGSL  220 (471)
Q Consensus       153 --~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~----~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~-~--~~~~~~  220 (471)
                        +.++|.+.|++....   +...+..+...|...    +++++|..+|++.. .|   +...+..+... +  ...++.
T Consensus       192 ~~~~~~A~~~~~~aa~~g~~~a~~~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa-~g---~~~a~~~Lg~~~~~~~~~~d~  267 (452)
T 3e4b_A          192 PEQQAELLKQMEAGVSRGTVTAQRVDSVARVLGDATLGTPDEKTAQALLEKIA-PG---YPASWVSLAQLLYDFPELGDV  267 (452)
T ss_dssp             HHHHHHHHHHHHHHHHTTCSCHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHG-GG---STHHHHHHHHHHHHSGGGCCH
T ss_pred             cccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCCCCCCHHHHHHHHHHHc-CC---CHHHHHHHHHHHHhCCCCCCH
Confidence              999999999998433   444446677777655    79999999999987 33   44455555555 3  468999


Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-----ChHHHHHHHhcCCCCChhhHHHHHHHHHh----cCChHHHHH
Q 012108          221 ETGARIHVYATDNGLASNPHATTALIDMYAKCG-----SIEQSLEVFYKSQVKDVFCWNAMILGLAL----HGYGYAALK  291 (471)
Q Consensus       221 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~  291 (471)
                      ++|..+|++..+.|   ++..+..|...|. .|     ++++|++.|++....++..+..|...|..    ..++++|..
T Consensus       268 ~~A~~~~~~Aa~~g---~~~A~~~Lg~~y~-~G~g~~~d~~~A~~~~~~Aa~g~~~A~~~Lg~~y~~G~g~~~d~~~A~~  343 (452)
T 3e4b_A          268 EQMMKYLDNGRAAD---QPRAELLLGKLYY-EGKWVPADAKAAEAHFEKAVGREVAADYYLGQIYRRGYLGKVYPQKALD  343 (452)
T ss_dssp             HHHHHHHHHHHHTT---CHHHHHHHHHHHH-HCSSSCCCHHHHHHHHHTTTTTCHHHHHHHHHHHHTTTTSSCCHHHHHH
T ss_pred             HHHHHHHHHHHHCC---CHHHHHHHHHHHH-cCCCCCCCHHHHHHHHHHHhCCCHHHHHHHHHHHHCCCCCCcCHHHHHH
Confidence            99999999998876   5667777887777 45     88999999888774456677777766665    337777888


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHH
Q 012108          292 LLGEMNDSCVKADDITFIGLLSACSH----AGLVQEGCELFSRMEK  333 (471)
Q Consensus       292 ~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~  333 (471)
                      .|++..+.|.   ......|...|..    ..+.++|...|+...+
T Consensus       344 ~~~~Aa~~g~---~~A~~~Lg~~y~~G~g~~~d~~~A~~~~~~A~~  386 (452)
T 3e4b_A          344 HLLTAARNGQ---NSADFAIAQLFSQGKGTKPDPLNAYVFSQLAKA  386 (452)
T ss_dssp             HHHHHHTTTC---TTHHHHHHHHHHSCTTBCCCHHHHHHHHHHHHT
T ss_pred             HHHHHHhhCh---HHHHHHHHHHHHhCCCCCCCHHHHHHHHHHHHH
Confidence            8877777653   2334445555442    3467777777777766

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.72  E-value=4.8e-16  Score=130.73  Aligned_cols=196  Identities=14%  Similarity=0.001  Sum_probs=143.9

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012108          236 ASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLL  312 (471)
Q Consensus       236 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~  312 (471)
                      |+++..+..+...+.+.|++++|+..|++...   .+...+..+...+.+.|++++|+..+++..+.. +.+...+..+.
T Consensus         2 p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg   80 (217)
T 2pl2_A            2 QTAEQNPLRLGVQLYALGRYDAALTLFERALKENPQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLS   80 (217)
T ss_dssp             --CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTSSSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHH
Confidence            45566666777777777777777777766443   355677777777777888888888888777652 33456777777


Q ss_pred             HHHhcc-----------CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHH
Q 012108          313 SACSHA-----------GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALL  380 (471)
Q Consensus       313 ~~~~~~-----------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~  380 (471)
                      ..+...           |++++|...++++.+  ..+.+...+..+..+|...|++++|...|++. ....++..+..+.
T Consensus        81 ~~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~la  158 (217)
T 2pl2_A           81 EAYVALYRQAEDRERGKGYLEQALSVLKDAER--VNPRYAPLHLQRGLVYALLGERDKAEASLKQALALEDTPEIRSALA  158 (217)
T ss_dssp             HHHHHHHHTCSSHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_pred             HHHHHhhhhhhhhcccccCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcccchHHHHHHH
Confidence            777777           999999999999987  34456788888999999999999999999887 2127788889999


Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      .++...|++++|+..++++++..|. ++..+..++.++.+.|++++|++.+++..
T Consensus       159 ~~~~~~g~~~~A~~~~~~al~~~P~-~~~~~~~la~~~~~~g~~~~A~~~~~~~~  212 (217)
T 2pl2_A          159 ELYLSMGRLDEALAQYAKALEQAPK-DLDLRVRYASALLLKGKAEEAARAAALEH  212 (217)
T ss_dssp             HHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHTC---------------
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHccCHHHHHHHHHHHh
Confidence            9999999999999999999999999 99999999999999999999999988763

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.71  E-value=1.9e-17  Score=160.81  Aligned_cols=147  Identities=14%  Similarity=0.110  Sum_probs=121.1

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHhc-------cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHH
Q 012108          138 VVSWNSLILAYTNAGEMEKAGEMFKKM-------LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSV  210 (471)
Q Consensus       138 ~~~~~~l~~~~~~~~~~~~A~~~~~~~-------~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l  210 (471)
                      ..+|++||++|++.|++++|.++|++|       ..||+.+||+||.+|++.|++++|.++|++|.+.|+.||..||+++
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            458999999999999999999999776       4689999999999999999999999999999999999999999999


Q ss_pred             HHHHHccCCh-HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC-----ChhhHHHHHHHHHhcC
Q 012108          211 LSACANLGSL-ETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK-----DVFCWNAMILGLALHG  284 (471)
Q Consensus       211 ~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~~~~~~~l~~~~~~~~  284 (471)
                      |.++++.|+. +.|.+++++|.+.|+.||..+|+.++....+.+-++.+.++......+     ...+...|...|.+.+
T Consensus       207 I~glcK~G~~~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~~vL~~Vrkv~P~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          207 LQCMGRQDQDAGTIERCLEQMSQEGLKLQALFTAVLLSEEDRATVLKAVHKVKPTFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHHHHHTCCHHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHHHHHHHHGGGCCCCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHHhCCCcHHHHHHHHHHHHHcCCCCChhhcccccChhhHHHHHHHHHHhCcccCCCCCCcccccchHHHHHHHccCC
Confidence            9999999985 789999999999999999999999988777664444444443333321     1233444555555444

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.69  E-value=1.9e-15  Score=132.35  Aligned_cols=241  Identities=10%  Similarity=-0.045  Sum_probs=171.2

Q ss_pred             hcCCHHHHHHHHHHHHhCCCC---CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 012108          181 RSQLYIEVVDLFDEMKAGNVK---PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQ  257 (471)
Q Consensus       181 ~~~~~~~a~~~~~~m~~~g~~---p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  257 (471)
                      ..|++++|+..|+++.+....   .+...+..+...+...|++++|...++.+.+.. +.+..++..+...|...|++++
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            346677777777777664211   123456666667777777777777777777664 4566677777777777777777


Q ss_pred             HHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHh
Q 012108          258 SLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKD  334 (471)
Q Consensus       258 a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  334 (471)
                      |++.|+++..   .+..++..+...+...|++++|...++++...  .|+.......+..+...|++++|...+++... 
T Consensus        96 A~~~~~~al~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~--~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~-  172 (275)
T 1xnf_A           96 AYEAFDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFE-  172 (275)
T ss_dssp             HHHHHHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHH-
T ss_pred             HHHHHHHHHhcCccccHHHHHHHHHHHHhccHHHHHHHHHHHHHh--CCCChHHHHHHHHHHHhcCHHHHHHHHHHHHh-
Confidence            7777776543   35677788888888888888888888888875  44444444455555677999999999988877 


Q ss_pred             cCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc
Q 012108          335 FGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD  408 (471)
Q Consensus       335 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  408 (471)
                       ..+++...+. ++..+...++.++|.+.+++. ...|.     ..++..+...+...|++++|...++++.+.+|. +.
T Consensus       173 -~~~~~~~~~~-~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~-~~  249 (275)
T 1xnf_A          173 -KSDKEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH-NF  249 (275)
T ss_dssp             -HSCCCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT-TC
T ss_pred             -cCCcchHHHH-HHHHHHHhcCHHHHHHHHHHHhcccccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCch-hH
Confidence             2344444444 677777888889999988876 33332     578888999999999999999999999998876 43


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHH
Q 012108          409 GELMMFANLYASCGQWEEANRWR  431 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A~~~~  431 (471)
                         .....++...|++++|++.+
T Consensus       250 ---~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 ---VEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             ---HHHHHHHHHHHHHHHC----
T ss_pred             ---HHHHHHHHHHHHHHhhHHHH
Confidence               34466788889999988766

>3spa_A Mtrpol, DNA-directed RNA polymerase, mitochondrial; single-subunit DNA-dependent RNA polymerase in mitochondria, transferase; 2.50A {Homo sapiens}

Probab=99.69  E-value=2.3e-17  Score=160.35  Aligned_cols=151  Identities=11%  Similarity=0.051  Sum_probs=118.1

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHh---CCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHH
Q 012108          169 VITWNTMVTGYLRSQLYIEVVDLFDEMKA---GNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTAL  245 (471)
Q Consensus       169 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~---~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l  245 (471)
                      ..+||++|.+|++.|+.++|.++|++|.+   .|+.||..||+++|.+|++.|++++|.++|++|.+.|+.||..||+++
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            46899999999999999999999988764   478999999999999999999999999999999999999988888777


Q ss_pred             HHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHH
Q 012108          246 IDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGC  325 (471)
Q Consensus       246 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~  325 (471)
                      +.++++.|+.                              .++|.++|++|...|+.||..+|+.++..+.+.    ..+
T Consensus       207 I~glcK~G~~------------------------------~e~A~~Ll~EM~~kG~~PD~vtY~~ll~~~eR~----~vL  252 (1134)
T 3spa_A          207 LQCMGRQDQD------------------------------AGTIERCLEQMSQEGLKLQALFTAVLLSEEDRA----TVL  252 (1134)
T ss_dssp             HHHHHHHTCC------------------------------HHHHHHHHHHHHHHTCCSHHHHHHSCCCHHHHH----HHH
T ss_pred             HHHHHhCCCc------------------------------HHHHHHHHHHHHHcCCCCChhhcccccChhhHH----HHH
Confidence            7666554432                              256778889999999999999999888654443    444


Q ss_pred             HHHHHhHHhcCCCCC------hhHHHHHHHHHhhcC
Q 012108          326 ELFSRMEKDFGVTRK------LEHYGCMVDLLGRAR  355 (471)
Q Consensus       326 ~~~~~~~~~~~~~~~------~~~~~~l~~~~~~~g  355 (471)
                      +..+++..  ++.|+      ..+...|.+.|.+.+
T Consensus       253 ~~Vrkv~P--~f~p~~~~~~~~~t~~LL~dl~s~d~  286 (1134)
T 3spa_A          253 KAVHKVKP--TFSLPPQLPPPVNTSKLLRDVYAKDG  286 (1134)
T ss_dssp             HHHGGGCC--CCCCCCCCCCCCCCCTTTHHHHCCCS
T ss_pred             HHHHHhCc--ccCCCCCCcccccchHHHHHHHccCC
Confidence            55555533  44443      444556667777655

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.69  E-value=3.2e-15  Score=130.73  Aligned_cols=253  Identities=8%  Similarity=-0.074  Sum_probs=127.9

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC--HHHHHHHHHHH
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD--YLTVTSVLSAC  214 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~--~~~~~~l~~~~  214 (471)
                      .+......+...|++++|.+.|++..+   .+...+..+..++...|++++|+..+++..+.+..|+  ...|..+...+
T Consensus         5 ~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~   84 (272)
T 3u4t_A            5 VEFRYADFLFKNNNYAEAIEVFNKLEAKKYNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKIL   84 (272)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHHHHTTCCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHH
Confidence            344455666666666666666666622   2344566666666666666666666666665321111  12355556666


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHH
Q 012108          215 ANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALK  291 (471)
Q Consensus       215 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  291 (471)
                      ...|++++|...++.+.+.. +.+..++..+...|...|++++|+..|++...   .+...|..+...+...+++++|..
T Consensus        85 ~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~  163 (272)
T 3u4t_A           85 MKKGQDSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIRPTTTDPKVFYELGQAYYYNKEYVKADS  163 (272)
T ss_dssp             HHTTCHHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCCSSCCCHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHcccHHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhhcCCCcHHHHHHHHHHHHHHHHHHHHHH
Confidence            66666666666666666554 34445555556666666666666655555443   123334334312222234444444


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhccCc---HHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCC
Q 012108          292 LLGEMNDSCVKADDITFIGLLSACSHAGL---VQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMP  368 (471)
Q Consensus       292 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~  368 (471)
                      .|+++.+.. +.+...+..+...+...|+   +++|...++++.+.....|+.. -                        
T Consensus       164 ~~~~a~~~~-p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~-~------------------------  217 (272)
T 3u4t_A          164 SFVKVLELK-PNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKY-K------------------------  217 (272)
T ss_dssp             HHHHHHHHS-TTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGG-H------------------------
T ss_pred             HHHHHHHhC-ccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccc-h------------------------
Confidence            444444421 1123333333333333333   3334444433333111111110 0                        


Q ss_pred             CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          369 FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       369 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                       .....+|..+...|...|++++|...++++++.+|. ++..+..+.......
T Consensus       218 -~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~l~~~~~~~  268 (272)
T 3u4t_A          218 -DELIEANEYIAYYYTINRDKVKADAAWKNILALDPT-NKKAIDGLKMKLEHH  268 (272)
T ss_dssp             -HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHC------
T ss_pred             -HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcc-HHHHHHHhhhhhccc
Confidence             001235566667777778888888888888888777 776666665554443

>2pl2_A Hypothetical conserved protein TTC0263; TPR, protein binding; 2.50A {Thermus thermophilus}

Probab=99.67  E-value=6.1e-15  Score=123.96  Aligned_cols=193  Identities=13%  Similarity=0.006  Sum_probs=95.8

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 012108          168 NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALID  247 (471)
Q Consensus       168 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  247 (471)
                      +...+..+...+.+.|++++|...|++.++.. +.+...+..+...+.+.|++++|...++++.+.. |.+...+..+..
T Consensus         4 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~   81 (217)
T 2pl2_A            4 AEQNPLRLGVQLYALGRYDAALTLFERALKEN-PQDPEALYWLARTQLKLGLVNPALENGKTLVART-PRYLGGYMVLSE   81 (217)
T ss_dssp             CCHHHHHHHHHHHHTTCHHHHHHHHHHHHTTS-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCcHHHHHHHHH
Confidence            44455555556666666666666666655542 2334455555555666666666666666665554 444555555555


Q ss_pred             HHHhc-----------CChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012108          248 MYAKC-----------GSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLS  313 (471)
Q Consensus       248 ~~~~~-----------~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  313 (471)
                      ++...           |++++|+..|++...   .+...|..+...+...|++++|+..|++..+..  .+...+..+..
T Consensus        82 ~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~--~~~~~~~~la~  159 (217)
T 2pl2_A           82 AYVALYRQAEDRERGKGYLEQALSVLKDAERVNPRYAPLHLQRGLVYALLGERDKAEASLKQALALE--DTPEIRSALAE  159 (217)
T ss_dssp             HHHHHHHTCSSHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC--CCHHHHHHHHH
T ss_pred             HHHHhhhhhhhhcccccCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCChHHHHHHHHHHHhcc--cchHHHHHHHH
Confidence            55555           555555555544322   233444455555555555555555555555443  34455555555


Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHh
Q 012108          314 ACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEA  366 (471)
Q Consensus       314 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  366 (471)
                      ++...|++++|...|+++.+  ..+.+...+..+..++.+.|++++|.+.+++
T Consensus       160 ~~~~~g~~~~A~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~  210 (217)
T 2pl2_A          160 LYLSMGRLDEALAQYAKALE--QAPKDLDLRVRYASALLLKGKAEEAARAAAL  210 (217)
T ss_dssp             HHHHHTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTC-------------
T ss_pred             HHHHcCCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHccCHHHHHHHHHH
Confidence            55555555555555555554  2233444555555555555555555555544

>3u4t_A TPR repeat-containing protein; structural genomics, PSI- protein structure initiative, northeast structural genomics consortium, NESG; 2.28A {Cytophaga hutchinsonii}

Probab=99.67  E-value=1.1e-14  Score=127.15  Aligned_cols=228  Identities=7%  Similarity=-0.114  Sum_probs=144.2

Q ss_pred             HHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CC----hhhHHHHHHHHHhcCC
Q 012108          212 SACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KD----VFCWNAMILGLALHGY  285 (471)
Q Consensus       212 ~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~l~~~~~~~~~  285 (471)
                      ..+...|++++|...++.+.+.. +.+...+..+...|...|++++|+..+++...  ++    ..+|..+...+...|+
T Consensus        11 ~~~~~~~~~~~A~~~~~~~l~~~-p~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~lg~~~~~~~~   89 (272)
T 3u4t_A           11 DFLFKNNNYAEAIEVFNKLEAKK-YNSPYIYNRRAVCYYELAKYDLAQKDIETYFSKVNATKAKSADFEYYGKILMKKGQ   89 (272)
T ss_dssp             HHHHTTTCHHHHHHHHHHHHHTT-CCCSTTHHHHHHHHHHTTCHHHHHHHHHHHHTTSCTTTCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHhcCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHHhhHHHHHHHHHHHHhccCchhHHHHHHHHHHHHHHHccc
Confidence            33444444444444444444432 22333444444444455555555444443322  11    1235566666666677


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHH
Q 012108          286 GYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIE  365 (471)
Q Consensus       286 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~  365 (471)
                      +++|+..+++..+.. +.+...+..+...+...|++++|...++++.+  ..+.+...+..+...+...+++++|.+.|+
T Consensus        90 ~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~  166 (272)
T 3u4t_A           90 DSLAIQQYQAAVDRD-TTRLDMYGQIGSYFYNKGNFPLAIQYMEKQIR--PTTTDPKVFYELGQAYYYNKEYVKADSSFV  166 (272)
T ss_dssp             HHHHHHHHHHHHHHS-TTCTHHHHHHHHHHHHTTCHHHHHHHHGGGCC--SSCCCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcC-cccHHHHHHHHHHHHHccCHHHHHHHHHHHhh--cCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            777777777666542 22445677777777778888888888877776  234456666666623333458888888877


Q ss_pred             hC-CCCC-CHhHHHHHHHHHhhcCC---chHHHHHHHHHHHcC---CCCC----chhHHHHHHHHHhcCCHHHHHHHHHH
Q 012108          366 AM-PFEP-TESILGALLSACVIHQD---LEIGDRVAKMVCAKS---NYLS----DGELMMFANLYASCGQWEEANRWRNM  433 (471)
Q Consensus       366 ~~-~~~p-~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~---~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~  433 (471)
                      ++ ...| +...+..+...+...|+   +++|...++++.+..   |.++    ..+|..++..|.+.|++++|.+.+++
T Consensus       167 ~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~  246 (272)
T 3u4t_A          167 KVLELKPNIYIGYLWRARANAAQDPDTKQGLAKPYYEKLIEVCAPGGAKYKDELIEANEYIAYYYTINRDKVKADAAWKN  246 (272)
T ss_dssp             HHHHHSTTCHHHHHHHHHHHHHHSTTCSSCTTHHHHHHHHHHHGGGGGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHhCccchHHHHHHHHHHHHcCcchhhHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            76 2333 45677777777877787   888999999988775   3311    25788899999999999999999999


Q ss_pred             hhhCCCcccC
Q 012108          434 MNDTGIVKTA  443 (471)
Q Consensus       434 m~~~~~~~~~  443 (471)
                      +.+.++..+.
T Consensus       247 al~~~p~~~~  256 (272)
T 3u4t_A          247 ILALDPTNKK  256 (272)
T ss_dssp             HHHHCTTCHH
T ss_pred             HHhcCccHHH
Confidence            9988766443

>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=99.66  E-value=5.4e-14  Score=122.94  Aligned_cols=224  Identities=8%  Similarity=-0.068  Sum_probs=125.1

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCCCchhHHH
Q 012108          168 NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACAN----LGSLETGARIHVYATDNGLASNPHATT  243 (471)
Q Consensus       168 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  243 (471)
                      ++.++..+...+...|++++|...|++..+.   .+...+..+...+..    .+++++|...+++..+.+   ++..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~   78 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   78 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCC---CHHHHH
Confidence            5566777777777778888888888777763   234556666666776    777777777777777664   455666


Q ss_pred             HHHHHHHh----cCChHHHHHHHhcCCC-CChhhHHHHHHHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012108          244 ALIDMYAK----CGSIEQSLEVFYKSQV-KDVFCWNAMILGLAL----HGYGYAALKLLGEMNDSCVKADDITFIGLLSA  314 (471)
Q Consensus       244 ~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  314 (471)
                      .+...|..    .+++++|+..|++... .+..++..+...|..    .+++++|+..|++..+.+   +...+..+...
T Consensus        79 ~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~  155 (273)
T 1ouv_A           79 LLGNLYYSGQGVSQNTNKALQYYSKACDLKYAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACDLN---DGDGCTILGSL  155 (273)
T ss_dssp             HHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHH
T ss_pred             HHHHHHhCCCCcccCHHHHHHHHHHHHHcCCccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHhcC---cHHHHHHHHHH
Confidence            66666666    6666666666655433 244455555555555    555555555555555543   33444444444


Q ss_pred             Hhc----cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhh-
Q 012108          315 CSH----AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----ARLLDRAIELIEAMPFEPTESILGALLSACVI-  385 (471)
Q Consensus       315 ~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~-  385 (471)
                      +..    .+++++|...|++..+ .   .++..+..+..+|..    .+++++|.+.|++.-...+...+..+...|.. 
T Consensus       156 ~~~~~~~~~~~~~A~~~~~~a~~-~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          156 YDAGRGTPKDLKKALASYDKACD-L---KDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELENGGGCFNLGAMQYNG  231 (273)
T ss_dssp             HHHTSSSCCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHcCCCCCCCHHHHHHHHHHHHH-C---CCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCCHHHHHHHHHHHHcC
Confidence            444    5555555555555554 1   123344444444444    45555555544443111113334444444444 


Q ss_pred             ---cCCchHHHHHHHHHHHcCC
Q 012108          386 ---HQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       386 ---~g~~~~a~~~~~~~~~~~~  404 (471)
                         .+++++|.+.++++.+.+|
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~~  253 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLGA  253 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHTC
T ss_pred             CCcccCHHHHHHHHHHHHHcCC
Confidence               4444455555544444443

>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=99.65  E-value=5e-14  Score=121.53  Aligned_cols=195  Identities=13%  Similarity=-0.036  Sum_probs=87.1

Q ss_pred             HHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcC
Q 012108          208 TSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHG  284 (471)
Q Consensus       208 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~  284 (471)
                      ..+...+...|++++|...++.+.+.. +.+...+..+...|...|++++|.+.++++..   .+...+..+...+...|
T Consensus        41 ~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~~~~~g  119 (252)
T 2ho1_A           41 IQLGLGYLQRGNTEQAKVPLRKALEID-PSSADAHAALAVVFQTEMEPKLADEEYRKALASDSRNARVLNNYGGFLYEQK  119 (252)
T ss_dssp             HHHHHHHHHTTCTGGGHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCChHHHHHHHHHHHhcC-CChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHHh
Confidence            333334444444444444444444332 22333344444444444444444444433221   12334444444444555


Q ss_pred             ChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIEL  363 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  363 (471)
                      ++++|...++++...+..| +...+..+...+...|++++|.+.++++.+.  .+.+...+..+...+...|++++|...
T Consensus       120 ~~~~A~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~g~~~~A~~~  197 (252)
T 2ho1_A          120 RYEEAYQRLLEASQDTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRL--NRNQPSVALEMADLLYKEREYVPARQY  197 (252)
T ss_dssp             CHHHHHHHHHHHTTCTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CSCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhc--CcccHHHHHHHHHHHHHcCCHHHHHHH
Confidence            5555555555554422222 2334444555555555555555555555541  222344444444455555555555555


Q ss_pred             HHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          364 IEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       364 ~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ++++ .. +.+...+..+...+...|++++|.+.++++.+..|.
T Consensus       198 ~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~  241 (252)
T 2ho1_A          198 YDLFAQGGGQNARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPG  241 (252)
T ss_dssp             HHHHHTTSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHhCcCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC
Confidence            4444 11 123334444444444555555555555555555444

>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=99.65  E-value=2.1e-14  Score=130.65  Aligned_cols=245  Identities=9%  Similarity=0.005  Sum_probs=156.1

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCC-hHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGS-LETGARIHVYATDNGLASNPHATTALIDM  248 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  248 (471)
                      ..|+.+...+.+.|++++|++.+++.++.. +-+...|..+..++...|+ +++|...++++++.. +.+...|..+..+
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~-P~~~~a~~~~g~~  175 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVL  175 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHC-CCCHHHHHHHHHH
Confidence            445555556666666666666666665532 2234455555556666664 666666666666654 4455666666666


Q ss_pred             HHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc-cCcHHHH
Q 012108          249 YAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSH-AGLVQEG  324 (471)
Q Consensus       249 ~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a  324 (471)
                      +...|++++|+..|+++..   .+..+|..+..++.+.|++++|+..++++++.. +-+...|+.+..++.. .|..++|
T Consensus       176 ~~~~g~~~eAl~~~~kal~ldP~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~l~-P~~~~a~~~lg~~l~~l~~~~~eA  254 (382)
T 2h6f_A          176 VEWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRA  254 (382)
T ss_dssp             HHHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHH
T ss_pred             HHHccCHHHHHHHHHHHHHhCccCHHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcCcchHH
Confidence            6666666666666665443   355666666777777777777777777777653 2245667777777666 4444555


Q ss_pred             -----HHHHHHhHHhcCCCCChhHHHHHHHHHhhcC--CHHHHHHHHHhCCCCC-CHhHHHHHHHHHhhcC---------
Q 012108          325 -----CELFSRMEKDFGVTRKLEHYGCMVDLLGRAR--LLDRAIELIEAMPFEP-TESILGALLSACVIHQ---------  387 (471)
Q Consensus       325 -----~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~g---------  387 (471)
                           ++.++++.+  -.+.+...|..+..++...|  ++++|.+.+.++...| +...+..++..|.+.|         
T Consensus       255 ~~~~el~~~~~Al~--l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~~~~p~~~~al~~La~~~~~~~~~~~~~~~~  332 (382)
T 2h6f_A          255 VLEREVQYTLEMIK--LVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  332 (382)
T ss_dssp             HHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             HHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHccCccchHHHHHHHHHhccCCCCHHHHHHHHHHHHHHhcccccchHH
Confidence                 466777766  23345667777777777776  5777777777664334 4566777777777653         


Q ss_pred             CchHHHHHHHHH-HHcCCCCCchhHHHHHHHHHh
Q 012108          388 DLEIGDRVAKMV-CAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       388 ~~~~a~~~~~~~-~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      ..++|+++++++ .+.+|. ....|..++..+..
T Consensus       333 ~~~~A~~~~~~l~~~~DP~-r~~~w~~~~~~l~~  365 (382)
T 2h6f_A          333 ILNKALELCEILAKEKDTI-RKEYWRYIGRSLQS  365 (382)
T ss_dssp             HHHHHHHHHHHHHHTTCGG-GHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCch-hHHHHHHHHHHHHH
Confidence            257888888888 788887 77777777766554

>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=99.65  E-value=2e-13  Score=119.33  Aligned_cols=225  Identities=9%  Similarity=-0.045  Sum_probs=165.0

Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHh----cCChHHHHHHHhcCCC-CChhhHHHHH
Q 012108          203 DYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAK----CGSIEQSLEVFYKSQV-KDVFCWNAMI  277 (471)
Q Consensus       203 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~-~~~~~~~~l~  277 (471)
                      +...+..+...+...|++++|...|++..+.   .+...+..+...|..    .+++++|+..|++... .+..++..+.
T Consensus         5 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~---~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg   81 (273)
T 1ouv_A            5 DPKELVGLGAKSYKEKDFTQAKKYFEKACDL---KENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNYSNGCHLLG   81 (273)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             ChHHHHHHHHHHHhCCCHHHHHHHHHHHHHC---CCHHHHHHHHHHHHcCCCcCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            3455666677777778888888888887773   345667777777887    8888888888876544 3667777777


Q ss_pred             HHHHh----cCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          278 LGLAL----HGYGYAALKLLGEMNDSCVKADDITFIGLLSACSH----AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       278 ~~~~~----~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      ..|..    .+++++|+..|++..+.+   +...+..+...|..    .+++++|...|++..+ .+   +...+..+..
T Consensus        82 ~~~~~g~~~~~~~~~A~~~~~~a~~~~---~~~a~~~lg~~~~~~~~~~~~~~~A~~~~~~a~~-~~---~~~a~~~lg~  154 (273)
T 1ouv_A           82 NLYYSGQGVSQNTNKALQYYSKACDLK---YAEGCASLGGIYHDGKVVTRDFKKAVEYFTKACD-LN---DGDGCTILGS  154 (273)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHH-TT---CHHHHHHHHH
T ss_pred             HHHhCCCCcccCHHHHHHHHHHHHHcC---CccHHHHHHHHHHcCCCcccCHHHHHHHHHHHHh-cC---cHHHHHHHHH
Confidence            77877    888888888888877764   56677777777777    7888888888888777 23   4556667777


Q ss_pred             HHhh----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhh----cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh-
Q 012108          350 LLGR----ARLLDRAIELIEAMPFEPTESILGALLSACVI----HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS-  420 (471)
Q Consensus       350 ~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-  420 (471)
                      .|..    .+++++|.+.|++.-...+...+..+...+..    .+++++|...++++.+.++   +..+..++.+|.. 
T Consensus       155 ~~~~~~~~~~~~~~A~~~~~~a~~~~~~~a~~~lg~~~~~g~~~~~~~~~A~~~~~~a~~~~~---~~a~~~l~~~~~~g  231 (273)
T 1ouv_A          155 LYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKEALARYSKACELEN---GGGCFNLGAMQYNG  231 (273)
T ss_dssp             HHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHHHHHHHHHHHHTTC---HHHHHHHHHHHHTT
T ss_pred             HHHcCCCCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCCCccHHHHHHHHHHHHhCCC---HHHHHHHHHHHHcC
Confidence            7776    78888888888776222345666777777777    7888888888888877653   5677778888887 


Q ss_pred             ---cCCHHHHHHHHHHhhhCCCc
Q 012108          421 ---CGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       421 ---~g~~~~A~~~~~~m~~~~~~  440 (471)
                         .|++++|.+.+++..+.++.
T Consensus       232 ~~~~~~~~~A~~~~~~a~~~~~~  254 (273)
T 1ouv_A          232 EGVTRNEKQAIENFKKGCKLGAK  254 (273)
T ss_dssp             SSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             CCcccCHHHHHHHHHHHHHcCCH
Confidence               78888888888888777654

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.64  E-value=5.3e-15  Score=126.84  Aligned_cols=136  Identities=9%  Similarity=-0.097  Sum_probs=57.4

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHh
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLG  352 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  352 (471)
                      +..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|...++++.+  ..+.+...+..+...+.
T Consensus        94 ~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~~  170 (243)
T 2q7f_A           94 YYGAGNVYVVKEMYKEAKDMFEKALRAG-MENGDLFYMLGTVLVKLEQPKLALPYLQRAVE--LNENDTEARFQFGMCLA  170 (243)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHT-CCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhccHHHHHHHHHHHHH--hCCccHHHHHHHHHHHH
Confidence            3333444444444444444444444321 22333444444444445555555555554444  12223333444444444


Q ss_pred             hcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHH
Q 012108          353 RARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELM  412 (471)
Q Consensus       353 ~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  412 (471)
                      +.|++++|.+.++++ . .+.+..++..+...+...|++++|...++++.+..|. ++..+.
T Consensus       171 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~  231 (243)
T 2q7f_A          171 NEGMLDEALSQFAAVTEQDPGHADAFYNAGVTYAYKENREKALEMLDKAIDIQPD-HMLALH  231 (243)
T ss_dssp             HHTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTT-CHHHHH
T ss_pred             HcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcc-hHHHHH
Confidence            444444444444433 1 1122334444444444444444444444444444444 333333

>2q7f_A YRRB protein; TPR, protein binding; 2.49A {Bacillus subtilis} SCOP: k.38.1.1

Probab=99.64  E-value=6.2e-15  Score=126.45  Aligned_cols=202  Identities=11%  Similarity=-0.003  Sum_probs=154.5

Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH
Q 012108          238 NPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSA  314 (471)
Q Consensus       238 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~  314 (471)
                      ....+..+...+...|++++|...|+++..   .+...+..+...+...|++++|+..++++.... +.+...+..+...
T Consensus        22 ~~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~la~~  100 (243)
T 2q7f_A           22 ASMTGGQQMGRGSEFGDYEKAAEAFTKAIEENKEDAIPYINFANLLSSVNELERALAFYDKALELD-SSAATAYYGAGNV  100 (243)
T ss_dssp             --------------------CCTTHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhhCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CcchHHHHHHHHH
Confidence            344555566666667777777766665433   345677777788888888888888888887753 3467788889999


Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a  392 (471)
                      +...|++++|.+.++++.+  ..+.+...+..+...+.+.|++++|.+.++++ . .+.+...+..+...+...|++++|
T Consensus       101 ~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  178 (243)
T 2q7f_A          101 YVVKEMYKEAKDMFEKALR--AGMENGDLFYMLGTVLVKLEQPKLALPYLQRAVELNENDTEARFQFGMCLANEGMLDEA  178 (243)
T ss_dssp             HHHTTCHHHHHHHHHHHHH--HTCCSHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCHHH
T ss_pred             HHHhccHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHcCCHHHH
Confidence            9999999999999999998  34557788999999999999999999999987 2 334678889999999999999999


Q ss_pred             HHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccC
Q 012108          393 DRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTA  443 (471)
Q Consensus       393 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~  443 (471)
                      ...++++.+..|. ++.++..++.+|.+.|++++|.+.++++.+..+..+.
T Consensus       179 ~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~p~~~~  228 (243)
T 2q7f_A          179 LSQFAAVTEQDPG-HADAFYNAGVTYAYKENREKALEMLDKAIDIQPDHML  228 (243)
T ss_dssp             HHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCTTHHHHHHHHHHHHCTTCHH
T ss_pred             HHHHHHHHHhCcc-cHHHHHHHHHHHHHccCHHHHHHHHHHHHccCcchHH
Confidence            9999999999998 8999999999999999999999999999887765443

>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=99.63  E-value=2.7e-14  Score=123.19  Aligned_cols=200  Identities=9%  Similarity=-0.057  Sum_probs=175.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      ...+..+...+...|++++|++.|+++..   .+...+..+...+...|++++|.+.++++.... +.+...+..+...+
T Consensus        37 ~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~  115 (252)
T 2ho1_A           37 RDAYIQLGLGYLQRGNTEQAKVPLRKALEIDPSSADAHAALAVVFQTEMEPKLADEEYRKALASD-SRNARVLNNYGGFL  115 (252)
T ss_dssp             HHHHHHHHHHHHHTTCTGGGHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCChHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHC-cCcHHHHHHHHHHH
Confidence            56788889999999999999999987654   467789999999999999999999999998763 34677888899999


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a  392 (471)
                      ...|++++|.++++++.+ .+..| +...+..+..++...|++++|.+.++++ .. +.+...+..+...+...|++++|
T Consensus       116 ~~~g~~~~A~~~~~~~~~-~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A  194 (252)
T 2ho1_A          116 YEQKRYEEAYQRLLEASQ-DTLYPERSRVFENLGLVSLQMKKPAQAKEYFEKSLRLNRNQPSVALEMADLLYKEREYVPA  194 (252)
T ss_dssp             HHTTCHHHHHHHHHHHTT-CTTCTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHH
T ss_pred             HHHhHHHHHHHHHHHHHh-CccCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHcCCHHHH
Confidence            999999999999999987 33444 5778888999999999999999999987 22 34578889999999999999999


Q ss_pred             HHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          393 DRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       393 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ...++++.+..|. +...+..++.++.+.|++++|.++++++.+..+..
T Consensus       195 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~g~~~~A~~~~~~~~~~~p~~  242 (252)
T 2ho1_A          195 RQYYDLFAQGGGQ-NARSLLLGIRLAKVFEDRDTAASYGLQLKRLYPGS  242 (252)
T ss_dssp             HHHHHHHHTTSCC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTS
T ss_pred             HHHHHHHHHhCcC-cHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCC
Confidence            9999999999998 88999999999999999999999999998876543

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.63  E-value=3.7e-14  Score=119.89  Aligned_cols=197  Identities=9%  Similarity=-0.063  Sum_probs=116.1

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhc
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSH  317 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~  317 (471)
                      .+..+...+...|++++|++.|+++..   .+...+..+...+...|++++|...++++.... +.+...+..+...+..
T Consensus        10 ~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~l~~~~~~   88 (225)
T 2vq2_A           10 IKTQLAMEYMRGQDYRQATASIEDALKSDPKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PDSAEINNNYGWFLCG   88 (225)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhhHHHHHHHHHHHHHhCccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CCChHHHHHHHHHHHH
Confidence            334444444444444444444443221   233444555555555555555555555555432 2244555666666666


Q ss_pred             c-CcHHHHHHHHHHhHHhcCCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHH
Q 012108          318 A-GLVQEGCELFSRMEKDFGVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       318 ~-~~~~~a~~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      . |++++|...++++.+ .+..| +...+..+..++...|++++|.+.++++ .. +.+...+..+...+...|++++|.
T Consensus        89 ~~~~~~~A~~~~~~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  167 (225)
T 2vq2_A           89 RLNRPAESMAYFDKALA-DPTYPTPYIANLNKGICSAKQGQFGLAEAYLKRSLAAQPQFPPAFKELARTKMLAGQLGDAD  167 (225)
T ss_dssp             TTCCHHHHHHHHHHHHT-STTCSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             hcCcHHHHHHHHHHHHc-CcCCcchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCchHHHHHHHHHHHcCCHHHHH
Confidence            6 666666666666665 22222 2455666666666666666666666665 22 224566666777777777777777


Q ss_pred             HHHHHHHHcCC-CCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          394 RVAKMVCAKSN-YLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       394 ~~~~~~~~~~~-~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ..++++.+..| . ++..+..++..+...|+.+.|..+++.+.+..+.
T Consensus       168 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~p~  214 (225)
T 2vq2_A          168 YYFKKYQSRVEVL-QADDLLLGWKIAKALGNAQAAYEYEAQLQANFPY  214 (225)
T ss_dssp             HHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHhCCCC-CHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhCCC
Confidence            77777777777 5 6667777777777777777777777777655443

>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=99.62  E-value=2.9e-14  Score=129.66  Aligned_cols=230  Identities=10%  Similarity=0.007  Sum_probs=196.0

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC-hHHHHHHHhcCCC---CChhhHHHHHHHH
Q 012108          205 LTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGS-IEQSLEVFYKSQV---KDVFCWNAMILGL  280 (471)
Q Consensus       205 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~---~~~~~~~~l~~~~  280 (471)
                      ..|..+...+.+.|++++|...++.+++.. +.+..+|..+..++...|+ +++|+..|+++..   .+..+|..+..++
T Consensus        98 ~a~~~lg~~~~~~g~~~~Al~~~~~al~l~-P~~~~a~~~~g~~l~~~g~d~~eAl~~~~~al~l~P~~~~a~~~~g~~~  176 (382)
T 2h6f_A           98 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  176 (382)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCChHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHCCCCHHHHHHHHHHH
Confidence            456777778889999999999999999986 6778899999999999997 9999999998665   4678999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh-cCCHHH
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR-ARLLDR  359 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~g~~~~  359 (471)
                      ...|++++|+..|++++... +-+...|..+..++...|++++|+..++++.+  -.+.+...|+.+..++.+ .|..++
T Consensus       177 ~~~g~~~eAl~~~~kal~ld-P~~~~a~~~lg~~~~~~g~~~eAl~~~~~al~--l~P~~~~a~~~lg~~l~~l~~~~~e  253 (382)
T 2h6f_A          177 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK--EDVRNNSVWNQRYFVISNTTGYNDR  253 (382)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HHccCHHHHHHHHHHHHHhC-ccCHHHHHHHHHHHHHcCChHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhcCcchH
Confidence            99999999999999999863 34678899999999999999999999999998  345578899999999998 666577


Q ss_pred             H-----HHHHHhC-CCCC-CHhHHHHHHHHHhhcC--CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcC--------
Q 012108          360 A-----IELIEAM-PFEP-TESILGALLSACVIHQ--DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCG--------  422 (471)
Q Consensus       360 A-----~~~~~~~-~~~p-~~~~~~~l~~~~~~~g--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g--------  422 (471)
                      |     ++.+++. ...| +...|..+...+...|  ++++|...++++ +.+|. ++..+..++.+|.+.|        
T Consensus       254 A~~~~el~~~~~Al~l~P~~~~a~~~l~~ll~~~g~~~~~~a~~~~~~~-~~~p~-~~~al~~La~~~~~~~~~~~~~~~  331 (382)
T 2h6f_A          254 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQDRGLSKYPNLLNQLLDL-QPSHS-SPYLIAFLVDIYEDMLENQCDNKE  331 (382)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHTTTCGGGCHHHHHHHHHH-TTTCC-CHHHHHHHHHHHHHHHHTTCSSHH
T ss_pred             HHHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHccCccchHHHHHHHHHh-ccCCC-CHHHHHHHHHHHHHHhcccccchH
Confidence            7     4777766 3445 5678888888888887  699999999998 77887 8899999999999875        


Q ss_pred             -CHHHHHHHHHHh-hhCCCc
Q 012108          423 -QWEEANRWRNMM-NDTGIV  440 (471)
Q Consensus       423 -~~~~A~~~~~~m-~~~~~~  440 (471)
                       .+++|.++++++ .+.++.
T Consensus       332 ~~~~~A~~~~~~l~~~~DP~  351 (382)
T 2h6f_A          332 DILNKALELCEILAKEKDTI  351 (382)
T ss_dssp             HHHHHHHHHHHHHHHTTCGG
T ss_pred             HHHHHHHHHHHHHHHHhCch
Confidence             358999999998 666554

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.62  E-value=6.2e-15  Score=137.19  Aligned_cols=264  Identities=10%  Similarity=-0.034  Sum_probs=148.8

Q ss_pred             HHHHHHHhCCCHHHHHHHHHhccc--c-Ch----HHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHH
Q 012108          143 SLILAYTNAGEMEKAGEMFKKMLV--K-NV----ITWNTMVTGYLRSQLYIEVVDLFDEMKAG----NV-KPDYLTVTSV  210 (471)
Q Consensus       143 ~l~~~~~~~~~~~~A~~~~~~~~~--~-~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~l  210 (471)
                      .+...+...|++++|.+.|++...  | +.    ..|..+...+...|++++|...+++..+.    +- +.....+..+
T Consensus        53 ~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l  132 (411)
T 4a1s_A           53 LEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAKSSGNL  132 (411)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHHHHHHH
Confidence            344455555666666665555522  1 11    24555555555555555555555554331    10 1112234444


Q ss_pred             HHHHHccCChHHHHHHHHHHHHcC-----CCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 012108          211 LSACANLGSLETGARIHVYATDNG-----LASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGY  285 (471)
Q Consensus       211 ~~~~~~~~~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~  285 (471)
                      ...+...|++++|...++++.+..     .+...                               .++..+...|...|+
T Consensus       133 ~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~-------------------------------~~~~~l~~~~~~~g~  181 (411)
T 4a1s_A          133 GNTLKVMGRFDEAAICCERHLTLARQLGDRLSEG-------------------------------RALYNLGNVYHAKGK  181 (411)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH-------------------------------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHH-------------------------------HHHHHHHHHHHHcCc
Confidence            444555555555555555443320     01112                               244444555555555


Q ss_pred             -----------------hHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC---
Q 012108          286 -----------------GYAALKLLGEMNDS----CVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK---  340 (471)
Q Consensus       286 -----------------~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---  340 (471)
                                       +++|+..+++....    +..+ ...++..+...+...|++++|...+++..+.....++   
T Consensus       182 ~~~~~~~~~~~~~a~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  261 (411)
T 4a1s_A          182 HLGQRNPGKFGDDVKEALTRAVEFYQENLKLMRDLGDRGAQGRACGNLGNTYYLLGDFQAAIEHHQERLRIAREFGDRAA  261 (411)
T ss_dssp             HHHHHSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             ccccccchhhhhhhhHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHhcCCcHH
Confidence                             55555555544321    1111 2235666677777778888887777777652111111   


Q ss_pred             -hhHHHHHHHHHhhcCCHHHHHHHHHhC-C----CC---CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-----
Q 012108          341 -LEHYGCMVDLLGRARLLDRAIELIEAM-P----FE---PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-----  406 (471)
Q Consensus       341 -~~~~~~l~~~~~~~g~~~~A~~~~~~~-~----~~---p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----  406 (471)
                       ...+..+..+|...|++++|.+.+++. .    ..   ....++..+...+...|++++|...++++++..+..     
T Consensus       262 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~  341 (411)
T 4a1s_A          262 ERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQELGDRIG  341 (411)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHH
T ss_pred             HHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCChHH
Confidence             236667777777888888887777765 1    11   114567777788888888888888888887764331     


Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          407 SDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       407 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      ...++..++.+|.+.|++++|.+.+++..+.
T Consensus       342 ~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  372 (411)
T 4a1s_A          342 EARACWSLGNAHSAIGGHERALKYAEQHLQL  372 (411)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHHH
Confidence            1347777888888888888888888887654

>2vq2_A PILW, putative fimbrial biogenesis and twitching motility protein; secretin, TPR repeat, type IV pilus, bacterail virulence; 1.54A {Neisseria meningitidis}

Probab=99.62  E-value=1.2e-13  Score=116.75  Aligned_cols=207  Identities=10%  Similarity=-0.065  Sum_probs=122.4

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHH
Q 012108          169 VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDM  248 (471)
Q Consensus       169 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  248 (471)
                      ...|..+...+...|++++|.+.++++.+.. +.+...+..+...+...|++++|...++.+.+.. +.           
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~-----------   74 (225)
T 2vq2_A            8 SNIKTQLAMEYMRGQDYRQATASIEDALKSD-PKNELAWLVRAEIYQYLKVNDKAQESFRQALSIK-PD-----------   74 (225)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TT-----------
T ss_pred             HHHHHHHHHHHHHHhhHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcCChHHHHHHHHHHHHhC-CC-----------
Confidence            3445555555555555555555555555432 2234444445555555555555555555554432 22           


Q ss_pred             HHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhc-CChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHH
Q 012108          249 YAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALH-GYGYAALKLLGEMNDSCVKAD-DITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       249 ~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                                          +..++..+...+... |++++|...++++...+..|+ ...+..+...+...|++++|..
T Consensus        75 --------------------~~~~~~~l~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~  134 (225)
T 2vq2_A           75 --------------------SAEINNNYGWFLCGRLNRPAESMAYFDKALADPTYPTPYIANLNKGICSAKQGQFGLAEA  134 (225)
T ss_dssp             --------------------CHHHHHHHHHHHHTTTCCHHHHHHHHHHHHTSTTCSCHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             --------------------ChHHHHHHHHHHHHhcCcHHHHHHHHHHHHcCcCCcchHHHHHHHHHHHHHcCCHHHHHH
Confidence                                334455555556666 666666666666665222232 4556666667777777777777


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-C-CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          327 LFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-E-PTESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      .++++.+  ..+.+...+..+..++...|++++|.+.++++ .. + .+...+..+...+...|+.+.|..+++.+.+..
T Consensus       135 ~~~~~~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~  212 (225)
T 2vq2_A          135 YLKRSLA--AQPQFPPAFKELARTKMLAGQLGDADYYFKKYQSRVEVLQADDLLLGWKIAKALGNAQAAYEYEAQLQANF  212 (225)
T ss_dssp             HHHHHHH--HSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHH--hCCCCchHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHhC
Confidence            7777766  23334666677777777777777777777765 22 2 345556666666777788888888888877777


Q ss_pred             CCCCchhH
Q 012108          404 NYLSDGEL  411 (471)
Q Consensus       404 ~~~~~~~~  411 (471)
                      |. ++...
T Consensus       213 p~-~~~~~  219 (225)
T 2vq2_A          213 PY-SEELQ  219 (225)
T ss_dssp             TT-CHHHH
T ss_pred             CC-CHHHH
Confidence            76 55444

>1xnf_A Lipoprotein NLPI; TPR, tetratricopeptide, structural genomi unknown function; 1.98A {Escherichia coli} SCOP: a.118.8.1

Probab=99.61  E-value=2e-14  Score=125.76  Aligned_cols=238  Identities=9%  Similarity=-0.133  Sum_probs=151.1

Q ss_pred             hCCCHHHHHHHHHhcccc-------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHH
Q 012108          150 NAGEMEKAGEMFKKMLVK-------NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLET  222 (471)
Q Consensus       150 ~~~~~~~A~~~~~~~~~~-------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~  222 (471)
                      ..|++++|.+.|+++...       +..+|..+...+...|++++|...|+++.+.. +.+...+..+...+...|++++
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            345667777777666331       34566667777777777777777777776643 2345666667777777777777


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMNDSC  300 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  300 (471)
                      |...++.+.+.. +.+...+..+...|...|++++|...|+++..  |+.......+..+...|++++|...+.+.....
T Consensus        96 A~~~~~~al~~~-~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~  174 (275)
T 1xnf_A           96 AYEAFDSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDDPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKS  174 (275)
T ss_dssp             HHHHHHHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHS
T ss_pred             HHHHHHHHHhcC-ccccHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCChHHHHHHHHHHHhcCHHHHHHHHHHHHhcC
Confidence            777777777664 44566777777777777777777777766543  332233333444456678888888887766542


Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-----ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHh
Q 012108          301 VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-----KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTES  374 (471)
Q Consensus       301 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~  374 (471)
                       +++...+ .++..+...++.++|...++++.+.   .|     +...+..+..+|.+.|++++|...|+++ ...|+..
T Consensus       175 -~~~~~~~-~~~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  249 (275)
T 1xnf_A          175 -DKEQWGW-NIVEFYLGNISEQTLMERLKADATD---NTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVHNF  249 (275)
T ss_dssp             -CCCSTHH-HHHHHHTTSSCHHHHHHHHHHHCCS---HHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCTTC
T ss_pred             -CcchHHH-HHHHHHHHhcCHHHHHHHHHHHhcc---cccccccccHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCchhH
Confidence             3333333 3666667777778888877776641   12     1467777888888888888888888877 4455332


Q ss_pred             HHHHHHHHHhhcCCchHHHHHH
Q 012108          375 ILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                        .....++...|++++|++.+
T Consensus       250 --~~~~~~~~~l~~~~~a~~~~  269 (275)
T 1xnf_A          250 --VEHRYALLELSLLGQDQDDL  269 (275)
T ss_dssp             --HHHHHHHHHHHHHHHC----
T ss_pred             --HHHHHHHHHHHHHHhhHHHH
Confidence              22244566777777776665

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.61  E-value=1.9e-14  Score=133.59  Aligned_cols=269  Identities=9%  Similarity=0.001  Sum_probs=160.6

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHhccc--c-C----hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCCC-H
Q 012108          137 DVVSWNSLILAYTNAGEMEKAGEMFKKMLV--K-N----VITWNTMVTGYLRSQLYIEVVDLFDEMKAG----NVKPD-Y  204 (471)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~~p~-~  204 (471)
                      ....+......+...|++++|...|++...  | +    ...+..+...+...|++++|...+++..+.    +-.|. .
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            344556667778888888888888888732  2 2    246777788888888888888888876442    21121 3


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCC----C-CchhHHHHHHHHHHhcCC--------------------hHHHH
Q 012108          205 LTVTSVLSACANLGSLETGARIHVYATDNGL----A-SNPHATTALIDMYAKCGS--------------------IEQSL  259 (471)
Q Consensus       205 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~----~-~~~~~~~~l~~~~~~~~~--------------------~~~a~  259 (471)
                      ..+..+...+...|++++|...++.+.+...    + ....++..+...|...|+                    +++|+
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            4566667777788888888888877765320    0 113466667777777777                    67766


Q ss_pred             HHHhcCCC-----C----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCcHHHHH
Q 012108          260 EVFYKSQV-----K----DVFCWNAMILGLALHGYGYAALKLLGEMNDSCV-KAD----DITFIGLLSACSHAGLVQEGC  325 (471)
Q Consensus       260 ~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~  325 (471)
                      ..+++...     .    ...++..+...+...|++++|...+++...... .++    ..++..+...+...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            66654322     1    123556666666666777777766666543200 111    124555666666666777776


Q ss_pred             HHHHHhHHhcCCCCC----hhHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCC-CHhHHHHHHHHHhhcCCchHHH
Q 012108          326 ELFSRMEKDFGVTRK----LEHYGCMVDLLGRARLLDRAIELIEAM-------PFEP-TESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       326 ~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      ..+++..+.....++    ..++..+...|...|++++|.+.+++.       +..+ ...++..+...+...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            666666541111111    345556666666666666666666554       1011 1335555666666666666666


Q ss_pred             HHHHHHHHcCCC
Q 012108          394 RVAKMVCAKSNY  405 (471)
Q Consensus       394 ~~~~~~~~~~~~  405 (471)
                      ..++++.+..+.
T Consensus       328 ~~~~~al~~~~~  339 (406)
T 3sf4_A          328 HFAEKHLEISRE  339 (406)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            666666665544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.61  E-value=1.7e-14  Score=130.04  Aligned_cols=153  Identities=14%  Similarity=-0.012  Sum_probs=106.7

Q ss_pred             hHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHhhcCC
Q 012108          286 GYAALKLLGEMNDS----CVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LEHYGCMVDLLGRARL  356 (471)
Q Consensus       286 ~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~  356 (471)
                      +++|...+++....    +..+ ....+..+...+...|++++|.+.++++.+.....++    ..++..+...+...|+
T Consensus       159 ~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  238 (338)
T 3ro2_A          159 LQAAVDLYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGE  238 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCC
Confidence            56666666554321    1111 1345667777788888888888888877652111111    3367778888888899


Q ss_pred             HHHHHHHHHhC-C---CCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-----CchhHHHHHHHHHhcCC
Q 012108          357 LDRAIELIEAM-P---FEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-----SDGELMMFANLYASCGQ  423 (471)
Q Consensus       357 ~~~A~~~~~~~-~---~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~~~l~~~~~~~g~  423 (471)
                      +++|.+.+++. .   ..++    ..++..+...+...|++++|...++++.+..+..     ...++..++.+|.+.|+
T Consensus       239 ~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~  318 (338)
T 3ro2_A          239 FETASEYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGN  318 (338)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhhcchhHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCC
Confidence            98888888776 1   1111    4577788888999999999999999988764431     14477789999999999


Q ss_pred             HHHHHHHHHHhhhCC
Q 012108          424 WEEANRWRNMMNDTG  438 (471)
Q Consensus       424 ~~~A~~~~~~m~~~~  438 (471)
                      +++|.+.+++..+..
T Consensus       319 ~~~A~~~~~~a~~~~  333 (338)
T 3ro2_A          319 HDQAMHFAEKHLEIS  333 (338)
T ss_dssp             HHHHHHHHHHHHHC-
T ss_pred             hHHHHHHHHHHHHHH
Confidence            999999999987654

>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=99.60  E-value=8.8e-12  Score=121.00  Aligned_cols=392  Identities=9%  Similarity=0.009  Sum_probs=248.6

Q ss_pred             CCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCC---HhHHHHHhcccCC-----CCcccH
Q 012108            8 ADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC---IDDAFKVFEKMPE-----KDIIAW   79 (471)
Q Consensus         8 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~-----~~~~~~   79 (471)
                      -|..+|..+++.+...+.++.+..+|+++++. ++.+...|...+..-.+.|+   ++.+..+|++...     |++..|
T Consensus        64 ~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~-fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfeRal~~~~~~~sv~LW  142 (679)
T 4e6h_A           64 TDIFLYVKLLKHHVSLKQWKQVYETFDKLHDR-FPLMANIWCMRLSLEFDKMEELDAAVIEPVLARCLSKELGNNDLSLW  142 (679)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-CTTCHHHHHHHHHHHHTC--CCCHHHHHHHHHHHTCSSSCCCCHHHH
T ss_pred             CCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHH-CCCCHHHHHHHHHHHHhhCCcchHHHHHHHHHHHHHhcCCCCCHHHH
Confidence            45567888888888888888889999988877 46677788888888888888   8889999888653     666677


Q ss_pred             HHHHHHHHcCCCH--------HHHHHHHhcCC------CC-ChhhHHHHHHHHH---------hcCCHHHHHHHHhhcCC
Q 012108           80 NSMLDAFASCGQM--------DHAMKLIDLMP------LK-DVTSFNIMISGYA---------RIGKIHSARYIFDKVPA  135 (471)
Q Consensus        80 ~~li~~~~~~g~~--------~~A~~~~~~~~------~~-~~~~~~~l~~~~~---------~~g~~~~a~~~~~~~~~  135 (471)
                      ...+....+.++.        +...++|+...      .+ +...|...+....         ..++++.+..+|+.++.
T Consensus       143 ~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq~~~~~~R~iy~raL~  222 (679)
T 4e6h_A          143 LSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQQRVQYIRKLYKTLLC  222 (679)
T ss_dssp             HHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHHhHHHHHHHHHHHHHh
Confidence            7777655554432        22335555422      12 3455666555433         23456778888888754


Q ss_pred             CC----hhhHH---HHHHHH----------HhCCCHHHHHHHHHhc------cc---------------c--------Ch
Q 012108          136 KD----VVSWN---SLILAY----------TNAGEMEKAGEMFKKM------LV---------------K--------NV  169 (471)
Q Consensus       136 ~~----~~~~~---~l~~~~----------~~~~~~~~A~~~~~~~------~~---------------~--------~~  169 (471)
                      ..    ..+|.   .+....          -...+++.|...+.++      +.               |        ..
T Consensus       223 iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~~~~~p~~~~~~~~ql  302 (679)
T 4e6h_A          223 QPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQATESNLPKPNEYDVQQL  302 (679)
T ss_dssp             SCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCCTTTSCCTTCCCHHHH
T ss_pred             CccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccchhccCCCCchhHHHHH
Confidence            21    12222   111110          0012234444444442      00               0        01


Q ss_pred             HHHHHHHHHHHhcC-------CHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHH-HHHHHHHHcCCCCchhH
Q 012108          170 ITWNTMVTGYLRSQ-------LYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGA-RIHVYATDNGLASNPHA  241 (471)
Q Consensus       170 ~~~~~l~~~~~~~~-------~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~-~~~~~~~~~~~~~~~~~  241 (471)
                      ..|...+..--..+       ..+.+..+|++.+.. .+-....|...+..+...|+.+.|. .+++...... |.+...
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-VCFAPEIWFNMANYQGEKNTDSTVITKYLKLGQQCI-PNSAVL  380 (679)
T ss_dssp             HHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHH-TTTCHHHHHHHHHHHHHHSCCTTHHHHHHHHHHHHC-TTCHHH
T ss_pred             HHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHH-cCCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHhC-CCCHHH
Confidence            34444444333222       123456677777664 2345566666666677778888886 8888887653 566667


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhcCCC-------------C------------ChhhHHHHHHHHHhcCChHHHHHHHHHH
Q 012108          242 TTALIDMYAKCGSIEQSLEVFYKSQV-------------K------------DVFCWNAMILGLALHGYGYAALKLLGEM  296 (471)
Q Consensus       242 ~~~l~~~~~~~~~~~~a~~~~~~~~~-------------~------------~~~~~~~l~~~~~~~~~~~~a~~~~~~~  296 (471)
                      +..++....+.|++++|.++|+++..             |            ...+|...+....+.|..+.|..+|.+.
T Consensus       381 wl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR~~~l~~AR~vf~~A  460 (679)
T 4e6h_A          381 AFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKRIQGLAASRKIFGKC  460 (679)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77788888888888888888876543             2            1235777777777788888888888888


Q ss_pred             HhC-CCCCCHHHHHHHHHHHhcc-CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC--
Q 012108          297 NDS-CVKADDITFIGLLSACSHA-GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP--  371 (471)
Q Consensus       297 ~~~-~~~p~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p--  371 (471)
                      .+. + .+....|...+..-.+. ++.+.|..+|+...+.  ++.++..+...++.....|+.+.|..+|++. ...|  
T Consensus       461 ~~~~~-~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~--~p~~~~~w~~y~~fe~~~~~~~~AR~lferal~~~~~~  537 (679)
T 4e6h_A          461 RRLKK-LVTPDIYLENAYIEYHISKDTKTACKVLELGLKY--FATDGEYINKYLDFLIYVNEESQVKSLFESSIDKISDS  537 (679)
T ss_dssp             HHTGG-GSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHTTTSSST
T ss_pred             HHhcC-CCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHH--CCCchHHHHHHHHHHHhCCCHHHHHHHHHHHHHhcCCH
Confidence            765 2 11223333322222233 4588888888888873  4456666777788777888888888888876 2223  


Q ss_pred             --CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          372 --TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       372 --~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                        ....|...+..-.+.|+.+.+.++.+++.+..|+
T Consensus       538 ~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~  573 (679)
T 4e6h_A          538 HLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPE  573 (679)
T ss_dssp             THHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence              2457777777777888888888888888888877

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.59  E-value=1.2e-13  Score=112.91  Aligned_cols=168  Identities=10%  Similarity=-0.067  Sum_probs=143.0

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMV  348 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  348 (471)
                      +...|..+...|.+.|++++|+..|++..+.. +-+...+..+..++...|++++|...+..+..  ..+.+...+..+.
T Consensus         4 ~~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~~~~~~   80 (184)
T 3vtx_A            4 TTTIYMDIGDKKRTKGDFDGAIRAYKKVLKAD-PNNVETLLKLGKTYMDIGLPNDAIESLKKFVV--LDTTSAEAYYILG   80 (184)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCCCCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHh--cCchhHHHHHHHH
Confidence            45678888888888888899999898888753 33567788888899999999999999999887  3445677778888


Q ss_pred             HHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHH
Q 012108          349 DLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEE  426 (471)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  426 (471)
                      ..+...++++.|.+.+.+. . .+.+...+..+...+...|++++|++.|+++++.+|. ++.++..++.+|.+.|++++
T Consensus        81 ~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~-~~~~~~~lg~~~~~~g~~~~  159 (184)
T 3vtx_A           81 SANFMIDEKQAAIDALQRAIALNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPG-FIRAYQSIGLAYEGKGLRDE  159 (184)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHhCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcch-hhhHHHHHHHHHHHCCCHHH
Confidence            8888999999999998887 2 2345778888999999999999999999999999999 99999999999999999999


Q ss_pred             HHHHHHHhhhCCCc
Q 012108          427 ANRWRNMMNDTGIV  440 (471)
Q Consensus       427 A~~~~~~m~~~~~~  440 (471)
                      |++.|++..+.++.
T Consensus       160 A~~~~~~al~~~p~  173 (184)
T 3vtx_A          160 AVKYFKKALEKEEK  173 (184)
T ss_dssp             HHHHHHHHHHTTHH
T ss_pred             HHHHHHHHHhCCcc
Confidence            99999999887654

>3sf4_A G-protein-signaling modulator 2; tetratricopeptide repeat, TPR, cell polarity, asymmetric CEL division, mitotic spindle orientation; 2.60A {Homo sapiens}

Probab=99.59  E-value=2.2e-14  Score=133.09  Aligned_cols=286  Identities=10%  Similarity=-0.055  Sum_probs=204.2

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC--C-C----hhhHHHHHHHHHhCCCHHHHHHHHHhccc---------cCh
Q 012108          106 DVTSFNIMISGYARIGKIHSARYIFDKVPA--K-D----VVSWNSLILAYTNAGEMEKAGEMFKKMLV---------KNV  169 (471)
Q Consensus       106 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~----~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---------~~~  169 (471)
                      ....+......+...|++++|...|+++..  | +    ...+..+...+...|++++|...|++...         ...
T Consensus         8 ~~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~   87 (406)
T 3sf4_A            8 SCLELALEGERLCKSGDCRAGVSFFEAAVQVGTEDLKTLSAIYSQLGNAYFYLHDYAKALEYHHHDLTLARTIGDQLGEA   87 (406)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHHHhccHHHHHHHHHHHHhcCcccHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhccccHHHH
Confidence            344566778888999999999999988833  2 2    24677888889999999999999888621         134


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHccCC--------------------hHHHH
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV-KPD----YLTVTSVLSACANLGS--------------------LETGA  224 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~l~~~~~~~~~--------------------~~~a~  224 (471)
                      .++..+...+...|++++|...+++..+... .++    ..++..+...+...|+                    +++|.
T Consensus        88 ~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~~~~a~~~~~~A~  167 (406)
T 3sf4_A           88 KASGNLGNTLKVLGNFDEAIVCCQRHLDISRELNDKVGEARALYNLGNVYHAKGKSFGCPGPQDVGEFPEEVRDALQAAV  167 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHTCC-------CCCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcccccchHHHHHHHHHHHHHcCCcccccccchhhhhhhhHHHHHHHHH
Confidence            5678888899999999999999988765311 112    2366777788888898                    89998


Q ss_pred             HHHHHHHHc----CC-CCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-----CC----hhhHHHHHHHHHhcCChHHHH
Q 012108          225 RIHVYATDN----GL-ASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-----KD----VFCWNAMILGLALHGYGYAAL  290 (471)
Q Consensus       225 ~~~~~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~  290 (471)
                      ..++...+.    +. +....++..+...|...|++++|+..+++...     ++    ..++..+...+...|++++|.
T Consensus       168 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  247 (406)
T 3sf4_A          168 DFYEENLSLVTALGDRAAQGRAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETAS  247 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTBHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHH
Confidence            888876543    11 12245677888899999999999998877553     11    237888888999999999999


Q ss_pred             HHHHHHHhC----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHhhcCCHHHHH
Q 012108          291 KLLGEMNDS----CVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LEHYGCMVDLLGRARLLDRAI  361 (471)
Q Consensus       291 ~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~  361 (471)
                      ..+++....    +..+. ..++..+...+...|++++|...++++.+.....++    ..++..+..+|...|++++|.
T Consensus       248 ~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~  327 (406)
T 3sf4_A          248 EYYKKTLLLARQLKDRAVEAQSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELNDRIGEGRACWSLGNAYTALGNHDQAM  327 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHHHhCcCchHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            999887643    11111 456777888889999999999999888762211122    557778888899999999999


Q ss_pred             HHHHhC-------CCCC-CHhHHHHHHHHHhhcCCchH
Q 012108          362 ELIEAM-------PFEP-TESILGALLSACVIHQDLEI  391 (471)
Q Consensus       362 ~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~  391 (471)
                      +.+++.       +..+ ...++..+...+...|+...
T Consensus       328 ~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  365 (406)
T 3sf4_A          328 HFAEKHLEISREVGDKSGELTARLNLSDLQMVLGLSYS  365 (406)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHHHHHHHHHHhcCCcchhHHHHHHHHHHHHhhHhHH
Confidence            888765       1111 12344445555555555443

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.58  E-value=4.3e-14  Score=133.46  Aligned_cols=209  Identities=6%  Similarity=-0.098  Sum_probs=167.6

Q ss_pred             hHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh-HHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHH
Q 012108          220 LETGARIHVYATDNGLASNPHATTALIDMYAKCGSI-EQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGE  295 (471)
Q Consensus       220 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~  295 (471)
                      ++++...++...... +.+...+..+...|...|++ ++|++.|++...   .+..+|..+...|...|++++|...|++
T Consensus        84 ~~~al~~l~~~~~~~-~~~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~  162 (474)
T 4abn_A           84 MEKTLQQMEEVLGSA-QVEAQALMLKGKALNVTPDYSPEAEVLLSKAVKLEPELVEAWNQLGEVYWKKGDVTSAHTCFSG  162 (474)
T ss_dssp             HHHHHHHHHHHHTTC-CCCHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccC-chhHHHHHHHHHHHHhccccHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHH
Confidence            344445555444332 44566667777777777777 777777766443   3466788888888888888899999988


Q ss_pred             HHhCCCCCCHHHHHHHHHHHhcc---------CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc--------CCHH
Q 012108          296 MNDSCVKADDITFIGLLSACSHA---------GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA--------RLLD  358 (471)
Q Consensus       296 ~~~~~~~p~~~~~~~l~~~~~~~---------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--------g~~~  358 (471)
                      ..+.  .|+...+..+...+...         |++++|.+.++++.+  -.+.+...|..+..+|...        |+++
T Consensus       163 al~~--~p~~~~~~~lg~~~~~~~~~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~~~~~~~~~g~~~  238 (474)
T 4abn_A          163 ALTH--CKNKVSLQNLSMVLRQLQTDSGDEHSRHVMDSVRQAKLAVQ--MDVLDGRSWYILGNAYLSLYFNTGQNPKISQ  238 (474)
T ss_dssp             HHTT--CCCHHHHHHHHHHHTTCCCSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHTTCCHHHHH
T ss_pred             HHhh--CCCHHHHHHHHHHHHHhccCChhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHHHhhccccchHH
Confidence            8875  57778888888899998         999999999999988  3455688899999999888        9999


Q ss_pred             HHHHHHHhC-CCCC----CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHH
Q 012108          359 RAIELIEAM-PFEP----TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNM  433 (471)
Q Consensus       359 ~A~~~~~~~-~~~p----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~  433 (471)
                      +|.+.|++. ...|    +...|..+..+|...|++++|...|+++.+..|. ++..+..+..++...|++++|.+.+++
T Consensus       239 ~A~~~~~~al~~~p~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~a~~~l~~~~~~lg~~~eAi~~~~~  317 (474)
T 4abn_A          239 QALSAYAQAEKVDRKASSNPDLHLNRATLHKYEESYGEALEGFSQAAALDPA-WPEPQQREQQLLEFLSRLTSLLESKGK  317 (474)
T ss_dssp             HHHHHHHHHHHHCGGGGGCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHHhCCCcccCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHhcc
Confidence            999999987 3345    6788999999999999999999999999999999 899999999999999999999875544


Q ss_pred             h
Q 012108          434 M  434 (471)
Q Consensus       434 m  434 (471)
                      +
T Consensus       318 ~  318 (474)
T 4abn_A          318 T  318 (474)
T ss_dssp             C
T ss_pred             c
Confidence            4

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.56  E-value=8.3e-13  Score=121.54  Aligned_cols=159  Identities=9%  Similarity=-0.019  Sum_probs=84.3

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHccCChHHHHHHHHHHHHcCC------CCchhHHH
Q 012108          175 MVTGYLRSQLYIEVVDLFDEMKAGNV-KPD----YLTVTSVLSACANLGSLETGARIHVYATDNGL------ASNPHATT  243 (471)
Q Consensus       175 l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~------~~~~~~~~  243 (471)
                      ....+...|++++|...|++..+.-. .++    ..++..+...+...|+++.|...+++..+...      +....++.
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            44556677777777777777655310 122    24556666667777777777777766654310      11123455


Q ss_pred             HHHHHHHhcCChHHHHHHHhcCCC-----CC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC-CCCHHHHH
Q 012108          244 ALIDMYAKCGSIEQSLEVFYKSQV-----KD----VFCWNAMILGLALHGYGYAALKLLGEMNDS----CV-KADDITFI  309 (471)
Q Consensus       244 ~l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~-~p~~~~~~  309 (471)
                      .+...|...|++++|++.|++...     ++    ..++..+...|...|++++|+..+++....    +. +....++.
T Consensus       189 ~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~  268 (383)
T 3ulq_A          189 LFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNILPSLPQAYF  268 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGHHHHHH
T ss_pred             HHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhccchhHHHHHH
Confidence            556666666666666665544322     01    124445555555555555555555554431    11 22233455


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHH
Q 012108          310 GLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       310 ~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      .+...+...|++++|...+++..+
T Consensus       269 ~l~~~~~~~g~~~~A~~~~~~al~  292 (383)
T 3ulq_A          269 LITQIHYKLGKIDKAHEYHSKGMA  292 (383)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH
Confidence            555555555555555555555543

>3ulq_A Response regulator aspartate phosphatase F; tetratricopeptide repeat, response regulator helix-turn-HELX binding, 3-helix bundle; 2.30A {Bacillus subtilis}

Probab=99.55  E-value=2.4e-13  Score=125.14  Aligned_cols=286  Identities=9%  Similarity=-0.047  Sum_probs=199.8

Q ss_pred             HHhCCCHHHHHHHHHhcc--------ccChHHHHHHHHH--HHhcCCHHHHH-----------HHHHHHHhCCCCCCHHH
Q 012108          148 YTNAGEMEKAGEMFKKML--------VKNVITWNTMVTG--YLRSQLYIEVV-----------DLFDEMKAGNVKPDYLT  206 (471)
Q Consensus       148 ~~~~~~~~~A~~~~~~~~--------~~~~~~~~~l~~~--~~~~~~~~~a~-----------~~~~~m~~~g~~p~~~~  206 (471)
                      +.+.+++++|..+++++.        .++...|..++..  ....++.+.+.           +.++.+....  .+...
T Consensus        22 ~i~~~~~~~A~~l~~~i~~~~~~~~~~~~~~~y~~ll~~r~~~~~~~~~~~~~~~~e~~~~~~~~~~~i~~~~--~~~~~   99 (383)
T 3ulq_A           22 YIRRFSIPDAEYLRREIKQELDQMEEDQDLHLYYSLMEFRHNLMLEYLEPLEKMRIEEQPRLSDLLLEIDKKQ--ARLTG   99 (383)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSCGGGSCCHHHHHHHHHHHT--HHHHH
T ss_pred             HHHHcCHHHHHHHHHHHHHHHHhhccchHHHHHHHHHHHHHHHHHhhcCcccccccccccchhhHHHHHHhcC--CCchh
Confidence            456788888888877761        1233333333322  11223333333           5555554321  11111


Q ss_pred             ------HHHHHHHHHccCChHHHHHHHHHHHHc----CCCC-chhHHHHHHHHHHhcCChHHHHHHHhcCCC-----C--
Q 012108          207 ------VTSVLSACANLGSLETGARIHVYATDN----GLAS-NPHATTALIDMYAKCGSIEQSLEVFYKSQV-----K--  268 (471)
Q Consensus       207 ------~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~--  268 (471)
                            +......+...|++++|...++.+.+.    +-++ ...++..+...|...|++++|+..+++...     +  
T Consensus       100 ~l~~~~~~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~  179 (383)
T 3ulq_A          100 LLEYYFNFFRGMYELDQREYLSAIKFFKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIYKEHEAY  179 (383)
T ss_dssp             HHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTCSTT
T ss_pred             HHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCccc
Confidence                  122455677899999999999999764    2112 356788999999999999999988876543     1  


Q ss_pred             ---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHh---cCC
Q 012108          269 ---DVFCWNAMILGLALHGYGYAALKLLGEMNDS----CVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKD---FGV  337 (471)
Q Consensus       269 ---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~  337 (471)
                         ...+++.+...|...|++++|+..+++....    +-.+ ...++..+...|...|++++|...+++..+-   .+.
T Consensus       180 ~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~  259 (383)
T 3ulq_A          180 NIRLLQCHSLFATNFLDLKQYEDAISHFQKAYSMAEAEKQPQLMGRTLYNIGLCKNSQSQYEDAIPYFKRAIAVFEESNI  259 (383)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcc
Confidence               2357888899999999999999999987643    1111 1246888899999999999999999988761   133


Q ss_pred             -CCChhHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCCHhHHHHHHHHHhhcCC---chHHHHHHHHHHHcCCCC
Q 012108          338 -TRKLEHYGCMVDLLGRARLLDRAIELIEAM-------PFEPTESILGALLSACVIHQD---LEIGDRVAKMVCAKSNYL  406 (471)
Q Consensus       338 -~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~  406 (471)
                       +....++..+..+|.+.|++++|.+.+++.       +.+.....+..+...+...|+   +++|..++++.. ..+. 
T Consensus       260 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~al~~~~~~~-~~~~-  337 (383)
T 3ulq_A          260 LPSLPQAYFLITQIHYKLGKIDKAHEYHSKGMAYSQKAGDVIYLSEFEFLKSLYLSGPDEEAIQGFFDFLESKM-LYAD-  337 (383)
T ss_dssp             GGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTSSCCHHHHHHHHHHHHHTT-CHHH-
T ss_pred             chhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHCc-CHHH-
Confidence             334677889999999999999999999886       111223345677788888998   777777777651 1122 


Q ss_pred             CchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          407 SDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       407 ~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      ....+..++..|.+.|++++|.+.+++..+.
T Consensus       338 ~~~~~~~la~~y~~~g~~~~A~~~~~~al~~  368 (383)
T 3ulq_A          338 LEDFAIDVAKYYHERKNFQKASAYFLKVEQV  368 (383)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            3557778999999999999999999998763

>4a1s_A PINS, partner of inscuteable; cell cycle, LGN, mitotic spindle orientation, asymmetric CEL divisions; 2.10A {Drosophila melanogaster}

Probab=99.55  E-value=1.7e-13  Score=127.43  Aligned_cols=268  Identities=13%  Similarity=-0.013  Sum_probs=176.8

Q ss_pred             hhhHHHHHHHHHhcCCHHHHHHHHhhcCC--C-Ch----hhHHHHHHHHHhCCCHHHHHHHHHhccc---------cChH
Q 012108          107 VTSFNIMISGYARIGKIHSARYIFDKVPA--K-DV----VSWNSLILAYTNAGEMEKAGEMFKKMLV---------KNVI  170 (471)
Q Consensus       107 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--~-~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~---------~~~~  170 (471)
                      ...+..+...+...|++++|...|+++..  | +.    ..+..+...|...|++++|.+.|++...         ....
T Consensus        48 ~~~l~~~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  127 (411)
T 4a1s_A           48 CLELALEGERLCNAGDCRAGVAFFQAAIQAGTEDLRTLSAIYSQLGNAYFYLGDYNKAMQYHKHDLTLAKSMNDRLGEAK  127 (411)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHHhcccChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHccCchHHHH
Confidence            34566778889999999999999999843  3 22    4678888999999999999999998732         1446


Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhC----CC-CCCHHHHHHHHHHHHccCC-----------------hHHHHHHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAG----NV-KPDYLTVTSVLSACANLGS-----------------LETGARIHV  228 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~-~p~~~~~~~l~~~~~~~~~-----------------~~~a~~~~~  228 (471)
                      ++..+...+...|++++|...+++..+.    +- .....++..+...+...|+                 +++|...++
T Consensus       128 ~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~~~~~~~~~~~a~~~~~~A~~~~~  207 (411)
T 4a1s_A          128 SSGNLGNTLKVMGRFDEAAICCERHLTLARQLGDRLSEGRALYNLGNVYHAKGKHLGQRNPGKFGDDVKEALTRAVEFYQ  207 (411)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHhhchHHHHHHHHHHHHHHHHcCcccccccchhhhhhhhHHHHHHHHHHH
Confidence            7888999999999999999999998653    11 1223467777788888888                 777777776


Q ss_pred             HHHHc----CC-CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC----
Q 012108          229 YATDN----GL-ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDS----  299 (471)
Q Consensus       229 ~~~~~----~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  299 (471)
                      +..+.    +. +....++..+...|..                               .|++++|...+++....    
T Consensus       208 ~al~~~~~~~~~~~~~~~~~~la~~~~~-------------------------------~g~~~~A~~~~~~al~~~~~~  256 (411)
T 4a1s_A          208 ENLKLMRDLGDRGAQGRACGNLGNTYYL-------------------------------LGDFQAAIEHHQERLRIAREF  256 (411)
T ss_dssp             HHHHHHHHHTCHHHHHHHHHHHHHHHHH-------------------------------TTCHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHH-------------------------------cCChHHHHHHHHHHHHHHHhc
Confidence            65432    10 0112234444444444                               44555554444444321    


Q ss_pred             CC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC----ChhHHHHHHHHHhhcCCHHHHHHHHHhC-------
Q 012108          300 CV-KADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR----KLEHYGCMVDLLGRARLLDRAIELIEAM-------  367 (471)
Q Consensus       300 ~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------  367 (471)
                      +. ......+..+...+...|++++|...++++.+......    ...++..+..+|...|++++|.+.+++.       
T Consensus       257 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~  336 (411)
T 4a1s_A          257 GDRAAERRANSNLGNSHIFLGQFEDAAEHYKRTLALAVELGEREVEAQSCYSLGNTYTLLHEFNTAIEYHNRHLAIAQEL  336 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CCcHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHC
Confidence            00 00112556666667777777777777766655211111    1455666777777777777777777665       


Q ss_pred             CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          368 PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       368 ~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +..+ ...++..+...+...|++++|...++++.+....
T Consensus       337 ~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~  375 (411)
T 4a1s_A          337 GDRIGEARACWSLGNAHSAIGGHERALKYAEQHLQLAXX  375 (411)
T ss_dssp             TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCH
T ss_pred             CChHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHhh
Confidence            1111 1346777788888888888888888888877654

>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=99.54  E-value=2.2e-11  Score=118.22  Aligned_cols=413  Identities=10%  Similarity=0.037  Sum_probs=283.2

Q ss_pred             hHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHHcCCC---HHHHHHHHh
Q 012108           27 CIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFASCGQ---MDHAMKLID  100 (471)
Q Consensus        27 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~---~~~A~~~~~  100 (471)
                      .+....+++.++.+ +.|...|..++..+.+.++++.+..+|+++..  | ....|...+..-.+.|+   ++.+..+|+
T Consensus        49 ~d~i~~lE~~l~~n-p~d~~~W~~yi~~~~~~~~~~~aR~vyEraL~~fP~~~~lW~~Yi~~E~~~~~~~~~~~v~~lfe  127 (679)
T 4e6h_A           49 SDVIGKLNDMIEEQ-PTDIFLYVKLLKHHVSLKQWKQVYETFDKLHDRFPLMANIWCMRLSLEFDKMEELDAAVIEPVLA  127 (679)
T ss_dssp             SCHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTC--CCCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHC-cCCHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHhhCCcchHHHHHHHHH
Confidence            34455667777766 46999999999999999999999999999875  3 55678888888888898   999999999


Q ss_pred             cCCC-----CChhhHHHHHHHHHhcCCH--------HHHHHHHhhcC------CC-ChhhHHHHHHHHH---------hC
Q 012108          101 LMPL-----KDVTSFNIMISGYARIGKI--------HSARYIFDKVP------AK-DVVSWNSLILAYT---------NA  151 (471)
Q Consensus       101 ~~~~-----~~~~~~~~l~~~~~~~g~~--------~~a~~~~~~~~------~~-~~~~~~~l~~~~~---------~~  151 (471)
                      +...     +++..|..-+.-..+.++.        +...++|+.+.      .+ +...|...+....         ..
T Consensus       128 Ral~~~~~~~sv~LW~~Yl~f~~~~~~~~~~~~~~r~~vr~~FErAl~~vG~~d~~s~~iW~~Yi~f~~~~~~~~~~eeq  207 (679)
T 4e6h_A          128 RCLSKELGNNDLSLWLSYITYVRKKNDIITGGEEARNIVIQAFQVVVDKCAIFEPKSIQFWNEYLHFLEHWKPVNKFEEQ  207 (679)
T ss_dssp             HHTCSSSCCCCHHHHHHHHHHHHHHSCSTTTHHHHHHHHHHHHHHHHHHTTTTCSSCHHHHHHHHHHHHTCCCCSHHHHH
T ss_pred             HHHHhcCCCCCHHHHHHHHHHHHHhcccccccchhHHHHHHHHHHHHHHhCcccccchHHHHHHHHHHHhccccCcHHHH
Confidence            9864     4566666666655554443        33446777642      23 3457777776543         23


Q ss_pred             CCHHHHHHHHHhccc-c--Ch-HHH---HHHHHHH----------HhcCCHHHHHHHHHHHHh--CCCC-----------
Q 012108          152 GEMEKAGEMFKKMLV-K--NV-ITW---NTMVTGY----------LRSQLYIEVVDLFDEMKA--GNVK-----------  201 (471)
Q Consensus       152 ~~~~~A~~~~~~~~~-~--~~-~~~---~~l~~~~----------~~~~~~~~a~~~~~~m~~--~g~~-----------  201 (471)
                      ++++.+..+|++.+. |  +. .+|   ..+....          -...+++.|...+.++..  .++.           
T Consensus       208 ~~~~~~R~iy~raL~iP~~~~~~~w~~Y~~fe~~~~~~~a~~~~~e~~~~y~~Ar~~~~e~~~~~~~l~r~~p~~~~~~~  287 (679)
T 4e6h_A          208 QRVQYIRKLYKTLLCQPMDCLESMWQRYTQWEQDVNQLTARRHIGELSAQYMNARSLYQDWLNITKGLKRNLPITLNQAT  287 (679)
T ss_dssp             HHHHHHHHHHHHHTTSCCSSHHHHHHHHHHHHHHHCTTTHHHHHHHHHHHHHHHHHHHHHHHHHTTTCCCCCCSSSTTCC
T ss_pred             hHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHhcCcchHHHHHHHhhHHHHHHHHHHHHHHHHHHhHhhccccccccch
Confidence            457889999999843 2  11 223   2222211          011234445555555322  1111           


Q ss_pred             ----C-----CH---HHHHHHHHHHHccC-------ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH-HH
Q 012108          202 ----P-----DY---LTVTSVLSACANLG-------SLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSL-EV  261 (471)
Q Consensus       202 ----p-----~~---~~~~~l~~~~~~~~-------~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~-~~  261 (471)
                          |     +.   ..|...+..--..+       ..+.+..+|++++... +.....|...+..+...|+.++|. ++
T Consensus       288 ~~~~p~~~~~~~~ql~lW~~yi~fEk~~~~~l~~~~~~~Rv~~~Ye~aL~~~-p~~~~lW~~ya~~~~~~~~~~~a~r~i  366 (679)
T 4e6h_A          288 ESNLPKPNEYDVQQLLIWLEWIRWESDNKLELSDDLHKARMTYVYMQAAQHV-CFAPEIWFNMANYQGEKNTDSTVITKY  366 (679)
T ss_dssp             TTTSCCTTCCCHHHHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHHSCCTTHHHHH
T ss_pred             hccCCCCchhHHHHHHHHHHHHHHHHhCCccccchhhHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHhcCcHHHHHHHH
Confidence                1     01   22333333222211       1234567788888764 678889999999999999999996 99


Q ss_pred             HhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC---------CCC------------HHHHHHHHHHHhc
Q 012108          262 FYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCV---------KAD------------DITFIGLLSACSH  317 (471)
Q Consensus       262 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---------~p~------------~~~~~~l~~~~~~  317 (471)
                      |++...   .+...|...+....+.|++++|..+|+++.....         .|+            ...|...+....+
T Consensus       367 l~rAi~~~P~s~~Lwl~~a~~ee~~~~~e~aR~iyek~l~~l~~~~~~~~~~~p~~~~~~~~~~~~~~~vWi~y~~~erR  446 (679)
T 4e6h_A          367 LKLGQQCIPNSAVLAFSLSEQYELNTKIPEIETTILSCIDRIHLDLAALMEDDPTNESAINQLKSKLTYVYCVYMNTMKR  446 (679)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHhhhhhhccCcchhhhhhhccchHHHHHHHHHHHHH
Confidence            987654   3556677888888999999999999999876310         132            2357777777788


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc-CCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHH
Q 012108          318 AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA-RLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDR  394 (471)
Q Consensus       318 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~  394 (471)
                      .|+.+.|..+|.++.+.. ..+....|...+..-.+. ++.+.|.++|+..  ..+.+...|...+......|+.+.|..
T Consensus       447 ~~~l~~AR~vf~~A~~~~-~~~~~~lyi~~A~lE~~~~~d~e~Ar~ife~~Lk~~p~~~~~w~~y~~fe~~~~~~~~AR~  525 (679)
T 4e6h_A          447 IQGLAASRKIFGKCRRLK-KLVTPDIYLENAYIEYHISKDTKTACKVLELGLKYFATDGEYINKYLDFLIYVNEESQVKS  525 (679)
T ss_dssp             HHCHHHHHHHHHHHHHTG-GGSCTHHHHHHHHHHHTTTSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHhc-CCCChHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHhCCCHHHHHH
Confidence            899999999999998831 112334444433333344 4589999999987  333456677788888888999999999


Q ss_pred             HHHHHHHcCCCC--CchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          395 VAKMVCAKSNYL--SDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       395 ~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      +|++++...+.+  ....|..++..-.+.|+.+.+..+.+++.+.-+..+
T Consensus       526 lferal~~~~~~~~~~~lw~~~~~fE~~~G~~~~~~~v~~R~~~~~P~~~  575 (679)
T 4e6h_A          526 LFESSIDKISDSHLLKMIFQKVIFFESKVGSLNSVRTLEKRFFEKFPEVN  575 (679)
T ss_dssp             HHHHHTTTSSSTTHHHHHHHHHHHHHHHTCCSHHHHHHHHHHHHHSTTCC
T ss_pred             HHHHHHHhcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCc
Confidence            999999987732  456788888888899999999999999988776544

>3ro2_A PINS homolog, G-protein-signaling modulator 2; TPR repeat, protein-protein interaction, protein-binding, PR binding; 2.30A {Mus musculus}

Probab=99.52  E-value=2.4e-13  Score=122.39  Aligned_cols=135  Identities=11%  Similarity=-0.076  Sum_probs=90.6

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----h
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDS----CVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----L  341 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~  341 (471)
                      .++..+...+...|++++|...+++....    +..+ ...++..+...+...|++++|...+++..+.....++    .
T Consensus       184 ~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  263 (338)
T 3ro2_A          184 RAFGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERRAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEA  263 (338)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhhcchhHHH
Confidence            35566666777777777777777766532    1011 1235667777788888888888888877652111111    5


Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          342 EHYGCMVDLLGRARLLDRAIELIEAM-------PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       342 ~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .++..+...|...|++++|...+++.       +..+ ...++..+...+...|++++|...++++.+..+.
T Consensus       264 ~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~~~  335 (338)
T 3ro2_A          264 QSCYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEISRE  335 (338)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHC---
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHhcCCcHHHHHHHHHHHHHHHHcCChHHHHHHHHHHHHHHHh
Confidence            56777788888888888888888776       1111 1346777888899999999999999998887654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.52  E-value=1.2e-13  Score=123.06  Aligned_cols=243  Identities=12%  Similarity=0.006  Sum_probs=121.1

Q ss_pred             hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-------CCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc------C-
Q 012108          169 VITWNTMVTGYLRSQLYIEVVDLFDEMKAG-------NVKPDYLTVTSVLSACANLGSLETGARIHVYATDN------G-  234 (471)
Q Consensus       169 ~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-------g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~-  234 (471)
                      ..++..+...+...|++++|..+++++.+.       ..+.....+..+...+...|++++|...++.+.+.      + 
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            345556666666666666666666666542       11223345556666667777777777777766543      1 


Q ss_pred             CCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-----------CChhhHHHHHHHHHhcCChHHHHHHHHHHHhC----
Q 012108          235 LASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-----------KDVFCWNAMILGLALHGYGYAALKLLGEMNDS----  299 (471)
Q Consensus       235 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  299 (471)
                      .+....++..+...|...|++++|+..+++...           ....++..+...+...|++++|+..++++...    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence            122345566677777777777777776654321           01223444444445555555555555444332    


Q ss_pred             --CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhc------CCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 012108          300 --CVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDF------GVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFE  370 (471)
Q Consensus       300 --~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  370 (471)
                        +..|. ..++..+...+...|++++|...++++.+..      ...+......                         
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~-------------------------  241 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRAHEREFGSVDDENKPIW-------------------------  241 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHHHC------CCHH-------------------------
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCCcchHHHH-------------------------
Confidence              11111 1233444444444455555554444444310      0000000000                         


Q ss_pred             CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          371 PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       371 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      .....+..+...+...+.+.++...++......|. ...++..++.+|.+.|++++|.+++++..+.
T Consensus       242 ~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l  307 (311)
T 3nf1_A          242 MHAEEREECKGKQKDGTSFGEYGGWYKACKVDSPT-VTTTLKNLGALYRRQGKFEAAETLEEAAMRS  307 (311)
T ss_dssp             HHHHHHHHC-------CCSCCCC---------CHH-HHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhcCchhhHHHHHHHHHHHhhcCCCCch-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
Confidence            01112222233344556677777777777776666 7778888888888888888888888887654

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.51  E-value=6.2e-12  Score=111.81  Aligned_cols=233  Identities=12%  Similarity=-0.012  Sum_probs=137.1

Q ss_pred             hHHHHHHHHHHHhc----CCH----HHHHHHHHHHHhCCCCCCHHHHHHHHHHHH-------ccCCh-------HHHHHH
Q 012108          169 VITWNTMVTGYLRS----QLY----IEVVDLFDEMKAGNVKPDYLTVTSVLSACA-------NLGSL-------ETGARI  226 (471)
Q Consensus       169 ~~~~~~l~~~~~~~----~~~----~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~-------~~~~~-------~~a~~~  226 (471)
                      ...|...+....+.    ++.    ++|...|++.++.. +-+...|..++..+.       +.|++       ++|..+
T Consensus         8 ~~~W~~yi~~E~~~~~~~~~~~~~~~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~   86 (308)
T 2ond_A            8 VDMWKKYIQWEKSNPLRTEDQTLITKRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANI   86 (308)
T ss_dssp             HHHHHHHHHHHHTCTTCCCCHHHHHHHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCcccCCchHHHHHHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHH
Confidence            34566666554443    233    56667777776642 334455555555544       23665       677777


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-Chh-hHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 012108          227 HVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-DVF-CWNAMILGLALHGYGYAALKLLGEMNDSCVK  302 (471)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  302 (471)
                      |++.++.-.+.+...|..++..+.+.|++++|.++|+++..  | +.. .|..++..+.+.|++++|..+|++..+.+ +
T Consensus        87 ~~rAl~~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~-p  165 (308)
T 2ond_A           87 YERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKAREDA-R  165 (308)
T ss_dssp             HHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHTST-T
T ss_pred             HHHHHHHhCcccHHHHHHHHHHHHhcCCHHHHHHHHHHHHhccccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            77776631144555667777777777777777777766443  2 233 66666666667777777777777766642 2


Q ss_pred             CCHHHHHHHHHHH-hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C---CCC--CHhH
Q 012108          303 ADDITFIGLLSAC-SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P---FEP--TESI  375 (471)
Q Consensus       303 p~~~~~~~l~~~~-~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~---~~p--~~~~  375 (471)
                      ++...|....... ...|+.++|..+|+++.+.  .+.++..|..++..+.+.|++++|..+|++. .   ++|  ....
T Consensus       166 ~~~~~~~~~a~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l  243 (308)
T 2ond_A          166 TRHHVYVTAALMEYYCSKDKSVAFKIFELGLKK--YGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEI  243 (308)
T ss_dssp             CCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHHH--HTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHH
T ss_pred             CCHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh--CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHH
Confidence            2333333322221 1256777777777776652  2335566666666666667777777776665 1   233  2445


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          376 LGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       376 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      |..++......|+.+.|..+++++.+..|+
T Consensus       244 ~~~~~~~~~~~g~~~~a~~~~~~a~~~~p~  273 (308)
T 2ond_A          244 WARFLAFESNIGDLASILKVEKRRFTAFRE  273 (308)
T ss_dssp             HHHHHHHHHHHSCHHHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHccc
Confidence            666666666667777777777777666665

>2ond_A Cleavage stimulation factor 77 kDa subunit; HAT domain, structural protein; 2.80A {Mus musculus} SCOP: a.118.8.7

Probab=99.50  E-value=1.5e-11  Score=109.38  Aligned_cols=215  Identities=7%  Similarity=-0.030  Sum_probs=128.4

Q ss_pred             HHHHHHHHHHHHcCCCCchhHHHHHHHHHHh-------cCCh-------HHHHHHHhcCCC---C-ChhhHHHHHHHHHh
Q 012108          221 ETGARIHVYATDNGLASNPHATTALIDMYAK-------CGSI-------EQSLEVFYKSQV---K-DVFCWNAMILGLAL  282 (471)
Q Consensus       221 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~-------~~~~-------~~a~~~~~~~~~---~-~~~~~~~l~~~~~~  282 (471)
                      ++|..+|+++++.. +.++..|..++..+..       .|++       ++|..+|++...   | +...|..++..+.+
T Consensus        33 ~~a~~~~~~al~~~-p~~~~~w~~~~~~~~~~~~~l~~~g~~~~~~~~~~~A~~~~~rAl~~~~p~~~~~~~~~~~~~~~  111 (308)
T 2ond_A           33 KRVMFAYEQCLLVL-GHHPDIWYEAAQYLEQSSKLLAEKGDMNNAKLFSDEAANIYERAISTLLKKNMLLYFAYADYEES  111 (308)
T ss_dssp             HHHHHHHHHHHHHH-TTCHHHHHHHHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc-CCCHHHHHHHHHHHHHhchhhhhccchhhcccchHHHHHHHHHHHHHhCcccHHHHHHHHHHHHh
Confidence            45666666666653 5556666666665542       4664       667766665433   2 34566666667777


Q ss_pred             cCChHHHHHHHHHHHhCCCCCC-HH-HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHh-hcCCHHH
Q 012108          283 HGYGYAALKLLGEMNDSCVKAD-DI-TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLG-RARLLDR  359 (471)
Q Consensus       283 ~~~~~~a~~~~~~~~~~~~~p~-~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~  359 (471)
                      .|++++|..+|+++.+.  .|+ .. .|..++..+.+.|++++|..+|+++.+  ..+++...|........ ..|++++
T Consensus       112 ~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~A~~~~~~a~~--~~p~~~~~~~~~a~~~~~~~~~~~~  187 (308)
T 2ond_A          112 RMKYEKVHSIYNRLLAI--EDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE--DARTRHHVYVTAALMEYYCSKDKSV  187 (308)
T ss_dssp             TTCHHHHHHHHHHHHTS--SSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT--STTCCTHHHHHHHHHHHHTSCCHHH
T ss_pred             cCCHHHHHHHHHHHHhc--cccCccHHHHHHHHHHHHhcCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHHHHcCCHHH
Confidence            77777777777776663  333 22 566666666667777777777777665  22333444443333322 2567777


Q ss_pred             HHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC-CC--CchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          360 AIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSN-YL--SDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       360 A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~-~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      |.++|++. . .+.+...|..++..+.+.|++++|..+|+++++..+ .|  ....|..++..+.+.|+.++|..+++++
T Consensus       188 A~~~~~~al~~~p~~~~~~~~~~~~~~~~g~~~~A~~~~~~al~~~~l~p~~~~~l~~~~~~~~~~~g~~~~a~~~~~~a  267 (308)
T 2ond_A          188 AFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLASILKVEKRR  267 (308)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            77777665 1 123455666666666667777777777777766521 11  3456666666666677777777777776


Q ss_pred             hhCCCc
Q 012108          435 NDTGIV  440 (471)
Q Consensus       435 ~~~~~~  440 (471)
                      .+..+.
T Consensus       268 ~~~~p~  273 (308)
T 2ond_A          268 FTAFRE  273 (308)
T ss_dssp             HHHTTT
T ss_pred             HHHccc
Confidence            665554

>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=99.47  E-value=1.8e-12  Score=105.77  Aligned_cols=164  Identities=17%  Similarity=0.030  Sum_probs=110.3

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHh
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLG  352 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~  352 (471)
                      +..+...+...|++++|...++++.... +.+...+..+...+...|++++|...++++.+  ..+.+...+..+...+.
T Consensus        11 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~   87 (186)
T 3as5_A           11 YRDKGISHAKAGRYSQAVMLLEQVYDAD-AFDVDVALHLGIAYVKTGAVDRGTELLERSLA--DAPDNVKVATVLGLTYV   87 (186)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHTTTCCTT-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhC-ccChHHHHHHHHHHHHcCCHHHHHHHHHHHHh--cCCCCHHHHHHHHHHHH
Confidence            3444445555555555555555554431 22445555566666666666666666666665  23334556666666666


Q ss_pred             hcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHH
Q 012108          353 RARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRW  430 (471)
Q Consensus       353 ~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  430 (471)
                      ..|++++|.+.++++  ..+.+...+..+...+...|++++|...++++.+..|. ++..+..++.+|...|++++|.+.
T Consensus        88 ~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~  166 (186)
T 3as5_A           88 QVQKYDLAVPLLIKVAEANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPN-EGKVHRAIAFSYEQMGRHEEALPH  166 (186)
T ss_dssp             HHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HhcCHHHHHHHHHHHHhcCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHcCCHHHHHHH
Confidence            667777766666665  12345667777778888888888888888888888887 788888888888889999999988


Q ss_pred             HHHhhhCCCc
Q 012108          431 RNMMNDTGIV  440 (471)
Q Consensus       431 ~~~m~~~~~~  440 (471)
                      ++++.+..+.
T Consensus       167 ~~~~~~~~~~  176 (186)
T 3as5_A          167 FKKANELDEG  176 (186)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHcCCC
Confidence            8888766544

>3vtx_A MAMA; tetratricopeptide repeats (TPR) containing protein, peptide protein, protein binding; 1.75A {Candidatus magnetobacterium bavaricum} PDB: 3vty_A

Probab=99.46  E-value=3.4e-12  Score=104.13  Aligned_cols=164  Identities=14%  Similarity=-0.023  Sum_probs=105.3

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      +.+|..+...|...|++++|++.|++..+   .+..++..+...+.+.|++++|...+....... +.+...+..+...+
T Consensus         5 ~~iy~~lG~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~~~~~~~~~   83 (184)
T 3vtx_A            5 TTIYMDIGDKKRTKGDFDGAIRAYKKVLKADPNNVETLLKLGKTYMDIGLPNDAIESLKKFVVLD-TTSAEAYYILGSAN   83 (184)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC-chhHHHHHHHHHHH
Confidence            44455555555555555555555554332   244555556666666666666666666665542 23445566666667


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      ...++++.+...+.++.+  ..+.+...+..+..+|.+.|++++|++.|++. ...| +..+|..+..++.+.|++++|+
T Consensus        84 ~~~~~~~~a~~~~~~a~~--~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~~lg~~~~~~g~~~~A~  161 (184)
T 3vtx_A           84 FMIDEKQAAIDALQRAIA--LNTVYADAYYKLGLVYDSMGEHDKAIEAYEKTISIKPGFIRAYQSIGLAYEGKGLRDEAV  161 (184)
T ss_dssp             HHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHHHHHhCCchhHHHHHHHHHHhcchhhhHHHHHHHHHHHCCCHHHHH
Confidence            777777777777777766  33445666777777777777777777777766 2233 5667777788888888888888


Q ss_pred             HHHHHHHHcCCC
Q 012108          394 RVAKMVCAKSNY  405 (471)
Q Consensus       394 ~~~~~~~~~~~~  405 (471)
                      +.|+++++.+|+
T Consensus       162 ~~~~~al~~~p~  173 (184)
T 3vtx_A          162 KYFKKALEKEEK  173 (184)
T ss_dssp             HHHHHHHHTTHH
T ss_pred             HHHHHHHhCCcc
Confidence            888888877665

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.46  E-value=7.9e-11  Score=107.82  Aligned_cols=119  Identities=9%  Similarity=-0.006  Sum_probs=52.7

Q ss_pred             HHHHhCCCHHHHHHHHHhccc--c--Ch----HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC-CCCH----HHHHHHHH
Q 012108          146 LAYTNAGEMEKAGEMFKKMLV--K--NV----ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV-KPDY----LTVTSVLS  212 (471)
Q Consensus       146 ~~~~~~~~~~~A~~~~~~~~~--~--~~----~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~~----~~~~~l~~  212 (471)
                      ..+...|++++|...+++...  |  +.    .+++.+...+...|++++|...+++..+... .++.    .++..+..
T Consensus        22 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~  101 (373)
T 1hz4_A           22 QVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQSE  101 (373)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHH
Confidence            344555666666666555411  1  11    1334444555555666666655555443100 0111    11233444


Q ss_pred             HHHccCChHHHHHHHHHHHHc----CCC--C-chhHHHHHHHHHHhcCChHHHHHHHhc
Q 012108          213 ACANLGSLETGARIHVYATDN----GLA--S-NPHATTALIDMYAKCGSIEQSLEVFYK  264 (471)
Q Consensus       213 ~~~~~~~~~~a~~~~~~~~~~----~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~  264 (471)
                      .+...|++++|...+++..+.    +.+  | ....+..+...+...|++++|...+++
T Consensus       102 ~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~  160 (373)
T 1hz4_A          102 ILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARS  160 (373)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHH
Confidence            455555555555555554432    111  1 122333444445555555555544443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=1.2e-10  Score=106.83  Aligned_cols=225  Identities=9%  Similarity=0.001  Sum_probs=115.9

Q ss_pred             HHHHHHhcCCHHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHHccCChHHHHHHHHHHHHcCC-----C-CchhHHH
Q 012108          175 MVTGYLRSQLYIEVVDLFDEMKAGNV-KPD----YLTVTSVLSACANLGSLETGARIHVYATDNGL-----A-SNPHATT  243 (471)
Q Consensus       175 l~~~~~~~~~~~~a~~~~~~m~~~g~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~-~~~~~~~  243 (471)
                      ....+...|++++|+..|++..+... .++    ...+..+...+...|+++.|...+++..+...     . ....++.
T Consensus       107 ~g~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~  186 (378)
T 3q15_A          107 RGMYEFDQKEYVEAIGYYREAEKELPFVSDDIEKAEFHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLF  186 (378)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTGGGCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCHHHHHHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHH
Confidence            44456677777777777777655311 122    23455666677777777777777776654210     0 1134555


Q ss_pred             HHHHHHHhcCChHHHHHHHhcCCC-----C----ChhhHHHHHHHHHhcCChHHHHHHHHHHHh-----CCCCCCHHHHH
Q 012108          244 ALIDMYAKCGSIEQSLEVFYKSQV-----K----DVFCWNAMILGLALHGYGYAALKLLGEMND-----SCVKADDITFI  309 (471)
Q Consensus       244 ~l~~~~~~~~~~~~a~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~p~~~~~~  309 (471)
                      .+...|...|++++|++.|++...     +    ...++..+...|...|++++|+..+++...     .. +....++.
T Consensus       187 ~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~-~~~~~~~~  265 (378)
T 3q15_A          187 VIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIAISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVP-DLLPKVLF  265 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCG-GGHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCC-hhHHHHHH
Confidence            666666666666666666654322     1    123445555555566666666666655544     21 22244555


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCC---CCChhHHHHHHHHHhhcCC---HHHHHHHHHhCCCCCCH-hHHHHHHHH
Q 012108          310 GLLSACSHAGLVQEGCELFSRMEKDFGV---TRKLEHYGCMVDLLGRARL---LDRAIELIEAMPFEPTE-SILGALLSA  382 (471)
Q Consensus       310 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~---~~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~~~~p~~-~~~~~l~~~  382 (471)
                      .+...+.+.|++++|...+++..+....   +.....+..+...|...++   +.+|...+++.+..|+. ..+..+...
T Consensus       266 ~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~ly~~~~~~~~~~~al~~~~~~~~~~~~~~~~~~la~~  345 (378)
T 3q15_A          266 GLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKELFLFLQAVYKETVDERKIHDLLSYFEKKNLHAYIEACARSAAAV  345 (378)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHHHHHHHHHHSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhCCChhHHHHHHHHHHHH
Confidence            5556666666666666666665552111   1112233344444444454   55555555554322221 233344444


Q ss_pred             HhhcCCchHHHHHHHHHH
Q 012108          383 CVIHQDLEIGDRVAKMVC  400 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~  400 (471)
                      |...|++++|...++++.
T Consensus       346 y~~~g~~~~A~~~~~~al  363 (378)
T 3q15_A          346 FESSCHFEQAAAFYRKVL  363 (378)
T ss_dssp             HHHTTCHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHH
Confidence            445555555555544443

>3q15_A PSP28, response regulator aspartate phosphatase H; tetratricopeptide repeat, 3-helix bundle, phosphorelay signa transduction, phosphatase; 2.19A {Bacillus subtilis}

Probab=99.43  E-value=9.4e-11  Score=107.51  Aligned_cols=191  Identities=7%  Similarity=-0.021  Sum_probs=96.1

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccc-----c-----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC----CCCC-CH
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLV-----K-----NVITWNTMVTGYLRSQLYIEVVDLFDEMKAG----NVKP-DY  204 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~-----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~----g~~p-~~  204 (471)
                      ++..+..+|...|++++|...+++...     +     ...+++.+..+|...|++++|.+.|++..+.    +-.+ ..
T Consensus       143 ~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  222 (378)
T 3q15_A          143 FHFKVAEAYYHMKQTHVSMYHILQALDIYQNHPLYSIRTIQSLFVIAGNYDDFKHYDKALPHLEAALELAMDIQNDRFIA  222 (378)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTSTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHcCCcHHHHHHHHHHHHHHHhCCCchhhHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            344444555555555555555444411     0     1234555555566666666666555554431    1111 12


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHc----CCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-----CC---hhh
Q 012108          205 LTVTSVLSACANLGSLETGARIHVYATDN----GLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-----KD---VFC  272 (471)
Q Consensus       205 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~---~~~  272 (471)
                      .++..+..++...|++++|...+++..+.    +.+....++..+...|.+.|++++|...+++...     .+   ...
T Consensus       223 ~~~~~lg~~y~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  302 (378)
T 3q15_A          223 ISLLNIANSYDRSGDDQMAVEHFQKAAKVSREKVPDLLPKVLFGLSWTLCKAGQTQKAFQFIEEGLDHITARSHKFYKEL  302 (378)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCTTCCSCHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhCChhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            34445555556666666666666655541    1123345555566666666666666666554321     01   122


Q ss_pred             HHHHHHHHHhcCC---hHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          273 WNAMILGLALHGY---GYAALKLLGEMNDSCVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       273 ~~~l~~~~~~~~~---~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      +..+...+...++   ..+|+..+++   .+..|+ ...+..+...|...|++++|...|+++.+
T Consensus       303 ~~~l~~ly~~~~~~~~~~~al~~~~~---~~~~~~~~~~~~~la~~y~~~g~~~~A~~~~~~al~  364 (378)
T 3q15_A          303 FLFLQAVYKETVDERKIHDLLSYFEK---KNLHAYIEACARSAAAVFESSCHFEQAAAFYRKVLK  364 (378)
T ss_dssp             HHHHHHHHSSSCCHHHHHHHHHHHHH---TTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCCcHHHHHHHHHHHHh---CCChhHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            3344444445555   5555555554   222222 23455566667777777777777776654

>3nf1_A KLC 1, kinesin light chain 1; TPR, structural genomics consortium (SGC), motor PR transport protein; 2.80A {Homo sapiens}

Probab=99.42  E-value=2.3e-12  Score=114.75  Aligned_cols=246  Identities=13%  Similarity=0.065  Sum_probs=154.7

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHhccc--------c---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CC
Q 012108          138 VVSWNSLILAYTNAGEMEKAGEMFKKMLV--------K---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAG------NV  200 (471)
Q Consensus       138 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--------~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------g~  200 (471)
                      ..++..+...+...|++++|..+|+++..        .   ...++..+...+...|++++|...+++..+.      +-
T Consensus        27 ~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~  106 (311)
T 3nf1_A           27 LRTLHNLVIQYASQGRYEVAVPLCKQALEDLEKTSGHDHPDVATMLNILALVYRDQNKYKDAANLLNDALAIREKTLGKD  106 (311)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCSSSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            34566777777788888888887777633        1   3356777888888888888888888887653      21


Q ss_pred             CC-CHHHHHHHHHHHHccCChHHHHHHHHHHHHc------CC-CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC----
Q 012108          201 KP-DYLTVTSVLSACANLGSLETGARIHVYATDN------GL-ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK----  268 (471)
Q Consensus       201 ~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----  268 (471)
                      .| ....+..+...+...|++++|...++.+.+.      +. +.....+..+...+...|++++|++++++....    
T Consensus       107 ~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~  186 (311)
T 3nf1_A          107 HPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGKDHPDVAKQLNNLALLCQNQGKYEEVEYYYQRALEIYQTK  186 (311)
T ss_dssp             CHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHT
T ss_pred             ChHHHHHHHHHHHHHHHcCcHHHHHHHHHHHHHHHHHhcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHH
Confidence            22 3456777888888999999999998888764      22 234567888999999999999999998765331    


Q ss_pred             -------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCCh
Q 012108          269 -------DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKL  341 (471)
Q Consensus       269 -------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~  341 (471)
                             ...++..+...+...|++++|...++++....  |+. .+..+-   ........                ..
T Consensus       187 ~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~--~~~-~~~~~~---~~~~~~~~----------------~~  244 (311)
T 3nf1_A          187 LGPDDPNVAKTKNNLASCYLKQGKFKQAETLYKEILTRA--HER-EFGSVD---DENKPIWM----------------HA  244 (311)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH--HHH-HHC---------CCHHH----------------HH
T ss_pred             hCCCCHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHH--HHh-cCCCCC---cchHHHHH----------------HH
Confidence                   24578889999999999999999999988641  110 000000   00000000                01


Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHhCC-CCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          342 EHYGCMVDLLGRARLLDRAIELIEAMP-FEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       342 ~~~~~l~~~~~~~g~~~~A~~~~~~~~-~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ..+..+...+...+.+.++...++... ..| ...++..+..+|...|++++|...++++++..+.
T Consensus       245 ~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~~~  310 (311)
T 3nf1_A          245 EEREECKGKQKDGTSFGEYGGWYKACKVDSPTVTTTLKNLGALYRRQGKFEAAETLEEAAMRSRKQ  310 (311)
T ss_dssp             HHHHHC-------CCSCCCC---------CHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHC-
T ss_pred             HHHHHhcCchhhHHHHHHHHHHHhhcCCCCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhc
Confidence            112222223333444455555555552 223 3456777888888888888888888888776543

>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=99.41  E-value=5.9e-12  Score=123.67  Aligned_cols=163  Identities=11%  Similarity=0.023  Sum_probs=119.7

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          270 VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       270 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      ..+|+.|...+.+.|++++|++.|++..+.. +-+...+..+..++.+.|++++|++.|+++.+  -.+.+...|..+..
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~-P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~--l~P~~~~a~~nLg~   85 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVF-PEFAAAHSNLASVLQQQGKLQEALMHYKEAIR--ISPTFADAYSNMGN   85 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHH
Confidence            4566667777777777777777777776642 22456677777777777777777777777776  23345667777777


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHH
Q 012108          350 LLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEA  427 (471)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  427 (471)
                      +|...|++++|++.|++. .+.| +...|..+..++...|++++|+..|+++++.+|+ ++..+..++.+|...|++++|
T Consensus        86 ~l~~~g~~~~A~~~~~kAl~l~P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~-~~~a~~~L~~~l~~~g~~~~A  164 (723)
T 4gyw_A           86 TLKEMQDVQGALQCYTRAIQINPAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPD-FPDAYCNLAHCLQIVCDWTDY  164 (723)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSC-CHHHHHHHHHHHHHTTCCTTH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-ChHHHhhhhhHHHhcccHHHH
Confidence            777778888877777776 3344 4667788888888888888888888888888888 788888888888888888888


Q ss_pred             HHHHHHhhh
Q 012108          428 NRWRNMMND  436 (471)
Q Consensus       428 ~~~~~~m~~  436 (471)
                      .+.++++.+
T Consensus       165 ~~~~~kal~  173 (723)
T 4gyw_A          165 DERMKKLVS  173 (723)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            887777654

>4abn_A Tetratricopeptide repeat protein 5; P53 cofactor, stress-response, DNA repair, gene regulation; 2.05A {Mus musculus}

Probab=99.41  E-value=7.1e-12  Score=118.31  Aligned_cols=190  Identities=11%  Similarity=-0.039  Sum_probs=97.3

Q ss_pred             CHHHHHHHHHHHHccCCh-HHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CChhhHHHHHHH
Q 012108          203 DYLTVTSVLSACANLGSL-ETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILG  279 (471)
Q Consensus       203 ~~~~~~~l~~~~~~~~~~-~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~  279 (471)
                      +...+..+...+...|++ ++|...|+++.+.. +.+...+..+...|...|++++|++.|++...  |+...+..+...
T Consensus       101 ~a~~~~~lg~~~~~~g~~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~lg~~  179 (474)
T 4abn_A          101 EAQALMLKGKALNVTPDYSPEAEVLLSKAVKLE-PELVEAWNQLGEVYWKKGDVTSAHTCFSGALTHCKNKVSLQNLSMV  179 (474)
T ss_dssp             CHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCCCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhccccHHHHHHHHHHHHhhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCHHHHHHHHHH
Confidence            334444444444555555 55555555554443 33344455555555555555555555544332  333444444455


Q ss_pred             HHhc---------CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc--------CcHHHHHHHHHHhHHhcCCC---C
Q 012108          280 LALH---------GYGYAALKLLGEMNDSCVKADDITFIGLLSACSHA--------GLVQEGCELFSRMEKDFGVT---R  339 (471)
Q Consensus       280 ~~~~---------~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~--------~~~~~a~~~~~~~~~~~~~~---~  339 (471)
                      +...         |++++|+..+++..+.. +-+...+..+..++...        |++++|.+.|+++.+.  .+   .
T Consensus       180 ~~~~~~~~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~~~~g~~~~A~~~~~~al~~--~p~~~~  256 (474)
T 4abn_A          180 LRQLQTDSGDEHSRHVMDSVRQAKLAVQMD-VLDGRSWYILGNAYLSLYFNTGQNPKISQQALSAYAQAEKV--DRKASS  256 (474)
T ss_dssp             HTTCCCSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHH--CGGGGG
T ss_pred             HHHhccCChhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHhhccccchHHHHHHHHHHHHHh--CCCccc
Confidence            5555         55556666665555532 22344555555555555        5566666666666551  22   3


Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      +...|..+..+|...|++++|.+.|++. ...| +...+..+..++...|++++|...+
T Consensus       257 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~a~~~l~~~~~~lg~~~eAi~~~  315 (474)
T 4abn_A          257 NPDLHLNRATLHKYEESYGEALEGFSQAAALDPAWPEPQQREQQLLEFLSRLTSLLESK  315 (474)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            4555566666666666666666666555 2222 3445555555555555555555433

>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=99.37  E-value=4.7e-11  Score=97.16  Aligned_cols=164  Identities=11%  Similarity=-0.098  Sum_probs=137.2

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      ...+..+...+...|++++|+..++++..   .+...+..+...+...|++++|...++++.... +.+...+..+...+
T Consensus         8 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~   86 (186)
T 3as5_A            8 QVYYRDKGISHAKAGRYSQAVMLLEQVYDADAFDVDVALHLGIAYVKTGAVDRGTELLERSLADA-PDNVKVATVLGLTY   86 (186)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHTTTCCTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCccChHHHHHHHHHHHHcCCHHHHHHHHHHHHhcC-CCCHHHHHHHHHHH
Confidence            44566778888888999999999988765   356778888888999999999999999988752 44677888888899


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      ...|++++|.+.++++.+  ..+.+...+..+..++...|++++|.+.++++ . .+.+...+..+...+...|++++|.
T Consensus        87 ~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~  164 (186)
T 3as5_A           87 VQVQKYDLAVPLLIKVAE--ANPINFNVRFRLGVALDNLGRFDEAIDSFKIALGLRPNEGKVHRAIAFSYEQMGRHEEAL  164 (186)
T ss_dssp             HHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHhcCHHHHHHHHHHHHh--cCcHhHHHHHHHHHHHHHcCcHHHHHHHHHHHHhcCccchHHHHHHHHHHHHcCCHHHHH
Confidence            999999999999999987  34557788888999999999999999999887 2 2346778888999999999999999


Q ss_pred             HHHHHHHHcCCC
Q 012108          394 RVAKMVCAKSNY  405 (471)
Q Consensus       394 ~~~~~~~~~~~~  405 (471)
                      ..++++.+..|.
T Consensus       165 ~~~~~~~~~~~~  176 (186)
T 3as5_A          165 PHFKKANELDEG  176 (186)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHcCCC
Confidence            999999988776

>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=99.37  E-value=5e-11  Score=100.91  Aligned_cols=205  Identities=7%  Similarity=-0.069  Sum_probs=147.5

Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHH
Q 012108          202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMIL  278 (471)
Q Consensus       202 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~  278 (471)
                      .|...+......+...|++++|...|+.+.+...+++...+..+..++...|++++|++.|++...   .+..+|..+..
T Consensus         5 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~   84 (228)
T 4i17_A            5 TDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKNYNLANAYIGKSA   84 (228)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCSHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhCcchHHHHHHHHH
Confidence            455777788888889999999999999998887437777777788899999999999988887554   35567888888


Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCH-------HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC--ChhHHHHHHH
Q 012108          279 GLALHGYGYAALKLLGEMNDSCVKADD-------ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR--KLEHYGCMVD  349 (471)
Q Consensus       279 ~~~~~~~~~~a~~~~~~~~~~~~~p~~-------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~  349 (471)
                      .+...|++++|+..+++..+.. +.+.       ..|..+...+...|++++|.+.|+++.+  ..+.  +...+..+..
T Consensus        85 ~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~~l~~  161 (228)
T 4i17_A           85 AYRDMKNNQEYIATLTEGIKAV-PGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATD--VTSKKWKTDALYSLGV  161 (228)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SSCHHHHHHHHHHHHH
T ss_pred             HHHHcccHHHHHHHHHHHHHHC-CCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHh--cCCCcccHHHHHHHHH
Confidence            8888999999999998888752 2234       3466777778888889999998888886  2233  3566777777


Q ss_pred             HHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH
Q 012108          350 LLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL  417 (471)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  417 (471)
                      +|...|+.     .++++ . ...+...+....  ....+.+++|...++++.+..|. ++.+...+...
T Consensus       162 ~~~~~~~~-----~~~~a~~~~~~~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~-~~~~~~~l~~i  223 (228)
T 4i17_A          162 LFYNNGAD-----VLRKATPLASSNKEKYASEK--AKADAAFKKAVDYLGEAVTLSPN-RTEIKQMQDQV  223 (228)
T ss_dssp             HHHHHHHH-----HHHHHGGGTTTCHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHH-----HHHHHHhcccCCHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCC-CHHHHHHHHHH
Confidence            77655543     22222 0 122333443333  33456788899999999999888 77766666554

>1hz4_A MALT regulatory protein; two-helix bundles, helix repeats, protein superhelix, transc activator; 1.45A {Escherichia coli} SCOP: a.118.8.2

Probab=99.36  E-value=8.1e-11  Score=107.78  Aligned_cols=155  Identities=8%  Similarity=-0.044  Sum_probs=103.1

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC----CCh----hhHHHHHHHHHhCCCHHHHHHHHHhccc-----cCh----HHH
Q 012108          110 FNIMISGYARIGKIHSARYIFDKVPA----KDV----VSWNSLILAYTNAGEMEKAGEMFKKMLV-----KNV----ITW  172 (471)
Q Consensus       110 ~~~l~~~~~~~g~~~~a~~~~~~~~~----~~~----~~~~~l~~~~~~~~~~~~A~~~~~~~~~-----~~~----~~~  172 (471)
                      .......+...|++++|...+++...    .+.    ..+..+...+...|++++|.+.+++...     .+.    .++
T Consensus        17 ~~~~a~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~   96 (373)
T 1hz4_A           17 NALRAQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSL   96 (373)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHcCCCCchhHHHHHHHHHHHHHHhcCcHHHHHHHHHHHHHHHHhcCcHHHHHHHH
Confidence            34455567788999999888877622    122    1455666778888999999998888732     122    235


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHHHhC----CCC--CC-HHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC----chhH
Q 012108          173 NTMVTGYLRSQLYIEVVDLFDEMKAG----NVK--PD-YLTVTSVLSACANLGSLETGARIHVYATDNGLAS----NPHA  241 (471)
Q Consensus       173 ~~l~~~~~~~~~~~~a~~~~~~m~~~----g~~--p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~----~~~~  241 (471)
                      +.+...+...|++++|...+++..+.    +..  |. ...+..+...+...|++++|...+++..+.....    ...+
T Consensus        97 ~~la~~~~~~G~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~  176 (373)
T 1hz4_A           97 IQQSEILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQC  176 (373)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHHHhccccCcHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHhhccCcHHHHHH
Confidence            66778888899999999998887652    221  22 3345567778888899999999998887653221    1234


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhc
Q 012108          242 TTALIDMYAKCGSIEQSLEVFYK  264 (471)
Q Consensus       242 ~~~l~~~~~~~~~~~~a~~~~~~  264 (471)
                      +..+...+...|++++|...+++
T Consensus       177 ~~~la~~~~~~g~~~~A~~~l~~  199 (373)
T 1hz4_A          177 LAMLIQCSLARGDLDNARSQLNR  199 (373)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHH
Confidence            55555666666666666666554

>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=99.33  E-value=4.7e-11  Score=101.06  Aligned_cols=196  Identities=11%  Similarity=-0.045  Sum_probs=149.1

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHhcCCC----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 012108          236 ASNPHATTALIDMYAKCGSIEQSLEVFYKSQV----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGL  311 (471)
Q Consensus       236 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l  311 (471)
                      +.++..+......+...|++++|+..|++...    ++...+..+..++...|++++|+..+++..... +.+...+..+
T Consensus         4 ~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l   82 (228)
T 4i17_A            4 TTDPNQLKNEGNDALNAKNYAVAFEKYSEYLKLTNNQDSVTAYNCGVCADNIKKYKEAADYFDIAIKKN-YNLANAYIGK   82 (228)
T ss_dssp             CCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT-CSHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHccCHHHHHHHHHHHHhccCCCCcHHHHHHHHHHHHhhcHHHHHHHHHHHHHhC-cchHHHHHHH
Confidence            34667888889999999999999999987543    566677778889999999999999999998763 2245678888


Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCCCCh-------hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC---HhHHHHHH
Q 012108          312 LSACSHAGLVQEGCELFSRMEKDFGVTRKL-------EHYGCMVDLLGRARLLDRAIELIEAM-PFEPT---ESILGALL  380 (471)
Q Consensus       312 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~  380 (471)
                      ...+...|++++|...++++.+.  .+.+.       ..|..+...+...|++++|.+.|++. ...|+   ...+..+.
T Consensus        83 ~~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~~l~  160 (228)
T 4i17_A           83 SAAYRDMKNNQEYIATLTEGIKA--VPGNATIEKLYAIYYLKEGQKFQQAGNIEKAEENYKHATDVTSKKWKTDALYSLG  160 (228)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHH--STTCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSSCHHHHHHHHHHHH
T ss_pred             HHHHHHcccHHHHHHHHHHHHHH--CCCcHHHHHHHHHHHHHHhHHHHHhccHHHHHHHHHHHHhcCCCcccHHHHHHHH
Confidence            88999999999999999999872  33344       55777888888999999999999887 55665   45677777


Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      .++...     +..+++++....+. +...|....  ....|.+++|...+++..+..+..+
T Consensus       161 ~~~~~~-----~~~~~~~a~~~~~~-~~~~~~~~~--~~~~~~~~~A~~~~~~a~~l~p~~~  214 (228)
T 4i17_A          161 VLFYNN-----GADVLRKATPLASS-NKEKYASEK--AKADAAFKKAVDYLGEAVTLSPNRT  214 (228)
T ss_dssp             HHHHHH-----HHHHHHHHGGGTTT-CHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHH-----HHHHHHHHHhcccC-CHHHHHHHH--HHHHHHHHHHHHHHHHHhhcCCCCH
Confidence            777544     44556777776665 555544333  4456778999999999998776543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.32  E-value=3.6e-10  Score=97.54  Aligned_cols=240  Identities=9%  Similarity=-0.001  Sum_probs=122.1

Q ss_pred             HHHhCCCHHHHHHHHHhccccCh-HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHH
Q 012108          147 AYTNAGEMEKAGEMFKKMLVKNV-ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGAR  225 (471)
Q Consensus       147 ~~~~~~~~~~A~~~~~~~~~~~~-~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~  225 (471)
                      -..-.|++..++.-..++...+. ..-..+.+++...|++...         ..-.|....+..+...+ ..+    +..
T Consensus        22 n~fy~G~yq~~i~e~~~~~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~----a~~   87 (310)
T 3mv2_B           22 QNYYTGNFVQCLQEIEKFSKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK----NIE   87 (310)
T ss_dssp             HHHTTTCHHHHTHHHHTSSCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT----CCH
T ss_pred             HHHHhhHHHHHHHHHHhcCccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc----HHH
Confidence            34456666666665544422221 2222344566666665531         01123322333222222 211    455


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-----CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCC
Q 012108          226 IHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-----KDVFCWNAMILGLALHGYGYAALKLLGEMNDSC  300 (471)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  300 (471)
                      .+++..+.+ +++...+..+..++...|++++|++++.+...     .+...+..++..+.+.|+.+.|.+.+++|.+. 
T Consensus        88 ~l~~l~~~~-~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~~~~-  165 (310)
T 3mv2_B           88 ELENLLKDK-QNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNYTNA-  165 (310)
T ss_dssp             HHHHTTTTS-CCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH-
T ss_pred             HHHHHHhcC-CCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHhc-
Confidence            555555444 34444445666666666777777766665522     13345555666666677777777777666653 


Q ss_pred             CCC-----CHHHHHHHHHHH--hccC--cHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-
Q 012108          301 VKA-----DDITFIGLLSAC--SHAG--LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-  369 (471)
Q Consensus       301 ~~p-----~~~~~~~l~~~~--~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-  369 (471)
                       .|     +..+...++.++  ...|  +...|..+|+++.+.   .|+...-..++.++.+.|++++|.+.++.+ .. 
T Consensus       166 -~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~---~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~~~  241 (310)
T 3mv2_B          166 -IEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQT---FPTWKTQLGLLNLHLQQRNIAEAQGIVELLLSDY  241 (310)
T ss_dssp             -SCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTT---SCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHSHH
T ss_pred             -CccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHh---CCCcccHHHHHHHHHHcCCHHHHHHHHHHHHHhc
Confidence             44     244444555442  2223  666666666666542   233222223333566666666666666543 11 


Q ss_pred             ----------CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCch
Q 012108          370 ----------EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDG  409 (471)
Q Consensus       370 ----------~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  409 (471)
                                +.++.++..++......|+  +|.++++++.+..|. ++.
T Consensus       242 p~~~~k~~~~p~~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~-hp~  288 (310)
T 3mv2_B          242 YSVEQKENAVLYKPTFLANQITLALMQGL--DTEDLTNQLVKLDHE-HAF  288 (310)
T ss_dssp             HHTTTCHHHHSSHHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCC-CHH
T ss_pred             ccccccccCCCCCHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCC-ChH
Confidence                      2244455455544444554  666666666666666 443

>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=99.31  E-value=4.4e-11  Score=104.66  Aligned_cols=208  Identities=11%  Similarity=0.029  Sum_probs=98.2

Q ss_pred             HHHHHHHHHHHHccCChHHHHHHHHHHHHc------CC-CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHH
Q 012108          204 YLTVTSVLSACANLGSLETGARIHVYATDN------GL-ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAM  276 (471)
Q Consensus       204 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~------~~-~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l  276 (471)
                      ..++..+...+...|++++|...++.+.+.      +- +....++..+...|...|++++|++.+++..          
T Consensus        43 ~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al----------  112 (283)
T 3edt_B           43 ATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRAL----------  112 (283)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHH----------
T ss_pred             HHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHH----------
Confidence            445666666777777777777777776543      11 2234566667777777777777777665432          


Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc-----C-CCCChhHHHHHHHH
Q 012108          277 ILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDF-----G-VTRKLEHYGCMVDL  350 (471)
Q Consensus       277 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-----~-~~~~~~~~~~l~~~  350 (471)
                                    .++.+......+....++..+...+...|++++|...++++.+..     + .+....++..+..+
T Consensus       113 --------------~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~  178 (283)
T 3edt_B          113 --------------EIREKVLGKFHPDVAKQLNNLALLCQNQGKAEEVEYYYRRALEIYATRLGPDDPNVAKTKNNLASC  178 (283)
T ss_dssp             --------------HHHHHHHCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHH
T ss_pred             --------------HHHHHHcCCCChHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHH
Confidence                          111111111001122334444444555555555555555444310     0 11123344445555


Q ss_pred             HhhcCCHHHHHHHHHhCC----------CCCC-HhHHHHHHHHHhhcCCch------HHHHHHHHHHHcCCCCCchhHHH
Q 012108          351 LGRARLLDRAIELIEAMP----------FEPT-ESILGALLSACVIHQDLE------IGDRVAKMVCAKSNYLSDGELMM  413 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~~----------~~p~-~~~~~~l~~~~~~~g~~~------~a~~~~~~~~~~~~~~~~~~~~~  413 (471)
                      |...|++++|.+.+++..          ..+. ...+..+...+...+...      .+...++......|. ...++..
T Consensus       179 ~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~  257 (283)
T 3edt_B          179 YLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPT-VNTTLRS  257 (283)
T ss_dssp             HHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHH-HHHHHHH
T ss_pred             HHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHH-HHHHHHH
Confidence            555555555555554430          1121 122222222222222222      222222211111222 3456667


Q ss_pred             HHHHHHhcCCHHHHHHHHHHhhh
Q 012108          414 FANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       414 l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ++.+|.+.|++++|..++++..+
T Consensus       258 la~~~~~~g~~~~A~~~~~~al~  280 (283)
T 3edt_B          258 LGALYRRQGKLEAAHTLEDCASR  280 (283)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHH
Confidence            77777778888888877777654

>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=99.25  E-value=2.3e-10  Score=112.50  Aligned_cols=158  Identities=10%  Similarity=0.043  Sum_probs=85.6

Q ss_pred             hhhHHHHHHHHHhCCCHHHHHHHHHhccc--c-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          138 VVSWNSLILAYTNAGEMEKAGEMFKKMLV--K-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSAC  214 (471)
Q Consensus       138 ~~~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~  214 (471)
                      ...++.|..+|.+.|++++|++.|++.++  | +..+|+.+..+|.+.|++++|++.|++.++.. +-+...|..+..++
T Consensus         9 a~al~nLG~~~~~~G~~~eAi~~~~kAl~l~P~~~~a~~nLg~~l~~~g~~~eA~~~~~~Al~l~-P~~~~a~~nLg~~l   87 (723)
T 4gyw_A            9 ADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRIS-PTFADAYSNMGNTL   87 (723)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            34455555555555555555555555521  2 34455555555555555555555555555432 12244555555555


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHH
Q 012108          215 ANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALK  291 (471)
Q Consensus       215 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~  291 (471)
                      ...|++++|.+.|+++++.. +.+...+..+..+|...|++++|++.|++..+   .+...+..+...+...|++++|.+
T Consensus        88 ~~~g~~~~A~~~~~kAl~l~-P~~~~a~~~Lg~~~~~~g~~~eAi~~~~~Al~l~P~~~~a~~~L~~~l~~~g~~~~A~~  166 (723)
T 4gyw_A           88 KEMQDVQGALQCYTRAIQIN-PAFADAHSNLASIHKDSGNIPEAIASYRTALKLKPDFPDAYCNLAHCLQIVCDWTDYDE  166 (723)
T ss_dssp             HHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCCTTHHH
T ss_pred             HHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHhhhhhHHHhcccHHHHHH
Confidence            55566666666655555543 34455555555566666666666655554332   244555555666666666666655


Q ss_pred             HHHHHH
Q 012108          292 LLGEMN  297 (471)
Q Consensus       292 ~~~~~~  297 (471)
                      .+++..
T Consensus       167 ~~~kal  172 (723)
T 4gyw_A          167 RMKKLV  172 (723)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555543

>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=99.23  E-value=2.8e-10  Score=87.02  Aligned_cols=129  Identities=16%  Similarity=0.076  Sum_probs=84.3

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhh
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVI  385 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~  385 (471)
                      +..+...+...|++++|..+++++.+.  .+.+...+..+...+...|++++|...++++ . .+.+...+..+...+..
T Consensus         4 ~~~l~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~   81 (136)
T 2fo7_A            4 WYNLGNAYYKQGDYDEAIEYYQKALEL--DPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYK   81 (136)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCcHHHHHHHHHHHHHc--CCcchhHHHHHHHHHHHhcCHHHHHHHHHHHHHHCCCchHHHHHHHHHHHH
Confidence            344455555556666666666555541  2234445555555566666666666666555 1 22345566667777778


Q ss_pred             cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          386 HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       386 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      .|++++|...++++.+..|. ++..+..++.++.+.|++++|.+.++++.+.++
T Consensus        82 ~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~  134 (136)
T 2fo7_A           82 QGDYDEAIEYYQKALELDPR-SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDP  134 (136)
T ss_dssp             TTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHST
T ss_pred             hcCHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHccHHHHHHHHHHHHccCC
Confidence            88888888888888887777 677788888888888888888888888766543

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.23  E-value=3.7e-10  Score=99.37  Aligned_cols=131  Identities=13%  Similarity=-0.076  Sum_probs=63.5

Q ss_pred             hHHHHHHHHHhc-CChHHHHHHHHHHHhC----CCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCCh----
Q 012108          272 CWNAMILGLALH-GYGYAALKLLGEMNDS----CVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKL----  341 (471)
Q Consensus       272 ~~~~l~~~~~~~-~~~~~a~~~~~~~~~~----~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~----  341 (471)
                      +++.+...|... |++++|+..|++....    +..+. ..++..+...+...|++++|...|+++.+...-.+..    
T Consensus       119 ~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  198 (292)
T 1qqe_A          119 FKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSL  198 (292)
T ss_dssp             HHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGH
T ss_pred             HHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHhcCCcccHHH
Confidence            344555555554 6666666666555432    00000 2345556666666666666666666666521111111    


Q ss_pred             -hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHh------HHHHHHHHHh--hcCCchHHHHHHHHHHHc
Q 012108          342 -EHYGCMVDLLGRARLLDRAIELIEAM-PFEPTES------ILGALLSACV--IHQDLEIGDRVAKMVCAK  402 (471)
Q Consensus       342 -~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~------~~~~l~~~~~--~~g~~~~a~~~~~~~~~~  402 (471)
                       ..+..+..++...|++++|...|++. .+.|+..      .+..++.++.  ..+++++|+..|+++...
T Consensus       199 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~~~l~~l~~~~~~~~~~~~~~A~~~~~~~~~l  269 (292)
T 1qqe_A          199 KDYFLKKGLCQLAATDAVAAARTLQEGQSEDPNFADSRESNFLKSLIDAVNEGDSEQLSEHCKEFDNFMRL  269 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHGGGCC---------HHHHHHHHHHHHTTCTTTHHHHHHHHTTSSCC
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHhccCCcc
Confidence             13455555666666666666666665 3333211      2233344442  234455555555544443

>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=99.22  E-value=1e-09  Score=95.87  Aligned_cols=211  Identities=13%  Similarity=0.060  Sum_probs=125.0

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhC------CCCC-CHHHHHHHHHHHHccCChHHHHHHHHHHHHcC------
Q 012108          168 NVITWNTMVTGYLRSQLYIEVVDLFDEMKAG------NVKP-DYLTVTSVLSACANLGSLETGARIHVYATDNG------  234 (471)
Q Consensus       168 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~------g~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~------  234 (471)
                      ...++..+...+...|++++|...+++..+.      +-.| ...++..+...+...|++++|...++++.+..      
T Consensus        42 ~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~  121 (283)
T 3edt_B           42 VATMLNILALVYRDQNKYKEAAHLLNDALAIREKTLGKDHPAVAATLNNLAVLYGKRGKYKEAEPLCKRALEIREKVLGK  121 (283)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HHHHHHHHHHHHHHcccHHHHHHHHHHHHHHHHHHcCCcchHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHcCC
Confidence            3456788888888899999998888887653      2122 34567788888999999999999988876541      


Q ss_pred             -CCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012108          235 -LASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLS  313 (471)
Q Consensus       235 -~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  313 (471)
                       .+....++..+...|...|++++|+..+++                        +++++........+....++..+..
T Consensus       122 ~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~------------------------al~~~~~~~~~~~~~~~~~~~~la~  177 (283)
T 3edt_B          122 FHPDVAKQLNNLALLCQNQGKAEEVEYYYRR------------------------ALEIYATRLGPDDPNVAKTKNNLAS  177 (283)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTCHHHHHHHHHH------------------------HHHHHHHHSCTTCHHHHHHHHHHHH
T ss_pred             CChHHHHHHHHHHHHHHHcCCHHHHHHHHHH------------------------HHHHHHHhcCCCCHHHHHHHHHHHH
Confidence             122344555556666666666666555532                        1222211111111112346667777


Q ss_pred             HHhccCcHHHHHHHHHHhHHhc------CCCC-ChhHHHHHHHHHhhc------CCHHHHHHHHHhCC-CCC-CHhHHHH
Q 012108          314 ACSHAGLVQEGCELFSRMEKDF------GVTR-KLEHYGCMVDLLGRA------RLLDRAIELIEAMP-FEP-TESILGA  378 (471)
Q Consensus       314 ~~~~~~~~~~a~~~~~~~~~~~------~~~~-~~~~~~~l~~~~~~~------g~~~~A~~~~~~~~-~~p-~~~~~~~  378 (471)
                      .+...|++++|...++++.+..      ...+ ....+..+...+...      ..+..+...++... ..| ...++..
T Consensus       178 ~~~~~g~~~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  257 (283)
T 3edt_B          178 CYLKQGKYQDAETLYKEILTRAHEKEFGSVNGDNKPIWMHAEEREESKDKRRDSAPYGEYGSWYKACKVDSPTVNTTLRS  257 (283)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHHHHHSSSCCSSCCCHHHHHHHHHHTTCCCCC------------CCCCCCHHHHHHHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHHHHHhcCCCcchhHHHHHHHHHHHHhcCCchhHHHHHHHHHHHHHhcCCCCHHHHHHHHH
Confidence            7778888888888887776520      1122 233333333333322      23445555555553 223 3457788


Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHc
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAK  402 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~  402 (471)
                      +...|...|++++|...++++++.
T Consensus       258 la~~~~~~g~~~~A~~~~~~al~~  281 (283)
T 3edt_B          258 LGALYRRQGKLEAAHTLEDCASRN  281 (283)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHh
Confidence            888999999999999999988764

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.21  E-value=9e-10  Score=95.25  Aligned_cols=189  Identities=8%  Similarity=-0.087  Sum_probs=116.7

Q ss_pred             CCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-C---hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CC-CHHH
Q 012108          236 ASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-D---VFCWNAMILGLALHGYGYAALKLLGEMNDSCV-KA-DDIT  307 (471)
Q Consensus       236 ~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p-~~~~  307 (471)
                      +.++..+..+...+.+.|++++|+..|+++..  | +   ...+..+..++.+.|++++|+..|++...... .| ....
T Consensus        12 ~~~~~~~~~~a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a   91 (261)
T 3qky_A           12 HSSPQEAFERAMEFYNQGKYDRAIEYFKAVFTYGRTHEWAADAQFYLARAYYQNKEYLLAASEYERFIQIYQIDPRVPQA   91 (261)
T ss_dssp             CSSHHHHHHHHHHHHHTTCHHHHHHHHHHHGGGCSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTTHHHH
T ss_pred             CCCHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCCCcchHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHCCCCchhHHH
Confidence            34556666677777777777777777776554  2 2   44566677777777777777777777766421 11 1344


Q ss_pred             HHHHHHHHhc--------cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHH
Q 012108          308 FIGLLSACSH--------AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGAL  379 (471)
Q Consensus       308 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  379 (471)
                      +..+..++..        .|++++|...|+++.+.  .+.+......+.......+..               ...+..+
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~~~~~~~~~~~---------------~~~~~~l  154 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDATQKIRELRAKL---------------ARKQYEA  154 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHHHHHHHHHHHH---------------HHHHHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHHHHHHHHHHHH---------------HHHHHHH
Confidence            5556666666        77777777777777762  222222222221111000000               0113456


Q ss_pred             HHHHhhcCCchHHHHHHHHHHHcCCCC--CchhHHHHHHHHHhc----------CCHHHHHHHHHHhhhCCCcc
Q 012108          380 LSACVIHQDLEIGDRVAKMVCAKSNYL--SDGELMMFANLYASC----------GQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       380 ~~~~~~~g~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~----------g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ...+...|++++|+..|+++++..|..  .+..+..++.+|...          |++++|...++++.+..+..
T Consensus       155 a~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~~  228 (261)
T 3qky_A          155 ARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPDS  228 (261)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCCC
Confidence            677778888888888888888877762  234677777778766          77888888888887766543

>3mv2_B Coatomer subunit epsilon; vesicular membrane coat COAT protein complex I, protein TRAN; 2.90A {Saccharomyces cerevisiae} PDB: 3mv3_B

Probab=99.20  E-value=4.6e-09  Score=90.67  Aligned_cols=244  Identities=9%  Similarity=0.038  Sum_probs=153.8

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCCh
Q 012108          176 VTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSI  255 (471)
Q Consensus       176 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  255 (471)
                      ++-..-.|++..++.-..++   ....+......+.+++...|+++..         ..-.|....+..+...+ ..+  
T Consensus        20 ikn~fy~G~yq~~i~e~~~~---~~~~~~~~~~~~~Rs~iAlg~~~~~---------~~~~~~~~a~~~la~~~-~~~--   84 (310)
T 3mv2_B           20 IKQNYYTGNFVQCLQEIEKF---SKVTDNTLLFYKAKTLLALGQYQSQ---------DPTSKLGKVLDLYVQFL-DTK--   84 (310)
T ss_dssp             HHHHHTTTCHHHHTHHHHTS---SCCCCHHHHHHHHHHHHHTTCCCCC---------CSSSTTHHHHHHHHHHH-TTT--
T ss_pred             HHHHHHhhHHHHHHHHHHhc---CccchHHHHHHHHHHHHHcCCCccC---------CCCCHHHHHHHHHHHHh-ccc--
Confidence            34455678888877733222   1122223333455677777776542         11233333444444433 322  


Q ss_pred             HHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHHHHHHHHHHHhccCcHHHHHHHHHHh
Q 012108          256 EQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCV-KADDITFIGLLSACSHAGLVQEGCELFSRM  331 (471)
Q Consensus       256 ~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~  331 (471)
                        |+..|++...   ++..++..+..++...|++++|++++.+.+..|. .-+...+..++..+.+.|+.+.|.+.+++|
T Consensus        85 --a~~~l~~l~~~~~~~~~~~~~la~i~~~~g~~eeAL~~l~~~i~~~~~~~~lea~~l~vqi~L~~~r~d~A~k~l~~~  162 (310)
T 3mv2_B           85 --NIEELENLLKDKQNSPYELYLLATAQAILGDLDKSLETCVEGIDNDEAEGTTELLLLAIEVALLNNNVSTASTIFDNY  162 (310)
T ss_dssp             --CCHHHHHTTTTSCCCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTSSCSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHH
T ss_pred             --HHHHHHHHHhcCCCCcHHHHHHHHHHHHcCCHHHHHHHHHHHhccCCCcCcHHHHHHHHHHHHHCCCHHHHHHHHHHH
Confidence              5666665443   3455556777888888888888888888766543 124566777788888888888888888888


Q ss_pred             HHhcCCCC-----ChhHHHHHHHHH--hh--cCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          332 EKDFGVTR-----KLEHYGCMVDLL--GR--ARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       332 ~~~~~~~~-----~~~~~~~l~~~~--~~--~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      .+   ..|     +..+...|..++  ..  .+++++|..+|+++ ...|+..+-..++.++...|++++|++.++.+.+
T Consensus       163 ~~---~~~d~~~~~d~~l~~Laea~v~l~~g~~~~q~A~~~f~El~~~~p~~~~~~lLln~~~~~g~~~eAe~~L~~l~~  239 (310)
T 3mv2_B          163 TN---AIEDTVSGDNEMILNLAESYIKFATNKETATSNFYYYEELSQTFPTWKTQLGLLNLHLQQRNIAEAQGIVELLLS  239 (310)
T ss_dssp             HH---HSCHHHHHHHHHHHHHHHHHHHHHHTCSTTTHHHHHHHHHHTTSCSHHHHHHHHHHHHHHTCHHHHHHHHHHHHS
T ss_pred             Hh---cCccccccchHHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhCCCcccHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            76   244     244445555442  22  33788888888888 3345533334444477888888888888887766


Q ss_pred             c----------CCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          402 K----------SNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       402 ~----------~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      .          +|. ++.++..++.+....|+  +|.++++++.+..|..+
T Consensus       240 ~~p~~~~k~~~~p~-~~~~LaN~i~l~~~lgk--~a~~l~~qL~~~~P~hp  287 (310)
T 3mv2_B          240 DYYSVEQKENAVLY-KPTFLANQITLALMQGL--DTEDLTNQLVKLDHEHA  287 (310)
T ss_dssp             HHHHTTTCHHHHSS-HHHHHHHHHHHHHHTTC--TTHHHHHHHHHTTCCCH
T ss_pred             hcccccccccCCCC-CHHHHHHHHHHHHHhCh--HHHHHHHHHHHhCCCCh
Confidence            5          366 77777777777777776  78888888887776544

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=99.19  E-value=2.2e-09  Score=90.48  Aligned_cols=183  Identities=8%  Similarity=-0.058  Sum_probs=117.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCC--CC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH----HHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQV--KD----VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD----ITF  308 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~----~~~  308 (471)
                      +..+..+...+...|++++|+..|+++..  |+    ...+..+..++.+.|++++|+..|+++.+.  .|+.    ..+
T Consensus         4 ~~~~~~~a~~~~~~g~~~~A~~~~~~~~~~~p~~~~~~~a~~~lg~~~~~~~~~~~A~~~~~~~l~~--~P~~~~~~~a~   81 (225)
T 2yhc_A            4 PNEIYATAQQKLQDGNWRQAITQLEALDNRYPFGPYSQQVQLDLIYAYYKNADLPLAQAAIDRFIRL--NPTHPNIDYVM   81 (225)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHHHH--CcCCCcHHHHH
Confidence            34455566777777888888877776553  21    235666777777778888888877777764  2322    133


Q ss_pred             HHHHHHHhc------------------cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCC
Q 012108          309 IGLLSACSH------------------AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFE  370 (471)
Q Consensus       309 ~~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~  370 (471)
                      ..+..++..                  .|++++|...|+++.+  ..+.+...+.+......-.+..             
T Consensus        82 ~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~--~~P~~~~a~~a~~~l~~~~~~~-------------  146 (225)
T 2yhc_A           82 YMRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVR--GYPNSQYTTDATKRLVFLKDRL-------------  146 (225)
T ss_dssp             HHHHHHHHHHHC--------------CCHHHHHHHHHHHHHHT--TCTTCTTHHHHHHHHHHHHHHH-------------
T ss_pred             HHHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHH--HCcCChhHHHHHHHHHHHHHHH-------------
Confidence            444444432                  4566666666666665  2222333222211110000000             


Q ss_pred             CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc---hhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          371 PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD---GELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       371 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                        ......+...+.+.|++++|+..|+++++..|. ++   ..+..++.+|.+.|++++|.+.++.+...++..
T Consensus       147 --~~~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~-~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~~  217 (225)
T 2yhc_A          147 --AKYEYSVAEYYTERGAWVAVVNRVEGMLRDYPD-TQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSNT  217 (225)
T ss_dssp             --HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-SHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSCC
T ss_pred             --HHHHHHHHHHHHHcCcHHHHHHHHHHHHHHCcC-CCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCCc
Confidence              001134566788999999999999999999988 54   578899999999999999999999998877654

>1qqe_A Vesicular transport protein SEC17; helix-turn-helix TPR-like repeat, protein transport; 2.90A {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=99.18  E-value=2.2e-10  Score=100.87  Aligned_cols=205  Identities=9%  Similarity=-0.043  Sum_probs=145.9

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC-------C--ChhhHHHHHHHHHhcCChHHH
Q 012108          219 SLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV-------K--DVFCWNAMILGLALHGYGYAA  289 (471)
Q Consensus       219 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-------~--~~~~~~~l~~~~~~~~~~~~a  289 (471)
                      ++++|...|+.+               +..|...|++++|...|++...       +  ...+|+.+...|...|++++|
T Consensus        32 ~~~~A~~~~~~a---------------~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A   96 (292)
T 1qqe_A           32 KFEEAADLCVQA---------------ATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNA   96 (292)
T ss_dssp             HHHHHHHHHHHH---------------HHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHH
T ss_pred             cHHHHHHHHHHH---------------HHHHHHcCCHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHCCCHHHH
Confidence            477777776665               3456677888888877765432       1  145788888888889999999


Q ss_pred             HHHHHHHHhC----CCCC-CHHHHHHHHHHHhcc-CcHHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHhhcCCHHH
Q 012108          290 LKLLGEMNDS----CVKA-DDITFIGLLSACSHA-GLVQEGCELFSRMEKDFGVTRK----LEHYGCMVDLLGRARLLDR  359 (471)
Q Consensus       290 ~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~-~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~  359 (471)
                      +..+++....    |-.. ...++..+...|... |++++|+..|++..+...-..+    ..++..+...+.+.|++++
T Consensus        97 ~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~~lg~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~  176 (292)
T 1qqe_A           97 VDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIE  176 (292)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHhCCChHHHHHHHHHHHHHHHHhCCHHH
Confidence            8888887643    2111 134678888899996 9999999999998872111111    4568889999999999999


Q ss_pred             HHHHHHhC-CCCCCH--------hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCch-----hHHHHHHHHH--hcCC
Q 012108          360 AIELIEAM-PFEPTE--------SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDG-----ELMMFANLYA--SCGQ  423 (471)
Q Consensus       360 A~~~~~~~-~~~p~~--------~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----~~~~l~~~~~--~~g~  423 (471)
                      |...|++. ...|+.        ..+..+..++...|++++|...+++.++..|. ...     .+..++.+|.  ..++
T Consensus       177 A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~l~~l~~~~~~~~~~~  255 (292)
T 1qqe_A          177 ASDIYSKLIKSSMGNRLSQWSLKDYFLKKGLCQLAATDAVAAARTLQEGQSEDPN-FADSRESNFLKSLIDAVNEGDSEQ  255 (292)
T ss_dssp             HHHHHHHHHHTTSSCTTTGGGHHHHHHHHHHHHHHTTCHHHHHHHHHGGGCC----------HHHHHHHHHHHHTTCTTT
T ss_pred             HHHHHHHHHHHHhcCCcccHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC-CCCcHHHHHHHHHHHHHHcCCHHH
Confidence            99999987 223321        15677888899999999999999999988876 222     2445666665  4578


Q ss_pred             HHHHHHHHHHhhhCCC
Q 012108          424 WEEANRWRNMMNDTGI  439 (471)
Q Consensus       424 ~~~A~~~~~~m~~~~~  439 (471)
                      +++|+..|+++...++
T Consensus       256 ~~~A~~~~~~~~~l~~  271 (292)
T 1qqe_A          256 LSEHCKEFDNFMRLDK  271 (292)
T ss_dssp             HHHHHHHHTTSSCCCH
T ss_pred             HHHHHHHhccCCccHH
Confidence            9999999988866544

>3qky_A Outer membrane assembly lipoprotein YFIO; membrane protein; 2.15A {Rhodothermus marinus}

Probab=99.17  E-value=9.6e-10  Score=95.08  Aligned_cols=202  Identities=9%  Similarity=-0.028  Sum_probs=140.4

Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCc---hhHHHHHHHHHHhcCChHHHHHHHhcCCC--C----Chhh
Q 012108          202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASN---PHATTALIDMYAKCGSIEQSLEVFYKSQV--K----DVFC  272 (471)
Q Consensus       202 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~----~~~~  272 (471)
                      .+...+......+.+.|++++|...|+.+.+.. +.+   ...+..+..+|...|++++|+..|++...  |    ...+
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            455667777888899999999999999999875 334   67888899999999999999999988654  2    1346


Q ss_pred             HHHHHHHHHh--------cCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhH
Q 012108          273 WNAMILGLAL--------HGYGYAALKLLGEMNDSCVKADD-ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEH  343 (471)
Q Consensus       273 ~~~l~~~~~~--------~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~  343 (471)
                      +..+..++..        .|++++|+..|+++...  .|+. .....+              ..+..+...     ....
T Consensus        92 ~~~lg~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~p~~~~~~~a~--------------~~~~~~~~~-----~~~~  150 (261)
T 3qky_A           92 EYERAMCYYKLSPPYELDQTDTRKAIEAFQLFIDR--YPNHELVDDAT--------------QKIRELRAK-----LARK  150 (261)
T ss_dssp             HHHHHHHHHHHCCCTTSCCHHHHHHHHHHHHHHHH--CTTCTTHHHHH--------------HHHHHHHHH-----HHHH
T ss_pred             HHHHHHHHHHhcccccccchhHHHHHHHHHHHHHH--CcCchhHHHHH--------------HHHHHHHHH-----HHHH
Confidence            7778888888        99999999999999885  3432 222111              111111110     0112


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHhhc----------CCchHHHHHHHHHHHcCCCCCc
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALLSACVIH----------QDLEIGDRVAKMVCAKSNYLSD  408 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~----------g~~~~a~~~~~~~~~~~~~~~~  408 (471)
                      +..+..+|.+.|++++|...|+++ ...|+    ...+..+..++...          |++++|...++++++..|. ++
T Consensus       151 ~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~~~~~~~~~~~A~~~~~~~~~~~p~-~~  229 (261)
T 3qky_A          151 QYEAARLYERRELYEAAAVTYEAVFDAYPDTPWADDALVGAMRAYIAYAEQSVRARQPERYRRAVELYERLLQIFPD-SP  229 (261)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHHHHHHHHHTSCGGGHHHHHHHHHHHHHHHHHHCTT-CT
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHCCCCchHHHHHHHHHHHHHHhcccchhhcccchHHHHHHHHHHHHHHCCC-Ch
Confidence            455667777788888888887776 22232    34566667777655          8889999999999999988 54


Q ss_pred             h---hHHHHHHHHHhcCCHHH
Q 012108          409 G---ELMMFANLYASCGQWEE  426 (471)
Q Consensus       409 ~---~~~~l~~~~~~~g~~~~  426 (471)
                      .   ....+..++.+.|++++
T Consensus       230 ~~~~a~~~l~~~~~~~~~~~~  250 (261)
T 3qky_A          230 LLRTAEELYTRARQRLTELEG  250 (261)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHHHhhh
Confidence            3   33344555555555443

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=99.15  E-value=2e-08  Score=94.74  Aligned_cols=357  Identities=8%  Similarity=-0.069  Sum_probs=194.8

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCC-HhHHHHHhcccCC------CCcccHHHHHH
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRC-IDDAFKVFEKMPE------KDIIAWNSMLD   84 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-~~~A~~~~~~~~~------~~~~~~~~li~   84 (471)
                      .|...+..+.. |+++.+.++|++.+..  .|++..|...+....+.++ .+....+|+....      .+...|...+.
T Consensus        17 vyer~l~~~P~-~~~e~~~~iferal~~--~ps~~LW~~Y~~f~~~~~~~~~~i~~~fe~al~~vg~d~~s~~iW~~Yi~   93 (493)
T 2uy1_A           17 IMEHARRLYMS-KDYRSLESLFGRCLKK--SYNLDLWMLYIEYVRKVSQKKFKLYEVYEFTLGQFENYWDSYGLYKEYIE   93 (493)
T ss_dssp             HHHHHHHHHHT-TCHHHHHHHHHHHSTT--CCCHHHHHHHHHHHHHHC----CTHHHHHHHHHHSTTCTTCHHHHHHHHH
T ss_pred             HHHHHHHHCCC-CCHHHHHHHHHHHhcc--CCCHHHHHHHHHHHHHhCchHHHHHHHHHHHHHHcCCCcccHHHHHHHHH
Confidence            44444444443 5666666666666653  3466666666665555442 2334444444321      23345555554


Q ss_pred             HHH----cCCCHHHHHHHHhcCCCCChhhHHHHHHHHH---hcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHH
Q 012108           85 AFA----SCGQMDHAMKLIDLMPLKDVTSFNIMISGYA---RIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKA  157 (471)
Q Consensus        85 ~~~----~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~---~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A  157 (471)
                      .+.    .+|+.+.+.++|++...........+-..|.   .......+..+...                 ..+.+..|
T Consensus        94 f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~-----------------~~~~y~~a  156 (493)
T 2uy1_A           94 EEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGD-----------------TLPIFQSS  156 (493)
T ss_dssp             HTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHH-----------------HHHHHHHH
T ss_pred             HHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHH-----------------HhHHHHHH
Confidence            433    1344555666655554321111111111111   11111111111111                 01123334


Q ss_pred             HHHHHhccc----cChHHHHHHHHHHHhcC--C-----HHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHH
Q 012108          158 GEMFKKMLV----KNVITWNTMVTGYLRSQ--L-----YIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARI  226 (471)
Q Consensus       158 ~~~~~~~~~----~~~~~~~~l~~~~~~~~--~-----~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~  226 (471)
                      ..+++....    .+...|...+.--...+  -     .+.+..+|++++... +.+...|...+..+.+.|+.+.|..+
T Consensus       157 r~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~~~~lW~~ya~~~~~~~~~~~ar~i  235 (493)
T 2uy1_A          157 FQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YYAEEVYFFYSEYLIGIGQKEKAKKV  235 (493)
T ss_dssp             HHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHcCCHHHHHHH
Confidence            444443311    13345555554432221  1     345677888877653 44566677777777788889999999


Q ss_pred             HHHHHHcCCCCchhHHHHHHHHHHhcCChHHH-HHHHhcCC----------C--CChhhHHHHHHHHHhcCChHHHHHHH
Q 012108          227 HVYATDNGLASNPHATTALIDMYAKCGSIEQS-LEVFYKSQ----------V--KDVFCWNAMILGLALHGYGYAALKLL  293 (471)
Q Consensus       227 ~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a-~~~~~~~~----------~--~~~~~~~~l~~~~~~~~~~~~a~~~~  293 (471)
                      ++.....  |.+...+...    ....+.++. ..+.+...          .  .....|...+....+.++.+.|..+|
T Consensus       236 ~erAi~~--P~~~~l~~~y----~~~~e~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~lw~~y~~~~~r~~~~~~AR~i~  309 (493)
T 2uy1_A          236 VERGIEM--SDGMFLSLYY----GLVMDEEAVYGDLKRKYSMGEAESAEKVFSKELDLLRINHLNYVLKKRGLELFRKLF  309 (493)
T ss_dssp             HHHHHHH--CCSSHHHHHH----HHHTTCTHHHHHHHHHTC----------CHHHHHHHHHHHHHHHHHHHCHHHHHHHH
T ss_pred             HHHHHhC--CCcHHHHHHH----HhhcchhHHHHHHHHHHHhhccchhhhhcccccHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            9998887  4444333322    221111111 11121110          0  12245666777777788899999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHhc-cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC
Q 012108          294 GEMNDSCVKADDITFIGLLSACSH-AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPT  372 (471)
Q Consensus       294 ~~~~~~~~~p~~~~~~~l~~~~~~-~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~  372 (471)
                      ++. .. ...+...|...+..-.. .++.+.|..+|+...+.  ++.++..+...++...+.|+.+.|..+|+++.  ..
T Consensus       310 ~~A-~~-~~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~--~~~~~~~~~~yid~e~~~~~~~~aR~l~er~~--k~  383 (493)
T 2uy1_A          310 IEL-GN-EGVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLK--HPDSTLLKEEFFLFLLRIGDEENARALFKRLE--KT  383 (493)
T ss_dssp             HHH-TT-SCCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHTCHHHHHHHHHHSC--CB
T ss_pred             HHh-hC-CCCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHH--CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHH--HH
Confidence            998 32 12344444432222222 33699999999999884  33345566777887888899999999999983  35


Q ss_pred             HhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          373 ESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       373 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      ...|...+..-...|+.+.+..++++..+
T Consensus       384 ~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          384 SRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            77788888777788999999998888774

>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=99.14  E-value=1.4e-10  Score=90.86  Aligned_cols=141  Identities=9%  Similarity=-0.069  Sum_probs=106.5

Q ss_pred             HHHHhcCChHHHHHHHHHHHhCCCCCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC
Q 012108          278 LGLALHGYGYAALKLLGEMNDSCVKAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL  356 (471)
Q Consensus       278 ~~~~~~~~~~~a~~~~~~~~~~~~~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  356 (471)
                      ..+...|++++|+..+......  .|+ ...+..+...|.+.|++++|++.|+++.+  -.+.++..|..+..+|.+.|+
T Consensus         5 ~~~~~~~~~e~ai~~~~~a~~~--~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~--~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            5 SMRRSKADVERYIASVQGSTPS--PRQKSIKGFYFAKLYYEAKEYDLAKKYICTYIN--VQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             --CCCHHHHHHHHHHHHHHSCS--HHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcChHHHHHHHHHHhccc--CcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCc
Confidence            3444566777888777776653  333 34556677888888888888888888887  344567788888888888888


Q ss_pred             HHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHH-HHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          357 LDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRV-AKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       357 ~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      +++|...|++. .+.| +...+..+...+.+.|++++|.+. ++++++..|. ++.+|......+.+.|+
T Consensus        81 ~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~-~~~~~~l~~~ll~~~G~  149 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPTQKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPG-SPAVYKLKEQLLDCEGE  149 (150)
T ss_dssp             HHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTCCC
T ss_pred             hHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcC-CHHHHHHHHHHHHHhCc
Confidence            88888888876 3445 567888888889999998776654 5899999999 88998888888888775

>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=99.11  E-value=3e-10  Score=112.12  Aligned_cols=168  Identities=9%  Similarity=-0.056  Sum_probs=86.7

Q ss_pred             HccCChHHHHHHHHHHH--------HcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhc
Q 012108          215 ANLGSLETGARIHVYAT--------DNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALH  283 (471)
Q Consensus       215 ~~~~~~~~a~~~~~~~~--------~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~  283 (471)
                      ...|++++|.+.++++.        +.. +.+...+..+...|...|++++|++.|++...   .+...|..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~-p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDF-SESVELPLMEVRALLDLGDVAKATRKLDDLAERVGWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CC-TTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhccccccccc-ccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccCcchHHHHHHHHHHHHHc
Confidence            44555666666665555        222 33445555555555566666666655555443   2445555555555556


Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHH
Q 012108          284 GYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIEL  363 (471)
Q Consensus       284 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~  363 (471)
                      |++++|+..|++..+.. +-+...+..+..++.+.|++++ .+.|+++.+  -.+.+...|..+..++.+.|++++|.+.
T Consensus       481 g~~~~A~~~~~~al~l~-P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~  556 (681)
T 2pzi_A          481 GDYDSATKHFTEVLDTF-PGELAPKLALAATAELAGNTDE-HKFYQTVWS--TNDGVISAAFGLARARSAEGDRVGAVRT  556 (681)
T ss_dssp             TCHHHHHHHHHHHHHHS-TTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCChHH-HHHHHHHHH--hCCchHHHHHHHHHHHHHcCCHHHHHHH
Confidence            66666666665555431 1133445555555555566555 555555554  2233445555555555566666666666


Q ss_pred             HHhC-CCCCC-HhHHHHHHHHHhhcC
Q 012108          364 IEAM-PFEPT-ESILGALLSACVIHQ  387 (471)
Q Consensus       364 ~~~~-~~~p~-~~~~~~l~~~~~~~g  387 (471)
                      |+++ ...|+ ...+..+..++...+
T Consensus       557 ~~~al~l~P~~~~a~~~~~~~~~~~~  582 (681)
T 2pzi_A          557 LDEVPPTSRHFTTARLTSAVTLLSGR  582 (681)
T ss_dssp             HHTSCTTSTTHHHHHHHHHHHTC---
T ss_pred             HHhhcccCcccHHHHHHHHHHHHccC
Confidence            6555 33443 334444555544433

>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=99.10  E-value=3.4e-09  Score=80.88  Aligned_cols=131  Identities=13%  Similarity=0.021  Sum_probs=104.5

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLL  351 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  351 (471)
                      .|..+...+...|++++|..+++++...+ +.+...+..+...+...|++++|...++++.+  ..+.+...+..+...+
T Consensus         3 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~l~~~~   79 (136)
T 2fo7_A            3 AWYNLGNAYYKQGDYDEAIEYYQKALELD-PRSAEAWYNLGNAYYKQGDYDEAIEYYQKALE--LDPRSAEAWYNLGNAY   79 (136)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCcHHHHHHHHHHHHHcC-CcchhHHHHHHHHHHHhcCHHHHHHHHHHHHH--HCCCchHHHHHHHHHH
Confidence            46667778888888888888888887653 33566777788888888999999999988887  2345667788888888


Q ss_pred             hhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          352 GRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       352 ~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ...|++++|.+.++++ . .+.+...+..+...+...|++++|...++++.+..|.
T Consensus        80 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~  135 (136)
T 2fo7_A           80 YKQGDYDEAIEYYQKALELDPRSAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPR  135 (136)
T ss_dssp             HTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHccHHHHHHHHHHHHccCCC
Confidence            8999999999988877 2 2345677888888899999999999999999888765

>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=99.08  E-value=2e-09  Score=104.40  Aligned_cols=160  Identities=11%  Similarity=-0.027  Sum_probs=122.7

Q ss_pred             cCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHH
Q 012108          252 CGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELF  328 (471)
Q Consensus       252 ~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~  328 (471)
                      .|++++|++.|++...   .+...|..+...+...|++++|.+.+++..+.. +.+...+..+...+...|++++|.+.+
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            4788999999988765   356788999999999999999999999998863 335778888999999999999999999


Q ss_pred             HHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhc---CCchHHHHHHHHHHHcC
Q 012108          329 SRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIH---QDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       329 ~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~---g~~~~a~~~~~~~~~~~  403 (471)
                      +++.+  ..+.+...+..+..+|.+.|++++|.+.+++. ...| +...+..+...+...   |++++|...++++++.+
T Consensus        81 ~~al~--~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~al~~~  158 (568)
T 2vsy_A           81 QQASD--AAPEHPGIALWLGHALEDAGQAEAAAAAYTRAHQLLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAAVAQG  158 (568)
T ss_dssp             HHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHHHHHT
T ss_pred             HHHHh--cCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHHHhcC
Confidence            99988  34456788999999999999999999999987 3334 577888899999999   99999999999999999


Q ss_pred             CCCCchhHHHHH
Q 012108          404 NYLSDGELMMFA  415 (471)
Q Consensus       404 ~~~~~~~~~~l~  415 (471)
                      |. +...+..+.
T Consensus       159 p~-~~~~~~~l~  169 (568)
T 2vsy_A          159 VG-AVEPFAFLS  169 (568)
T ss_dssp             CC-CSCHHHHTT
T ss_pred             Cc-ccChHHHhC
Confidence            98 677776665

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=99.07  E-value=2.6e-09  Score=93.57  Aligned_cols=171  Identities=8%  Similarity=-0.079  Sum_probs=122.9

Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC
Q 012108          260 EVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR  339 (471)
Q Consensus       260 ~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~  339 (471)
                      ..+......+...+..+...+...|++++|...|++..... +-+...+..+...+...|++++|...++++...   .|
T Consensus       107 ~~l~~~lp~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~---~p  182 (287)
T 3qou_A          107 ALLDXVLPREEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQ---DQ  182 (287)
T ss_dssp             HHHHHHSCCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGG---GC
T ss_pred             HHHHHHcCCchhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchh---hc
Confidence            33333333445556667777778888888888888877652 335567777888888888888888888887662   34


Q ss_pred             ChhHHHHH-HHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC--chhHHHH
Q 012108          340 KLEHYGCM-VDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS--DGELMMF  414 (471)
Q Consensus       340 ~~~~~~~l-~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~--~~~~~~l  414 (471)
                      +....... ...+...++.++|...+++. . .+.+...+..+...+...|++++|...++++++.+|. +  ...+..+
T Consensus       183 ~~~~~~~~~~~~l~~~~~~~~a~~~l~~al~~~P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~-~~~~~a~~~l  261 (287)
T 3qou_A          183 DTRYQGLVAQIELLXQAADTPEIQQLQQQVAENPEDAALATQLALQLHQVGRNEEALELLFGHLRXDLT-AADGQTRXTF  261 (287)
T ss_dssp             SHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-GGGGHHHHHH
T ss_pred             chHHHHHHHHHHHHhhcccCccHHHHHHHHhcCCccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccc-cccchHHHHH
Confidence            43322222 22355666777777777766 2 2345778888888899999999999999999998887 5  7788899


Q ss_pred             HHHHHhcCCHHHHHHHHHHhh
Q 012108          415 ANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       415 ~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      +.+|...|+.++|...+++..
T Consensus       262 ~~~~~~~g~~~~a~~~~r~al  282 (287)
T 3qou_A          262 QEILAALGTGDALASXYRRQL  282 (287)
T ss_dssp             HHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHcCCCCcHHHHHHHHH
Confidence            999999999999888887754

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=99.07  E-value=1.1e-08  Score=85.26  Aligned_cols=162  Identities=12%  Similarity=-0.070  Sum_probs=115.1

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC----cHHHHHHHHHHhHHhcCCCCChhHH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAG----LVQEGCELFSRMEKDFGVTRKLEHY  344 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~~~~~~~~~~~~~  344 (471)
                      ++.++..+...|...+++++|+..|++..+.|   +...+..+...|.. +    ++++|...|++..+ .   .++..+
T Consensus        17 ~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~~-~---g~~~a~   88 (212)
T 3rjv_A           17 DRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAVE-A---GSKSGE   88 (212)
T ss_dssp             CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHHH-T---TCHHHH
T ss_pred             CHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHHH-C---CCHHHH
Confidence            45556666666666677777777777776654   45566666666666 5    78888888888766 2   355666


Q ss_pred             HHHHHHHhh----cCCHHHHHHHHHhC-CCCCC---HhHHHHHHHHHhh----cCCchHHHHHHHHHHHcCCCCCchhHH
Q 012108          345 GCMVDLLGR----ARLLDRAIELIEAM-PFEPT---ESILGALLSACVI----HQDLEIGDRVAKMVCAKSNYLSDGELM  412 (471)
Q Consensus       345 ~~l~~~~~~----~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~  412 (471)
                      ..|...|..    .+++++|.+.|++. ...|+   +..+..|...|..    .+++++|...|+++.+.+ . ++..+.
T Consensus        89 ~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~-~-~~~a~~  166 (212)
T 3rjv_A           89 IVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSSLS-R-TGYAEY  166 (212)
T ss_dssp             HHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHHTS-C-TTHHHH
T ss_pred             HHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHHcC-C-CHHHHH
Confidence            777777766    77888888888877 33342   6777777777777    778888888888888772 2 466778


Q ss_pred             HHHHHHHhc-C-----CHHHHHHHHHHhhhCCCc
Q 012108          413 MFANLYASC-G-----QWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       413 ~l~~~~~~~-g-----~~~~A~~~~~~m~~~~~~  440 (471)
                      .|+.+|... |     ++++|..++++..+.|..
T Consensus       167 ~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~~g~~  200 (212)
T 3rjv_A          167 WAGMMFQQGEKGFIEPNKQKALHWLNVSCLEGFD  200 (212)
T ss_dssp             HHHHHHHHCBTTTBCCCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCCCCCCCCHHHHHHHHHHHHHcCCH
Confidence            888888754 3     788888888888777653

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.06  E-value=2.1e-09  Score=89.32  Aligned_cols=163  Identities=6%  Similarity=-0.068  Sum_probs=106.4

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhcCCCC---ChhhHHH----------------HHHHHHhcCChHHHHHHHHHHHhCC
Q 012108          240 HATTALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNA----------------MILGLALHGYGYAALKLLGEMNDSC  300 (471)
Q Consensus       240 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~~~~~~  300 (471)
                      ..+......+...|++++|+..|++....   +...|..                +...+.+.|++++|+..|++..+..
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~   84 (208)
T 3urz_A            5 DEMLQKVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA   84 (208)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC
Confidence            34445566777888888888888876552   3445555                7777778888888888888777652


Q ss_pred             CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC--HHHHHHHHHhCC-CCCCHhHHH
Q 012108          301 VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL--LDRAIELIEAMP-FEPTESILG  377 (471)
Q Consensus       301 ~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~--~~~A~~~~~~~~-~~p~~~~~~  377 (471)
                       +-+...+..+...+...|++++|...|+++.+  -.+.+...+..+..+|...|+  .+.+...++... ..|....+.
T Consensus        85 -p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~  161 (208)
T 3urz_A           85 -PNNVDCLEACAEMQVCRGQEKDALRMYEKILQ--LEADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARY  161 (208)
T ss_dssp             -TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHH
T ss_pred             -CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHH
Confidence             33566777777777888888888888888776  234456677777777655543  344555555552 122223344


Q ss_pred             HHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          378 ALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       378 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ....++...|++++|+..|+++++..|.
T Consensus       162 ~~g~~~~~~~~~~~A~~~~~~al~l~P~  189 (208)
T 3urz_A          162 RDGLSKLFTTRYEKARNSLQKVILRFPS  189 (208)
T ss_dssp             HHHHHHHHHHTHHHHHHHHHHHTTTSCC
T ss_pred             HHHHHHHHccCHHHHHHHHHHHHHhCCC
Confidence            4455566677788888888887777765

>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=99.05  E-value=2.8e-10  Score=89.05  Aligned_cols=129  Identities=9%  Similarity=-0.071  Sum_probs=107.0

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCC
Q 012108          311 LLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQD  388 (471)
Q Consensus       311 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  388 (471)
                      |...+...|++++|++.++....  ..+.++..+-.+..+|.+.|++++|.+.|++. .+.| +..+|..+..++...|+
T Consensus         3 LG~~~~~~~~~e~ai~~~~~a~~--~~p~~~~~~~~la~~y~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~   80 (150)
T 4ga2_A            3 LGSMRRSKADVERYIASVQGSTP--SPRQKSIKGFYFAKLYYEAKEYDLAKKYICTYINVQERDPKAHRFLGLLYELEEN   80 (150)
T ss_dssp             ----CCCHHHHHHHHHHHHHHSC--SHHHHHTTHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             hHHHHHHcChHHHHHHHHHHhcc--cCcccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCc
Confidence            44556778899999999998876  22334666778899999999999999999988 4445 67899999999999999


Q ss_pred             chHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHH-HHHhhhCCCccc
Q 012108          389 LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRW-RNMMNDTGIVKT  442 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~-~~~m~~~~~~~~  442 (471)
                      +++|+..|+++++.+|. ++..+..++.+|.+.|++++|.+. +++..+..|..+
T Consensus        81 ~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~~~~~~aa~~~~~~al~l~P~~~  134 (150)
T 4ga2_A           81 TDKAVECYRRSVELNPT-QKDLVLKIAELLCKNDVTDGRAKYWVERAAKLFPGSP  134 (150)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHCSSSSHHHHHHHHHHHHSTTCH
T ss_pred             hHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCChHHHHHHHHHHHHHhCcCCH
Confidence            99999999999999999 999999999999999999887665 588888776543

>3urz_A Uncharacterized protein; tetratricopeptide repeats (TPR) containing protein, structur genomics, joint center for structural genomics, JCSG; HET: PG4; 2.19A {Bacteroides ovatus}

Probab=99.05  E-value=2.4e-08  Score=82.83  Aligned_cols=160  Identities=12%  Similarity=0.014  Sum_probs=97.8

Q ss_pred             HHHHHHhCCCHHHHHHHHHhcccc---ChHHHHH----------------HHHHHHhcCCHHHHHHHHHHHHhCCCCCCH
Q 012108          144 LILAYTNAGEMEKAGEMFKKMLVK---NVITWNT----------------MVTGYLRSQLYIEVVDLFDEMKAGNVKPDY  204 (471)
Q Consensus       144 l~~~~~~~~~~~~A~~~~~~~~~~---~~~~~~~----------------l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~  204 (471)
                      ....+...|++++|...|++....   +...|..                +..++.+.|++++|+..|++.++.. +-+.
T Consensus        10 ~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~   88 (208)
T 3urz_A           10 KVSAAIEAGQNGQAVSYFRQTIALNIDRTEMYYWTNVDKNSEISSKLATELALAYKKNRNYDKAYLFYKELLQKA-PNNV   88 (208)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCHHHHHHHHHHHSCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHHhCCCChHHHHHhhhcchhhhhHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHC-CCCH
Confidence            334455566666666666665322   2233333                7777778888888888888777653 2345


Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC--hHHHHHHHhcCCCCChh--hHHHHHHHH
Q 012108          205 LTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGS--IEQSLEVFYKSQVKDVF--CWNAMILGL  280 (471)
Q Consensus       205 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~~~~~--~~~~l~~~~  280 (471)
                      ..+..+..++...|++++|...|+++.+.. |.+..++..+..+|...|+  .+.+...++....++..  .+.....++
T Consensus        89 ~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~g~~~  167 (208)
T 3urz_A           89 DCLEACAEMQVCRGQEKDALRMYEKILQLE-ADNLAANIFLGNYYYLTAEQEKKKLETDYKKLSSPTKMQYARYRDGLSK  167 (208)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHHHHHHC---CCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHcC-CCCHHHHHHHHHHHHHHhHHHHHHHHHHHHHHhCCCchhHHHHHHHHHH
Confidence            667777777778888888888888877765 5566777777777655543  34455566665554432  233344455


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHH
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKADDIT  307 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~~~~  307 (471)
                      ...|++++|+..|++..+.  .|+...
T Consensus       168 ~~~~~~~~A~~~~~~al~l--~P~~~~  192 (208)
T 3urz_A          168 LFTTRYEKARNSLQKVILR--FPSTEA  192 (208)
T ss_dssp             HHHHTHHHHHHHHHHHTTT--SCCHHH
T ss_pred             HHccCHHHHHHHHHHHHHh--CCCHHH
Confidence            5566777777777776653  555443

>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=99.03  E-value=3.1e-09  Score=104.90  Aligned_cols=169  Identities=13%  Similarity=-0.068  Sum_probs=93.7

Q ss_pred             HhcCChHHHHHHHhcCC-----------CCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhcc
Q 012108          250 AKCGSIEQSLEVFYKSQ-----------VKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHA  318 (471)
Q Consensus       250 ~~~~~~~~a~~~~~~~~-----------~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~  318 (471)
                      ...|++++|++.+++..           ..+...+..+...+...|++++|+..|++..+.. +-+...+..+..++...
T Consensus       402 ~~~~~~~~A~~~~~~al~~~~~~~~~~~p~~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~  480 (681)
T 2pzi_A          402 TVLSQPVQTLDSLRAARHGALDADGVDFSESVELPLMEVRALLDLGDVAKATRKLDDLAERV-GWRWRLVWYRAVAELLT  480 (681)
T ss_dssp             TTTCCHHHHHHHHHHHHTC-------CCTTCSHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH-CCCHHHHHHHHHHHHHH
T ss_pred             ccccCHHHHHHHHHHhhhhcccccccccccchhHHHHHHHHHHhcCCHHHHHHHHHHHhccC-cchHHHHHHHHHHHHHc
Confidence            45566666666665543           2234455555666666666666666666665532 22444555555666666


Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          319 GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       319 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      |++++|.+.|+++.+  -.+.+...+..+..+|.+.|++++ .+.|++. ...| +...|..+..++...|++++|+..|
T Consensus       481 g~~~~A~~~~~~al~--l~P~~~~~~~~lg~~~~~~g~~~~-~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~  557 (681)
T 2pzi_A          481 GDYDSATKHFTEVLD--TFPGELAPKLALAATAELAGNTDE-HKFYQTVWSTNDGVISAAFGLARARSAEGDRVGAVRTL  557 (681)
T ss_dssp             TCHHHHHHHHHHHHH--HSTTCSHHHHHHHHHHHHHTCCCT-TCHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcCChHH-HHHHHHHHHhCCchHHHHHHHHHHHHHcCCHHHHHHHH
Confidence            666666666666655  223345555566666666666666 6555554 2222 3455556666666666666666666


Q ss_pred             HHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          397 KMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       397 ~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      +++.+.+|. +...+..++.++...|+
T Consensus       558 ~~al~l~P~-~~~a~~~~~~~~~~~~~  583 (681)
T 2pzi_A          558 DEVPPTSRH-FTTARLTSAVTLLSGRS  583 (681)
T ss_dssp             HTSCTTSTT-HHHHHHHHHHHTC----
T ss_pred             HhhcccCcc-cHHHHHHHHHHHHccCC
Confidence            666666665 55566666666555544

>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=99.01  E-value=2.1e-09  Score=86.70  Aligned_cols=64  Identities=8%  Similarity=-0.148  Sum_probs=46.2

Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-CchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-SDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      +...+..+...+...|++++|...|+++++..|.+ ++..+..++.++...|+.++|...|++..
T Consensus       107 ~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~~~y~~al  171 (176)
T 2r5s_A          107 NFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIASKYRRQL  171 (176)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHHHHHHHHH
Confidence            45666777777777777777777777777777653 35577777777777777777777777654

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.99  E-value=5.1e-09  Score=92.82  Aligned_cols=155  Identities=14%  Similarity=0.028  Sum_probs=100.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCC---C-Chh
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDS----CVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVT---R-KLE  342 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~---~-~~~  342 (471)
                      +|+.+...|...|++++|+..|++....    |-.. ...++..+...|.. |++++|+..|++..+...-.   + ...
T Consensus        78 ~~~~lg~~~~~~g~~~~A~~~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~  156 (307)
T 2ifu_A           78 AFEQAGMMLKDLQRMPEAVQYIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAE  156 (307)
T ss_dssp             HHHHHHHHHHHTTCGGGGHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHH
Confidence            5566666777777777777777765432    2111 13456677777877 88999888888877621111   1 145


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-C------CCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc----hh
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAM-P------FEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD----GE  410 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~-~------~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~----~~  410 (471)
                      ++..+...|.+.|++++|.+.|++. .      ..+. ...+..++.++...|++++|...|++.+ ..|....    ..
T Consensus       157 ~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~~~~~~e~~~  235 (307)
T 2ifu_A          157 LIGKASRLLVRQQKFDEAAASLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPGFSGSEDCAA  235 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTTSTTSHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCCCCCCHHHHH
Confidence            6778888888899999998888876 1      1111 2256666677778899999999999988 7765211    12


Q ss_pred             HHHHHHHHHhcCCHHHHHH
Q 012108          411 LMMFANLYASCGQWEEANR  429 (471)
Q Consensus       411 ~~~l~~~~~~~g~~~~A~~  429 (471)
                      ...++.++ ..|+.+.+.+
T Consensus       236 l~~l~~~~-~~~d~~~~~~  253 (307)
T 2ifu_A          236 LEDLLQAY-DEQDEEQLLR  253 (307)
T ss_dssp             HHHHHHHH-HTTCHHHHHH
T ss_pred             HHHHHHHH-HhcCHHHHHH
Confidence            33455555 5677666655

>3qou_A Protein YBBN; thioredoxin-like fold, tetratricopeptide repeat, lysine dimethylation, protein binding; HET: MLY; 1.80A {Escherichia coli} PDB: 3qdn_A*

Probab=98.98  E-value=3.2e-08  Score=86.59  Aligned_cols=161  Identities=10%  Similarity=-0.025  Sum_probs=97.0

Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--CChhh-HHHHHHH
Q 012108          203 DYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--KDVFC-WNAMILG  279 (471)
Q Consensus       203 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~~~~-~~~l~~~  279 (471)
                      +...+..+...+...|++++|...++++.+.. +.+...+..+...+...|++++|+..++++..  |+... .......
T Consensus       116 ~~~~~~~~a~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~la~~~~~~g~~~~A~~~l~~~~~~~p~~~~~~~~~~~~  194 (287)
T 3qou_A          116 EEELXAQQAMQLMQESNYTDALPLLXDAWQLS-NQNGEIGLLLAETLIALNRSEDAEAVLXTIPLQDQDTRYQGLVAQIE  194 (287)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TSCHHHHHHHHHHHHHTTCHHHHHHHHTTSCGGGCSHHHHHHHHHHH
T ss_pred             chhhHHHHHHHHHhCCCHHHHHHHHHHHHHhC-CcchhHHHHHHHHHHHCCCHHHHHHHHHhCchhhcchHHHHHHHHHH
Confidence            33445556666667777777777777777665 55666777777777777777777777777655  22221 1122223


Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH
Q 012108          280 LALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR  359 (471)
Q Consensus       280 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  359 (471)
                      +...++.++|...+++..... +.+...+..+...+...|++++|...|.++.+...-..+...+..++..+...|+.++
T Consensus       195 l~~~~~~~~a~~~l~~al~~~-P~~~~~~~~la~~l~~~g~~~~A~~~l~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~  273 (287)
T 3qou_A          195 LLXQAADTPEIQQLQQQVAEN-PEDAALATQLALQLHQVGRNEEALELLFGHLRXDLTAADGQTRXTFQEILAALGTGDA  273 (287)
T ss_dssp             HHHHHTSCHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTGGGGHHHHHHHHHHHHHCTTCH
T ss_pred             HHhhcccCccHHHHHHHHhcC-CccHHHHHHHHHHHHHcccHHHHHHHHHHHHhcccccccchHHHHHHHHHHHcCCCCc
Confidence            455666666777776666542 3345566666677777777777777777776621111124455666666666666555


Q ss_pred             HHHHHH
Q 012108          360 AIELIE  365 (471)
Q Consensus       360 A~~~~~  365 (471)
                      |...++
T Consensus       274 a~~~~r  279 (287)
T 3qou_A          274 LASXYR  279 (287)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            555544

>2r5s_A Uncharacterized protein VP0806; APC090868.1, vibrio parahaemolyticus RIMD 22 structural genomics, PSI-2, protein structure initiative; HET: MES; 2.14A {Vibrio parahaemolyticus}

Probab=98.97  E-value=1.2e-08  Score=82.16  Aligned_cols=156  Identities=9%  Similarity=-0.105  Sum_probs=101.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHH-Hhc
Q 012108          242 TTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSA-CSH  317 (471)
Q Consensus       242 ~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~-~~~  317 (471)
                      +..+...+...|++++|+..|++...   .+...+..+...+...|++++|+..+++....  .|+.......... +..
T Consensus         9 ~~~~a~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~la~~~~~~g~~~~A~~~~~~a~~~--~p~~~~~~~~~~~~~~~   86 (176)
T 2r5s_A            9 LLKQVSELLQQGEHAQALNVIQTLSDELQSRGDVKLAKADCLLETKQFELAQELLATIPLE--YQDNSYKSLIAKLELHQ   86 (176)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHTSCHHHHTSHHHHHHHHHHHHHTTCHHHHHHHHTTCCGG--GCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHhhhc--cCChHHHHHHHHHHHHh
Confidence            44456666777777777777777664   35566777777777777777777777776554  2333322222111 112


Q ss_pred             cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC---HhHHHHHHHHHhhcCCchHHH
Q 012108          318 AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT---ESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       318 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~---~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      .+....|...++++.+  ..+.++..+..+..++...|++++|...|+++ ...|+   ...+..+...+...|+.++|.
T Consensus        87 ~~~~~~a~~~~~~al~--~~P~~~~~~~~la~~~~~~g~~~~A~~~~~~~l~~~p~~~~~~a~~~l~~~~~~~g~~~~A~  164 (176)
T 2r5s_A           87 QAAESPELKRLEQELA--ANPDNFELACELAVQYNQVGRDEEALELLWNILKVNLGAQDGEVKKTFMDILSALGQGNAIA  164 (176)
T ss_dssp             HHTSCHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTTTTTHHHHHHHHHHHHHCSSCHHH
T ss_pred             hcccchHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcccHHHHHHHHHHHHHhCcccChHHHHHHHHHHHHHhCCCCcHH
Confidence            2222346777777776  23445777778888888888888888888776 44443   447777888888888888888


Q ss_pred             HHHHHHHH
Q 012108          394 RVAKMVCA  401 (471)
Q Consensus       394 ~~~~~~~~  401 (471)
                      ..|++.+.
T Consensus       165 ~~y~~al~  172 (176)
T 2r5s_A          165 SKYRRQLY  172 (176)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            88877654

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.97  E-value=1.3e-08  Score=84.80  Aligned_cols=129  Identities=9%  Similarity=-0.065  Sum_probs=104.7

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDL  350 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  350 (471)
                      ..+..+...+...|++++|+..|++..    .|+...+..+...+...|++++|...++++.+  ..+.+...+..+..+
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~----~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~--~~~~~~~~~~~lg~~   80 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQ----DPHSRICFNIGCMYTILKNMTEAEKAFTRSIN--RDKHLAVAYFQRGML   80 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSS----SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHc----CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCccchHHHHHHHHH
Confidence            345667778888999999999998764    56778888889999999999999999999887  235567788888899


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-C----------------HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          351 LGRARLLDRAIELIEAM-PFEP-T----------------ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~-~~~p-~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      |...|++++|.+.|++. ...| +                ...+..+..++...|++++|...++++.+..|.
T Consensus        81 ~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~  153 (213)
T 1hh8_A           81 YYQTEKYDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  153 (213)
T ss_dssp             HHHTTCHHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHcccHHHHHHHHHHHHHhCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCcc
Confidence            99999999999998877 2122 2                267788888888999999999999999888877

>2uy1_A Cleavage stimulation factor 77; RNA-binding protein; 2.0A {Encephalitozoon cuniculi} PDB: 2uy1_B

Probab=98.97  E-value=7.9e-08  Score=90.62  Aligned_cols=366  Identities=8%  Similarity=-0.037  Sum_probs=211.4

Q ss_pred             hcc-chhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCcccHHHHHHHHHcCCC-HHHHHH
Q 012108           22 ILS-SSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIAWNSMLDAFASCGQ-MDHAMK   97 (471)
Q Consensus        22 ~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~~~g~-~~~A~~   97 (471)
                      ..| +++.|..+|+.+++.-  |.              |+++.+..+|++...  |++..|...+....+.+. .+....
T Consensus         6 ~~~~~i~~aR~vyer~l~~~--P~--------------~~~e~~~~iferal~~~ps~~LW~~Y~~f~~~~~~~~~~i~~   69 (493)
T 2uy1_A            6 KMGVELSSPSAIMEHARRLY--MS--------------KDYRSLESLFGRCLKKSYNLDLWMLYIEYVRKVSQKKFKLYE   69 (493)
T ss_dssp             ------CCHHHHHHHHHHHH--HT--------------TCHHHHHHHHHHHSTTCCCHHHHHHHHHHHHHHC----CTHH
T ss_pred             HcCcchHHHHHHHHHHHHHC--CC--------------CCHHHHHHHHHHHhccCCCHHHHHHHHHHHHHhCchHHHHHH
Confidence            456 4788888888887653  22              899999999999775  888889888887776663 233444


Q ss_pred             HHhcCCC------CChhhHHHHHHHHH----hcCCHHHHHHHHhhcCCCChhhHHHHHHHH---HhCCCHHHHHHHHHhc
Q 012108           98 LIDLMPL------KDVTSFNIMISGYA----RIGKIHSARYIFDKVPAKDVVSWNSLILAY---TNAGEMEKAGEMFKKM  164 (471)
Q Consensus        98 ~~~~~~~------~~~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~---~~~~~~~~A~~~~~~~  164 (471)
                      +|+....      .+...|...+..+.    ..|+.+.+.++|++++.........+-..|   ....+...+.+++.+.
T Consensus        70 ~fe~al~~vg~d~~s~~iW~~Yi~f~~~~~~~~~~~~~vR~iy~rAL~~P~~~~~~lw~~Y~~fE~~~~~~~~~~~~~~~  149 (493)
T 2uy1_A           70 VYEFTLGQFENYWDSYGLYKEYIEEEGKIEDEQTRIEKIRNGYMRALQTPMGSLSELWKDFENFELELNKITGKKIVGDT  149 (493)
T ss_dssp             HHHHHHHHSTTCTTCHHHHHHHHHHTSSCSSHHHHHHHHHHHHHHHHTSCCTTHHHHHHHHHHHHHHHCHHHHHHHHHHH
T ss_pred             HHHHHHHHcCCCcccHHHHHHHHHHHHhchhhhHHHHHHHHHHHHHHhChhhhHHHHHHHHHHHHHHhccccHHHHHHHH
Confidence            4444321      14455555555433    235567777777777442111111111111   1111122222222221


Q ss_pred             cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc--CC-----hHHHHHHHHHHHHcCCCC
Q 012108          165 LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANL--GS-----LETGARIHVYATDNGLAS  237 (471)
Q Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~--~~-----~~~a~~~~~~~~~~~~~~  237 (471)
                                       .+.+..|..+++++...-...+...|...+..-...  +-     .+.+..+|++++... +.
T Consensus       150 -----------------~~~y~~ar~~y~~~~~~~~~~s~~~W~~y~~~E~~~~~~~~~~~~~~Rv~~~ye~al~~~-p~  211 (493)
T 2uy1_A          150 -----------------LPIFQSSFQRYQQIQPLIRGWSVKNAARLIDLEMENGMKLGGRPHESRMHFIHNYILDSF-YY  211 (493)
T ss_dssp             -----------------HHHHHHHHHHHHHHHHHHHTCSHHHHHHHHHHHHTCTTCCCHHHHHHHHHHHHHHHHHHT-TT
T ss_pred             -----------------hHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHhcCCccCcchhhHHHHHHHHHHHHHcC-CC
Confidence                             122334444444433210001223444444332211  11     345677899988864 66


Q ss_pred             chhHHHHHHHHHHhcCChHHHHHHHhcCCC-C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC---------CCCC---
Q 012108          238 NPHATTALIDMYAKCGSIEQSLEVFYKSQV-K-DVFCWNAMILGLALHGYGYAALKLLGEMNDS---------CVKA---  303 (471)
Q Consensus       238 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~-~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~---------~~~p---  303 (471)
                      ++..|...+..+.+.|+.+.|..+|++... | +...|.    .|....+.++.   ++.+...         +..+   
T Consensus       212 ~~~lW~~ya~~~~~~~~~~~ar~i~erAi~~P~~~~l~~----~y~~~~e~~~~---~~~l~~~~~~~~~~~~~~~~~~~  284 (493)
T 2uy1_A          212 AEEVYFFYSEYLIGIGQKEKAKKVVERGIEMSDGMFLSL----YYGLVMDEEAV---YGDLKRKYSMGEAESAEKVFSKE  284 (493)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCSSHHHH----HHHHHTTCTHH---HHHHHHHTC----------CHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhCCCcHHHHH----HHHhhcchhHH---HHHHHHHHHhhccchhhhhcccc
Confidence            788999999999999999999999986443 2 222222    22222222222   2222211         0011   


Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc-CCHHHHHHHHHhC--CCCCCHhHHHHHH
Q 012108          304 DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA-RLLDRAIELIEAM--PFEPTESILGALL  380 (471)
Q Consensus       304 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~~--~~~p~~~~~~~l~  380 (471)
                      ....|...+....+.++.+.|..+|+++ +..  ..+...|......-... ++.+.|..+|+..  ..+.++..+...+
T Consensus       285 ~~~lw~~y~~~~~r~~~~~~AR~i~~~A-~~~--~~~~~v~i~~A~lE~~~~~d~~~ar~ife~al~~~~~~~~~~~~yi  361 (493)
T 2uy1_A          285 LDLLRINHLNYVLKKRGLELFRKLFIEL-GNE--GVGPHVFIYCAFIEYYATGSRATPYNIFSSGLLKHPDSTLLKEEFF  361 (493)
T ss_dssp             HHHHHHHHHHHHHHHHCHHHHHHHHHHH-TTS--CCCHHHHHHHHHHHHHHHCCSHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHcCCHHHHHHHHHHh-hCC--CCChHHHHHHHHHHHHHCCChHHHHHHHHHHHHHCCCCHHHHHHHH
Confidence            1244666666666788899999999999 422  23444454333322233 3699999999877  2222344566677


Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ......|+.+.|..+|+++    +. ....|...+..-...|+.+.+..+++++.+
T Consensus       362 d~e~~~~~~~~aR~l~er~----~k-~~~lw~~~~~fE~~~G~~~~~r~v~~~~~~  412 (493)
T 2uy1_A          362 LFLLRIGDEENARALFKRL----EK-TSRMWDSMIEYEFMVGSMELFRELVDQKMD  412 (493)
T ss_dssp             HHHHHHTCHHHHHHHHHHS----CC-BHHHHHHHHHHHHHHSCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHH----HH-HHHHHHHHHHHHHHCCCHHHHHHHHHHHHH
Confidence            7778899999999999987    33 577888888888888999999998988864

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.97  E-value=2.9e-09  Score=82.86  Aligned_cols=99  Identities=5%  Similarity=-0.041  Sum_probs=69.9

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ...+..+...+.+.|++++|...|+++ ...| +...|..+..++...|++++|+..|+++++.+|. ++..|..++.+|
T Consensus        36 ~~~~~~lg~~~~~~g~~~eA~~~~~~al~~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~-~~~~~~~lg~~~  114 (151)
T 3gyz_A           36 MDDIYSYAYDFYNKGRIEEAEVFFRFLCIYDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKN-DYTPVFHTGQCQ  114 (151)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSS-CCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCC-CcHHHHHHHHHH
Confidence            445555666666667777777776666 2233 5667777777777777777777777777777777 777777777777


Q ss_pred             HhcCCHHHHHHHHHHhhhCCCc
Q 012108          419 ASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       419 ~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      .+.|++++|...|++..+..+.
T Consensus       115 ~~lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A          115 LRLKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC
Confidence            7777777777777777766544

>2ifu_A Gamma-SNAP; membrane fusion, snare complex disassembly, protein structure initiative, PSI, center for eukaryotic structural genomics, CESG; HET: MSE; 2.60A {Danio rerio}

Probab=98.96  E-value=4.5e-09  Score=93.14  Aligned_cols=176  Identities=7%  Similarity=-0.037  Sum_probs=127.2

Q ss_pred             cCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCC-CHHHHHHHHHHHhccCcHHHHHH
Q 012108          252 CGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDS----CVKA-DDITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       252 ~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p-~~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                      .++++.|...|.+           ....|...|++++|...|.+....    |-.+ -..+|..+...|...|++++|..
T Consensus        29 ~~~~~~A~~~~~~-----------a~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~a~~~~~lg~~~~~~g~~~~A~~   97 (307)
T 2ifu_A           29 KPDYDSAASEYAK-----------AAVAFKNAKQLEQAKDAYLQEAEAHANNRSLFHAAKAFEQAGMMLKDLQRMPEAVQ   97 (307)
T ss_dssp             SCCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCGGGGHH
T ss_pred             CCCHHHHHHHHHH-----------HHHHHHHcCCHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhCCCHHHHHH
Confidence            3566666665543           345566677777777777665432    1111 13467788888999999999999


Q ss_pred             HHHHhHHhc---CCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-----CC--CHhHHHHHHHHHhhcCCchHHHH
Q 012108          327 LFSRMEKDF---GVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PF-----EP--TESILGALLSACVIHQDLEIGDR  394 (471)
Q Consensus       327 ~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-----~p--~~~~~~~l~~~~~~~g~~~~a~~  394 (471)
                      .|++..+-.   |... ...++..+..+|.. |++++|++.|++. .+     .+  ...++..+...+...|++++|+.
T Consensus        98 ~~~~Al~l~~~~g~~~~~a~~~~~lg~~~~~-g~~~~A~~~~~~Al~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~  176 (307)
T 2ifu_A           98 YIEKASVMYVENGTPDTAAMALDRAGKLMEP-LDLSKAVHLYQQAAAVFENEERLRQAAELIGKASRLLVRQQKFDEAAA  176 (307)
T ss_dssp             HHHHHHHHHHTTTCHHHHHHHHHHHHHHHTT-TCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHc-CCHHHHHHHHHHHHHHHHhCCChhHHHHHHHHHHHHHHHcCCHHHHHH
Confidence            999887622   1111 24577888889988 9999999999876 11     11  14578889999999999999999


Q ss_pred             HHHHHHHcCCCCC-----chhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          395 VAKMVCAKSNYLS-----DGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       395 ~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      .++++++..+...     ...+..++.++...|++++|...+++.. ..+.
T Consensus       177 ~~~~al~~~~~~~~~~~~~~~~~~~g~~~~~~g~~~~A~~~~~~al-~~p~  226 (307)
T 2ifu_A          177 SLQKEKSMYKEMENYPTCYKKCIAQVLVQLHRADYVAAQKCVRESY-SIPG  226 (307)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHT-TSTT
T ss_pred             HHHHHHHHHHHcCChhHHHHHHHHHHHHHHHcCCHHHHHHHHHHHh-CCCC
Confidence            9999998755411     2366677888889999999999999998 5543

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.96  E-value=6.9e-07  Score=77.94  Aligned_cols=222  Identities=6%  Similarity=-0.054  Sum_probs=120.6

Q ss_pred             HHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHHccC--ChHHHHHHHHHHHHcCCCCchhHHHHHHHHH----Hhc---CC
Q 012108          185 YIEVVDLFDEMKAGNVKPDY-LTVTSVLSACANLG--SLETGARIHVYATDNGLASNPHATTALIDMY----AKC---GS  254 (471)
Q Consensus       185 ~~~a~~~~~~m~~~g~~p~~-~~~~~l~~~~~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~----~~~---~~  254 (471)
                      .++|+++++.++..  .|+. ..|+.-...+...+  ++++++..++.+.... +-+..+++.-...+    ...   ++
T Consensus        49 s~~aL~~t~~~L~~--nP~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~n-Pk~y~aW~~R~~iL~~~~~~l~~~~~  125 (306)
T 3dra_A           49 SERALHITELGINE--LASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDN-EKNYQIWNYRQLIIGQIMELNNNDFD  125 (306)
T ss_dssp             SHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHC-TTCCHHHHHHHHHHHHHHHHTTTCCC
T ss_pred             CHHHHHHHHHHHHH--CcHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHC-cccHHHHHHHHHHHHHHHHhccccCC
Confidence            34566666665553  2332 33444444444555  6666666666666554 34444444433333    333   45


Q ss_pred             hHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChH--HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc------HHH
Q 012108          255 IEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGY--AALKLLGEMNDSCVKADDITFIGLLSACSHAGL------VQE  323 (471)
Q Consensus       255 ~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~------~~~  323 (471)
                      +++++++++++..   .+..+|+.-...+.+.|.++  ++++.++++.+... -+...++.-...+...+.      +++
T Consensus       126 ~~~EL~~~~~~l~~~pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~~d~-~N~sAW~~R~~ll~~l~~~~~~~~~~e  204 (306)
T 3dra_A          126 PYREFDILEAMLSSDPKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVIDTDL-KNNSAWSHRFFLLFSKKHLATDNTIDE  204 (306)
T ss_dssp             THHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHCT-TCHHHHHHHHHHHHSSGGGCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHHhCC-CCHHHHHHHHHHHHhccccchhhhHHH
Confidence            5566665555443   34455555555555566665  67777777766532 245555555444445454      667


Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH-HHHHHHhC-CC----CCCHhHHHHHHHHHhhcCCchHHHHHHH
Q 012108          324 GCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR-AIELIEAM-PF----EPTESILGALLSACVIHQDLEIGDRVAK  397 (471)
Q Consensus       324 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~-A~~~~~~~-~~----~p~~~~~~~l~~~~~~~g~~~~a~~~~~  397 (471)
                      +++.++++..  ..+-|...|+.+...+.+.|+... +.++..++ ..    ..++..+..++..+.+.|+.++|.++++
T Consensus       205 El~~~~~aI~--~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~s~~al~~la~~~~~~~~~~~A~~~~~  282 (306)
T 3dra_A          205 ELNYVKDKIV--KCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVTSSFALETLAKIYTQQKKYNESRTVYD  282 (306)
T ss_dssp             HHHHHHHHHH--HCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEESCHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH
Confidence            7777777666  344566666666666666665333 33444444 11    2345566666666666666666666666


Q ss_pred             HHHH-cCCCCCchhHHH
Q 012108          398 MVCA-KSNYLSDGELMM  413 (471)
Q Consensus       398 ~~~~-~~~~~~~~~~~~  413 (471)
                      .+.+ .+|. ....|..
T Consensus       283 ~l~~~~Dpi-r~~yW~~  298 (306)
T 3dra_A          283 LLKSKYNPI-RSNFWDY  298 (306)
T ss_dssp             HHHHTTCGG-GHHHHHH
T ss_pred             HHHhccChH-HHHHHHH
Confidence            6664 4554 4444443

>3dra_A Protein farnesyltransferase/geranylgeranyltransferase type-1 subunit alpha; geranylgeranyltrasferase, ggtase, ggtase-I, PGGT, prenyltransferase, farnesyltransferase; HET: B3P GRG; 1.80A {Candida albicans}

Probab=98.95  E-value=2.4e-07  Score=80.83  Aligned_cols=219  Identities=12%  Similarity=0.056  Sum_probs=173.0

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC--ChHHHHHHHhcCCC---CChhhHHHHHHHH----Hhc---C
Q 012108          217 LGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG--SIEQSLEVFYKSQV---KDVFCWNAMILGL----ALH---G  284 (471)
Q Consensus       217 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~--~~~~a~~~~~~~~~---~~~~~~~~l~~~~----~~~---~  284 (471)
                      ....++|+..++.++..+ |-+..+++.-..++...|  ++++++++++.+..   .+..+|+.-...+    ...   +
T Consensus        46 ~e~s~~aL~~t~~~L~~n-P~~~taWn~R~~~L~~l~~~~~~eeL~~~~~~L~~nPk~y~aW~~R~~iL~~~~~~l~~~~  124 (306)
T 3dra_A           46 EEYSERALHITELGINEL-ASHYTIWIYRFNILKNLPNRNLYDELDWCEEIALDNEKNYQIWNYRQLIIGQIMELNNNDF  124 (306)
T ss_dssp             TCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCTTSCHHHHHHHHHHHHHHCTTCCHHHHHHHHHHHHHHHHTTTCC
T ss_pred             CCCCHHHHHHHHHHHHHC-cHHHHHHHHHHHHHHHcccccHHHHHHHHHHHHHHCcccHHHHHHHHHHHHHHHHhccccC
Confidence            344568999999999886 667778888888898888  99999999988665   3556676655555    555   7


Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH--HHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC------
Q 012108          285 YGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQ--EGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL------  356 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~--~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~------  356 (471)
                      ++++++.+++++.... +-+...++.-...+.+.|.++  ++++.++++.+  ..+.|...|+.....+.+.|.      
T Consensus       125 ~~~~EL~~~~~~l~~~-pkny~aW~~R~~vl~~l~~~~~~~EL~~~~~~i~--~d~~N~sAW~~R~~ll~~l~~~~~~~~  201 (306)
T 3dra_A          125 DPYREFDILEAMLSSD-PKNHHVWSYRKWLVDTFDLHNDAKELSFVDKVID--TDLKNNSAWSHRFFLLFSKKHLATDNT  201 (306)
T ss_dssp             CTHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCTTCHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHSSGGGCCHHH
T ss_pred             CHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhcccChHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccccchhhh
Confidence            8999999999999863 446777777777777788887  99999999998  455677788877777777776      


Q ss_pred             HHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchH-HHHHHHHHHHcC---CCCCchhHHHHHHHHHhcCCHHHHHHH
Q 012108          357 LDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEI-GDRVAKMVCAKS---NYLSDGELMMFANLYASCGQWEEANRW  430 (471)
Q Consensus       357 ~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~-a~~~~~~~~~~~---~~~~~~~~~~l~~~~~~~g~~~~A~~~  430 (471)
                      ++++++.++++ . .+-|...|+.+...+.+.|+... +..+.+++.+.+   +. ++..+..++++|.+.|+.++|.++
T Consensus       202 ~~eEl~~~~~aI~~~p~n~SaW~y~~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~-s~~al~~la~~~~~~~~~~~A~~~  280 (306)
T 3dra_A          202 IDEELNYVKDKIVKCPQNPSTWNYLLGIHERFDRSITQLEEFSLQFVDLEKDQVT-SSFALETLAKIYTQQKKYNESRTV  280 (306)
T ss_dssp             HHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHTTCCGGGGHHHHHTTEEGGGTEES-CHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCCCccHHHHHHHHHHhcCCChHHHHHHHHHHHhccCCCCC-CHHHHHHHHHHHHccCCHHHHHHH
Confidence            88999998877 3 34477888888888888887544 566777777665   66 788999999999999999999999


Q ss_pred             HHHhhh-CCCc
Q 012108          431 RNMMND-TGIV  440 (471)
Q Consensus       431 ~~~m~~-~~~~  440 (471)
                      ++.+.+ .++.
T Consensus       281 ~~~l~~~~Dpi  291 (306)
T 3dra_A          281 YDLLKSKYNPI  291 (306)
T ss_dssp             HHHHHHTTCGG
T ss_pred             HHHHHhccChH
Confidence            999875 4543

>2vsy_A XCC0866; transferase, glycosyl transferase, GT-B, OGT, protein O-GLCN; HET: NHE; 2.10A {Xanthomonas campestris PV} PDB: 2jlb_A* 2xgm_A* 2xgo_A* 2xgs_A* 2vsn_A*

Probab=98.94  E-value=1.5e-08  Score=98.11  Aligned_cols=147  Identities=13%  Similarity=-0.030  Sum_probs=111.3

Q ss_pred             cCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHH
Q 012108          217 LGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLL  293 (471)
Q Consensus       217 ~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~  293 (471)
                      .|++++|...++++.+.. +.+...+..+...|...|++++|++.|++...   .+...+..+...+...|++++|.+.+
T Consensus         2 ~g~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~   80 (568)
T 2vsy_A            2 TADGPRELLQLRAAVRHR-PQDFVAWLMLADAELGMGDTTAGEMAVQRGLALHPGHPEAVARLGRVRWTQQRHAEAAVLL   80 (568)
T ss_dssp             --------------------CCHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTSTTCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             CccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHCCCHHHHHHHH
Confidence            478899999999988775 56788899999999999999999999987654   35678899999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc---CCHHHHHHHHHhC
Q 012108          294 GEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA---RLLDRAIELIEAM  367 (471)
Q Consensus       294 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~---g~~~~A~~~~~~~  367 (471)
                      ++..+.. +.+...+..+..++...|++++|.+.++++.+  -.+.+...+..+..++...   |+.++|.+.+++.
T Consensus        81 ~~al~~~-p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~g~~~~A~~~~~~a  154 (568)
T 2vsy_A           81 QQASDAA-PEHPGIALWLGHALEDAGQAEAAAAAYTRAHQ--LLPEEPYITAQLLNWRRRLCDWRALDVLSAQVRAA  154 (568)
T ss_dssp             HHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCCTTHHHHHHHHHHH
T ss_pred             HHHHhcC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHhhccccHHHHHHHHHHH
Confidence            9998763 33577888899999999999999999999988  3345678888999999999   9999999999887

>2yhc_A BAMD, UPF0169 lipoprotein YFIO; essential BAM component, membrane protein; 1.80A {Escherichia coli} PDB: 3tgo_A 3q5m_A

Probab=98.93  E-value=2.5e-08  Score=83.86  Aligned_cols=182  Identities=13%  Similarity=0.002  Sum_probs=127.9

Q ss_pred             CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCC--chhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-Ch---hhHH
Q 012108          203 DYLTVTSVLSACANLGSLETGARIHVYATDNGLAS--NPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-DV---FCWN  274 (471)
Q Consensus       203 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~~---~~~~  274 (471)
                      +...+..+...+...|++++|...|+.+.+.....  ....+..+..+|.+.|++++|+..|++...  | +.   .++.
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            34455666778889999999999999999864221  235788899999999999999999998654  3 22   2455


Q ss_pred             HHHHHHHh------------------cCChHHHHHHHHHHHhCCCCCCHH-HHHHHHHHHhccCcHHHHHHHHHHhHHhc
Q 012108          275 AMILGLAL------------------HGYGYAALKLLGEMNDSCVKADDI-TFIGLLSACSHAGLVQEGCELFSRMEKDF  335 (471)
Q Consensus       275 ~l~~~~~~------------------~~~~~~a~~~~~~~~~~~~~p~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  335 (471)
                      .+..++..                  .|++++|+..|+++.+.  .|+.. ........          ..+...+..  
T Consensus        83 ~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~l~~--~P~~~~a~~a~~~l----------~~~~~~~~~--  148 (225)
T 2yhc_A           83 MRGLTNMALDDSALQGFFGVDRSDRDPQQARAAFSDFSKLVRG--YPNSQYTTDATKRL----------VFLKDRLAK--  148 (225)
T ss_dssp             HHHHHHHHHHC--------------CCHHHHHHHHHHHHHHTT--CTTCTTHHHHHHHH----------HHHHHHHHH--
T ss_pred             HHHHHHHhhhhhhhhhhhccchhhcCcHHHHHHHHHHHHHHHH--CcCChhHHHHHHHH----------HHHHHHHHH--
Confidence            55555554                  57899999999999986  44432 22211110          011111111  


Q ss_pred             CCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          336 GVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       336 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                             ....+...|.+.|++++|...|+++ ...|+    ...+..+..++.+.|++++|...++.+...+|.
T Consensus       149 -------~~~~~a~~~~~~~~~~~A~~~~~~~l~~~p~~~~~~~a~~~l~~~~~~~g~~~~A~~~~~~l~~~~~~  216 (225)
T 2yhc_A          149 -------YEYSVAEYYTERGAWVAVVNRVEGMLRDYPDTQATRDALPLMENAYRQMQMNAQAEKVAKIIAANSSN  216 (225)
T ss_dssp             -------HHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCCSC
T ss_pred             -------HHHHHHHHHHHcCcHHHHHHHHHHHHHHCcCCCccHHHHHHHHHHHHHcCCcHHHHHHHHHHHhhCCC
Confidence                   1234567788899999999999887 22333    246778888999999999999999999888877

>3rjv_A Putative SEL1 repeat protein; alpha-alpha superhelix, structural genomics, joint center FO structural genomics, JCSG; HET: MSE; 1.65A {Klebsiella pneumoniae subsp}

Probab=98.92  E-value=1.4e-07  Score=78.42  Aligned_cols=168  Identities=8%  Similarity=-0.014  Sum_probs=108.6

Q ss_pred             HHHHHHhccc-cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccC----ChHHHHHHHHHHH
Q 012108          157 AGEMFKKMLV-KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLG----SLETGARIHVYAT  231 (471)
Q Consensus       157 A~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~----~~~~a~~~~~~~~  231 (471)
                      |.+.|++..+ .++..+..+...|...+++++|..+|++..+.|   +...+..+...+.. +    +.++|..+|+...
T Consensus         5 A~~~~~~aa~~g~~~a~~~lg~~~~~~~~~~~A~~~~~~a~~~g---~~~a~~~lg~~y~~-~g~~~~~~~A~~~~~~A~   80 (212)
T 3rjv_A            5 PGSQYQQQAEAGDRRAQYYLADTWVSSGDYQKAEYWAQKAAAQG---DGDALALLAQLKIR-NPQQADYPQARQLAEKAV   80 (212)
T ss_dssp             TTHHHHHHHHTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHTT---CHHHHHHHHHHTTS-STTSCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHhcCCCHHHHHHHHHHHHHcC---CHHHHHHHHHHHHc-CCCCCCHHHHHHHHHHHH
Confidence            4555555532 366667777777777777777777777777654   34555556666655 5    6777777777776


Q ss_pred             HcCCCCchhHHHHHHHHHHh----cCChHHHHHHHhcCCCC-C----hhhHHHHHHHHHh----cCChHHHHHHHHHHHh
Q 012108          232 DNGLASNPHATTALIDMYAK----CGSIEQSLEVFYKSQVK-D----VFCWNAMILGLAL----HGYGYAALKLLGEMND  298 (471)
Q Consensus       232 ~~~~~~~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~-~----~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~  298 (471)
                      +.|   ++..+..|...|..    .+++++|+.+|++.... +    +.++..|...|..    .+++++|...|++..+
T Consensus        81 ~~g---~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~~~~~~~~~~a~~~Lg~~y~~g~g~~~d~~~A~~~~~~A~~  157 (212)
T 3rjv_A           81 EAG---SKSGEIVLARVLVNRQAGATDVAHAITLLQDAARDSESDAAVDAQMLLGLIYASGVHGPEDDVKASEYFKGSSS  157 (212)
T ss_dssp             HTT---CHHHHHHHHHHHTCGGGSSCCHHHHHHHHHHHTSSTTSHHHHHHHHHHHHHHHHTSSSSCCHHHHHHHHHHHHH
T ss_pred             HCC---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHcCCCcchHHHHHHHHHHHHcCCCCCCCHHHHHHHHHHHHH
Confidence            654   45556666666665    66777777777765553 2    4666777777776    6677777777777766


Q ss_pred             CCCCCCHHHHHHHHHHHhcc------CcHHHHHHHHHHhHH
Q 012108          299 SCVKADDITFIGLLSACSHA------GLVQEGCELFSRMEK  333 (471)
Q Consensus       299 ~~~~p~~~~~~~l~~~~~~~------~~~~~a~~~~~~~~~  333 (471)
                      .  ..+...+..|...|...      .+.++|...|++..+
T Consensus       158 ~--~~~~~a~~~Lg~~y~~g~gg~~~~d~~~A~~~~~~A~~  196 (212)
T 3rjv_A          158 L--SRTGYAEYWAGMMFQQGEKGFIEPNKQKALHWLNVSCL  196 (212)
T ss_dssp             T--SCTTHHHHHHHHHHHHCBTTTBCCCHHHHHHHHHHHHH
T ss_pred             c--CCCHHHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHH
Confidence            5  22334555565555432      267777777777776

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.92  E-value=3.3e-07  Score=80.49  Aligned_cols=162  Identities=7%  Similarity=-0.138  Sum_probs=120.8

Q ss_pred             HHHHHHHhcCChHHHHHHHHHHHhCCC-CCCHH----HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hhHHH
Q 012108          275 AMILGLALHGYGYAALKLLGEMNDSCV-KADDI----TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LEHYG  345 (471)
Q Consensus       275 ~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~  345 (471)
                      ..+..+...|++++|..++++...... .|+..    .+..+...+...+++++|...++++.+.....++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            346678888999999999998876421 22221    2334666677788999999999999872122222    23688


Q ss_pred             HHHHHHhhcCCHHHHHHHHHhCC--------CCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-----CchhH
Q 012108          346 CMVDLLGRARLLDRAIELIEAMP--------FEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-----SDGEL  411 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~~--------~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~~~~  411 (471)
                      .+...|...|++++|...|+++-        ..+. ..++..+...|...|++++|...++++++..+..     -..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            88999999999999998888761        1122 3478889999999999999999999998764331     25688


Q ss_pred             HHHHHHHHhcCC-HHHHHHHHHHhhh
Q 012108          412 MMFANLYASCGQ-WEEANRWRNMMND  436 (471)
Q Consensus       412 ~~l~~~~~~~g~-~~~A~~~~~~m~~  436 (471)
                      ..++.+|.+.|+ +++|.+.+++...
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~  265 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHH
Confidence            899999999995 6999999988865

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.92  E-value=6.7e-08  Score=84.97  Aligned_cols=165  Identities=6%  Similarity=-0.131  Sum_probs=111.4

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hh
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKADD-----ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LE  342 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~  342 (471)
                      .+...+..+...|++++|.+.+.+..+.....+.     ..+..+...+...|++++|...++++.+......+    ..
T Consensus        77 ~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~  156 (293)
T 2qfc_A           77 QFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLY  156 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHHH
Confidence            3444566677788888888888777664222111     12333455567778888888888887752111111    34


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-------CCCC--CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC-----Cc
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAM-------PFEP--TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL-----SD  408 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~-----~~  408 (471)
                      +++.+...|...|++++|...+++.       +..+  ...++..+...|...|++++|...++++++..+..     -.
T Consensus       157 ~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~~  236 (293)
T 2qfc_A          157 IENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIG  236 (293)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHHH
Confidence            6777888888888888888888765       1111  12577888888889999999999998887654221     15


Q ss_pred             hhHHHHHHHHHhcCCHHHH-HHHHHHhhh
Q 012108          409 GELMMFANLYASCGQWEEA-NRWRNMMND  436 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A-~~~~~~m~~  436 (471)
                      .+|..++.+|.+.|++++| ...+++...
T Consensus       237 ~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~  265 (293)
T 2qfc_A          237 QLYYQRGECLRKLEYEEAEIEDAYKKASF  265 (293)
T ss_dssp             HHHHHHHHHHHHTTCCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCcHHHHHHHHHHHHH
Confidence            6778888899999999998 776776643

>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=98.91  E-value=3.1e-09  Score=82.74  Aligned_cols=95  Identities=7%  Similarity=-0.061  Sum_probs=46.3

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      .+..+...+.+.|++++|...|++. .. +.+...|..+..++...|++++|+..|+++++.+|. ++..+..++.+|..
T Consensus        23 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~lg~~~~~  101 (148)
T 2vgx_A           23 QLYSLAFNQYQSGXYEDAHXVFQALCVLDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIX-EPRFPFHAAECLLQ  101 (148)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCChHHHHHHHHHHHHcCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CchHHHHHHHHHHH
Confidence            3344444444444444444444443 11 223444444455555555555555555555555555 55555555555555


Q ss_pred             cCCHHHHHHHHHHhhhCC
Q 012108          421 CGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       421 ~g~~~~A~~~~~~m~~~~  438 (471)
                      .|++++|.+.|++..+..
T Consensus       102 ~g~~~~A~~~~~~al~~~  119 (148)
T 2vgx_A          102 XGELAEAESGLFLAQELI  119 (148)
T ss_dssp             TTCHHHHHHHHHHHHHHH
T ss_pred             cCCHHHHHHHHHHHHHHC
Confidence            555555555555554433

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.89  E-value=1.6e-08  Score=76.18  Aligned_cols=106  Identities=8%  Similarity=-0.064  Sum_probs=51.2

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHh
Q 012108          307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACV  384 (471)
Q Consensus       307 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~  384 (471)
                      .+......+.+.|++++|++.|+++.+  -.+.++..|..+..+|.+.|++++|++.|++. .+. .+...|..+..++.
T Consensus        15 ~~~~~G~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~   92 (126)
T 4gco_A           15 EEKNKGNEYFKKGDYPTAMRHYNEAVK--RDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSKFIKGYIRKAACLV   92 (126)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhhhhHHHHHHHHHHH
Confidence            344455555555555555555555554  22334444555555555555555555555444 112 23344444455555


Q ss_pred             hcCCchHHHHHHHHHHHcCCCCCchhHHHHH
Q 012108          385 IHQDLEIGDRVAKMVCAKSNYLSDGELMMFA  415 (471)
Q Consensus       385 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  415 (471)
                      ..|++++|++.|+++++.+|. ++..+..|.
T Consensus        93 ~~~~~~~A~~~~~~al~l~P~-~~~a~~~l~  122 (126)
T 4gco_A           93 AMREWSKAQRAYEDALQVDPS-NEEAREGVR  122 (126)
T ss_dssp             HTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHHCcC-CHHHHHHHH
Confidence            555555555555555555554 444444433

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.89  E-value=3.6e-08  Score=78.32  Aligned_cols=128  Identities=9%  Similarity=-0.087  Sum_probs=97.4

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSAC  383 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~  383 (471)
                      ..+..+...+...|++++|...|+++.+  ..+.+...+..+..++...|++++|.+.+++. . .+.+...+..+..++
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~   91 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIE--LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASN   91 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            3455666677777888888888887776  23445677777777888888888888887776 2 233567788888889


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH--HHhcCCHHHHHHHHHHhhh
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL--YASCGQWEEANRWRNMMND  436 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~~m~~  436 (471)
                      ...|++++|...++++.+..|. +...+..+..+  +.+.|++++|++.+++...
T Consensus        92 ~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           92 MALGKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            9999999999999999999988 77777554444  7788999999999887654

>4gco_A Protein STI-1; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, tetratricopeptide repeat domain; 1.60A {Caenorhabditis elegans}

Probab=98.88  E-value=2.9e-08  Score=74.77  Aligned_cols=101  Identities=5%  Similarity=-0.096  Sum_probs=87.7

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ...+......|.+.|++++|++.|++. ... .+...|..+..++...|++++|+..++++++.+|. ++..|..++.+|
T Consensus        13 a~~~~~~G~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~   91 (126)
T 4gco_A           13 AQEEKNKGNEYFKKGDYPTAMRHYNEAVKRDPENAILYSNRAACLTKLMEFQRALDDCDTCIRLDSK-FIKGYIRKAACL   91 (126)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHhhHHHhhccHHHHHHHHHHHHHhhhh-hhHHHHHHHHHH
Confidence            456777888899999999999999887 333 46788888999999999999999999999999999 899999999999


Q ss_pred             HhcCCHHHHHHHHHHhhhCCCccc
Q 012108          419 ASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       419 ~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ...|++++|.+.|++..+.+|...
T Consensus        92 ~~~~~~~~A~~~~~~al~l~P~~~  115 (126)
T 4gco_A           92 VAMREWSKAQRAYEDALQVDPSNE  115 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHCCCHHHHHHHHHHHHHHCcCCH
Confidence            999999999999999988776543

>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=98.86  E-value=1.1e-08  Score=82.55  Aligned_cols=121  Identities=10%  Similarity=0.015  Sum_probs=56.8

Q ss_pred             hcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHH-HhhcCCH--H
Q 012108          282 LHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDL-LGRARLL--D  358 (471)
Q Consensus       282 ~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~g~~--~  358 (471)
                      ..|++++|...+++..... +.+...+..+...+...|++++|...|+++.+.  .+.+...+..+..+ +...|++  +
T Consensus        22 ~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~--~p~~~~~~~~la~~l~~~~~~~~~~   98 (177)
T 2e2e_A           22 SQQNPEAQLQALQDKIRAN-PQNSEQWALLGEYYLWQNDYSNSLLAYRQALQL--RGENAELYAALATVLYYQASQHMTA   98 (177)
T ss_dssp             -----CCCCHHHHHHHHHC-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HCSCHHHHHHHHHHHHHHTTTCCCH
T ss_pred             hccCHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHc--CCCCHHHHHHHHHHHHHhcCCcchH
Confidence            3455555555555555432 224445555555555555555555555555541  12234444444444 4444554  5


Q ss_pred             HHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          359 RAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       359 ~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +|...++++ ...| +...+..+...+...|++++|...++++.+..|.
T Consensus        99 ~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~  147 (177)
T 2e2e_A           99 QTRAMIDKALALDSNEITALMLLASDAFMQANYAQAIELWQKVMDLNSP  147 (177)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCT
T ss_pred             HHHHHHHHHHHhCCCcHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCC
Confidence            555555444 1122 2344444445555555555555555555555444

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.85  E-value=1e-08  Score=89.52  Aligned_cols=192  Identities=8%  Similarity=-0.100  Sum_probs=106.9

Q ss_pred             hhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          239 PHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       239 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      ...+..+...+...|++++|+..|++...   .+...|..+...+.+.|++++|+..+++..+.. +.+...+..+..++
T Consensus         4 a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~   82 (281)
T 2c2l_A            4 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQ   82 (281)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            33444455555555555555555554332   244556666666666666666666666666542 23455666677777


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRV  395 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  395 (471)
                      ...|++++|...|+++.+...  .+...+...+....+..+...... ......+++......+.. + ..|++++|.+.
T Consensus        83 ~~~g~~~~A~~~~~~al~l~p--~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~i~~~l~~-l-~~~~~~~A~~~  157 (281)
T 2c2l_A           83 LEMESYDEAIANLQRAYSLAK--EQRLNFGDDIPSALRIAKKKRWNS-IEERRIHQESELHSYLTR-L-IAAERERELEE  157 (281)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHH--HTTCCCCSHHHHHHHHHHHHHHHH-HHHTCCCCCCHHHHHHHH-H-HHHHHHHHHTT
T ss_pred             HHcCCHHHHHHHHHHHHHhCc--cchhhHHHHHHHHHHHHHHHHHHH-HHHHHHhhhHHHHHHHHH-H-HHHHHHHHHHH
Confidence            777777777777777665211  011011111111111111111111 112223334333333322 2 36888889888


Q ss_pred             HHHHHHcCCCCCchhHHHHHHHHHhc-CCHHHHHHHHHHhhhC
Q 012108          396 AKMVCAKSNYLSDGELMMFANLYASC-GQWEEANRWRNMMNDT  437 (471)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~  437 (471)
                      ++++.+.+|. +......+...+.+. +.+++|.++|+++.+.
T Consensus       158 ~~~al~~~p~-~~~~~~~l~~~~~~~~~~~~~a~~~f~~a~~~  199 (281)
T 2c2l_A          158 CQRNHEGHED-DGHIRAQQACIEAKHDKYMADMDELFSQVDEK  199 (281)
T ss_dssp             TSGGGTTTSC-HHHHTHHHHHHHHHHHHHHHHHHHHHHHSSCT
T ss_pred             HHhhhccccc-hhhhhhHHHHHHHHHHHHHHHHHHHHHhhhcc
Confidence            8888888877 666677777767666 7788999999888664

>1hh8_A P67PHOX, NCF-2, neutrophil cytosol factor 2; cell cycle, phagocyte oxidase factor, SH3 domain, repeat, TPR repeat cell cycle; HET: FLC; 1.8A {Homo sapiens} SCOP: a.118.8.1 PDB: 1wm5_A 1e96_B*

Probab=98.85  E-value=8e-08  Score=79.95  Aligned_cols=131  Identities=8%  Similarity=-0.108  Sum_probs=109.1

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC
Q 012108          240 HATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAG  319 (471)
Q Consensus       240 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~  319 (471)
                      ..+..+...+...|++++|+..|++...++..+|..+...+...|++++|+..+++..... +.+...+..+..++...|
T Consensus         7 ~~~~~~g~~~~~~~~~~~A~~~~~~a~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~-~~~~~~~~~lg~~~~~~~   85 (213)
T 1hh8_A            7 ISLWNEGVLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRD-KHLAVAYFQRGMLYYQTE   85 (213)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHhCCHHHHHHHHHHHcCCChHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-ccchHHHHHHHHHHHHcc
Confidence            3455677888899999999999999888888899999999999999999999999988763 446678888899999999


Q ss_pred             cHHHHHHHHHHhHHhcCCCCCh----------------hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCH
Q 012108          320 LVQEGCELFSRMEKDFGVTRKL----------------EHYGCMVDLLGRARLLDRAIELIEAM-PFEPTE  373 (471)
Q Consensus       320 ~~~~a~~~~~~~~~~~~~~~~~----------------~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~  373 (471)
                      ++++|.+.|+++.+  ..+.+.                ..+..+..+|.+.|++++|.+.|++. ...|+.
T Consensus        86 ~~~~A~~~~~~al~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~  154 (213)
T 1hh8_A           86 KYDLAIKDLKEALI--QLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSEP  154 (213)
T ss_dssp             CHHHHHHHHHHHHH--TTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCSG
T ss_pred             cHHHHHHHHHHHHH--hCCCccHHHHHHhccccCccchHHHHHHHHHHHHccCHHHHHHHHHHHHHcCccc
Confidence            99999999999987  223323                77888889999999999999999887 555654

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.84  E-value=5.8e-08  Score=73.75  Aligned_cols=116  Identities=8%  Similarity=-0.032  Sum_probs=74.8

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHH
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSA  382 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~  382 (471)
                      ...+..+...+...|++++|...++++.+  ..+.+...+..+..++...|++++|.+.+++. .. +.+...+..+..+
T Consensus        16 ~~~~~~~~~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~la~~   93 (133)
T 2lni_A           16 ALMVKNKGNECFQKGDYPQAMKHYTEAIK--RNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPTFIKGYTRKAAA   93 (133)
T ss_dssp             HHHHHHHHHHHHHTTCSHHHHHHHHHHHT--TCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHH--cCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCCchHHHHHHHHH
Confidence            34555555666666666666666666655  23334555666666666666666666666655 21 2345666777777


Q ss_pred             HhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          383 CVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      +...|++++|...++++.+..|. +...+..++.++.+.|+
T Consensus        94 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~  133 (133)
T 2lni_A           94 LEAMKDYTKAMDVYQKALDLDSS-CKEAADGYQRCMMAQYN  133 (133)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCGG-GTHHHHHHHHHHHHHTC
T ss_pred             HHHHhhHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHhcC
Confidence            77788888888888888887777 67777777777766653

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.83  E-value=7.4e-08  Score=72.12  Aligned_cols=115  Identities=13%  Similarity=0.010  Sum_probs=80.3

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHH
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSA  382 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~  382 (471)
                      ...+..+...+...|++++|.+.++++.+.  .+.+...+..+...+...|++++|...++++ . .+.+..++..+...
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~--~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~   86 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALEL--DPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNA   86 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--CcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHH
Confidence            345666666677777777777777777662  2345566667777777777777777777665 2 23356677777778


Q ss_pred             HhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcC
Q 012108          383 CVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCG  422 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  422 (471)
                      +...|++++|...++++.+..|. ++..+..++.++.+.|
T Consensus        87 ~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~~~~~g  125 (125)
T 1na0_A           87 YYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAKQKQG  125 (125)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHC
T ss_pred             HHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHhcc
Confidence            88888888888888888888877 7777777777766544

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.81  E-value=6.6e-08  Score=73.10  Aligned_cols=117  Identities=4%  Similarity=-0.164  Sum_probs=88.4

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHH
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSA  382 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~  382 (471)
                      ...+..+...+...|+++.|...++++.+  ..+.+...+..+..++...|++++|.+.+++. .. +.+...+..+...
T Consensus        12 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   89 (131)
T 2vyi_A           12 AERLKTEGNEQMKVENFEAAVHFYGKAIE--LNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICIDPAYSKAYGRMGLA   89 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHccCHHHHHHHHHHHHH--cCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcCccCHHHHHHHHHH
Confidence            34566666777777777888777777776  23445667777777777788888888777766 22 3346677888888


Q ss_pred             HhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCH
Q 012108          383 CVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQW  424 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~  424 (471)
                      +...|++++|...++++.+..|. ++..+..++.++.+.|++
T Consensus        90 ~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~l~~~~~~~~~~  130 (131)
T 2vyi_A           90 LSSLNKHVEAVAYYKKALELDPD-NETYKSNLKIAELKLREA  130 (131)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTTC
T ss_pred             HHHhCCHHHHHHHHHHHHhcCcc-chHHHHHHHHHHHHHhcC
Confidence            88899999999999999998888 788888888888887765

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.79  E-value=1.7e-08  Score=78.00  Aligned_cols=91  Identities=10%  Similarity=-0.131  Sum_probs=43.7

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          346 CMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      .+...+.+.|++++|...|++. ... .+...|..+..++...|++++|+..|+++++.+|. ++..+..++.+|...|+
T Consensus        23 ~~a~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~  101 (142)
T 2xcb_A           23 ALGFNQYQAGKWDDAQKIFQALCMLDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDIN-EPRFPFHAAECHLQLGD  101 (142)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CTHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHccHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CcHHHHHHHHHHHHcCC
Confidence            3334444444444444444443 111 23344444444455555555555555555555555 45555555555555555


Q ss_pred             HHHHHHHHHHhhhC
Q 012108          424 WEEANRWRNMMNDT  437 (471)
Q Consensus       424 ~~~A~~~~~~m~~~  437 (471)
                      +++|.+.|++..+.
T Consensus       102 ~~~A~~~~~~al~~  115 (142)
T 2xcb_A          102 LDGAESGFYSARAL  115 (142)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            55555555554443

>3u3w_A Transcriptional activator PLCR protein; ternary complex, PLCR-PAPR7-DNA, HTH DNA-binding domain, QUO sensing; 2.40A {Bacillus thuringiensis} PDB: 2qfc_A

Probab=98.75  E-value=1.3e-06  Score=76.63  Aligned_cols=159  Identities=8%  Similarity=-0.069  Sum_probs=117.3

Q ss_pred             HHHHHHHhcCChHHHHHHHhcCCCC---Ch------hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-CC----HHHHH
Q 012108          244 ALIDMYAKCGSIEQSLEVFYKSQVK---DV------FCWNAMILGLALHGYGYAALKLLGEMNDSCVK-AD----DITFI  309 (471)
Q Consensus       244 ~l~~~~~~~~~~~~a~~~~~~~~~~---~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p~----~~~~~  309 (471)
                      ..+..+...|++++|...+++....   +.      ..+..+...+...|++++|+..+++....... ++    ..+++
T Consensus        80 ~~i~~~~~~~~y~~a~~~~~~~l~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Ai~~~~~al~~~~~~~~~~~~~~~~~  159 (293)
T 3u3w_A           80 DQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNLYIEN  159 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCCCHHHHHHHHHHHHHHHHHTTSSCHHHHHHHHHHHHHTCCCCSCTTHHHHHHH
T ss_pred             HHHHHHHHHhhHHHHHHHHHHHhccccCChHHHHHHHHHHHHHHHHHcccCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3467788889999999988875442   11      12334666677778999999999998874222 22    23688


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhc----CCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCCC-HhHH
Q 012108          310 GLLSACSHAGLVQEGCELFSRMEKDF----GVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-------PFEPT-ESIL  376 (471)
Q Consensus       310 ~l~~~~~~~~~~~~a~~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p~-~~~~  376 (471)
                      .+...|...|++++|...|+++.+..    +..+ ...++..+..+|.+.|++++|.+.+++.       +..+. ..+|
T Consensus       160 ~lg~~y~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~A~~~~~~al~~~~~~~~~~~~~~~~  239 (293)
T 3u3w_A          160 AIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALIGQLY  239 (293)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCTTHHHHH
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHHHHhcccchhHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHcCcHHHHHHHH
Confidence            88899999999999999999988421    1122 2447788899999999999999998876       12222 5688


Q ss_pred             HHHHHHHhhcCC-chHHHHHHHHHHHc
Q 012108          377 GALLSACVIHQD-LEIGDRVAKMVCAK  402 (471)
Q Consensus       377 ~~l~~~~~~~g~-~~~a~~~~~~~~~~  402 (471)
                      ..+..++.+.|+ +++|...+++++..
T Consensus       240 ~~lg~~~~~~g~~~~~A~~~~~~Al~i  266 (293)
T 3u3w_A          240 YQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhCCcHHHHHHHHHHHHHH
Confidence            889999999995 59999999988764

>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=98.75  E-value=9.2e-08  Score=85.71  Aligned_cols=127  Identities=10%  Similarity=-0.035  Sum_probs=98.0

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC---------------hhHHHHHHHHHhhcCCHHHHHHHHHhC-CC
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK---------------LEHYGCMVDLLGRARLLDRAIELIEAM-PF  369 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---------------~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~  369 (471)
                      ..+..+...+.+.|++++|...|+++.+.  .+.+               ...|..+..+|.+.|++++|...+++. ..
T Consensus       148 ~~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~  225 (336)
T 1p5q_A          148 TIVKERGTVYFKEGKYKQALLQYKKIVSW--LEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALEL  225 (336)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHH--TTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHH--hhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            34555555666666666666666666552  1112               467888888888889999998888887 33


Q ss_pred             C-CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHH-HHHHHHhh
Q 012108          370 E-PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEA-NRWRNMMN  435 (471)
Q Consensus       370 ~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A-~~~~~~m~  435 (471)
                      . .+...+..+..++...|++++|+..|+++++..|. +...+..++.++.+.|++++| ..++++|.
T Consensus       226 ~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~  292 (336)
T 1p5q_A          226 DSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQRIRRQLAREKKLYANMF  292 (336)
T ss_dssp             CTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            3 46778889999999999999999999999999999 899999999999999999998 45666664

>2qfc_A PLCR protein; TPR, HTH, transcription regulation; 2.60A {Bacillus thuringiensis serovar ISRAELE35646}

Probab=98.73  E-value=5.1e-07  Score=79.28  Aligned_cols=163  Identities=7%  Similarity=-0.078  Sum_probs=115.7

Q ss_pred             hHHHHHHHHHHhcCChHHHHHHHhcCCC---CCh------hhHHHHHHHHHhcCChHHHHHHHHHHHhCCC---CCC--H
Q 012108          240 HATTALIDMYAKCGSIEQSLEVFYKSQV---KDV------FCWNAMILGLALHGYGYAALKLLGEMNDSCV---KAD--D  305 (471)
Q Consensus       240 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~p~--~  305 (471)
                      ..+...+..+...|++++|.+.+.+...   ...      ..+..+...+...|++++|+..+++......   .+.  .
T Consensus        76 ~~l~~~~~~~~~~~~y~~A~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~  155 (293)
T 2qfc_A           76 KQFKDQVIMLCKQKRYKEIYNKVWNELKKEEYHPEFQQFLQWQYYVAAYVLKKVDYEYCILELKKLLNQQLTGIDVYQNL  155 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCCCHHHHHHHHHHHHHHHHHHTSSCHHHHHHHHHHHHTTCCCSSCTTHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHhccccCChhHHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHhcCCchHHHH
Confidence            3445566777888888888887764322   111      2234455667778899999999988875321   111  3


Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHH---hcCCCC--ChhHHHHHHHHHhhcCCHHHHHHHHHhC-C------CCC-C
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEK---DFGVTR--KLEHYGCMVDLLGRARLLDRAIELIEAM-P------FEP-T  372 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~------~~p-~  372 (471)
                      .+++.+...|...|++++|...++++.+   ..+..+  ...++..+..+|.+.|++++|.+.+++. .      ... -
T Consensus       156 ~~~~~lg~~y~~~~~~~~A~~~~~kal~~~~~~~~~~~~~~~~~~nlg~~y~~~~~y~~Al~~~~kal~~~~~~~~~~~~  235 (293)
T 2qfc_A          156 YIENAIANIYAENGYLKKGIDLFEQILKQLEALHDNEEFDVKVRYNHAKALYLDSRYEESLYQVNKAIEISCRINSMALI  235 (293)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTBCSSH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHhcCccccchHHHHHhHHHHHHHHhhHHHHHHHHHHHHHHHHhcCcHHHH
Confidence            4788888899999999999999998873   111111  1257888889999999999999998876 1      111 1


Q ss_pred             HhHHHHHHHHHhhcCCchHH-HHHHHHHHHc
Q 012108          373 ESILGALLSACVIHQDLEIG-DRVAKMVCAK  402 (471)
Q Consensus       373 ~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~~  402 (471)
                      ..+|..+..++...|++++| ...++++...
T Consensus       236 ~~~~~~lg~~y~~~g~~~~Ai~~~~~~Al~~  266 (293)
T 2qfc_A          236 GQLYYQRGECLRKLEYEEAEIEDAYKKASFF  266 (293)
T ss_dssp             HHHHHHHHHHHHHTTCCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCcHHHHHHHHHHHHHH
Confidence            56788889999999999999 7778877654

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.71  E-value=2.4e-07  Score=78.93  Aligned_cols=185  Identities=9%  Similarity=-0.127  Sum_probs=82.4

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHH-------HHHHHhcCChHHHHHHHhcCCC--C-------C----------
Q 012108          216 NLGSLETGARIHVYATDNGLASNPHATTAL-------IDMYAKCGSIEQSLEVFYKSQV--K-------D----------  269 (471)
Q Consensus       216 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l-------~~~~~~~~~~~~a~~~~~~~~~--~-------~----------  269 (471)
                      ..++.+.|.+.|.++.+.. +.....|..+       ...+.+.++..+++..+.+...  |       +          
T Consensus        18 ~~~d~~~A~~~F~~a~~~d-P~~~Daw~g~~a~g~~~~~~L~~~~r~~~a~~~~~~~l~l~p~~l~a~~~~~g~y~~~~~   96 (282)
T 4f3v_A           18 LPMSEARSLDLFTEITNYD-ESACDAWIGRIRCGDTDRVTLFRAWYSRRNFGQLSGSVQISMSTLNARIAIGGLYGDITY   96 (282)
T ss_dssp             TTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHTTCCCHHHHHHHHHTGGGTTHHHHTTTCCGGGGCCEEECCTTTCCCEE
T ss_pred             cCCCHHHHHHHHHHHHHhC-hhhhHHHHhHHHccCCcHHHHHHHHHHHHHHHHHHHHhcCChhhhhhhhccCCccccccc
Confidence            4677777777777777665 4455556555       3444444444444443333222  0       0          


Q ss_pred             -----hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC--hh
Q 012108          270 -----VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK--LE  342 (471)
Q Consensus       270 -----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~--~~  342 (471)
                           ...+..+...+...|++++|.++|+.+...  .|+......+...+.+.+++++|+..|+...+ .. .|.  ..
T Consensus        97 ~v~~r~dl~LayA~~L~~~g~y~eA~~~l~~~~~~--~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~-~~-d~~~~~~  172 (282)
T 4f3v_A           97 PVTSPLAITMGFAACEAAQGNYADAMEALEAAPVA--GSEHLVAWMKAVVYGAAERWTDVIDQVKSAGK-WP-DKFLAGA  172 (282)
T ss_dssp             ECSSHHHHHHHHHHHHHHHTCHHHHHHHHTSSCCT--TCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGG-CS-CHHHHHH
T ss_pred             ccCCHhHHHHHHHHHHHHCCCHHHHHHHHHHHHhc--CCchHHHHHHHHHHHHcCCHHHHHHHHHHhhc-cC-CcccHHH
Confidence                 011223344445555555555555554443  23322333333344455555555555543332 00 110  12


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCCCC---CC--HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAMPFE---PT--ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~~~~---p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+..+..++.+.|++++|+..|++....   |.  .........++.+.|+.++|..+|+++...+|.
T Consensus       173 a~~~LG~al~~LG~~~eAl~~l~~a~~g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a~a~~P~  240 (282)
T 4f3v_A          173 AGVAHGVAAANLALFTEAERRLTEANDSPAGEACARAIAWYLAMARRSQGNESAAVALLEWLQTTHPE  240 (282)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSTTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHCCCHHHHHHHHHHHhcCCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCc
Confidence            3334444444555555555555444101   21  123333344444445555555555555444443

>4f3v_A ESX-1 secretion system protein ECCA1; tetratricopeptide repeat, TPR domain, ATPase, protein secret protein transport; 2.00A {Mycobacterium tuberculosis}

Probab=98.71  E-value=6.7e-07  Score=76.19  Aligned_cols=121  Identities=8%  Similarity=-0.056  Sum_probs=51.7

Q ss_pred             HHHHHHhcCChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--HHHHHHHHHHHhccCc
Q 012108          245 LIDMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKAD--DITFIGLLSACSHAGL  320 (471)
Q Consensus       245 l~~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--~~~~~~l~~~~~~~~~  320 (471)
                      +...+...|++++|.++|+.+..  |+......+...+.+.+++++|+..|+...... .|.  ...+..+..++...|+
T Consensus       108 yA~~L~~~g~y~eA~~~l~~~~~~~p~~~~~~~~a~l~~~~~r~~dA~~~l~~a~~~~-d~~~~~~a~~~LG~al~~LG~  186 (282)
T 4f3v_A          108 FAACEAAQGNYADAMEALEAAPVAGSEHLVAWMKAVVYGAAERWTDVIDQVKSAGKWP-DKFLAGAAGVAHGVAAANLAL  186 (282)
T ss_dssp             HHHHHHHHTCHHHHHHHHTSSCCTTCHHHHHHHHHHHHHHTTCHHHHHHHHTTGGGCS-CHHHHHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhcCCchHHHHHHHHHHHHcCCHHHHHHHHHHhhccC-CcccHHHHHHHHHHHHHHCCC
Confidence            34444455555555555554433  111133333334445555555555554332210 010  1234444444555555


Q ss_pred             HHHHHHHHHHhHHhcCCCC--ChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          321 VQEGCELFSRMEKDFGVTR--KLEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      +++|+..|++... ....|  ..........++.+.|+.++|...|+++
T Consensus       187 ~~eAl~~l~~a~~-g~~~P~~~~da~~~~glaL~~lGr~deA~~~l~~a  234 (282)
T 4f3v_A          187 FTEAERRLTEAND-SPAGEACARAIAWYLAMARRSQGNESAAVALLEWL  234 (282)
T ss_dssp             HHHHHHHHHHHHT-STTTTTTHHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhc-CCCCccccHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            5555555555543 11112  1223334444445555555555555544

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.69  E-value=1.7e-05  Score=69.95  Aligned_cols=172  Identities=10%  Similarity=0.014  Sum_probs=105.8

Q ss_pred             HhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc-C-ChH
Q 012108          180 LRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLG-SLETGARIHVYATDNGLASNPHATTALIDMYAKC-G-SIE  256 (471)
Q Consensus       180 ~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-~-~~~  256 (471)
                      .+.+..++|++++++++..+ +-+...|+.--..+...| .+++++.+++.+.... +.+..+|+.-..++... + +++
T Consensus        65 ~~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~n-PKny~aW~hR~wlL~~l~~~~~~  142 (349)
T 3q7a_A           65 AKEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQN-LKSYQVWHHRLLLLDRISPQDPV  142 (349)
T ss_dssp             HTTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTT-CCCHHHHHHHHHHHHHHCCSCCH
T ss_pred             HhCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhC-CCcHHHHHHHHHHHHHhcCCChH
Confidence            33444556777777766642 223334454444555555 4677777777777665 55566666665555555 5 667


Q ss_pred             HHHHHHhcCCCC---ChhhHHHHHHHHHhcCChH--------HHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCc-----
Q 012108          257 QSLEVFYKSQVK---DVFCWNAMILGLALHGYGY--------AALKLLGEMNDSCVKADDITFIGLLSACSHAGL-----  320 (471)
Q Consensus       257 ~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~-----  320 (471)
                      +++++++++...   |..+|+.-...+.+.|.++        ++++.++++.+.. +-|...|+.....+.+.+.     
T Consensus       143 ~EL~~~~k~L~~dpkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~~d-p~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          143 SEIEYIHGSLLPDPKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLRVD-GRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHHHTSSCTTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHHHhCCCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHhccccccch
Confidence            777777766553   4455555544555545555        7888888887764 3366677776666666665     


Q ss_pred             --HHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC
Q 012108          321 --VQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL  356 (471)
Q Consensus       321 --~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  356 (471)
                        ++++++.++++..  ..+-|...|+.+-..+.+.|+
T Consensus       222 ~~~~eELe~~~~aI~--~~P~n~SaW~Ylr~Ll~~~~~  257 (349)
T 3q7a_A          222 RSLQDELIYILKSIH--LIPHNVSAWNYLRGFLKHFSL  257 (349)
T ss_dssp             HHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhcCC
Confidence              6778888887776  345567777776666666554

>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=98.69  E-value=1e-07  Score=71.78  Aligned_cols=94  Identities=6%  Similarity=-0.160  Sum_probs=51.4

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      +..+...+.+.|++++|...|++. .. +.+...|..+..++...|++++|+..++++++.+|. ++..+..++.+|...
T Consensus         7 ~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~   85 (126)
T 3upv_A            7 ARLEGKEYFTKSDWPNAVKAYTEMIKRAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPN-FVRAYIRKATAQIAV   85 (126)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHhCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHH
Confidence            344444455555555555555544 11 223455555555555566666666666666666555 555566666666666


Q ss_pred             CCHHHHHHHHHHhhhCC
Q 012108          422 GQWEEANRWRNMMNDTG  438 (471)
Q Consensus       422 g~~~~A~~~~~~m~~~~  438 (471)
                      |++++|.+.+++..+.+
T Consensus        86 ~~~~~A~~~~~~al~~~  102 (126)
T 3upv_A           86 KEYASALETLDAARTKD  102 (126)
T ss_dssp             TCHHHHHHHHHHHHHHH
T ss_pred             hCHHHHHHHHHHHHHhC
Confidence            66666666665555444

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.69  E-value=9e-08  Score=71.46  Aligned_cols=97  Identities=10%  Similarity=-0.193  Sum_probs=80.4

Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      .+..+...+.+.|++++|...|++. ...| +...|..+..++...|++++|+..++++++.+|. ++..+..++.+|..
T Consensus        19 ~~~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~-~~~~~~~la~~~~~   97 (121)
T 1hxi_A           19 NPMEEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTN   97 (121)
T ss_dssp             CHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            3455667788888999998888887 3334 6778888889999999999999999999999999 89999999999999


Q ss_pred             cCCHHHHHHHHHHhhhCCCc
Q 012108          421 CGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       421 ~g~~~~A~~~~~~m~~~~~~  440 (471)
                      .|++++|...+++..+.++.
T Consensus        98 ~g~~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHC----
T ss_pred             cCCHHHHHHHHHHHHHhCcC
Confidence            99999999999999876654

>2c2l_A CHIP, carboxy terminus of HSP70-interacting protein; chaperone, E3 ligase, ubiquitinylation, TPR, heat-shock protein complex; 3.3A {Mus musculus} SCOP: a.118.8.1 g.44.1.2

Probab=98.67  E-value=1.4e-07  Score=82.15  Aligned_cols=93  Identities=6%  Similarity=-0.071  Sum_probs=51.1

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHhcc--cc-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012108          139 VSWNSLILAYTNAGEMEKAGEMFKKML--VK-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACA  215 (471)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~A~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~  215 (471)
                      ..+..+...+.+.|++++|...|++..  .| +...|..+..++.+.|++++|...+++..+.. +.+...+..+..++.
T Consensus         5 ~~~~~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~lg~~~~   83 (281)
T 2c2l_A            5 QELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELD-GQSVKAHFFLGQCQL   83 (281)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHH
Confidence            344455555556666666666665552  12 44555556666666666666666666655532 223444555555555


Q ss_pred             ccCChHHHHHHHHHHHH
Q 012108          216 NLGSLETGARIHVYATD  232 (471)
Q Consensus       216 ~~~~~~~a~~~~~~~~~  232 (471)
                      ..|++++|...++.+.+
T Consensus        84 ~~g~~~~A~~~~~~al~  100 (281)
T 2c2l_A           84 EMESYDEAIANLQRAYS  100 (281)
T ss_dssp             HTTCHHHHHHHHHHHHH
T ss_pred             HcCCHHHHHHHHHHHHH
Confidence            66666666666655544

>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=98.67  E-value=6.4e-08  Score=75.22  Aligned_cols=103  Identities=7%  Similarity=-0.114  Sum_probs=81.3

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHH
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSA  382 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~  382 (471)
                      ...+..+...+...|++++|...|+++..  ..+.++..|..+..+|...|++++|...|++. ...| +...+..+..+
T Consensus        21 ~~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~   98 (148)
T 2vgx_A           21 LEQLYSLAFNQYQSGXYEDAHXVFQALCV--LDHYDSRFFLGLGACRQAMGQYDLAIHSYSYGAVMDIXEPRFPFHAAEC   98 (148)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCChHHHHHHHHHHHH--cCcccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCchHHHHHHHH
Confidence            34566677778888888888888888887  34556778888888888888888888888887 3333 56778888888


Q ss_pred             HhhcCCchHHHHHHHHHHHcCCCCCchh
Q 012108          383 CVIHQDLEIGDRVAKMVCAKSNYLSDGE  410 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~  410 (471)
                      +...|++++|...|+++++..|. ++..
T Consensus        99 ~~~~g~~~~A~~~~~~al~~~p~-~~~~  125 (148)
T 2vgx_A           99 LLQXGELAEAESGLFLAQELIAN-XPEF  125 (148)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHHTT-CGGG
T ss_pred             HHHcCCHHHHHHHHHHHHHHCcC-CCcc
Confidence            99999999999999999988887 5544

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.65  E-value=1.4e-07  Score=74.77  Aligned_cols=109  Identities=9%  Similarity=-0.046  Sum_probs=92.0

Q ss_pred             CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHH
Q 012108          304 DDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLS  381 (471)
Q Consensus       304 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~  381 (471)
                      +...+..+...+...|++++|+..|+++.+  -.+.+...|..+..+|.+.|++++|+..|++. ...| +...|..+..
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~   87 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALS--IAPANPIYLSNRAAAYSASGQHEKAAEDAELATVVDPKYSKAWSRLGL   87 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCcCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCCCHHHHHHHHH
Confidence            456788888899999999999999999998  34457888999999999999999999999987 3334 5778899999


Q ss_pred             HHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHH
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFA  415 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  415 (471)
                      ++...|++++|...|+++++..|. +...+....
T Consensus        88 ~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~  120 (164)
T 3sz7_A           88 ARFDMADYKGAKEAYEKGIEAEGN-GGSDAMKRG  120 (164)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHHSS-SCCHHHHHH
T ss_pred             HHHHccCHHHHHHHHHHHHHhCCC-chHHHHHHH
Confidence            999999999999999999999998 777554433

>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=98.65  E-value=2.9e-07  Score=68.04  Aligned_cols=94  Identities=10%  Similarity=-0.113  Sum_probs=44.6

Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC  421 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  421 (471)
                      +..+...+...|++++|...+++. . .+.+...+..+...+...|++++|...++++.+..|. ++..+..++.+|...
T Consensus         7 ~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~a~~~~~~   85 (118)
T 1elw_A            7 LKEKGNKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFL   85 (118)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHH
Confidence            333344444444444444444443 1 1123344444444455555555555555555555554 455555555555555


Q ss_pred             CCHHHHHHHHHHhhhCC
Q 012108          422 GQWEEANRWRNMMNDTG  438 (471)
Q Consensus       422 g~~~~A~~~~~~m~~~~  438 (471)
                      |++++|.+.+++..+.+
T Consensus        86 ~~~~~A~~~~~~~~~~~  102 (118)
T 1elw_A           86 NRFEEAKRTYEEGLKHE  102 (118)
T ss_dssp             TCHHHHHHHHHHHHTTC
T ss_pred             hhHHHHHHHHHHHHHcC
Confidence            55555555555554443

>2lni_A Stress-induced-phosphoprotein 1; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative, chaperone; NMR {Homo sapiens}

Probab=98.65  E-value=3e-07  Score=69.70  Aligned_cols=103  Identities=5%  Similarity=-0.139  Sum_probs=91.8

Q ss_pred             CCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHH
Q 012108          338 TRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFA  415 (471)
Q Consensus       338 ~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  415 (471)
                      +.+...+..+...+...|++++|.+.|++. ...| +...+..+...+...|++++|...++++.+..|. +...+..++
T Consensus        13 ~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~la   91 (133)
T 2lni_A           13 PDLALMVKNKGNECFQKGDYPQAMKHYTEAIKRNPKDAKLYSNRAACYTKLLEFQLALKDCEECIQLEPT-FIKGYTRKA   91 (133)
T ss_dssp             SCHHHHHHHHHHHHHHTTCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHTTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHH
T ss_pred             cccHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCcHHHHHHHHHHHHHhccHHHHHHHHHHHHHhCCC-chHHHHHHH
Confidence            345777888999999999999999999987 4444 6788899999999999999999999999999998 899999999


Q ss_pred             HHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          416 NLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       416 ~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      .+|.+.|++++|.+.+++..+..+..
T Consensus        92 ~~~~~~~~~~~A~~~~~~~~~~~p~~  117 (133)
T 2lni_A           92 AALEAMKDYTKAMDVYQKALDLDSSC  117 (133)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCGGG
T ss_pred             HHHHHHhhHHHHHHHHHHHHHhCCCc
Confidence            99999999999999999998876543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.65  E-value=3e-07  Score=75.52  Aligned_cols=96  Identities=10%  Similarity=-0.061  Sum_probs=69.1

Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHH
Q 012108          342 EHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYA  419 (471)
Q Consensus       342 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  419 (471)
                      ..+..+..+|.+.|++++|...+++. .. +.+...+..+..++...|++++|...|+++++..|. +...+..+..++.
T Consensus        89 ~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~  167 (198)
T 2fbn_A           89 SCNLNLATCYNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVN  167 (198)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHHhCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHH
Confidence            56667777777888888888877776 22 335678888888899999999999999999999998 8889999999998


Q ss_pred             hcCCHHHHH-HHHHHhhhCC
Q 012108          420 SCGQWEEAN-RWRNMMNDTG  438 (471)
Q Consensus       420 ~~g~~~~A~-~~~~~m~~~~  438 (471)
                      ..|+.+++. ..+..|...+
T Consensus       168 ~~~~~~~~~~~~~~~~f~~~  187 (198)
T 2fbn_A          168 KLKEARKKDKLTFGGMFDKG  187 (198)
T ss_dssp             HHHHHHC-------------
T ss_pred             HHHHHHHHHHHHHHHHhccc
Confidence            888888776 5566665443

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.65  E-value=2.2e-07  Score=76.50  Aligned_cols=132  Identities=8%  Similarity=-0.151  Sum_probs=59.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHh----CCCCC-CHHHHHHHHHHHhccCcHHHHHHHHHHhHHhc---CCCC--C
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMND----SCVKA-DDITFIGLLSACSHAGLVQEGCELFSRMEKDF---GVTR--K  340 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~p-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~---~~~~--~  340 (471)
                      .++..+...+...|++++|...+++...    .+..| ....+..+...+...|++++|...+++..+..   +..+  .
T Consensus        27 ~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~  106 (203)
T 3gw4_A           27 GARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWDAARRCFLEERELLASLPEDPLAA  106 (203)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHcCccHHHH
Confidence            3344444444444555555444444432    11111 12344455555556666666666665554421   1011  1


Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhCC------CCCC--HhHHHHHHHHHhhcCCchHHHHHHHHHHHc
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAMP------FEPT--ESILGALLSACVIHQDLEIGDRVAKMVCAK  402 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~~------~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~  402 (471)
                      ...+..+...+...|++++|...+++.-      ..+.  ..++..+...+...|++++|...++++.+.
T Consensus       107 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~  176 (203)
T 3gw4_A          107 SANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNLLEAQQHWLRARDI  176 (203)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCHHHHHHHHHHHHHH
Confidence            2234444445555555555555544430      0111  123344555555566666666555555443

>1na0_A Designed protein CTPR3; de novo protein; HET: IPT; 1.60A {Unidentified} SCOP: k.38.1.1 PDB: 2wqh_A 3kd7_A

Probab=98.64  E-value=2.6e-07  Score=69.10  Aligned_cols=100  Identities=13%  Similarity=0.031  Sum_probs=89.2

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ...+..+...+...|++++|.+.++++ . .+.+..++..+...+...|++++|...++++.+..|. ++..+..++.+|
T Consensus         9 ~~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~la~~~   87 (125)
T 1na0_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAY   87 (125)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcCcHHHHHHHHHHHHHhCCHHHHHHHHHHHHHhCCc-cHHHHHHHHHHH
Confidence            567888899999999999999999987 2 3346778889999999999999999999999999988 899999999999


Q ss_pred             HhcCCHHHHHHHHHHhhhCCCcc
Q 012108          419 ASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       419 ~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ...|++++|...++++.+..+..
T Consensus        88 ~~~~~~~~A~~~~~~~~~~~~~~  110 (125)
T 1na0_A           88 YKQGDYDEAIEYYQKALELDPNN  110 (125)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             HHhcCHHHHHHHHHHHHHhCCCc
Confidence            99999999999999998876543

>3gyz_A Chaperone protein IPGC; asymmetric homodimer, tetratricopeptide repeat, TPR, chapero virulence; 2.15A {Shigella flexneri} PDB: 3gz1_A 3gz2_A 3ks2_A

Probab=98.64  E-value=5.7e-07  Score=69.77  Aligned_cols=102  Identities=9%  Similarity=-0.037  Sum_probs=87.0

Q ss_pred             CCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHH
Q 012108          302 KAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGA  378 (471)
Q Consensus       302 ~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  378 (471)
                      .|+ ...+..+...+.+.|++++|...|+++.+  -.+.++..|..+..+|...|++++|.+.|++. .+.| ++..|..
T Consensus        32 ~p~~~~~~~~lg~~~~~~g~~~eA~~~~~~al~--~~P~~~~~~~~lg~~~~~~g~~~~Ai~~~~~al~l~P~~~~~~~~  109 (151)
T 3gyz_A           32 PDDMMDDIYSYAYDFYNKGRIEEAEVFFRFLCI--YDFYNVDYIMGLAAIYQIKEQFQQAADLYAVAFALGKNDYTPVFH  109 (151)
T ss_dssp             CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSSSCCHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCCCCcHHHHH
Confidence            443 34677788889999999999999999998  34557888999999999999999999999988 3444 5678889


Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +..++...|++++|...|+++++..|+
T Consensus       110 lg~~~~~lg~~~eA~~~~~~al~l~~~  136 (151)
T 3gyz_A          110 TGQCQLRLKAPLKAKECFELVIQHSND  136 (151)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            999999999999999999999999887

>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=98.63  E-value=6.2e-07  Score=66.19  Aligned_cols=109  Identities=9%  Similarity=-0.070  Sum_probs=74.3

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSAC  383 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~  383 (471)
                      ..+..+...+...|++++|...++++..  ..+.+...+..+..++...|++++|...+++. ... .+...+..+..++
T Consensus         5 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~   82 (118)
T 1elw_A            5 NELKEKGNKALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAAL   82 (118)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcccHHHHHHHHHHHHH--HCCCcHHHHHHHHHHHHhhccHHHHHHHHHHHHHhCcccHHHHHHHHHHH
Confidence            4455566666667777777777777765  23345666666777777777777777777665 222 3466777777778


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL  417 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  417 (471)
                      ...|++++|...++++.+.+|. ++..+..+..+
T Consensus        83 ~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~l~~~  115 (118)
T 1elw_A           83 EFLNRFEEAKRTYEEGLKHEAN-NPQLKEGLQNM  115 (118)
T ss_dssp             HHTTCHHHHHHHHHHHHTTCTT-CHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHcCCC-CHHHHHHHHHh
Confidence            8888888888888888888777 66666665554

>3gw4_A Uncharacterized protein; structural genomics, PSI-2, protein structure initiative, no structural genomics consortium, NESG, DRR162B; 2.49A {Deinococcus radiodurans R1}

Probab=98.62  E-value=1.7e-06  Score=71.13  Aligned_cols=144  Identities=11%  Similarity=0.002  Sum_probs=67.7

Q ss_pred             hcCCHHHHHH---HHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccc---------cChHHHHHHHHHHHhcCCHH
Q 012108          119 RIGKIHSARY---IFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV---------KNVITWNTMVTGYLRSQLYI  186 (471)
Q Consensus       119 ~~g~~~~a~~---~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---------~~~~~~~~l~~~~~~~~~~~  186 (471)
                      ..|++++|.+   .+..-......++..+...+...|++++|.+.+++...         ....++..+...+...|+++
T Consensus         4 ~~g~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~   83 (203)
T 3gw4_A            4 EAHDYALAERQAQALLAHPATASGARFMLGYVYAFMDRFDEARASFQALQQQAQKSGDHTAEHRALHQVGMVERMAGNWD   83 (203)
T ss_dssp             ---CHHHHHHHHHHHHTSTTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHH
T ss_pred             ccccHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHHHHcCCcHHHHHHHHHHHHHHHHcCCHH
Confidence            3455555555   33222222334455555555556666666555555422         12344555666666666666


Q ss_pred             HHHHHHHHHHhC----CCCC--CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCC---CCc--hhHHHHHHHHHHhcCCh
Q 012108          187 EVVDLFDEMKAG----NVKP--DYLTVTSVLSACANLGSLETGARIHVYATDNGL---ASN--PHATTALIDMYAKCGSI  255 (471)
Q Consensus       187 ~a~~~~~~m~~~----g~~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~---~~~--~~~~~~l~~~~~~~~~~  255 (471)
                      +|...+++..+.    +-.|  ....+..+...+...|++++|...+++..+...   .+.  ..++..+...+...|++
T Consensus        84 ~A~~~~~~al~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~  163 (203)
T 3gw4_A           84 AARRCFLEERELLASLPEDPLAASANAYEVATVALHFGDLAGARQEYEKSLVYAQQADDQVAIACAFRGLGDLAQQEKNL  163 (203)
T ss_dssp             HHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHHHHHHcCccHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHCcCH
Confidence            666666655432    1011  122344455555666666666666665543210   111  12234444445555555


Q ss_pred             HHHHHHH
Q 012108          256 EQSLEVF  262 (471)
Q Consensus       256 ~~a~~~~  262 (471)
                      ++|.+.+
T Consensus       164 ~~A~~~~  170 (203)
T 3gw4_A          164 LEAQQHW  170 (203)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHH
Confidence            5555444

>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=98.62  E-value=4.3e-07  Score=68.29  Aligned_cols=110  Identities=8%  Similarity=-0.059  Sum_probs=78.6

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSAC  383 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  383 (471)
                      ..+......+...|++++|...|++..+  -.+.+...|..+..+|.+.|++++|...+++. ...| +...+..+..++
T Consensus         5 ~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   82 (126)
T 3upv_A            5 EEARLEGKEYFTKSDWPNAVKAYTEMIK--RAPEDARGYSNRAAALAKLMSFPEAIADCNKAIEKDPNFVRAYIRKATAQ   82 (126)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCHHHHHHHHHHHHH--hCCCChHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCcHHHHHHHHHHH
Confidence            4555666677777777777777777776  23445677777777777788888887777776 2233 466777888888


Q ss_pred             hhcCCchHHHHHHHHHHHcC------CCCCchhHHHHHHHH
Q 012108          384 VIHQDLEIGDRVAKMVCAKS------NYLSDGELMMFANLY  418 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~------~~~~~~~~~~l~~~~  418 (471)
                      ...|++++|...++++++..      |. +......+..+.
T Consensus        83 ~~~~~~~~A~~~~~~al~~~p~~~~~p~-~~~~~~~l~~~~  122 (126)
T 3upv_A           83 IAVKEYASALETLDAARTKDAEVNNGSS-AREIDQLYYKAS  122 (126)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHHHTTTT-HHHHHHHHHHHH
T ss_pred             HHHhCHHHHHHHHHHHHHhCcccCCchh-HHHHHHHHHHHH
Confidence            88888888888888888887      65 555555555543

>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=98.62  E-value=2.5e-07  Score=70.67  Aligned_cols=97  Identities=8%  Similarity=-0.122  Sum_probs=49.4

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ...+..+...+...|++++|...|++. .. +.+...+..+..++...|++++|...++++++.+|. ++..+..++.+|
T Consensus         9 ~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~   87 (137)
T 3q49_B            9 AQELKEQGNRLFVGRKYPEAAACYGRAITRNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQ-SVKAHFFLGQCQ   87 (137)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCcHHHHHHHHHHHHhhCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCch-hHHHHHHHHHHH
Confidence            344444444444444444444444443 11 123444555555555555555555555555555555 555555555555


Q ss_pred             HhcCCHHHHHHHHHHhhhCC
Q 012108          419 ASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       419 ~~~g~~~~A~~~~~~m~~~~  438 (471)
                      ...|++++|...+++..+..
T Consensus        88 ~~~~~~~~A~~~~~~a~~~~  107 (137)
T 3q49_B           88 LEMESYDEAIANLQRAYSLA  107 (137)
T ss_dssp             HHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHhhHHHHHHHHHHHHHHC
Confidence            55555555555555554433

>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=98.62  E-value=1.5e-07  Score=70.93  Aligned_cols=91  Identities=5%  Similarity=0.034  Sum_probs=42.3

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc-------hhHHHHH
Q 012108          345 GCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD-------GELMMFA  415 (471)
Q Consensus       345 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-------~~~~~l~  415 (471)
                      ..+...+.+.|++++|++.|++. .+.| +...|..+..+|...|++++|+..++++++.+|. +.       .+|..++
T Consensus        12 ~~lG~~~~~~~~~~~A~~~y~~Al~~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~-~~~~~~~~a~~~~~lg   90 (127)
T 4gcn_A           12 KDLGNAAYKQKDFEKAHVHYDKAIELDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRE-TRADYKLIAKAMSRAG   90 (127)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-TTCCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcc-cchhhHHHHHHHHHHH
Confidence            33444444444444444444443 1122 3344444555555555555555555555544433 11       2344445


Q ss_pred             HHHHhcCCHHHHHHHHHHhhh
Q 012108          416 NLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       416 ~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      .+|...|++++|++.|++..+
T Consensus        91 ~~~~~~~~~~~A~~~~~kal~  111 (127)
T 4gcn_A           91 NAFQKQNDLSLAVQWFHRSLS  111 (127)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHh
Confidence            555555555555555555544

>1a17_A Serine/threonine protein phosphatase 5; hydrolase, protein-protein interactions, TPR, S helix; 2.45A {Homo sapiens} SCOP: a.118.8.1 PDB: 2bug_A

Probab=98.61  E-value=9.1e-07  Score=70.01  Aligned_cols=128  Identities=9%  Similarity=-0.116  Sum_probs=88.0

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDL  350 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  350 (471)
                      ..+..+...+...|++++|...|++..... +.+...+..+...+...|++++|...+++..+  ..+.+...+..+..+
T Consensus        14 ~~~~~~a~~~~~~~~~~~A~~~~~~al~~~-~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~a~~   90 (166)
T 1a17_A           14 EELKTQANDYFKAKDYENAIKFYSQAIELN-PSNAIYYGNRSLAYLRTECYGYALGDATRAIE--LDKKYIKGYYRRAAS   90 (166)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCChHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCcccHHHHHHHHHH
Confidence            345566667777778888888777776642 33566777777778888888888888888777  234456777777788


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-CHhHH--HHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          351 LGRARLLDRAIELIEAM-PFEP-TESIL--GALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~--~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      +...|++++|.+.+++. ...| +...+  ...+..+...|++++|...+++...
T Consensus        91 ~~~~~~~~~A~~~~~~a~~~~p~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~~~~  145 (166)
T 1a17_A           91 NMALGKFRAALRDYETVVKVKPHDKDAKMKYQECNKIVKQKAFERAIAGDEHKRS  145 (166)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHhccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHHHHHHHcccchHH
Confidence            88888888888888776 2223 33344  3333346677888888888776654

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.60  E-value=5.7e-07  Score=69.64  Aligned_cols=107  Identities=6%  Similarity=-0.204  Sum_probs=52.9

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHH
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGA  378 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~  378 (471)
                      ...+..+...+...|++++|...|++..+   ..|+    ...+..+..+|...|++++|...+++. ...| +...+..
T Consensus        28 ~~~~~~~a~~~~~~~~~~~A~~~~~~a~~---~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~  104 (148)
T 2dba_A           28 VEQLRKEGNELFKCGDYGGALAAYTQALG---LDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGGDVKALYR  104 (148)
T ss_dssp             HHHHHHHHHHHHTTTCHHHHHHHHHHHHT---SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSCCHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCHHHHHHHHHHHHH---HcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCccCHHHHHH
Confidence            44455555555556666666666665554   1222    344444555555555555555555444 1122 3344444


Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHH
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFA  415 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~  415 (471)
                      +..++...|++++|...++++.+..|. +...+..+.
T Consensus       105 ~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~  140 (148)
T 2dba_A          105 RSQALEKLGRLDQAVLDLQRCVSLEPK-NKVFQEALR  140 (148)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS-CHHHHHHHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHcCCC-cHHHHHHHH
Confidence            555555555555555555555555544 444443333

>2xcb_A PCRH, regulatory protein PCRH; protein transport, bacterial toxin, type III secretion, protein binding; 1.85A {Pseudomonas aeruginosa} PDB: 2xcc_A

Probab=98.58  E-value=4.4e-07  Score=69.91  Aligned_cols=104  Identities=9%  Similarity=-0.084  Sum_probs=74.0

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSAC  383 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~  383 (471)
                      ..+..+...+...|++++|...|+++..  ..+.+...|..+..+|.+.|++++|...|++. ...| ++..+..+..++
T Consensus        19 ~~~~~~a~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~lg~~~   96 (142)
T 2xcb_A           19 EQLYALGFNQYQAGKWDDAQKIFQALCM--LDHYDARYFLGLGACRQSLGLYEQALQSYSYGALMDINEPRFPFHAAECH   96 (142)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCCCcHHHHHHHHHH
Confidence            3455566667777888888888877776  33446667777777777888888888877776 2223 456677778888


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHH
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELM  412 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~  412 (471)
                      ...|++++|...|+++++..|. ++....
T Consensus        97 ~~~g~~~~A~~~~~~al~~~p~-~~~~~~  124 (142)
T 2xcb_A           97 LQLGDLDGAESGFYSARALAAA-QPAHEA  124 (142)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHT-CGGGHH
T ss_pred             HHcCCHHHHHHHHHHHHHhCCC-CcchHH
Confidence            8888888888888888888776 554443

>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=98.58  E-value=4.5e-07  Score=72.84  Aligned_cols=125  Identities=7%  Similarity=-0.001  Sum_probs=97.1

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHH-HhhcCCc--
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSA-CVIHQDL--  389 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~-~~~~g~~--  389 (471)
                      +...|++++|...+++..+  ..+.+...+..+..+|...|++++|...|++. .. +.+...+..+..+ +...|++  
T Consensus        20 ~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~l~~~~~~~~~   97 (177)
T 2e2e_A           20 FASQQNPEAQLQALQDKIR--ANPQNSEQWALLGEYYLWQNDYSNSLLAYRQALQLRGENAELYAALATVLYYQASQHMT   97 (177)
T ss_dssp             CC-----CCCCHHHHHHHH--HCCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHCSCHHHHHHHHHHHHHHTTTCCC
T ss_pred             hhhccCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCCcch
Confidence            3456788888888888877  33456778888888899999999999988887 22 2356677777777 7788888  


Q ss_pred             hHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          390 EIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       390 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ++|...++++++.+|. ++..+..++.+|...|++++|...++++.+..+..+
T Consensus        98 ~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~p~~~  149 (177)
T 2e2e_A           98 AQTRAMIDKALALDSN-EITALMLLASDAFMQANYAQAIELWQKVMDLNSPRI  149 (177)
T ss_dssp             HHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCCTTS
T ss_pred             HHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcccHHHHHHHHHHHHhhCCCCc
Confidence            9999999999998888 888888899999999999999999998888776543

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.57  E-value=5.3e-07  Score=65.86  Aligned_cols=101  Identities=14%  Similarity=-0.111  Sum_probs=64.1

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC-CCchhHHHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY-LSDGELMMFANL  417 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-~~~~~~~~l~~~  417 (471)
                      ...+..+...+...|++++|...+++. . .+.+...+..+...+...|++++|...++++.+..|. .+...+..++.+
T Consensus         6 ~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~~   85 (112)
T 2kck_A            6 PEEYYLEGVLQYDAGNYTESIDLFEKAIQLDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKADA   85 (112)
T ss_dssp             TTGGGGHHHHHHSSCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHHH
Confidence            444555556666666666666666655 1 2234556666666777777777777777777766553 135566677777


Q ss_pred             HHhc-CCHHHHHHHHHHhhhCCCcc
Q 012108          418 YASC-GQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       418 ~~~~-g~~~~A~~~~~~m~~~~~~~  441 (471)
                      |.+. |++++|.+.+++..+..+..
T Consensus        86 ~~~~~~~~~~A~~~~~~~~~~~p~~  110 (112)
T 2kck_A           86 LRYIEGKEVEAEIAEARAKLEHHHH  110 (112)
T ss_dssp             HTTCSSCSHHHHHHHHHHGGGCCCC
T ss_pred             HHHHhCCHHHHHHHHHHHhhcccCC
Confidence            7777 77777777777776665543

>2vyi_A SGTA protein; chaperone, TPR repeat, phosphoprotein, tetratricopeptide repeat protein, HOST-virus interaction; 2.4A {Homo sapiens} SCOP: k.38.1.1

Probab=98.57  E-value=2.1e-06  Score=64.55  Aligned_cols=114  Identities=11%  Similarity=-0.011  Sum_probs=66.1

Q ss_pred             hhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH
Q 012108          139 VSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACA  215 (471)
Q Consensus       139 ~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~  215 (471)
                      ..+..+...+...|++++|.+.|++...   .+...+..+...+...|++++|...+++..+.. +.+...+..+...+.
T Consensus        13 ~~~~~~~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~   91 (131)
T 2vyi_A           13 ERLKTEGNEQMKVENFEAAVHFYGKAIELNPANAVYFCNRAAAYSKLGNYAGAVQDCERAICID-PAYSKAYGRMGLALS   91 (131)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccCHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhhchHHHHHHHHHHHhcC-ccCHHHHHHHHHHHH
Confidence            3455555566666666666666666521   244556666666666666666666666665542 223445555566666


Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC
Q 012108          216 NLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGS  254 (471)
Q Consensus       216 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~  254 (471)
                      ..|++++|...++...+.. +.+...+..+..++...|+
T Consensus        92 ~~~~~~~A~~~~~~~~~~~-p~~~~~~~~l~~~~~~~~~  129 (131)
T 2vyi_A           92 SLNKHVEAVAYYKKALELD-PDNETYKSNLKIAELKLRE  129 (131)
T ss_dssp             HTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHHTT
T ss_pred             HhCCHHHHHHHHHHHHhcC-ccchHHHHHHHHHHHHHhc
Confidence            6666666666666666554 3445555555555555544

>3q7a_A Farnesyltransferase alpha subunit; protein prenyltransferase, transferase-transferase inhibitor; HET: SUC 3FX FPP 778; 2.00A {Cryptococcus neoformans} PDB: 3q73_A* 3q78_A* 3q79_A* 3q75_A* 3q7f_A* 3sfx_A* 3sfy_A*

Probab=98.54  E-value=1.3e-05  Score=70.60  Aligned_cols=216  Identities=12%  Similarity=-0.002  Sum_probs=156.8

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-ChHHHHHHHhcCCC---CChhhHHHHHHHHHhc-C-ChHHH
Q 012108          216 NLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG-SIEQSLEVFYKSQV---KDVFCWNAMILGLALH-G-YGYAA  289 (471)
Q Consensus       216 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~-~-~~~~a  289 (471)
                      +.+..++|+++++.++..+ +-+..+++.-...+...| .+++++++++.+..   .+..+|+.-...+.+. + +++++
T Consensus        66 ~~e~se~AL~lt~~~L~~n-P~~ytaWn~R~~iL~~l~~~l~eEL~~~~~~L~~nPKny~aW~hR~wlL~~l~~~~~~~E  144 (349)
T 3q7a_A           66 KEEKSERALELTEIIVRMN-PAHYTVWQYRFSLLTSLNKSLEDELRLMNEFAVQNLKSYQVWHHRLLLLDRISPQDPVSE  144 (349)
T ss_dssp             TTCCSHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHCCSCCHHH
T ss_pred             hCCCCHHHHHHHHHHHHhC-chhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHHhcCCChHHH
Confidence            3455678999999999886 667778888888888888 59999999988665   3567777777777776 7 89999


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH--------HHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC-----
Q 012108          290 LKLLGEMNDSCVKADDITFIGLLSACSHAGLVQ--------EGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL-----  356 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~--------~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~-----  356 (471)
                      +++++++.... +-+...++.-...+.+.|.++        ++++.++++.+  ..+.|...|+.....+.+.++     
T Consensus       145 L~~~~k~L~~d-pkNy~AW~~R~wvl~~l~~~~~~~~~~~~eELe~~~k~I~--~dp~N~SAW~~R~~lL~~l~~~~~~~  221 (349)
T 3q7a_A          145 IEYIHGSLLPD-PKNYHTWAYLHWLYSHFSTLGRISEAQWGSELDWCNEMLR--VDGRNNSAWGWRWYLRVSRPGAETSS  221 (349)
T ss_dssp             HHHHHHHTSSC-TTCHHHHHHHHHHHHHHHHTTCCCHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHTTSTTCCCCH
T ss_pred             HHHHHHHHHhC-CCCHHHHHHHHHHHHHhccccccchhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhccccccch
Confidence            99999999864 336666666555555555555        89999999988  355678888888888888876     


Q ss_pred             --HHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCc--------------------hHHHHHHHHHHHcC-----CCCC
Q 012108          357 --LDRAIELIEAM-PF-EPTESILGALLSACVIHQDL--------------------EIGDRVAKMVCAKS-----NYLS  407 (471)
Q Consensus       357 --~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~--------------------~~a~~~~~~~~~~~-----~~~~  407 (471)
                        ++++++.++++ .. +-|...|+.+-..+.+.|..                    .........+....     ..++
T Consensus       222 ~~~~eELe~~~~aI~~~P~n~SaW~Ylr~Ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s  301 (349)
T 3q7a_A          222 RSLQDELIYILKSIHLIPHNVSAWNYLRGFLKHFSLPLVPILPAILPYTASKLNPDIETVEAFGFPMPSDPLPEDTPLPV  301 (349)
T ss_dssp             HHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCSGGGHHHHGGGTC--------------CCCCC-CCCSSCCSCC
T ss_pred             HHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHhcCCCcccccccccccccccccccchhHHHHHHHHHhcccccccCCCc
Confidence              68888888776 33 34677777766666666554                    22333333332222     0136


Q ss_pred             chhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          408 DGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       408 ~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      +..+..|++.|...|+.++|.++++.+.
T Consensus       302 ~~al~~l~d~~~~~~~~~~a~~~~~~l~  329 (349)
T 3q7a_A          302 PLALEYLADSFIEQNRVDDAAKVFEKLS  329 (349)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            7788899999999999999999999985

>3sz7_A HSC70 cochaperone (SGT); TPR domain, GET4, GET5, GET3, MDY2, SSA1, SSE1, chaperone regulator; 1.72A {Aspergillus fumigatus}

Probab=98.54  E-value=1.1e-06  Score=69.53  Aligned_cols=96  Identities=11%  Similarity=-0.118  Sum_probs=64.7

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMV  348 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~  348 (471)
                      +...+..+...+.+.|++++|+..|++..... +-+...+..+..++...|++++|+..|+++.+  -.+.+...|..+.
T Consensus        10 ~a~~~~~~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~g~~~~A~~~~~~al~--~~p~~~~~~~~lg   86 (164)
T 3sz7_A           10 ESDKLKSEGNAAMARKEYSKAIDLYTQALSIA-PANPIYLSNRAAAYSASGQHEKAAEDAELATV--VDPKYSKAWSRLG   86 (164)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHHccCHHHHHHHHHHHHH--hCCCCHHHHHHHH
Confidence            34556666677777777777777777776642 22556666677777777777777777777776  2334566677777


Q ss_pred             HHHhhcCCHHHHHHHHHhC
Q 012108          349 DLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~  367 (471)
                      .+|...|++++|.+.|++.
T Consensus        87 ~~~~~~g~~~~A~~~~~~a  105 (164)
T 3sz7_A           87 LARFDMADYKGAKEAYEKG  105 (164)
T ss_dssp             HHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHccCHHHHHHHHHHH
Confidence            7777777777777777665

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.51  E-value=4.8e-07  Score=68.26  Aligned_cols=94  Identities=11%  Similarity=-0.026  Sum_probs=50.5

Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCCCCh---hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHH
Q 012108          310 GLLSACSHAGLVQEGCELFSRMEKDFGVTRKL---EHYGCMVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALLS  381 (471)
Q Consensus       310 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~  381 (471)
                      .+...+...|++++|...|+++.+.  .+.+.   ..+..+..++.+.|++++|...|++. ...|+    ...+..+..
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~--~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~la~   84 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLEL--YPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPTHDKAAGGLLKLGL   84 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHH--CSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTSTTHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHH--CCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCCCcccHHHHHHHHH
Confidence            3445555666666666666666652  12222   34555555556666666666655554 11222    334455555


Q ss_pred             HHhhcCCchHHHHHHHHHHHcCCC
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ++...|++++|...|+++.+..|.
T Consensus        85 ~~~~~g~~~~A~~~~~~~~~~~p~  108 (129)
T 2xev_A           85 SQYGEGKNTEAQQTLQQVATQYPG  108 (129)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHcCCHHHHHHHHHHHHHHCCC
Confidence            555666666666666666655554

>2dba_A Smooth muscle cell associated protein-1, isoform 2; tetratricopeptide repeat, structural genomics, NPPSFA; NMR {Homo sapiens}

Probab=98.49  E-value=2.5e-06  Score=65.86  Aligned_cols=99  Identities=10%  Similarity=-0.026  Sum_probs=60.6

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC----HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHH
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT----ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMF  414 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  414 (471)
                      +...+..+...+...|++++|.+.|++. ...|+    ...+..+..++...|++++|...++++.+..|. ++..+..+
T Consensus        27 ~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~~~~~~~~-~~~~~~~~  105 (148)
T 2dba_A           27 SVEQLRKEGNELFKCGDYGGALAAYTQALGLDATPQDQAVLHRNRAACHLKLEDYDKAETEASKAIEKDGG-DVKALYRR  105 (148)
T ss_dssp             CHHHHHHHHHHHHTTTCHHHHHHHHHHHHTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTSC-CHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHcccchHHHHHHHHHHHHHHHHccHHHHHHHHHHHHhhCcc-CHHHHHHH
Confidence            4455555666666666666666666655 34444    455555666666666666666666666666665 56666666


Q ss_pred             HHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          415 ANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       415 ~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      +.+|...|++++|...+++..+..+
T Consensus       106 a~~~~~~~~~~~A~~~~~~al~~~p  130 (148)
T 2dba_A          106 SQALEKLGRLDQAVLDLQRCVSLEP  130 (148)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHCS
T ss_pred             HHHHHHcCCHHHHHHHHHHHHHcCC
Confidence            6666666666666666666655443

>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=98.48  E-value=1.1e-06  Score=66.20  Aligned_cols=96  Identities=7%  Similarity=-0.001  Sum_probs=55.7

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC----C----HhHHHH
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP----T----ESILGA  378 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p----~----~~~~~~  378 (471)
                      +..+...+.+.|++++|++.|+++.+  -.+.+...|..+..+|.+.|++++|++.+++. .+.|    +    ..+|..
T Consensus        11 ~~~lG~~~~~~~~~~~A~~~y~~Al~--~~p~~~~~~~nlg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~a~~~~~   88 (127)
T 4gcn_A           11 EKDLGNAAYKQKDFEKAHVHYDKAIE--LDPSNITFYNNKAAVYFEEKKFAECVQFCEKAVEVGRETRADYKLIAKAMSR   88 (127)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHHHhhhHHHHHHHHHHHHHhCcccchhhHHHHHHHHH
Confidence            44455555555555555555555554  12334455555555555555555555555544 1111    1    235666


Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +..++...|++++|++.|++.++..|+
T Consensus        89 lg~~~~~~~~~~~A~~~~~kal~~~~~  115 (127)
T 4gcn_A           89 AGNAFQKQNDLSLAVQWFHRSLSEFRD  115 (127)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHSCC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHhhCcC
Confidence            777788888888888888888877664

>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=98.46  E-value=3.4e-05  Score=67.70  Aligned_cols=180  Identities=9%  Similarity=0.031  Sum_probs=111.3

Q ss_pred             hHHHHHHHH---HHHhcCCHH-HHHHHHHHHHhCCCCCCHH-HHHHHHHHHHccCC----------hHHHHHHHHHHHHc
Q 012108          169 VITWNTMVT---GYLRSQLYI-EVVDLFDEMKAGNVKPDYL-TVTSVLSACANLGS----------LETGARIHVYATDN  233 (471)
Q Consensus       169 ~~~~~~l~~---~~~~~~~~~-~a~~~~~~m~~~g~~p~~~-~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~  233 (471)
                      +..|..+..   ...+.|.++ +|+++++.++..  .|+.. .|+.--..+...+.          ++++..+++.+...
T Consensus        26 i~~y~~~~~~~~~~~~~~e~s~eaL~~t~~~L~~--nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~  103 (331)
T 3dss_A           26 LKLYQSATQAVFQKRQAGELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRV  103 (331)
T ss_dssp             HHHHHHHHHHHHHHHHTTCCSHHHHHHHHHHHTT--CTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHh
Confidence            344444433   334556655 789999999875  45443 34443333333322          56777788888776


Q ss_pred             CCCCchhHHHHHHHHHHhcCC--hHHHHHHHhcCCC---CChhhHHHHHHHHHhcCC-hHHHHHHHHHHHhCCCCCCHHH
Q 012108          234 GLASNPHATTALIDMYAKCGS--IEQSLEVFYKSQV---KDVFCWNAMILGLALHGY-GYAALKLLGEMNDSCVKADDIT  307 (471)
Q Consensus       234 ~~~~~~~~~~~l~~~~~~~~~--~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~~~~~p~~~~  307 (471)
                      . +-+..+|+.-..++...++  +++++.+++++..   .|..+|+.-...+...|. ++++++.++++.... +-|...
T Consensus       104 ~-PKny~aW~hR~wlL~~l~~~~~~~EL~~~~k~l~~dprNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~-p~N~SA  181 (331)
T 3dss_A          104 N-PKSYGTWHHRCWLLSRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRN-FSNYSS  181 (331)
T ss_dssp             C-TTCHHHHHHHHHHHHHCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-SCCHHH
T ss_pred             C-CCCHHHHHHHHHHHhccCcccHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHC-CCCHHH
Confidence            5 6677777777777777773  7788888777654   456677777777777777 478888888887764 335555


Q ss_pred             HHHHHHHHhcc--------------CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhc
Q 012108          308 FIGLLSACSHA--------------GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRA  354 (471)
Q Consensus       308 ~~~l~~~~~~~--------------~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~  354 (471)
                      |+.....+...              +.++++++.+..+..  -.+-|...|+.+-..+.+.
T Consensus       182 W~~R~~ll~~l~~~~~~~~~~~~~~~~~~eEle~~~~ai~--~~P~d~SaW~Y~r~ll~~~  240 (331)
T 3dss_A          182 WHYRSCLLPQLHPQPDSGPQGRLPENVLLKELELVQNAFF--TDPNDQSAWFYHRWLLGAG  240 (331)
T ss_dssp             HHHHHHHHHHHSCCC------CCCHHHHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHSS
T ss_pred             HHHHHHHHHHhhhccccccccccchHHHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHhc
Confidence            65554444333              346677777777766  3344566665554444443

>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=98.46  E-value=5.3e-07  Score=84.81  Aligned_cols=118  Identities=9%  Similarity=-0.051  Sum_probs=87.4

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCc
Q 012108          312 LSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDL  389 (471)
Q Consensus       312 ~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~  389 (471)
                      ...+.+.|++++|.+.++++.+  ..+.+...+..+..+|.+.|++++|.+.+++. ...| +...+..+..+|...|++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~p~~~~~~~~lg~~~~~~g~~   90 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIE--LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMALGKF   90 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHH--hCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCH
Confidence            3445667888888888888877  23445777778888888888888888888776 3334 567788888888888999


Q ss_pred             hHHHHHHHHHHHcCCCCCchhHHHHHHH--HHhcCCHHHHHHHHH
Q 012108          390 EIGDRVAKMVCAKSNYLSDGELMMFANL--YASCGQWEEANRWRN  432 (471)
Q Consensus       390 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  432 (471)
                      ++|++.++++++..|. +...+..+..+  +.+.|++++|.+.++
T Consensus        91 ~eA~~~~~~al~~~p~-~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           91 RAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHHHSTT-CTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            9999999988888888 77777777777  778888888888887

>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=98.44  E-value=8e-05  Score=65.35  Aligned_cols=160  Identities=13%  Similarity=0.037  Sum_probs=94.6

Q ss_pred             HhCCCHH-HHHHHHHhccccC---hHHHHHHHHHHHhcCC----------HHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          149 TNAGEME-KAGEMFKKMLVKN---VITWNTMVTGYLRSQL----------YIEVVDLFDEMKAGNVKPDYLTVTSVLSAC  214 (471)
Q Consensus       149 ~~~~~~~-~A~~~~~~~~~~~---~~~~~~l~~~~~~~~~----------~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~  214 (471)
                      .+.|.+. +|+++++.+..-|   ..+|+.--..+...+.          +++++.+++.+.... +-+..+|+.-...+
T Consensus        40 ~~~~e~s~eaL~~t~~~L~~nP~~ytaWn~Rr~iL~~l~~~~~~~~~~~~l~~EL~~~~~~L~~~-PKny~aW~hR~wlL  118 (331)
T 3dss_A           40 RQAGELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLL  118 (331)
T ss_dssp             HHTTCCSHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHcCCCCHHHHHHHHHHHHHCchhHHHHHHHHHHHHHhcccccchhhhHHHHHHHHHHHHHHHhC-CCCHHHHHHHHHHH
Confidence            3455544 6777777774433   3345443333333222          567777777776643 33555666655555


Q ss_pred             HccC--ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCC-hHHHHHHHhcCCC---CChhhHHHHHHHHHhc-----
Q 012108          215 ANLG--SLETGARIHVYATDNGLASNPHATTALIDMYAKCGS-IEQSLEVFYKSQV---KDVFCWNAMILGLALH-----  283 (471)
Q Consensus       215 ~~~~--~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~-----  283 (471)
                      ...+  .++++..++..+.+.. +.|..+|+.-..++...|. ++++++.++++..   .|..+|+.....+.+.     
T Consensus       119 ~~l~~~~~~~EL~~~~k~l~~d-prNy~AW~~R~~vl~~l~~~~~eel~~~~~~I~~~p~N~SAW~~R~~ll~~l~~~~~  197 (331)
T 3dss_A          119 SRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPD  197 (331)
T ss_dssp             HHCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCSCCHHHHHHHHHHHHHHSCCC-
T ss_pred             hccCcccHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHhhhccc
Confidence            5555  3677777888777765 5666777766666667776 4777777766544   3566676666655544     


Q ss_pred             ---------CChHHHHHHHHHHHhCCCCCCHHHHHHH
Q 012108          284 ---------GYGYAALKLLGEMNDSCVKADDITFIGL  311 (471)
Q Consensus       284 ---------~~~~~a~~~~~~~~~~~~~p~~~~~~~l  311 (471)
                               +.++++++.+....... +-|...++-+
T Consensus       198 ~~~~~~~~~~~~~eEle~~~~ai~~~-P~d~SaW~Y~  233 (331)
T 3dss_A          198 SGPQGRLPENVLLKELELVQNAFFTD-PNDQSAWFYH  233 (331)
T ss_dssp             -----CCCHHHHHHHHHHHHHHHHHS-TTCHHHHHHH
T ss_pred             cccccccchHHHHHHHHHHHHHHHhC-CCCHHHHHHH
Confidence                     34566777777766542 2244444433

>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=98.44  E-value=7.9e-07  Score=67.04  Aligned_cols=111  Identities=5%  Similarity=-0.069  Sum_probs=75.8

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC----CCC----HhH
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF----EPT----ESI  375 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~----~p~----~~~  375 (471)
                      ...+..+...+...|++++|...++++.+  ..+.+...+..+..++...|++++|...+++. ..    .++    ..+
T Consensus         4 ~~~~~~l~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~   81 (131)
T 1elr_A            4 ALKEKELGNDAYKKKDFDTALKHYDKAKE--LDPTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKA   81 (131)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcCHHHHHHHHHHHHh--cCCccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHH
Confidence            34566677777788888888888888876  23445667777777777788888888777766 11    122    556


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHH
Q 012108          376 LGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYA  419 (471)
Q Consensus       376 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  419 (471)
                      +..+..++...|++++|...++++.+..|.  +.....+..+..
T Consensus        82 ~~~la~~~~~~~~~~~A~~~~~~~~~~~~~--~~~~~~l~~~~~  123 (131)
T 1elr_A           82 YARIGNSYFKEEKYKDAIHFYNKSLAEHRT--PDVLKKCQQAEK  123 (131)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHCCC--HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHHHhCCC--HHHHHHHHHHHH
Confidence            677777777778888888888777776653  555555554433

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.43  E-value=1.7e-07  Score=69.57  Aligned_cols=62  Identities=10%  Similarity=-0.003  Sum_probs=30.5

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                      .+..+..++...|++++|+..++++++..|. ++..+..++.+|.+.|++++|.+.+++..+.
T Consensus        29 ~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~l~~~~~~~g~~~~A~~~~~~al~~   90 (117)
T 3k9i_A           29 CYLGLGSTFRTLGEYRKAEAVLANGVKQFPN-HQALRVFYAMVLYNLGRYEQGVELLLKIIAE   90 (117)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-chHHHHHHHHHHHHcCCHHHHHHHHHHHHHh
Confidence            4444444444455555555555555555544 4444455555555555555555555444443

>2kck_A TPR repeat; tetratricopeptide repeat, structural genomics, unknown function, PSI-2, protein structure initiative; NMR {Methanococcus maripaludis}

Probab=98.42  E-value=2.3e-06  Score=62.31  Aligned_cols=98  Identities=9%  Similarity=-0.060  Sum_probs=64.1

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC---CHhHHHHHHH
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP---TESILGALLS  381 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p---~~~~~~~l~~  381 (471)
                      ..+..+...+...|++++|...++++.+  ..+.+...+..+..++...|++++|.+.+++. ...|   +...+..+..
T Consensus         7 ~~~~~~~~~~~~~~~~~~A~~~~~~a~~--~~~~~~~~~~~~a~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~l~~   84 (112)
T 2kck_A            7 EEYYLEGVLQYDAGNYTESIDLFEKAIQ--LDPEESKYWLMKGKALYNLERYEEAVDCYNYVINVIEDEYNKDVWAAKAD   84 (112)
T ss_dssp             TGGGGHHHHHHSSCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSCCTTCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHH--hCcCCHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCcccchHHHHHHHHH
Confidence            3455555666666666777666666665  22334556666666666777777777766665 2223   4566777777


Q ss_pred             HHhhc-CCchHHHHHHHHHHHcCCC
Q 012108          382 ACVIH-QDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       382 ~~~~~-g~~~~a~~~~~~~~~~~~~  405 (471)
                      ++... |++++|.+.++++....|.
T Consensus        85 ~~~~~~~~~~~A~~~~~~~~~~~p~  109 (112)
T 2kck_A           85 ALRYIEGKEVEAEIAEARAKLEHHH  109 (112)
T ss_dssp             HHTTCSSCSHHHHHHHHHHGGGCCC
T ss_pred             HHHHHhCCHHHHHHHHHHHhhcccC
Confidence            77777 8888888888887777765

>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=98.42  E-value=3e-06  Score=75.87  Aligned_cols=130  Identities=6%  Similarity=-0.141  Sum_probs=87.9

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCC--------------HHHHHHHHHHHhccCcHHHHHHHHHHhHHhc
Q 012108          270 VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKAD--------------DITFIGLLSACSHAGLVQEGCELFSRMEKDF  335 (471)
Q Consensus       270 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~--------------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  335 (471)
                      ...+..+...+.+.|++++|+..|++.........              ...+..+..++.+.|++++|+..++++.+  
T Consensus       147 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~--  224 (336)
T 1p5q_A          147 STIVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNEEAQKAQALRLASHLNLAMCHLKLQAFSAAIESCNKALE--  224 (336)
T ss_dssp             HHHHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--
T ss_pred             HHHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--
Confidence            34555666666666777777777766665421111              36677777788888888888888888877  


Q ss_pred             CCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHH-HHHHHHHHH
Q 012108          336 GVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIG-DRVAKMVCA  401 (471)
Q Consensus       336 ~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a-~~~~~~~~~  401 (471)
                      -.+.+...+..+..+|...|++++|...|+++ .+.| +...+..+..++...|+.++| ...++.|..
T Consensus       225 ~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~a~~~l~~~~~~~~~~~~a~~~~~~~~~~  293 (336)
T 1p5q_A          225 LDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNNKAAKTQLAVCQQRIRRQLAREKKLYANMFE  293 (336)
T ss_dssp             HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             hCCCcHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            23446777777888888888888888888776 3334 456777777777778887777 345555543

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.42  E-value=9.6e-07  Score=69.75  Aligned_cols=113  Identities=7%  Similarity=-0.022  Sum_probs=58.4

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcC-----CCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHH
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFG-----VTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGAL  379 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l  379 (471)
                      ...+......+.+.|++++|...|.+......     ..|+...+                    ..+ .+.+...|..+
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~~~~~~~~~~~~~~~~--------------------~~~-~~~~~~~~~nl   69 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTRLDTLILREKPGEPEW--------------------VEL-DRKNIPLYANM   69 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHTSCTTSHHH--------------------HHH-HHTHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhcccCCCCHHHH--------------------HHH-HHHHHHHHHHH
Confidence            34566677777888888888888887776200     00110000                    000 01122344445


Q ss_pred             HHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          380 LSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       380 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ..++.+.|++++|+..++++++.+|. ++..|..++.+|...|++++|...|++..+..+
T Consensus        70 a~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p  128 (162)
T 3rkv_A           70 SQCYLNIGDLHEAEETSSEVLKREET-NEKALFRRAKARIAAWKLDEAEEDLKLLLRNHP  128 (162)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCG
T ss_pred             HHHHHhcCcHHHHHHHHHHHHhcCCc-chHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCC
Confidence            55555555555555555555555555 555555555555555555555555555554443

>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=98.41  E-value=1.9e-06  Score=80.75  Aligned_cols=129  Identities=10%  Similarity=0.014  Sum_probs=88.0

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-------------ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CC
Q 012108          307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR-------------KLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EP  371 (471)
Q Consensus       307 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-------------~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p  371 (471)
                      .+..+...+.+.|++++|...|+++.+.....+             ....|..+..+|.+.|++++|+..+++. .. +.
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~  349 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLDSA  349 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcCCc
Confidence            344444445555555555555555544111110             1467778888888888888888888877 22 33


Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHH-HHHHhhh
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANR-WRNMMND  436 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~-~~~~m~~  436 (471)
                      +...|..+..+|...|++++|+..|+++++..|. +...+..+..++.+.|+++++.+ .+++|..
T Consensus       350 ~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~P~-~~~a~~~l~~~~~~~~~~~~a~~~~~~~~f~  414 (457)
T 1kt0_A          350 NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQISMCQKKAKEHNERDRRIYANMFK  414 (457)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHHHHHHHHC--
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            5778888899999999999999999999999998 88999999999999999888764 4555543

>2fbn_A 70 kDa peptidylprolyl isomerase, putative; sulfur SAD, PFL2275C, TPR-containing domain, structural genomics; 1.63A {Plasmodium falciparum} SCOP: a.118.8.1

Probab=98.41  E-value=4.9e-07  Score=74.21  Aligned_cols=151  Identities=9%  Similarity=-0.079  Sum_probs=91.1

Q ss_pred             HHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC-C---C-----------HHHHHH
Q 012108          249 YAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVK-A---D-----------DITFIG  310 (471)
Q Consensus       249 ~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-p---~-----------~~~~~~  310 (471)
                      ....|+++++.+.++.....   ....+..+...+...|++++|+..|++....... |   .           ...+..
T Consensus        14 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~~~~~~~~~   93 (198)
T 2fbn_A           14 RENLYFQGAKKSIYDYTDEEKVQSAFDIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKKNIEISCNLN   93 (198)
T ss_dssp             --------CCCSGGGCCHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccCchhhCCHHHHHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhcccccchhhHHHHHHHHHHHHHHH
Confidence            33445555555555432221   3345666677777888888888888887764211 1   0           256777


Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCC
Q 012108          311 LLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQD  388 (471)
Q Consensus       311 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~  388 (471)
                      +..++...|++++|...++++.+  ..+.+...+..+..+|...|++++|.+.|++. ...| +...+..+..++...++
T Consensus        94 la~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~  171 (198)
T 2fbn_A           94 LATCYNKNKDYPKAIDHASKVLK--IDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPNNLDIRNSYELCVNKLKE  171 (198)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcCHHHHHHHHHHHHH--hCcccHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHHH
Confidence            77888888888888888888887  24456777888888888888888888888876 3334 45666667767666666


Q ss_pred             chHHH-HHHHHHHH
Q 012108          389 LEIGD-RVAKMVCA  401 (471)
Q Consensus       389 ~~~a~-~~~~~~~~  401 (471)
                      .+++. ..+..+..
T Consensus       172 ~~~~~~~~~~~~f~  185 (198)
T 2fbn_A          172 ARKKDKLTFGGMFD  185 (198)
T ss_dssp             HHC-----------
T ss_pred             HHHHHHHHHHHHhc
Confidence            66655 34444443

>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=98.41  E-value=7.3e-07  Score=68.52  Aligned_cols=65  Identities=11%  Similarity=-0.152  Sum_probs=53.8

Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHc-------CCCCCchhH----HHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAK-------SNYLSDGEL----MMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-------~~~~~~~~~----~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ..|..+..++.+.|++++|+..++++++.       +|+ +...|    ...+.++...|++++|+..|++..+..+
T Consensus        58 ~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~pd-~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p  133 (159)
T 2hr2_A           58 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQD-EGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIE  133 (159)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTST-HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCCCc-hHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCC
Confidence            37788888888888888888888888888       888 88888    8888888888888888888888876543

>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=98.41  E-value=2.7e-06  Score=64.77  Aligned_cols=101  Identities=5%  Similarity=-0.149  Sum_probs=71.3

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHH
Q 012108          303 ADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALL  380 (471)
Q Consensus       303 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~  380 (471)
                      .+...+..+...+...|++++|...|+++.+  ..+.+...+..+..++...|++++|...+++. .. +.+...+..+.
T Consensus         7 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~   84 (137)
T 3q49_B            7 PSAQELKEQGNRLFVGRKYPEAAACYGRAIT--RNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   84 (137)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHhCcHHHHHHHHHHHHh--hCcCcHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCchhHHHHHHHH
Confidence            3456666777777777777777777777776  23445667777777777777777777777766 22 23466777777


Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .++...|++++|...++++.+..|.
T Consensus        85 ~~~~~~~~~~~A~~~~~~a~~~~p~  109 (137)
T 3q49_B           85 QCQLEMESYDEAIANLQRAYSLAKE  109 (137)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHHHHHHHHHHChh
Confidence            7888888888888888888777654

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.38  E-value=1.8e-05  Score=73.58  Aligned_cols=192  Identities=8%  Similarity=-0.069  Sum_probs=109.4

Q ss_pred             HHHHHhcCCHHHHHHHHHHHHhCCCCCCH----------------HHHHHHHHHHHccCChHHHHHHHHHHHHcCC-CCc
Q 012108          176 VTGYLRSQLYIEVVDLFDEMKAGNVKPDY----------------LTVTSVLSACANLGSLETGARIHVYATDNGL-ASN  238 (471)
Q Consensus       176 ~~~~~~~~~~~~a~~~~~~m~~~g~~p~~----------------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~  238 (471)
                      ...+.+.|++++|++.|.++.+.......                ..+..+...|...|++++|.+.+..+.+.-. .++
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            45677888999999999888775322111                1355677777778888888877777654211 111


Q ss_pred             h----hHHHHHHHHHHhcCChHHHHHHHhcCCC-----C----ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CC
Q 012108          239 P----HATTALIDMYAKCGSIEQSLEVFYKSQV-----K----DVFCWNAMILGLALHGYGYAALKLLGEMNDS----CV  301 (471)
Q Consensus       239 ~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~-----~----~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~  301 (471)
                      .    .+.+.+...+...|+.+.|..+++....     .    -..++..+...+...|++++|..+++++...    +-
T Consensus        91 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~~  170 (434)
T 4b4t_Q           91 SKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLDD  170 (434)
T ss_dssp             HHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSSC
T ss_pred             hHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhccc
Confidence            1    1223333444455667777766654322     0    1235566666777777777777776665432    11


Q ss_pred             CCC-HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC-----hhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          302 KAD-DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK-----LEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       302 ~p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      .+. ...+..++..|...|++++|..++++........++     ...+..+...+...|++++|...|.+.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~~~a  242 (434)
T 4b4t_Q          171 KPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYFFES  242 (434)
T ss_dssp             STHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHHHHH
Confidence            111 234555666677777777777777665542111111     234445555566667777766666544

>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=98.37  E-value=1.6e-06  Score=65.27  Aligned_cols=95  Identities=9%  Similarity=-0.081  Sum_probs=50.6

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCC-CCC----hhHHHH
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGV-TRK----LEHYGC  346 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~-~~~----~~~~~~  346 (471)
                      .+..+...+...|++++|...+++..... +.+...+..+...+...|++++|...++++.+.... .++    ...+..
T Consensus         6 ~~~~l~~~~~~~~~~~~A~~~~~~a~~~~-~~~~~~~~~la~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (131)
T 1elr_A            6 KEKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIEVGRENREDYRQIAKAYAR   84 (131)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSTTCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHhcC-CccHHHHHHHHHHHHHhccHHHHHHHHHHHHhhccccchhHHHHHHHHHH
Confidence            44555555556666666666666655542 224445555555555666666666666655542110 111    445555


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC
Q 012108          347 MVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       347 l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      +..++...|++++|.+.|++.
T Consensus        85 la~~~~~~~~~~~A~~~~~~~  105 (131)
T 1elr_A           85 IGNSYFKEEKYKDAIHFYNKS  105 (131)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHHhccHHHHHHHHHHH
Confidence            555566666666666666554

>2xev_A YBGF; tetratricopeptide, alpha-helical, metal binding; 1.57A {Xanthomonas campestris}

Probab=98.35  E-value=9.9e-06  Score=60.84  Aligned_cols=93  Identities=12%  Similarity=0.034  Sum_probs=55.8

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCCC-H---hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC---chhHHHHHHH
Q 012108          346 CMVDLLGRARLLDRAIELIEAM-PFEPT-E---SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS---DGELMMFANL  417 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~---~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~---~~~~~~l~~~  417 (471)
                      .+...+...|++++|.+.|+++ ...|+ .   ..+..+..++...|++++|...++++.+..|. +   +..+..++.+
T Consensus         7 ~~a~~~~~~~~~~~A~~~~~~~~~~~p~~~~~~~~~~~lg~~~~~~~~~~~A~~~~~~~~~~~p~-~~~~~~~~~~la~~   85 (129)
T 2xev_A            7 NVAFDALKNGKYDDASQLFLSFLELYPNGVYTPNALYWLGESYYATRNFQLAEAQFRDLVSRYPT-HDKAAGGLLKLGLS   85 (129)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHCSSSTTHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-STTHHHHHHHHHHH
T ss_pred             HHHHHHHHhCCHHHHHHHHHHHHHHCCCCcccHHHHHHHHHHHHHhccHHHHHHHHHHHHHHCCC-CcccHHHHHHHHHH
Confidence            3445556666666666666655 11222 2   35555666666666666666666666666665 4   4556666666


Q ss_pred             HHhcCCHHHHHHHHHHhhhCCC
Q 012108          418 YASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       418 ~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      |.+.|++++|...++++.+..+
T Consensus        86 ~~~~g~~~~A~~~~~~~~~~~p  107 (129)
T 2xev_A           86 QYGEGKNTEAQQTLQQVATQYP  107 (129)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHST
T ss_pred             HHHcCCHHHHHHHHHHHHHHCC
Confidence            6666666666666666665543

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.35  E-value=2.2e-06  Score=67.24  Aligned_cols=129  Identities=12%  Similarity=-0.035  Sum_probs=73.1

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHhhcCCHHHHHHHHHhC-------CCCC-CHhH
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LEHYGCMVDLLGRARLLDRAIELIEAM-------PFEP-TESI  375 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~  375 (471)
                      +..+...+...|++++|...+++..+.....++    ..++..+...+...|++++|.+.+++.       +..+ ....
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            334444444455555555555444431100011    124444555555555555555555443       1111 1345


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHHHHcCCC-----CCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          376 LGALLSACVIHQDLEIGDRVAKMVCAKSNY-----LSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       376 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      +..+...+...|++++|...++++.+..+.     .....+..++.+|...|++++|.+.+++..+
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~  157 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLE  157 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHH
Confidence            666777777888888888888877765321     0234667788888899999999988888765

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.32  E-value=1e-06  Score=78.93  Aligned_cols=148  Identities=9%  Similarity=-0.126  Sum_probs=61.3

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLL  351 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  351 (471)
                      .+..+...+.+.|++++|+..|++....  .|+...       +...++.+++...+   .        ...|..+..+|
T Consensus       181 ~~~~~g~~~~~~g~~~~A~~~y~~Al~~--~p~~~~-------~~~~~~~~~~~~~l---~--------~~~~~nla~~~  240 (338)
T 2if4_A          181 RRKMDGNSLFKEEKLEEAMQQYEMAIAY--MGDDFM-------FQLYGKYQDMALAV---K--------NPCHLNIAACL  240 (338)
T ss_dssp             HHHHHHHHTCSSSCCHHHHHHHHHHHHH--SCHHHH-------HTCCHHHHHHHHHH---H--------THHHHHHHHHH
T ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHHH--hccchh-------hhhcccHHHHHHHH---H--------HHHHHHHHHHH
Confidence            3445555555666666666666665543  333221       12222332222111   0        12566666677


Q ss_pred             hhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHH-hcCCHHHHH
Q 012108          352 GRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYA-SCGQWEEAN  428 (471)
Q Consensus       352 ~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~-~~g~~~~A~  428 (471)
                      .+.|++++|...+++. ...| +...|..+..+|...|++++|...|+++++..|. +...+..+..+.. ..+..+.+.
T Consensus       241 ~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~-~~~a~~~L~~l~~~~~~~~~~a~  319 (338)
T 2if4_A          241 IKLKRYDEAIGHCNIVLTEEEKNPKALFRRGKAKAELGQMDSARDDFRKAQKYAPD-DKAIRRELRALAEQEKALYQKQK  319 (338)
T ss_dssp             HTTTCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHTTC----------------------------
T ss_pred             HHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCC-CHHHHHHHHHHHHHHHHHHHHHH
Confidence            7777777777777665 2223 4566666777777777777777777777777766 6666666666533 345566666


Q ss_pred             HHHHHhhhCCCc
Q 012108          429 RWRNMMNDTGIV  440 (471)
Q Consensus       429 ~~~~~m~~~~~~  440 (471)
                      .+|++|....+.
T Consensus       320 ~~~~~~l~~~p~  331 (338)
T 2if4_A          320 EMYKGIFKGKDE  331 (338)
T ss_dssp             ------------
T ss_pred             HHHHHhhCCCCC
Confidence            677776655544

>1hxi_A PEX5, peroxisome targeting signal 1 receptor PEX5; alpha helical, transport protein; 1.60A {Trypanosoma brucei} SCOP: a.118.8.1

Probab=98.31  E-value=3.1e-06  Score=62.92  Aligned_cols=96  Identities=8%  Similarity=-0.039  Sum_probs=58.4

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhh
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVI  385 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~  385 (471)
                      +..+...+.+.|++++|...|+++.+  ..+.+...|..+..++...|++++|+..|++. ...| +...+..+..++..
T Consensus        20 ~~~~g~~~~~~g~~~~A~~~~~~al~--~~P~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~P~~~~~~~~la~~~~~   97 (121)
T 1hxi_A           20 PMEEGLSMLKLANLAEAALAFEAVCQ--KEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPKDIAVHAALAVSHTN   97 (121)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHH
Confidence            33444555666666666666666665  23345666666666666667777776666665 2333 45566667777777


Q ss_pred             cCCchHHHHHHHHHHHcCCC
Q 012108          386 HQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       386 ~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .|++++|+..++++++.+|.
T Consensus        98 ~g~~~~A~~~~~~al~~~P~  117 (121)
T 1hxi_A           98 EHNANAALASLRAWLLSQPQ  117 (121)
T ss_dssp             HHHHHHHHHHHHHHHC----
T ss_pred             cCCHHHHHHHHHHHHHhCcC
Confidence            77777777777777766665

>4b4t_Q 26S proteasome regulatory subunit RPN6; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=98.30  E-value=1.5e-05  Score=74.10  Aligned_cols=185  Identities=8%  Similarity=-0.121  Sum_probs=132.8

Q ss_pred             HHHHHHhCCCHHHHHHHHHhccccC--------------------hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCC
Q 012108          144 LILAYTNAGEMEKAGEMFKKMLVKN--------------------VITWNTMVTGYLRSQLYIEVVDLFDEMKAG-NVKP  202 (471)
Q Consensus       144 l~~~~~~~~~~~~A~~~~~~~~~~~--------------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-g~~p  202 (471)
                      -...+.+.|++++|.+.|..+.+.+                    ..++..+...|...|++++|.+.+..+... +..+
T Consensus        10 ~a~~l~~~~~y~eA~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~al~~l~~~y~~~~~~~~a~~~~~~~~~~~~~~~   89 (434)
T 4b4t_Q           10 EARRLVNEKQYNEAEQVYLSLLDKDSSQSSAAAGASVDDKRRNEQETSILELGQLYVTMGAKDKLREFIPHSTEYMMQFA   89 (434)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHSCCCSSSBSSSSSBCSHHHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHTHHHHHTSC
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCcccchhHHHHHHHHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHcc
Confidence            3456788999999999999983321                    124778899999999999999999987653 1122


Q ss_pred             CHH----HHHHHHHHHHccCChHHHHHHHHHHHHc----CCCC-chhHHHHHHHHHHhcCChHHHHHHHhcCCC------
Q 012108          203 DYL----TVTSVLSACANLGSLETGARIHVYATDN----GLAS-NPHATTALIDMYAKCGSIEQSLEVFYKSQV------  267 (471)
Q Consensus       203 ~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~------  267 (471)
                      +..    ..+.+...+...|+.+.+..+++.....    +..+ -..++..+...|...|++++|..+++++..      
T Consensus        90 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~~~~~~~~~~~  169 (434)
T 4b4t_Q           90 KSKTVKVLKTLIEKFEQVPDSLDDQIFVCEKSIEFAKREKRVFLKHSLSIKLATLHYQKKQYKDSLALINDLLREFKKLD  169 (434)
T ss_dssp             HHHHHHHHHHHHHHHCSCCSCHHHHHHHHHHHHHHHHHSSCCSSHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSS
T ss_pred             chHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHhCccHHHHHHHHHHHHHHHHccChHHHHHHHHHHHHHHHhcc
Confidence            222    2223333445678999999999887642    2222 356788899999999999999999876432      


Q ss_pred             --C-ChhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCCCC--HHHHHHHHHHHhccCcHHHHHHHH
Q 012108          268 --K-DVFCWNAMILGLALHGYGYAALKLLGEMNDS----CVKAD--DITFIGLLSACSHAGLVQEGCELF  328 (471)
Q Consensus       268 --~-~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~--~~~~~~l~~~~~~~~~~~~a~~~~  328 (471)
                        + ...++..++..|...|++++|..++++....    +.++.  ...+..+...+...+++++|...|
T Consensus       170 ~~~~~~~~~~~~~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~~g~~~~~~~~y~~A~~~~  239 (434)
T 4b4t_Q          170 DKPSLVDVHLLESKVYHKLRNLAKSKASLTAARTAANSIYCPTQTVAELDLMSGILHCEDKDYKTAFSYF  239 (434)
T ss_dssp             CSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHTTSSSCHHHHHHHH
T ss_pred             cchhHHHHHHHHHHHHHHhCcHHHHHHHHHHHHHHhhcCCCchHHHHHHHHHHHHHHHHHHhHHHHHHHH
Confidence              1 2457888999999999999999999987642    21212  234556667778889998886654

>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=98.25  E-value=6.6e-06  Score=74.49  Aligned_cols=89  Identities=6%  Similarity=-0.101  Sum_probs=77.3

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL  417 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  417 (471)
                      +...|..+..+|.+.|++++|.+.+++. ...| +...+..+..+|...|++++|+..|+++++..|. +...+..+..+
T Consensus       272 ~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~P~-~~~~~~~l~~~  350 (370)
T 1ihg_A          272 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKV  350 (370)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhccCHHHHHHHHHHHHHhCchhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            4667888888999999999999999887 4445 5678888999999999999999999999999998 89999999999


Q ss_pred             HHhcCCHHHHHH
Q 012108          418 YASCGQWEEANR  429 (471)
Q Consensus       418 ~~~~g~~~~A~~  429 (471)
                      +.+.++.+++.+
T Consensus       351 ~~~~~~~~~a~k  362 (370)
T 1ihg_A          351 KQKIKAQKDKEK  362 (370)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999888887765

>3rkv_A Putative peptidylprolyl isomerase; structural genomics, APC102156, PSI-biology, midwest center structural genomics, MCSG; 2.41A {Caenorhabditis elegans}

Probab=98.23  E-value=4.1e-06  Score=66.07  Aligned_cols=128  Identities=13%  Similarity=-0.001  Sum_probs=78.1

Q ss_pred             hhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          270 VFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       270 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      ...+......+.+.|++++|+..|.+....  .+...       .-....+.+     +..+.     +.+...|..+..
T Consensus        11 a~~~~~~G~~~~~~~~~~~A~~~y~~al~~--~~~~~-------~~~~~~~~~-----~~~~~-----~~~~~~~~nla~   71 (162)
T 3rkv_A           11 VEALRQKGNELFVQKDYKEAIDAYRDALTR--LDTLI-------LREKPGEPE-----WVELD-----RKNIPLYANMSQ   71 (162)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--HHHHH-------HTSCTTSHH-----HHHHH-----HTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHcCCHHHHHHHHHHHHHH--HHHhc-------ccCCCCHHH-----HHHHH-----HHHHHHHHHHHH
Confidence            456778888999999999999999998763  00000       000000000     01111     123445666666


Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc-hhHHHHHHH
Q 012108          350 LLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD-GELMMFANL  417 (471)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~-~~~~~l~~~  417 (471)
                      +|.+.|++++|...+++. ...| +...|..+..++...|++++|...|+++++..|. ++ .....+..+
T Consensus        72 ~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~l~~~  141 (162)
T 3rkv_A           72 CYLNIGDLHEAEETSSEVLKREETNEKALFRRAKARIAAWKLDEAEEDLKLLLRNHPA-AASVVAREMKIV  141 (162)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCGG-GHHHHHHHHHHH
T ss_pred             HHHhcCcHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHhcHHHHHHHHHHHHhcCCC-CHHHHHHHHHHH
Confidence            666677777777666665 2223 4567777777788888888888888888888777 55 333344333

>3ro3_A PINS homolog, G-protein-signaling modulator 2; asymmetric cell division, protein binding; 1.10A {Mus musculus}

Probab=98.20  E-value=6.8e-06  Score=64.40  Aligned_cols=131  Identities=11%  Similarity=-0.057  Sum_probs=73.8

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCC-CCC----HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hhH
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDSCV-KAD----DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LEH  343 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~  343 (471)
                      +..+...+...|++++|+..+++...... .++    ..++..+...+...|++++|...+++..+.....++    ...
T Consensus        12 ~~~l~~~~~~~~~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~   91 (164)
T 3ro3_A           12 FGNLGNTHYLLGNFRDAVIAHEQRLLIAKEFGDKAAERIAYSNLGNAYIFLGEFETASEYYKKTLLLARQLKDRAVEAQS   91 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHhCCchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhCCcHHHHHH
Confidence            34444445555555555555554433200 001    124555566666667777776666665542111111    344


Q ss_pred             HHHHHHHHhhcCCHHHHHHHHHhC-------CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          344 YGCMVDLLGRARLLDRAIELIEAM-------PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       344 ~~~l~~~~~~~g~~~~A~~~~~~~-------~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                      +..+...+...|++++|.+.+++.       +..+ ....+..+...+...|++++|...+++..+..
T Consensus        92 ~~~l~~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~a~~~~  159 (164)
T 3ro3_A           92 CYSLGNTYTLLQDYEKAIDYHLKHLAIAQELKDRIGEGRACWSLGNAYTALGNHDQAMHFAEKHLEIS  159 (164)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhHHHHHHHHHHHHHHHHHccchHhHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHH
Confidence            556666666777777777666654       1111 13456677778888888888888888877654

>3k9i_A BH0479 protein; putative protein binding protein, structural genomics, joint for structural genomics, JCSG; 2.71A {Bacillus halodurans}

Probab=98.20  E-value=1.5e-06  Score=64.27  Aligned_cols=90  Identities=11%  Similarity=0.034  Sum_probs=51.2

Q ss_pred             cCcHHHHHHHHHHhHHhcC--CCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHH
Q 012108          318 AGLVQEGCELFSRMEKDFG--VTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGD  393 (471)
Q Consensus       318 ~~~~~~a~~~~~~~~~~~~--~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~  393 (471)
                      .|++++|+..|+++.+ .+  .+.+...+..+..+|...|++++|.+.|++. ...| +...+..+..++...|++++|+
T Consensus         3 ~g~~~~A~~~~~~al~-~~~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~g~~~~A~   81 (117)
T 3k9i_A            3 LGLEAQAVPYYEKAIA-SGLQGKDLAECYLGLGSTFRTLGEYRKAEAVLANGVKQFPNHQALRVFYAMVLYNLGRYEQGV   81 (117)
T ss_dssp             ----CCCHHHHHHHHS-SCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             CCcHHHHHHHHHHHHH-cCCCCccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHcCCHHHHH
Confidence            3555556666665554 11  1223455555666666666666666666655 2222 4556666677777777777777


Q ss_pred             HHHHHHHHcCCCCCch
Q 012108          394 RVAKMVCAKSNYLSDG  409 (471)
Q Consensus       394 ~~~~~~~~~~~~~~~~  409 (471)
                      ..++++++..|. ++.
T Consensus        82 ~~~~~al~~~p~-~~~   96 (117)
T 3k9i_A           82 ELLLKIIAETSD-DET   96 (117)
T ss_dssp             HHHHHHHHHHCC-CHH
T ss_pred             HHHHHHHHhCCC-cHH
Confidence            777777777666 443

>2if4_A ATFKBP42; FKBP-like, alpha-beta, TPR-like, alpha, signaling protein; 2.85A {Arabidopsis thaliana}

Probab=98.13  E-value=7.4e-06  Score=73.32  Aligned_cols=122  Identities=7%  Similarity=-0.119  Sum_probs=90.9

Q ss_pred             HHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHh
Q 012108          305 DITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACV  384 (471)
Q Consensus       305 ~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~  384 (471)
                      ...+..+...+.+.|++++|...|+++...   .|+..       .+...|+.+++...+.       ...|..+..++.
T Consensus       179 a~~~~~~g~~~~~~g~~~~A~~~y~~Al~~---~p~~~-------~~~~~~~~~~~~~~l~-------~~~~~nla~~~~  241 (338)
T 2if4_A          179 ADRRKMDGNSLFKEEKLEEAMQQYEMAIAY---MGDDF-------MFQLYGKYQDMALAVK-------NPCHLNIAACLI  241 (338)
T ss_dssp             HHHHHHHHHHTCSSSCCHHHHHHHHHHHHH---SCHHH-------HHTCCHHHHHHHHHHH-------THHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcCCHHHHHHHHHHHHHH---hccch-------hhhhcccHHHHHHHHH-------HHHHHHHHHHHH
Confidence            455667777888889999999999888762   23322       1233445555544332       237788899999


Q ss_pred             hcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCc
Q 012108          385 IHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAG  444 (471)
Q Consensus       385 ~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  444 (471)
                      +.|++++|+..++++++.+|. +...|..++.+|...|++++|...|++..+..+.....
T Consensus       242 ~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~a~~~~g~~~~A~~~l~~al~l~p~~~~a  300 (338)
T 2if4_A          242 KLKRYDEAIGHCNIVLTEEEK-NPKALFRRGKAKAELGQMDSARDDFRKAQKYAPDDKAI  300 (338)
T ss_dssp             TTTCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHTTC--------
T ss_pred             HcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCCCCHHH
Confidence            999999999999999999999 99999999999999999999999999998877654433

>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=98.12  E-value=8.9e-06  Score=76.47  Aligned_cols=117  Identities=11%  Similarity=0.019  Sum_probs=65.4

Q ss_pred             HHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHH
Q 012108          246 IDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQ  322 (471)
Q Consensus       246 ~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~  322 (471)
                      ...+.+.|++++|++.|++...   .+..+|..+..+|.+.|++++|+..+++..+.. +.+...+..+..++...|+++
T Consensus        13 g~~~~~~g~~~~A~~~~~~Al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~l~-p~~~~~~~~lg~~~~~~g~~~   91 (477)
T 1wao_1           13 ANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELD-KKYIKGYYRRAASNMALGKFR   91 (477)
T ss_dssp             SSSTTTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHhCCHHHHHHHHHHHHHhCCccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHH
Confidence            3445566666777666665433   245566666666666666666666666666642 224455666666666666666


Q ss_pred             HHHHHHHHhHHhcCCCCChhHHHHHHHH--HhhcCCHHHHHHHHH
Q 012108          323 EGCELFSRMEKDFGVTRKLEHYGCMVDL--LGRARLLDRAIELIE  365 (471)
Q Consensus       323 ~a~~~~~~~~~~~~~~~~~~~~~~l~~~--~~~~g~~~~A~~~~~  365 (471)
                      +|.+.|+++.+.  .+.+...+..+..+  +.+.|++++|.+.++
T Consensus        92 eA~~~~~~al~~--~p~~~~~~~~l~~~~~~~~~g~~~~A~~~~~  134 (477)
T 1wao_1           92 AALRDYETVVKV--KPHDKDAKMKYQECNKIVKQKAFERAIAGDE  134 (477)
T ss_dssp             HHHHHHHHHHHH--STTCTTHHHHHHHHHHHHHHHHHCCC-----
T ss_pred             HHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence            666666666652  22233344444444  555666666666665

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=98.11  E-value=7.8e-06  Score=58.36  Aligned_cols=67  Identities=10%  Similarity=-0.012  Sum_probs=54.4

Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      +...+..+..++...|++++|+..|+++++.+|. ++..|..++.+|...|++++|.+.+++..+...
T Consensus         6 ~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~a~~~lg~~~~~~g~~~~A~~~~~~al~l~~   72 (100)
T 3ma5_A            6 DPFTRYALAQEHLKHDNASRALALFEELVETDPD-YVGTYYHLGKLYERLDRTDDAIDTYAQGIEVAR   72 (100)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSTT-CTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhhh
Confidence            5667777888888888888888888888888888 788888888888888888888888888766543

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=98.11  E-value=1.4e-06  Score=63.54  Aligned_cols=94  Identities=6%  Similarity=-0.070  Sum_probs=63.9

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC------chhH
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS------DGEL  411 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~------~~~~  411 (471)
                      +...+..+...+.+.|++++|.+.|++. .. +.+...+..+..++...|++++|+..++++++..|. +      ...+
T Consensus         3 ~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~~~~~   81 (111)
T 2l6j_A            3 QFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQNPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTST-AEHVAIRSKLQ   81 (111)
T ss_dssp             HHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSS-TTSHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCC-ccHHHHHHHHH
Confidence            3445566666677777777777777665 22 235667777777888888888888888888887777 5      5566


Q ss_pred             HHHHHHHHhcCCHHHHHHHHHHh
Q 012108          412 MMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       412 ~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      ..++.++...|+++.|.+.++++
T Consensus        82 ~~~~~~~~~~~~~~~a~~~~~~~  104 (111)
T 2l6j_A           82 YRLELAQGAVGSVQIPVVEVDEL  104 (111)
T ss_dssp             HHHHHHHHHHHCCCCCSSSSSSC
T ss_pred             HHHHHHHHHHHhHhhhHhHHHHh
Confidence            66777777777666665544443

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=98.10  E-value=1.8e-07  Score=83.62  Aligned_cols=236  Identities=11%  Similarity=0.072  Sum_probs=177.9

Q ss_pred             chhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcC
Q 012108           44 HVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK--DVTSFNIMISGYARIG  121 (471)
Q Consensus        44 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g  121 (471)
                      .+.+|+.+..+....++..+|+..|-  ...|+..|..+|.+..+.|.+++-++.+...++.  ++..=+.++-+|++.+
T Consensus        53 ~p~VWs~LgkAqL~~~~v~eAIdsyI--kA~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayAk~~  130 (624)
T 3lvg_A           53 EPAVWSQLAKAQLQKGMVKEAIDSYI--KADDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALAKTN  130 (624)
T ss_dssp             CCCCSSSHHHHTTTSSSCTTTTTSSC--CCSCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHHTSC
T ss_pred             CccHHHHHHHHHHccCchHHHHHHHH--hCCChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHHhhC
Confidence            45678889999998898888887763  3467778999999999999999999998887765  6666778999999999


Q ss_pred             CHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhcc------------------------ccChHHHHHHHH
Q 012108          122 KIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKML------------------------VKNVITWNTMVT  177 (471)
Q Consensus       122 ~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~------------------------~~~~~~~~~l~~  177 (471)
                      +..+-++.+   ..|+..-...+.+-|...|.++.|.-+|..+.                        ..++.+|..+..
T Consensus       131 rL~elEefl---~~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKeV~~  207 (624)
T 3lvg_A          131 RLAELEEFI---NGPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKEVCF  207 (624)
T ss_dssp             SSSTTTSTT---SCCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHHHTH
T ss_pred             cHHHHHHHH---cCCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHHHHH
Confidence            877654433   33677677788888889999998888887761                        237789999999


Q ss_pred             HHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHH
Q 012108          178 GYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQ  257 (471)
Q Consensus       178 ~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~  257 (471)
                      +|...+++..|.-.--.+.-   .||.  ...++..|-..|.+++.+.+++.-.... .....+|+.|.-.|++- ++++
T Consensus       208 ACvd~~EfrLAqicGLniIv---hade--L~elv~~YE~~G~f~ELIsLlEaglglE-rAHmGmFTELaILYsKY-~PeK  280 (624)
T 3lvg_A          208 ACVDGKEFRLAQMCGLHIVV---HADE--LEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKF-KPQK  280 (624)
T ss_dssp             HHHHSCTTTTTTHHHHHHHC---CSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTST-TCCHHHHHHHHHHHHSS-CTTH
T ss_pred             HHhCchHHHHHHHhcchhcc---cHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCCC-chhHHHHHHHHHHHHhc-CHHH
Confidence            99999998887765544442   2221  2235666788999999999988876432 46788899998888875 6666


Q ss_pred             HHHHHhcCCC----C-------ChhhHHHHHHHHHhcCChHHHHH
Q 012108          258 SLEVFYKSQV----K-------DVFCWNAMILGLALHGYGYAALK  291 (471)
Q Consensus       258 a~~~~~~~~~----~-------~~~~~~~l~~~~~~~~~~~~a~~  291 (471)
                      ..+.++-...    |       ....|.-++-.|.+-.+++.|..
T Consensus       281 lmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~l  325 (624)
T 3lvg_A          281 MREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAII  325 (624)
T ss_dssp             HHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHH
Confidence            6666654332    2       45678888888998888887754

>1ihg_A Cyclophilin 40; ppiase immunophilin tetratricopeptide, isomerase; 1.80A {Bos taurus} SCOP: a.118.8.1 b.62.1.1 PDB: 1iip_A

Probab=98.07  E-value=6.2e-05  Score=68.09  Aligned_cols=119  Identities=10%  Similarity=0.017  Sum_probs=82.3

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccc-------------------cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCC
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLV-------------------KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNV  200 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~-------------------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~  200 (471)
                      .+..+...+.+.|++++|.+.|++.+.                   .+...|..+..++.+.|++++|+..+++.++.. 
T Consensus       225 ~~~~~g~~~~~~g~~~~Ai~~y~kAl~~~~~~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-  303 (370)
T 1ihg_A          225 DLKNIGNTFFKSQNWEMAIKKYTKVLRYVEGSRAAAEDADGAKLQPVALSCVLNIGACKLKMSDWQGAVDSCLEALEID-  303 (370)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHHHHSCHHHHGGGHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHHHHHHhhcCccccChHHHHHHHHHHHHHHHHHHHHHHhccCHHHHHHHHHHHHHhC-
Confidence            355666677777777777777777643                   134567777778888888888888888877653 


Q ss_pred             CCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHH
Q 012108          201 KPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLE  260 (471)
Q Consensus       201 ~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~  260 (471)
                      +.+...+..+..++...|++++|...++++.+.. +.+...+..+..++...++.+++.+
T Consensus       304 p~~~~a~~~lg~~~~~~g~~~eA~~~l~~Al~l~-P~~~~~~~~l~~~~~~~~~~~~a~k  362 (370)
T 1ihg_A          304 PSNTKALYRRAQGWQGLKEYDQALADLKKAQEIA-PEDKAIQAELLKVKQKIKAQKDKEK  362 (370)
T ss_dssp             TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence            2345666777777778888888888888877764 4456666666666666666665543

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=98.03  E-value=1.6e-05  Score=74.29  Aligned_cols=124  Identities=10%  Similarity=-0.001  Sum_probs=93.2

Q ss_pred             HHhccCcHHHHHHHHHHhHHhc--CCCC----ChhHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HhHHH
Q 012108          314 ACSHAGLVQEGCELFSRMEKDF--GVTR----KLEHYGCMVDLLGRARLLDRAIELIEAM---------PFEPT-ESILG  377 (471)
Q Consensus       314 ~~~~~~~~~~a~~~~~~~~~~~--~~~~----~~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~~~  377 (471)
                      .+..+|++++|+.++++..+..  -+.|    ...+++.|...|...|++++|..++++.         +..|+ ..+++
T Consensus       318 ~~~~qg~~~eA~~l~~~aL~~~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~Hp~~a~~l~  397 (490)
T 3n71_A          318 KARSEGLYHEVVKLCRECLEKQEPVFADTNLYVLRLLSIASEVLSYLQAYEEASHYARRMVDGYMKLYHHNNAQLGMAVM  397 (490)
T ss_dssp             HHHTTTCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCTTCHHHHHHHH
T ss_pred             HHHhCCCHHHHHHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHcCCCCHHHHHHHH
Confidence            3557788888888888776522  1222    2567888888888999999988888765         24454 35788


Q ss_pred             HHHHHHhhcCCchHHHHHHHHHHHc-----CCCCCchh---HHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          378 ALLSACVIHQDLEIGDRVAKMVCAK-----SNYLSDGE---LMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       378 ~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~---~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      .|...|...|++++|+.+++++++.     |++ .+.+   ...+..++...|.+++|..++.++++.-
T Consensus       398 nLa~~~~~~G~~~eA~~~~~~Al~i~~~~lG~~-Hp~~~~~~~~l~~~~~e~~~~~~ae~~~~~~~~~~  465 (490)
T 3n71_A          398 RAGLTNWHAGHIEVGHGMICKAYAILLVTHGPS-HPITKDLEAMRMQTEMELRMFRQNEFMYHKMREAA  465 (490)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTT-SHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHHHHhCCC-ChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999988763     666 4443   3467778888999999999999997743

>1dce_A Protein (RAB geranylgeranyltransferase alpha subunit); 2.0 A resolution, N-formylmethionine, alpha subunit; HET: FME; 2.00A {Rattus norvegicus} SCOP: a.118.6.1 b.7.4.1 c.10.2.2 PDB: 1ltx_A*

Probab=98.03  E-value=0.00019  Score=68.75  Aligned_cols=167  Identities=11%  Similarity=-0.063  Sum_probs=122.3

Q ss_pred             HHHHHHHhcCCC---CChhhHHHHHHHHHhcCC----------hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC--c
Q 012108          256 EQSLEVFYKSQV---KDVFCWNAMILGLALHGY----------GYAALKLLGEMNDSCVKADDITFIGLLSACSHAG--L  320 (471)
Q Consensus       256 ~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~--~  320 (471)
                      ++|++.++++..   .+..+|+.-...+...|+          ++++++.++++.... +-+..+|..-...+.+.+  +
T Consensus        46 eeal~~~~~~l~~nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~~~-pK~y~aW~hR~w~l~~l~~~~  124 (567)
T 1dce_A           46 ESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRLPEPN  124 (567)
T ss_dssp             HHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTCSSCC
T ss_pred             HHHHHHHHHHHHHCchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHccccc
Confidence            445555554433   233455554445555454          788888888888763 335667777777777778  6


Q ss_pred             HHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC-CHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhc-----------
Q 012108          321 VQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR-LLDRAIELIEAM-PFEP-TESILGALLSACVIH-----------  386 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~-----------  386 (471)
                      ++++++.++++.+  -.+.+..+|+.-...+.+.| .++++++.++++ ...| +...|+.....+...           
T Consensus       125 ~~~el~~~~k~l~--~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~n~saW~~r~~ll~~l~~~~~~~~~~~  202 (567)
T 1dce_A          125 WARELELCARFLE--ADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGPQGR  202 (567)
T ss_dssp             HHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSSCCS
T ss_pred             HHHHHHHHHHHHh--hccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCCCccHHHHHHHHHHhhccccccccccc
Confidence            7899999999988  34567778887777778888 888888888887 4444 567777777666553           


Q ss_pred             ---CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHH
Q 012108          387 ---QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEE  426 (471)
Q Consensus       387 ---g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  426 (471)
                         +.++++.+.+++++..+|. +...|..+...+.+.|+.++
T Consensus       203 ~~~~~~~eel~~~~~ai~~~P~-~~saW~y~~~ll~~~~~~~~  244 (567)
T 1dce_A          203 LPENVLLKELELVQNAFFTDPN-DQSAWFYHRWLLGRAEPHDV  244 (567)
T ss_dssp             SCHHHHHHHHHHHHHHHHHCSS-CSHHHHHHHHHHSCCCCCSC
T ss_pred             ccHHHHHHHHHHHHHHHhhCCC-CccHHHHHHHHHhcCCCccc
Confidence               5578999999999999999 99999999999999888555

>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=98.00  E-value=7e-05  Score=70.05  Aligned_cols=118  Identities=12%  Similarity=0.069  Sum_probs=57.8

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccc--c-C---------------hHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCC
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLV--K-N---------------VITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVK  201 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~--~-~---------------~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~  201 (471)
                      .+..+...+.+.|++++|...|++.+.  | +               ...|..+..++.+.|++++|+..+++.++.. +
T Consensus       270 ~~~~~G~~~~~~g~~~~A~~~y~~Al~~~p~~~~~~~~~~~~~~~~~~~~~~nla~~~~~~g~~~~A~~~~~~al~~~-p  348 (457)
T 1kt0_A          270 IVKEKGTVYFKGGKYMQAVIQYGKIVSWLEMEYGLSEKESKASESFLLAAFLNLAMCYLKLREYTKAVECCDKALGLD-S  348 (457)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHS-T
T ss_pred             HHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccCChHHHHHHHHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHhcC-C
Confidence            444555555566666666666655521  1 1               2445555555555555555555555555432 2


Q ss_pred             CCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHH
Q 012108          202 PDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSL  259 (471)
Q Consensus       202 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  259 (471)
                      .+...|..+..++...|++++|...|+.+++.. +.+...+..+..++.+.++.+++.
T Consensus       349 ~~~~a~~~~g~a~~~~g~~~~A~~~~~~al~l~-P~~~~a~~~l~~~~~~~~~~~~a~  405 (457)
T 1kt0_A          349 ANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVN-PQNKAARLQISMCQKKAKEHNERD  405 (457)
T ss_dssp             TCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC-----CHHHHHHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHHHHHHccCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence            234444455555555555555555555555443 333444444555555444444443

>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=98.00  E-value=1.9e-05  Score=60.71  Aligned_cols=107  Identities=12%  Similarity=-0.071  Sum_probs=70.0

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCCC-----C-----hhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-------C
Q 012108          309 IGLLSACSHAGLVQEGCELFSRMEKDFGVTR-----K-----LEHYGCMVDLLGRARLLDRAIELIEAM-PF-------E  370 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~-----~-----~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-------~  370 (471)
                      ......+.+.|++++|+..|+++.+-....|     +     ...|..+..++.+.|++++|+..+++. .+       .
T Consensus        15 ~~~G~~l~~~g~~eeAi~~Y~kAL~l~p~~~~~~a~~~~~~~a~a~~n~g~al~~Lgr~~eAl~~~~kAL~l~n~~~e~~   94 (159)
T 2hr2_A           15 LSDAQRQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELN   94 (159)
T ss_dssp             HHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTT
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHhhCCCCcchhhhhhccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhhccccCC
Confidence            3344445555666666666665554111100     1     226666777777777777777666655 33       6


Q ss_pred             CC-HhHH----HHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHH
Q 012108          371 PT-ESIL----GALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFAN  416 (471)
Q Consensus       371 p~-~~~~----~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  416 (471)
                      |+ ...|    .....++...|++++|+..|+++++..|. |...+..+..
T Consensus        95 pd~~~A~~~~~~~rG~aL~~lgr~eEAl~~y~kAlel~p~-d~~~~~~~~~  144 (159)
T 2hr2_A           95 QDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE-RKGETPGKER  144 (159)
T ss_dssp             STHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH-CCSCCTTHHH
T ss_pred             CchHHHHHHHHHhHHHHHHHCCCHHHHHHHHHHHHhcCCC-cHHHHHHHHH
Confidence            65 4577    88899999999999999999999999887 6666554443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.99  E-value=3.9e-05  Score=53.25  Aligned_cols=81  Identities=12%  Similarity=-0.005  Sum_probs=49.5

Q ss_pred             hhHHHHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          341 LEHYGCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       341 ~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      ...+..+...+...|++++|...+++. .. +.+...+..+..++...|++++|...++++.+..|. ++..+..++.++
T Consensus         9 ~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~-~~~~~~~l~~~~   87 (91)
T 1na3_A            9 AEAWYNLGNAYYKQGDYDEAIEYYQKALELDPNNAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAKQNLGNAK   87 (91)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC-CHHHHHHHHHHH
Confidence            344455555555566666666665554 11 224455666666677777777777777777777776 666666666666


Q ss_pred             HhcC
Q 012108          419 ASCG  422 (471)
Q Consensus       419 ~~~g  422 (471)
                      .+.|
T Consensus        88 ~~~g   91 (91)
T 1na3_A           88 QKQG   91 (91)
T ss_dssp             HHHC
T ss_pred             HhcC
Confidence            5543

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.98  E-value=2.1e-05  Score=57.67  Aligned_cols=79  Identities=13%  Similarity=-0.048  Sum_probs=38.5

Q ss_pred             HHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC-CCHhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          324 GCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFE-PTESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       324 a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~-p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      +...|+++.+  ..+.+...+..+...|...|++++|...|++. ... .+...|..+..++...|++++|...|+++.+
T Consensus         4 a~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A            4 ITERLEAMLA--QGTDNMLLRFTLGKTYAEHEQFDAALPHLRAALDFDPTYSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHT--TTCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHH--hCCCcHHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            4444555444  22334445555555555555555555555544 112 2344455555555555555555555555554


Q ss_pred             cCC
Q 012108          402 KSN  404 (471)
Q Consensus       402 ~~~  404 (471)
                      ..|
T Consensus        82 ~~~   84 (115)
T 2kat_A           82 AAQ   84 (115)
T ss_dssp             HHH
T ss_pred             hcc
Confidence            443

>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=97.96  E-value=8.4e-06  Score=62.47  Aligned_cols=51  Identities=12%  Similarity=0.058  Sum_probs=39.9

Q ss_pred             chHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcC-----------CHHHHHHHHHHhhhCCCc
Q 012108          389 LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCG-----------QWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g-----------~~~~A~~~~~~m~~~~~~  440 (471)
                      +++|+..|+++++.+|+ +...|..++.+|...|           ++++|++.|++..+.++.
T Consensus        62 ~~eAi~~le~AL~ldP~-~~~A~~~LG~ay~~lg~l~P~~~~a~g~~~eA~~~~~kAl~l~P~  123 (158)
T 1zu2_A           62 IQEAITKFEEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPD  123 (158)
T ss_dssp             HHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHhCcC-cHHHHHHHHHHHHHhcccCcchhhhhccHHHHHHHHHHHHHhCCC
Confidence            45888888888888888 7888888888887764           788888888888777664

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.96  E-value=0.00012  Score=55.69  Aligned_cols=111  Identities=5%  Similarity=-0.043  Sum_probs=67.3

Q ss_pred             cHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhh----cCCchHHHHH
Q 012108          320 LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVI----HQDLEIGDRV  395 (471)
Q Consensus       320 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~  395 (471)
                      ++++|.+.|++..+ .+ .|.  ..  |...|...+..++|.+.|++.-...++..+..|...|..    .+++++|...
T Consensus        10 d~~~A~~~~~~aa~-~g-~~~--a~--lg~~y~~g~~~~~A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~   83 (138)
T 1klx_A           10 DLKKAIQYYVKACE-LN-EMF--GC--LSLVSNSQINKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQY   83 (138)
T ss_dssp             HHHHHHHHHHHHHH-TT-CTT--HH--HHHHTCTTSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHH
T ss_pred             CHHHHHHHHHHHHc-CC-CHh--hh--HHHHHHcCCCHHHHHHHHHHHHcCCCHHHHHHHHHHHHcCCCCCccHHHHHHH
Confidence            45556666666555 23 122  12  555555555555666666655223455555556666655    5677777777


Q ss_pred             HHHHHHcCCCCCchhHHHHHHHHHh----cCCHHHHHHHHHHhhhCCC
Q 012108          396 AKMVCAKSNYLSDGELMMFANLYAS----CGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       396 ~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~  439 (471)
                      |+++.+.+   ++..+..|+..|..    .+++++|.+++++..+.|.
T Consensus        84 ~~~Aa~~g---~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           84 YSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHcCC---CHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            77777664   56677777777777    6777777777777766654

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=97.95  E-value=8.1e-05  Score=51.87  Aligned_cols=70  Identities=14%  Similarity=0.039  Sum_probs=61.3

Q ss_pred             CCCHhHHHHHHHHHhhcCC---chHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          370 EPTESILGALLSACVIHQD---LEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       370 ~p~~~~~~~l~~~~~~~g~---~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ++++..+..+..++...++   .++|..+++++++.+|. ++.....++..+.+.|++++|+..|+++.+.++.
T Consensus         3 p~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~-~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            3 AVTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPY-NEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            4567777888887765444   79999999999999999 9999999999999999999999999999988776

>2l6j_A TPR repeat-containing protein associated with HSP; tetratricopeptide repeat (TPR), HSP90 CO-factor, protein BIN; NMR {Saccharomyces cerevisiae}

Probab=97.90  E-value=5.3e-05  Score=54.90  Aligned_cols=70  Identities=4%  Similarity=-0.197  Sum_probs=64.2

Q ss_pred             CCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          371 PTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       371 p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ++...+..+...+...|++++|+..++++++..|. ++..+..++.+|.+.|++++|++.+++..+..+..
T Consensus         2 ~~~~~~~~~g~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~   71 (111)
T 2l6j_A            2 SQFEKQKEQGNSLFKQGLYREAVHCYDQLITAQPQ-NPVGYSNKAMALIKLGEYTQAIQMCQQGLRYTSTA   71 (111)
T ss_dssp             THHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSCSST
T ss_pred             chHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHhcCHHHHHHHHHHHHHhCCCc
Confidence            35667888899999999999999999999999999 89999999999999999999999999999877654

>3n71_A Histone lysine methyltransferase SMYD1; heart development, transcription; HET: SFG MES; 2.30A {Mus musculus}

Probab=97.89  E-value=0.00012  Score=68.44  Aligned_cols=130  Identities=14%  Similarity=0.022  Sum_probs=68.5

Q ss_pred             HHhcCCHHHHHHHHHHHHhC---CCCCC----HHHHHHHHHHHHccCChHHHHHHHHHHHHc-----C--CCCchhHHHH
Q 012108          179 YLRSQLYIEVVDLFDEMKAG---NVKPD----YLTVTSVLSACANLGSLETGARIHVYATDN-----G--LASNPHATTA  244 (471)
Q Consensus       179 ~~~~~~~~~a~~~~~~m~~~---g~~p~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-----~--~~~~~~~~~~  244 (471)
                      +..+|++++|+.++++.++.   -+.|+    ..+++.+...|...|++++|..++++.++.     |  .+....+++.
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            44566677766666665432   11111    234555666666666666666666555431     1  0112234445


Q ss_pred             HHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhccCcHHH
Q 012108          245 LIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADD-ITFIGLLSACSHAGLVQE  323 (471)
Q Consensus       245 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~~~~~~~  323 (471)
                      |...|...|++++|+.+++                        +|+++++...... .|+. .+...+..++...+.+++
T Consensus       399 La~~~~~~G~~~eA~~~~~------------------------~Al~i~~~~lG~~-Hp~~~~~~~~l~~~~~e~~~~~~  453 (490)
T 3n71_A          399 AGLTNWHAGHIEVGHGMIC------------------------KAYAILLVTHGPS-HPITKDLEAMRMQTEMELRMFRQ  453 (490)
T ss_dssp             HHHHHHHTTCHHHHHHHHH------------------------HHHHHHHHHTCTT-SHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHCCCHHHHHHHHH------------------------HHHHHHHHHhCCC-ChHHHHHHHHHHHHHHHHHHHHH
Confidence            5555555555555555442                        3333333332221 2322 345556667777888888


Q ss_pred             HHHHHHHhHH
Q 012108          324 GCELFSRMEK  333 (471)
Q Consensus       324 a~~~~~~~~~  333 (471)
                      |+.+|.++.+
T Consensus       454 ae~~~~~~~~  463 (490)
T 3n71_A          454 NEFMYHKMRE  463 (490)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            8888888876

>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=97.80  E-value=0.00027  Score=67.74  Aligned_cols=157  Identities=8%  Similarity=-0.078  Sum_probs=125.7

Q ss_pred             cCChHHHHHHHHHHHhCCCCC-CHHHHHHHHHHHhccCc----------HHHHHHHHHHhHHhcCCCCChhHHHHHHHHH
Q 012108          283 HGYGYAALKLLGEMNDSCVKA-DDITFIGLLSACSHAGL----------VQEGCELFSRMEKDFGVTRKLEHYGCMVDLL  351 (471)
Q Consensus       283 ~~~~~~a~~~~~~~~~~~~~p-~~~~~~~l~~~~~~~~~----------~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~  351 (471)
                      ....++|++.++++...  .| +...|+.--.++...|+          ++++++.++++.+  ..+.+..+|..-..++
T Consensus        42 ~~~~eeal~~~~~~l~~--nP~~~taW~~R~~~l~~l~~~~~~~~~~~~~~~eL~~~~~~l~--~~pK~y~aW~hR~w~l  117 (567)
T 1dce_A           42 GELDESVLELTSQILGA--NPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLR--VNPKSYGTWHHRCWLL  117 (567)
T ss_dssp             TCCSHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHHH--CchhHHHHHHHHHHHHhcccccchhhhhhhHHHHHHHHHHHHH--hCCCCHHHHHHHHHHH
Confidence            33456889999999986  44 44556655555555555          8999999999998  4566788888888888


Q ss_pred             hhcC--CHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcC-CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc-----
Q 012108          352 GRAR--LLDRAIELIEAM-P-FEPTESILGALLSACVIHQ-DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC-----  421 (471)
Q Consensus       352 ~~~g--~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-----  421 (471)
                      .+.|  +++++++.++++ . .+-+...|+.-..++...| .++++.+.++++++.+|. +...|.....++.+.     
T Consensus       118 ~~l~~~~~~~el~~~~k~l~~d~~N~~aW~~R~~~l~~l~~~~~~el~~~~~~I~~~p~-n~saW~~r~~ll~~l~~~~~  196 (567)
T 1dce_A          118 SRLPEPNWARELELCARFLEADERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFS-NYSSWHYRSCLLPQLHPQPD  196 (567)
T ss_dssp             HTCSSCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCC-CHHHHHHHHHHHHHHSCCCC
T ss_pred             HHcccccHHHHHHHHHHHHhhccccccHHHHHHHHHHHcCCChHHHHHHHHHHHHHCCC-CccHHHHHHHHHHhhccccc
Confidence            8999  779999999998 3 3447788888888888888 899999999999999999 999999998888774     


Q ss_pred             ---------CCHHHHHHHHHHhhhCCCcccCc
Q 012108          422 ---------GQWEEANRWRNMMNDTGIVKTAG  444 (471)
Q Consensus       422 ---------g~~~~A~~~~~~m~~~~~~~~~~  444 (471)
                               +.++++.+.+++....++.....
T Consensus       197 ~~~~~~~~~~~~~eel~~~~~ai~~~P~~~sa  228 (567)
T 1dce_A          197 SGPQGRLPENVLLKELELVQNAFFTDPNDQSA  228 (567)
T ss_dssp             SSSCCSSCHHHHHHHHHHHHHHHHHCSSCSHH
T ss_pred             ccccccccHHHHHHHHHHHHHHHhhCCCCccH
Confidence                     56799999999998877654443

>1na3_A Designed protein CTPR2; de novo protein; HET: IPT; 1.55A {Unidentified} SCOP: k.38.1.1 PDB: 2avp_A

Probab=97.78  E-value=8.2e-05  Score=51.56  Aligned_cols=68  Identities=12%  Similarity=0.033  Sum_probs=62.0

Q ss_pred             CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          372 TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       372 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +...+..+...+...|++++|+..++++++..|. ++..+..++.+|.+.|++++|...+++..+..+.
T Consensus         8 ~~~~~~~la~~~~~~~~~~~A~~~~~~a~~~~~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~a~~~~p~   75 (91)
T 1na3_A            8 SAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN-NAEAWYNLGNAYYKQGDYDEAIEYYQKALELDPN   75 (91)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT
T ss_pred             cHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHHHHHHHHHHHHHhhHHHHHHHHHHHHhcCCC
Confidence            3567788888999999999999999999999998 8999999999999999999999999999887654

>1klx_A Cysteine rich protein B; structural genomics, helix-turn-helix, right handed super helix, modular structure', hydrolase; 1.95A {Helicobacter pylori} SCOP: a.118.18.1

Probab=97.73  E-value=0.00049  Score=52.23  Aligned_cols=112  Identities=8%  Similarity=-0.096  Sum_probs=90.4

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----cCCHHH
Q 012108          284 GYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----ARLLDR  359 (471)
Q Consensus       284 ~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  359 (471)
                      +++++|+..|++..+.| .|+..    +...|...+..++|.+.|++..+ .   -++..+..|..+|..    .+++++
T Consensus         9 ~d~~~A~~~~~~aa~~g-~~~a~----lg~~y~~g~~~~~A~~~~~~Aa~-~---g~~~a~~~Lg~~y~~G~g~~~d~~~   79 (138)
T 1klx_A            9 KDLKKAIQYYVKACELN-EMFGC----LSLVSNSQINKQKLFQYLSKACE-L---NSGNGCRFLGDFYENGKYVKKDLRK   79 (138)
T ss_dssp             HHHHHHHHHHHHHHHTT-CTTHH----HHHHTCTTSCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHCSSSCCCHHH
T ss_pred             cCHHHHHHHHHHHHcCC-CHhhh----HHHHHHcCCCHHHHHHHHHHHHc-C---CCHHHHHHHHHHHHcCCCCCccHHH
Confidence            46788999999988887 33433    66777777888889999999988 2   466778888888887    789999


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhh----cCCchHHHHHHHHHHHcCC
Q 012108          360 AIELIEAMPFEPTESILGALLSACVI----HQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       360 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~  404 (471)
                      |.+.|++.-...++..+..|...|..    .+++++|...|+++.+.+.
T Consensus        80 A~~~~~~Aa~~g~~~a~~~Lg~~y~~G~g~~~d~~~A~~~~~~Aa~~g~  128 (138)
T 1klx_A           80 AAQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGS  128 (138)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHcCCCHHHHHHHHHHHHCCCCCCcCHHHHHHHHHHHHHCCC
Confidence            99999988434577788888888887    8899999999999998874

>2kat_A Uncharacterized protein; NESG, structure, structural genomics, PSI-2, protein structure initiative; NMR {Bordetella parapertussis}

Probab=97.69  E-value=0.00017  Score=52.70  Aligned_cols=63  Identities=6%  Similarity=-0.116  Sum_probs=32.1

Q ss_pred             HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          373 ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       373 ~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ...+..+...+...|++++|+..++++++.+|. +...|..++.+|...|++++|...|++..+
T Consensus        19 ~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~   81 (115)
T 2kat_A           19 MLLRFTLGKTYAEHEQFDAALPHLRAALDFDPT-YSVAWKWLGKTLQGQGDRAGARQAWESGLA   81 (115)
T ss_dssp             HHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHccCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHcCCHHHHHHHHHHHHH
Confidence            344444445555555555555555555555554 444555555555555555555555554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.66  E-value=6.7e-05  Score=53.13  Aligned_cols=85  Identities=11%  Similarity=-0.051  Sum_probs=58.0

Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-CHh-HHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          347 MVDLLGRARLLDRAIELIEAM-PFEP-TES-ILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       347 l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~-~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      ....+.+.|++++|.+.+++. ...| +.. .+..+..++...|++++|...|+++++.+|. +...+..        +.
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~--------~~   76 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPVGKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPD-SPALQAR--------KM   76 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSSTHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-STHHHHH--------HH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCC-cHHHHHH--------HH
Confidence            344566777777777777766 2233 455 7777788888888888888888888888887 6655522        55


Q ss_pred             HHHHHHHHHHhhhCCCc
Q 012108          424 WEEANRWRNMMNDTGIV  440 (471)
Q Consensus       424 ~~~A~~~~~~m~~~~~~  440 (471)
                      +.++...+++....++.
T Consensus        77 ~~~a~~~~~~~~~~~p~   93 (99)
T 2kc7_A           77 VMDILNFYNKDMYNQLE   93 (99)
T ss_dssp             HHHHHHHHCCTTHHHHC
T ss_pred             HHHHHHHHHHHhccCcc
Confidence            66666666666554443

>2kc7_A BFR218_protein; tetratricopeptide repeat, all-alpha, GFT-structural genomics, PSI-2, protein structure initiative; NMR {Bacteroides fragilis}

Probab=97.52  E-value=0.00029  Score=49.70  Aligned_cols=65  Identities=12%  Similarity=0.130  Sum_probs=58.3

Q ss_pred             HHHHHhhcCCchHHHHHHHHHHHcCCCCCch-hHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcccCc
Q 012108          379 LLSACVIHQDLEIGDRVAKMVCAKSNYLSDG-ELMMFANLYASCGQWEEANRWRNMMNDTGIVKTAG  444 (471)
Q Consensus       379 l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~~~  444 (471)
                      ....+...|++++|...++++++..|. ++. .+..++.+|...|++++|.+.|++..+.++.....
T Consensus         6 ~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~p~~~~~   71 (99)
T 2kc7_A            6 TIKELINQGDIENALQALEEFLQTEPV-GKDEAYYLMGNAYRKLGDWQKALNNYQSAIELNPDSPAL   71 (99)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCSS-THHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTSTHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHHCCC-cHHHHHHHHHHHHHHcCCHHHHHHHHHHHHhcCCCcHHH
Confidence            456678899999999999999999999 888 99999999999999999999999999887765543

>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=97.49  E-value=0.00015  Score=55.54  Aligned_cols=85  Identities=9%  Similarity=0.051  Sum_probs=49.6

Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC----------HHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhc
Q 012108          319 GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL----------LDRAIELIEAM-PFEP-TESILGALLSACVIH  386 (471)
Q Consensus       319 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----------~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~  386 (471)
                      +.+++|.+.++...+  -.+.+...|..+..++...++          +++|+..|++. .+.| +..+|..+..+|...
T Consensus        16 ~~feeA~~~~~~Ai~--l~P~~aea~~n~G~~l~~l~~~~~g~~al~~~~eAi~~le~AL~ldP~~~~A~~~LG~ay~~l   93 (158)
T 1zu2_A           16 LLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISDAKQMIQEAITKFEEALLIDPKKDEAVWCIGNAYTSF   93 (158)
T ss_dssp             HHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHhcccchhhhhHhHHHHHHHHHHHHHHhCcCcHHHHHHHHHHHHHh
Confidence            344445555555444  123344444444444444433          23555555554 3334 345566666666554


Q ss_pred             -----------CCchHHHHHHHHHHHcCCC
Q 012108          387 -----------QDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       387 -----------g~~~~a~~~~~~~~~~~~~  405 (471)
                                 |++++|+..|+++++.+|.
T Consensus        94 g~l~P~~~~a~g~~~eA~~~~~kAl~l~P~  123 (158)
T 1zu2_A           94 AFLTPDETEAKHNFDLATQFFQQAVDEQPD  123 (158)
T ss_dssp             HHHCCCHHHHHHHHHHHHHHHHHHHHHCTT
T ss_pred             cccCcchhhhhccHHHHHHHHHHHHHhCCC
Confidence                       5899999999999999987

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.45  E-value=0.012  Score=59.50  Aligned_cols=155  Identities=12%  Similarity=0.178  Sum_probs=102.1

Q ss_pred             HHHHHcCCCHHHHHH-HHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHH
Q 012108           83 LDAFASCGQMDHAMK-LIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMF  161 (471)
Q Consensus        83 i~~~~~~g~~~~A~~-~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~  161 (471)
                      .......+++++|.+ ++..+.  +......++..+.+.|..+.|.++.+.     .   ..-.......|++++|.++.
T Consensus       606 ~~~~~~~~~~~~a~~~~l~~i~--~~~~~~~~~~~l~~~~~~~~a~~~~~~-----~---~~~f~~~l~~~~~~~A~~~~  675 (814)
T 3mkq_A          606 FQTLTLRGEIEEAIENVLPNVE--GKDSLTKIARFLEGQEYYEEALNISPD-----Q---DQKFELALKVGQLTLARDLL  675 (814)
T ss_dssp             HHHHHHTTCHHHHHHHTGGGCC--CHHHHHHHHHHHHHTTCHHHHHHHCCC-----H---HHHHHHHHHHTCHHHHHHHH
T ss_pred             HhHHHHhCCHHHHHHHHHhcCC--chHHHHHHHHHHHhCCChHHheecCCC-----c---chheehhhhcCCHHHHHHHH
Confidence            344456788888887 664443  133346777778888888888876632     1   11234456788999998887


Q ss_pred             HhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhH
Q 012108          162 KKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHA  241 (471)
Q Consensus       162 ~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~  241 (471)
                      +.+  .+...|..+...+.+.++++.|.+.|.++..         |..+...+...|+.+...++-+.+...|      -
T Consensus       676 ~~~--~~~~~W~~la~~al~~~~~~~A~~~y~~~~d---------~~~l~~l~~~~~~~~~~~~~~~~a~~~~------~  738 (814)
T 3mkq_A          676 TDE--SAEMKWRALGDASLQRFNFKLAIEAFTNAHD---------LESLFLLHSSFNNKEGLVTLAKDAETTG------K  738 (814)
T ss_dssp             TTC--CCHHHHHHHHHHHHHTTCHHHHHHHHHHHTC---------HHHHHHHHHHTTCHHHHHHHHHHHHHTT------C
T ss_pred             Hhh--CcHhHHHHHHHHHHHcCCHHHHHHHHHHccC---------hhhhHHHHHHcCCHHHHHHHHHHHHHcC------c
Confidence            765  3567888999999999999999999887753         3344445555677776666665555544      1


Q ss_pred             HHHHHHHHHhcCChHHHHHHHhc
Q 012108          242 TTALIDMYAKCGSIEQSLEVFYK  264 (471)
Q Consensus       242 ~~~l~~~~~~~~~~~~a~~~~~~  264 (471)
                      ++.-..+|.+.|++++|++++.+
T Consensus       739 ~~~A~~~~~~~g~~~~a~~~~~~  761 (814)
T 3mkq_A          739 FNLAFNAYWIAGDIQGAKDLLIK  761 (814)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHH
T ss_pred             hHHHHHHHHHcCCHHHHHHHHHH
Confidence            23344456667777777766543

>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=97.45  E-value=0.0015  Score=57.66  Aligned_cols=71  Identities=8%  Similarity=-0.064  Sum_probs=56.8

Q ss_pred             CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          370 EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       370 ~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      +.++.++..+...+...|++++|...+++++..+|  +...|..++.++.-.|++++|.+.+++....++.++
T Consensus       274 ~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~--s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~~~  344 (372)
T 3ly7_A          274 NNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEM--SWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPGAN  344 (372)
T ss_dssp             TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCC--CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCSHH
T ss_pred             CcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCC--CHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCCcC
Confidence            45677777777777777889999999988888874  577777888888888999999888888888777654

>3ma5_A Tetratricopeptide repeat domain protein; NESG, structural genomics, PSI-2, protein structure initiative; 2.80A {Salinibacter ruber} PDB: 2kcl_A 2kcv_A

Probab=97.35  E-value=0.0007  Score=47.93  Aligned_cols=64  Identities=16%  Similarity=0.103  Sum_probs=34.4

Q ss_pred             ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          269 DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       269 ~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      +...+..+...+...|++++|+..|++..+.. +.+...|..+..++...|++++|.+.|++..+
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            34445555555555555555555555555432 12334555555555666666666666655554

>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=97.32  E-value=0.0004  Score=63.81  Aligned_cols=82  Identities=12%  Similarity=0.092  Sum_probs=54.4

Q ss_pred             cCCHHHHHHHHHhC---------CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHc-----CCCCCc---hhHHHHH
Q 012108          354 ARLLDRAIELIEAM---------PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAK-----SNYLSD---GELMMFA  415 (471)
Q Consensus       354 ~g~~~~A~~~~~~~---------~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~---~~~~~l~  415 (471)
                      .|++++|+.++++.         +..|+ ..+++.|..+|...|++++|+.+++++++.     |+. .+   .+++.|+
T Consensus       311 ~g~~~eA~~~~~~~L~i~~~~lg~~Hp~~a~~~~nLa~~y~~~g~~~eA~~~~~~aL~i~~~~lG~~-Hp~~a~~l~nLa  389 (433)
T 3qww_A          311 YKSPSELLEICELSQEKMSSVFEDSNVYMLHMMYQAMGVCLYMQDWEGALKYGQKIIKPYSKHYPVY-SLNVASMWLKLG  389 (433)
T ss_dssp             TSCHHHHHHHHHHHHHHHTTTBCTTSHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHSCSS-CHHHHHHHHHHH
T ss_pred             ccCHHHHHHHHHHHHHHhhCccChhchHHHHHHHHHHHHHHhhcCHHHHHHHHHHHHHHHHHHcCCC-ChHHHHHHHHHH
Confidence            45666666665543         12333 346777778888888888888888777653     433 33   3566777


Q ss_pred             HHHHhcCCHHHHHHHHHHhhh
Q 012108          416 NLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       416 ~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      .+|..+|++++|..++++..+
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~  410 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIA  410 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHH
Confidence            788888888888888877754

>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=97.13  E-value=0.001  Score=61.22  Aligned_cols=60  Identities=15%  Similarity=0.110  Sum_probs=29.8

Q ss_pred             HHHHHHHHHhhcCCchHHHHHHHHHHHc-----CCCCCc---hhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          375 ILGALLSACVIHQDLEIGDRVAKMVCAK-----SNYLSD---GELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       375 ~~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~---~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      +++.++.+|...|++++|+.+++++++.     |+. .+   .+++.|+.+|...|++++|..++++..
T Consensus       331 ~~~~L~~~y~~~g~~~eA~~~~~~~L~i~~~~lg~~-Hp~~a~~l~nLa~~~~~~g~~~eA~~~~~~Al  398 (429)
T 3qwp_A          331 VLDCAMDACINLGLLEEALFYGTRTMEPYRIFFPGS-HPVRGVQVMKVGKLQLHQGMFPQAMKNLRLAF  398 (429)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHHSCSS-CHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhhccHHHHHHHHHHHHHhHHHHcCCC-ChHHHHHHHHHHHHHHhcCCHHHHHHHHHHHH
Confidence            4455555555555555555555554432     222 22   234445555555555555555555543

>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=97.11  E-value=0.0014  Score=60.19  Aligned_cols=86  Identities=12%  Similarity=0.004  Sum_probs=65.0

Q ss_pred             ccCcHHHHHHHHHHhHHhc--CCCCC----hhHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCCH-hHHHHHH
Q 012108          317 HAGLVQEGCELFSRMEKDF--GVTRK----LEHYGCMVDLLGRARLLDRAIELIEAM---------PFEPTE-SILGALL  380 (471)
Q Consensus       317 ~~~~~~~a~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~~-~~~~~l~  380 (471)
                      ..|++++|+.++++..+..  -+.|+    ..+++.|..+|...|++++|+.++++.         +..|+. .+++.|.
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            4577888888888776521  12222    467788888888899999888888775         244543 5788999


Q ss_pred             HHHhhcCCchHHHHHHHHHHHc
Q 012108          381 SACVIHQDLEIGDRVAKMVCAK  402 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~  402 (471)
                      ..|...|++++|+.+++++++.
T Consensus       390 ~~~~~qg~~~eA~~~~~~Al~i  411 (433)
T 3qww_A          390 RLYMGLENKAAGEKALKKAIAI  411 (433)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHhccCHHHHHHHHHHHHHH
Confidence            9999999999999999988764

>3mkq_A Coatomer beta'-subunit; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae} PDB: 2ynp_A

Probab=97.09  E-value=0.03  Score=56.48  Aligned_cols=43  Identities=14%  Similarity=0.047  Sum_probs=19.9

Q ss_pred             HcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHh
Q 012108           87 ASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFD  131 (471)
Q Consensus        87 ~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~  131 (471)
                      ...|++++|+++.+.+.  +...|..+...+.+.|+++.|++.|.
T Consensus       663 l~~~~~~~A~~~~~~~~--~~~~W~~la~~al~~~~~~~A~~~y~  705 (814)
T 3mkq_A          663 LKVGQLTLARDLLTDES--AEMKWRALGDASLQRFNFKLAIEAFT  705 (814)
T ss_dssp             HHHTCHHHHHHHHTTCC--CHHHHHHHHHHHHHTTCHHHHHHHHH
T ss_pred             hhcCCHHHHHHHHHhhC--cHhHHHHHHHHHHHcCCHHHHHHHHH
Confidence            34455555555444432  33444444444444444444444443

>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=97.07  E-value=0.019  Score=50.70  Aligned_cols=135  Identities=10%  Similarity=-0.139  Sum_probs=84.4

Q ss_pred             ChhhHHHHHHHHH--hcC---ChHHHHHHHHHHHhCCCCCCH-HHHHHHHHHHhc---cC-----cHHHHHHHHHHhHHh
Q 012108          269 DVFCWNAMILGLA--LHG---YGYAALKLLGEMNDSCVKADD-ITFIGLLSACSH---AG-----LVQEGCELFSRMEKD  334 (471)
Q Consensus       269 ~~~~~~~l~~~~~--~~~---~~~~a~~~~~~~~~~~~~p~~-~~~~~l~~~~~~---~~-----~~~~a~~~~~~~~~~  334 (471)
                      +..+|...+++..  ..+   ...+|..+|++..+.  .|+. ..+..+..++..   .+     ........++.....
T Consensus       193 ~~~Aydl~Lra~~~l~~~~~~~~~~A~~l~e~Al~l--DP~~a~A~A~la~a~~~~~~~~~~~~~~~~~l~~a~~a~~a~  270 (372)
T 3ly7_A          193 RGALLTNFYQAHDYLLHGDDKSLNRASELLGEIVQS--SPEFTYARAEKALVDIVRHSQHPLDEKQLAALNTEIDNIVTL  270 (372)
T ss_dssp             SGGGHHHHHHHHHHHHHCSHHHHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHHHHHTC
T ss_pred             CHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHh--CCCCHHHHHHHHHHHHHHhccCCCchhhHHHHHHHHHHHHhc
Confidence            5555555554432  222   246777778777764  4542 333333333221   00     111111122222111


Q ss_pred             cCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          335 FGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       335 ~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ...+.++.+|.++...+...|++++|...++++ ...|+...|..+...+.-.|++++|...++++...+|.
T Consensus       271 ~~~~~~a~~~~alal~~l~~gd~d~A~~~l~rAl~Ln~s~~a~~llG~~~~~~G~~~eA~e~~~~AlrL~P~  342 (372)
T 3ly7_A          271 PELNNLSIIYQIKAVSALVKGKTDESYQAINTGIDLEMSWLNYVLLGKVYEMKGMNREAADAYLTAFNLRPG  342 (372)
T ss_dssp             GGGTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHSCS
T ss_pred             ccCCcCHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            133557788888877777789999999999988 45588878878888888999999999999999999887

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=97.04  E-value=0.052  Score=39.57  Aligned_cols=141  Identities=13%  Similarity=0.114  Sum_probs=97.5

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH
Q 012108          280 LALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR  359 (471)
Q Consensus       280 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  359 (471)
                      +.-.|..++..++..+....   .+..-|+.+|--....-+-+-..++++.+-+-  +..            ..+|++..
T Consensus        17 ~ildG~v~qGveii~k~~~s---sni~E~NW~ICNiiD~a~C~y~v~vLd~IGki--FDi------------s~C~NlKr   79 (172)
T 1wy6_A           17 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSY--FDL------------DKCQNLKS   79 (172)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGG--SCG------------GGCSCTHH
T ss_pred             HHHhhhHHHHHHHHHHHcCC---CCccccceeeeecchhhchhHHHHHHHHHhhh--cCc------------HhhhcHHH
Confidence            34567888888888887763   24555666665555556666666666666552  111            23566666


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          360 AIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       360 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ....+-.++  .+.......+......|.-+.-.+++.......+ |++.....++.+|.+.|+..+|.+++.+.-+.|+
T Consensus        80 Vi~C~~~~n--~~se~vd~ALd~lv~~~KkDqLdki~~~~l~n~~-~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~  156 (172)
T 1wy6_A           80 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILKNNE-VSASILVAIANALRRVGDERDATTLLIEACKKGE  156 (172)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--CC-SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHhHHHHHHHHHhccCC-CChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhh
Confidence            666665554  3445566677778888888888888888655333 3788899999999999999999999999888887


Q ss_pred             c
Q 012108          440 V  440 (471)
Q Consensus       440 ~  440 (471)
                      .
T Consensus       157 k  157 (172)
T 1wy6_A          157 K  157 (172)
T ss_dssp             H
T ss_pred             H
Confidence            5

>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=97.00  E-value=0.0047  Score=56.79  Aligned_cols=100  Identities=7%  Similarity=-0.071  Sum_probs=72.4

Q ss_pred             HHHHhccCcHHHHHHHHHHhHHhc--CCCCC----hhHHHHHHHHHhhcCCHHHHHHHHHhC---------CCCCC-HhH
Q 012108          312 LSACSHAGLVQEGCELFSRMEKDF--GVTRK----LEHYGCMVDLLGRARLLDRAIELIEAM---------PFEPT-ESI  375 (471)
Q Consensus       312 ~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~---------~~~p~-~~~  375 (471)
                      +..+...|++++|+.++++..+..  -+.|+    ..+++.|...|...|++++|+.++++.         +..|+ ..+
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            444566788888888888887521  12232    456788888888889999888888765         24454 357


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHHHHc-----CCCCCchhHH
Q 012108          376 LGALLSACVIHQDLEIGDRVAKMVCAK-----SNYLSDGELM  412 (471)
Q Consensus       376 ~~~l~~~~~~~g~~~~a~~~~~~~~~~-----~~~~~~~~~~  412 (471)
                      ++.|...|...|++++|+.+++++++.     |++ .+.+-.
T Consensus       374 l~nLa~~~~~~g~~~eA~~~~~~Al~i~~~~lG~~-Hp~~~~  414 (429)
T 3qwp_A          374 VMKVGKLQLHQGMFPQAMKNLRLAFDIMRVTHGRE-HSLIED  414 (429)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCTT-SHHHHH
T ss_pred             HHHHHHHHHhcCCHHHHHHHHHHHHHHHHHhcCCC-ChHHHH
Confidence            888999999999999999999988764     666 444433

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.92  E-value=0.0029  Score=47.92  Aligned_cols=88  Identities=10%  Similarity=-0.024  Sum_probs=59.7

Q ss_pred             CcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC---CHHHHHHHHHhC-CCC-C--CHhHHHHHHHHHhhcCCchH
Q 012108          319 GLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR---LLDRAIELIEAM-PFE-P--TESILGALLSACVIHQDLEI  391 (471)
Q Consensus       319 ~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~-p--~~~~~~~l~~~~~~~g~~~~  391 (471)
                      +....+.+-|.+..+  .-+++..+.-.+..++++.+   +.+++..++++. ... |  ....+..+.-++.+.|++++
T Consensus        12 ~~l~~~~~~y~~e~~--~~~~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~   89 (152)
T 1pc2_A           12 EDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEK   89 (152)
T ss_dssp             HHHHHHHHHHHHHHH--TTCCCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHH
T ss_pred             HHHHHHHHHHHHHHc--cCCCcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHH
Confidence            345566666666655  23367777777777888877   556788888776 222 4  23455566667788888888


Q ss_pred             HHHHHHHHHHcCCCCCch
Q 012108          392 GDRVAKMVCAKSNYLSDG  409 (471)
Q Consensus       392 a~~~~~~~~~~~~~~~~~  409 (471)
                      |.+.++.+++..|. +..
T Consensus        90 A~~y~~~lL~ieP~-n~Q  106 (152)
T 1pc2_A           90 ALKYVRGLLQTEPQ-NNQ  106 (152)
T ss_dssp             HHHHHHHHHHHCTT-CHH
T ss_pred             HHHHHHHHHhcCCC-CHH
Confidence            88888888888886 443

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=96.89  E-value=0.0045  Score=44.05  Aligned_cols=73  Identities=12%  Similarity=-0.106  Sum_probs=47.0

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-----C----CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchh
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAM-----P----FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGE  410 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-----~----~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  410 (471)
                      +....-.|...+.+.|+++.|...|+..     .    -.+...++..+..++.+.|+++.|...++++.+..|. ++.+
T Consensus         4 sa~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l~P~-~~~~   82 (104)
T 2v5f_A            4 TAEDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRA   82 (104)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             CHHHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCCC-CHHH
Confidence            3444556677777777777777777664     0    1123456677777777777777777777777777776 5554


Q ss_pred             HHH
Q 012108          411 LMM  413 (471)
Q Consensus       411 ~~~  413 (471)
                      ...
T Consensus        83 ~~n   85 (104)
T 2v5f_A           83 NGN   85 (104)
T ss_dssp             HHH
T ss_pred             Hhh
Confidence            433

>3lvg_A Clathrin heavy chain 1; SELF assembly, coated PIT, cytoplasmic vesicle, membrane, Ca structural protein; 7.94A {Bos taurus} PDB: 3lvh_A

Probab=96.88  E-value=0.00068  Score=61.22  Aligned_cols=371  Identities=10%  Similarity=0.077  Sum_probs=199.4

Q ss_pred             cccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--CCcccHHHHHHHHH
Q 012108           10 NYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--KDIIAWNSMLDAFA   87 (471)
Q Consensus        10 ~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~~~~~~~~li~~~~   87 (471)
                      +..|+.|..+....|.+.+|.+-|-   +.   .|+..|..++....+.|.+++-.+.+....+  +++..=+.|+-+|+
T Consensus        54 p~VWs~LgkAqL~~~~v~eAIdsyI---kA---~Dps~y~eVi~~A~~~~~~edLv~yL~MaRk~~ke~~IDteLi~ayA  127 (624)
T 3lvg_A           54 PAVWSQLAKAQLQKGMVKEAIDSYI---KA---DDPSSYMEVVQAANTSGNWEELVKYLQMARKKARESYVETELIFALA  127 (624)
T ss_dssp             CCCSSSHHHHTTTSSSCTTTTTSSC---CC---SCCCSSSHHHHHTTTSSCCTTHHHHHHTTSTTCCSTTTTHHHHHHHH
T ss_pred             ccHHHHHHHHHHccCchHHHHHHHH---hC---CChHHHHHHHHHHHhCCCHHHHHHHHHHHHHHhcccccHHHHHHHHH
Confidence            3467777777777776666655332   21   2555667777777777777777777766554  45566677777777


Q ss_pred             cCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhc------------------------CCCChhhHHH
Q 012108           88 SCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKV------------------------PAKDVVSWNS  143 (471)
Q Consensus        88 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~------------------------~~~~~~~~~~  143 (471)
                      +.++..+-.+++.   .+|..-...+.+-|...|.++.|+-+|..+                        ...++.+|-.
T Consensus       128 k~~rL~elEefl~---~~N~A~iq~VGDrcf~e~lYeAAKilys~isN~akLAstLV~L~~yq~AVdaArKAns~ktWKe  204 (624)
T 3lvg_A          128 KTNRLAELEEFIN---GPNNAHIQQVGDRCYDEKMYDAAKLLYNNVSNFGRLASTLVHLGEYQAAVDGARKANSTRTWKE  204 (624)
T ss_dssp             TSCSSSTTTSTTS---CCSSSCTHHHHHHHHHSCCSTTSSTTGGGSCCCTTTSSSSSSCSGGGSSTTTTTTCCSSCSHHH
T ss_pred             hhCcHHHHHHHHc---CCCcccHHHHHHHHHHccCHHHHHHHHHhCccHHHHHHHHHHHHHHHHHHHHHHhcCChhHHHH
Confidence            7777555433322   234444556666777777777776666665                        1246678888


Q ss_pred             HHHHHHhCCCHHHHHHHHHhc-cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHH
Q 012108          144 LILAYTNAGEMEKAGEMFKKM-LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLET  222 (471)
Q Consensus       144 l~~~~~~~~~~~~A~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~  222 (471)
                      +-.+|...+++.-|.-.--.+ +.++.  ...++..|-..|.+++-+.+++.-... -....-.|+.|.-.|++- ++++
T Consensus       205 V~~ACvd~~EfrLAqicGLniIvhade--L~elv~~YE~~G~f~ELIsLlEaglgl-ErAHmGmFTELaILYsKY-~PeK  280 (624)
T 3lvg_A          205 VCFACVDGKEFRLAQMCGLHIVVHADE--LEELINYYQDRGYFEELITMLEAALGL-ERAHMGMFTELAILYSKF-KPQK  280 (624)
T ss_dssp             HTHHHHHSCTTTTTTHHHHHHHCCSSC--CSGGGSSSSTTCCCTTSTTTHHHHTTS-TTCCHHHHHHHHHHHHSS-CTTH
T ss_pred             HHHHHhCchHHHHHHHhcchhcccHHH--HHHHHHHHHhCCCHHHHHHHHHHHhCC-CchhHHHHHHHHHHHHhc-CHHH
Confidence            888888888877765443333 22221  123455567777777777777766522 123445566666555543 3333


Q ss_pred             HHHHHHHHH-HcCCC------CchhHHHHHHHHHHhcCChHHHHHHH-------------hcCCC--CChhhHH------
Q 012108          223 GARIHVYAT-DNGLA------SNPHATTALIDMYAKCGSIEQSLEVF-------------YKSQV--KDVFCWN------  274 (471)
Q Consensus       223 a~~~~~~~~-~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~-------------~~~~~--~~~~~~~------  274 (471)
                      ..+.++..- +.+++      -....|..++-.|++-.+++.|....             .++..  .|...|-      
T Consensus       281 lmEHlklf~sriNipKviracE~ahLW~ElvfLY~~ydE~DnA~ltMi~h~~~Aw~h~~Fkdii~KVaN~EiyYKAi~FY  360 (624)
T 3lvg_A          281 MREHLELFWSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMMNHPTDAWKEGQFKDIITKVANVELYYRAIQFY  360 (624)
T ss_dssp             HHHHHTTSSSSSCCTTTHHHHTTTTCHHHHHHHHHHHTCHHHHHHTTTSCHHHHCCGGGGTTTGGGCSCSHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccHHHHHHHHHHHhhHHHHHHHHhcchhHHHHHHHHHhCChhhccHHHHHHHHHHcchHHHHHHHHHHH
Confidence            333332211 11111      12456777777777777777665332             11111  2333333      


Q ss_pred             ---------HHHHHHHhcCChHHHHHHHHHHHhC--------CC--CCCHHHHHHHHHHHhccCcHHHHH----------
Q 012108          275 ---------AMILGLALHGYGYAALKLLGEMNDS--------CV--KADDITFIGLLSACSHAGLVQEGC----------  325 (471)
Q Consensus       275 ---------~l~~~~~~~~~~~~a~~~~~~~~~~--------~~--~p~~~~~~~l~~~~~~~~~~~~a~----------  325 (471)
                               -|+..+...=+..++.++|.+.-..        .+  .-+...-..+-..|....+++.-.          
T Consensus       361 L~e~P~lL~DLL~vL~prlDh~RvV~~~~k~~~LpLIkpYL~~Vq~~N~~aVNeAln~L~IEEEDy~~LR~SId~ydNFD  440 (624)
T 3lvg_A          361 LEFKPLLLNDLLMVLSPRLDHTRAVNYFSKVKQLPLVKPYLRSVQNHNNKSVNESLNNLFITEEDYQALRTSIDAYDNFD  440 (624)
T ss_dssp             TTSCCTTSHHHHHHHCTTCCSTTTHHHHHTTTCGGGGTGGGTSCCCSCCHHHHHHHHHHHHHTTCCHHHHHTTSSCCCSC
T ss_pred             HHhChHHHHHHHHhccccCChHHHHHHHHhcCCchhhHHHHHHHHHhhHHHHHHHHHHHHhhhhhHHHHHHHHHHhcccc
Confidence                     3444443334445555554432110        00  112222233334445554443322          


Q ss_pred             --HHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          326 --ELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       326 --~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                        .+-+++.+    .+-...-..-...|.+.++++++.++.++=+.-      .-.|......|+.+-++++++-..+.+
T Consensus       441 ~i~LA~rLEk----HeL~eFRrIAA~LYkkn~rw~qsi~l~KkDkly------kDAietAa~S~~~elaeeLL~yFv~~g  510 (624)
T 3lvg_A          441 NISLAQRLEK----HELIEFRRIAAYLFKGNNRWKQSVELCKKDSLY------KDAMQYASESKDTELAEELLQWFLQEE  510 (624)
T ss_dssp             TTHHHHHHHT----CSSHHHHHHHHHHHHTTCHHHHHSSCSSTTCCT------TGGGTTTTTCCCTTHHHHHHHHHHHHC
T ss_pred             HHHHHHHHhh----CchHHHHHHHHHHHHhcccHHHHHHHHHhcccH------HHHHHHHHHcCCHHHHHHHHHHHHHcC
Confidence              22222222    122333344445677888888888776544322      222334456677777777777776665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.77  E-value=0.13  Score=40.01  Aligned_cols=105  Identities=11%  Similarity=0.109  Sum_probs=70.6

Q ss_pred             HHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHH
Q 012108          146 LAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGAR  225 (471)
Q Consensus       146 ~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~  225 (471)
                      +.....|+++.|.++.+.+  .+...|..|.......|+++-|.+.|.+...         +..+.-.|.-.|+.+...+
T Consensus        13 ~LAL~lg~l~~A~e~a~~l--~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~~D---------~~~L~~Ly~~tg~~e~L~k   81 (177)
T 3mkq_B           13 DLALEYGNLDAALDEAKKL--NDSITWERLIQEALAQGNASLAEMIYQTQHS---------FDKLSFLYLVTGDVNKLSK   81 (177)
T ss_dssp             HHHHHTTCHHHHHHHHHHH--CCHHHHHHHHHHHHHTTCHHHHHHHHHHTTC---------HHHHHHHHHHHTCHHHHHH
T ss_pred             HHHHhcCCHHHHHHHHHHh--CCHHHHHHHHHHHHHcCChHHHHHHHHHhCC---------HHHHHHHHHHhCCHHHHHH
Confidence            4456788888888887765  4667888888888888888888888877543         3344445556777777666


Q ss_pred             HHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC
Q 012108          226 IHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV  267 (471)
Q Consensus       226 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  267 (471)
                      +-+.....|      -++.-...+.-.|+++++.++|.+...
T Consensus        82 la~iA~~~g------~~n~af~~~l~lGdv~~~i~lL~~~~r  117 (177)
T 3mkq_B           82 MQNIAQTRE------DFGSMLLNTFYNNSTKERSSIFAEGGS  117 (177)
T ss_dssp             HHHHHHHTT------CHHHHHHHHHHHTCHHHHHHHHHHTTC
T ss_pred             HHHHHHHCc------cHHHHHHHHHHcCCHHHHHHHHHHCCC
Confidence            666555554      133344445566777777777655443

>1qsa_A Protein (soluble lytic transglycosylase SLT70); alpha-superhelix, transferase; HET: GOL; 1.65A {Escherichia coli} SCOP: a.118.5.1 d.2.1.6 PDB: 1qte_A* 1sly_A*

Probab=96.73  E-value=0.45  Score=45.71  Aligned_cols=313  Identities=8%  Similarity=-0.018  Sum_probs=150.1

Q ss_pred             ccCCHhHHHHHhcccCCCCccc---HHHHHHHHHcCCCHHHHHHHHhcCCCC--ChhhHHHHHHHHHhcCCHHHHHHHHh
Q 012108           57 SLRCIDDAFKVFEKMPEKDIIA---WNSMLDAFASCGQMDHAMKLIDLMPLK--DVTSFNIMISGYARIGKIHSARYIFD  131 (471)
Q Consensus        57 ~~g~~~~A~~~~~~~~~~~~~~---~~~li~~~~~~g~~~~A~~~~~~~~~~--~~~~~~~l~~~~~~~g~~~~a~~~~~  131 (471)
                      +.|++..+..+...+..-....   |..+...+ ......+...++++-...  ....-...+..+.+.+++......+.
T Consensus        18 ~~~~~~~~~~l~~~l~~~pL~~yl~y~~l~~~l-~~~~~~ev~~Fl~~~~~~p~~~~Lr~~~l~~l~~~~~w~~~l~~~~   96 (618)
T 1qsa_A           18 DNRQMDVVEQMMPGLKDYPLYPYLEYRQITDDL-MNQPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLLAFSP   96 (618)
T ss_dssp             HTTCHHHHHHHSGGGTTSTTHHHHHHHHHHHTG-GGCCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHHHHCC
T ss_pred             HCCCHHHHHHHHHhhcCCCcHHHHHHHHHHhCc-ccCCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhCCCHHHHHHhcc
Confidence            4577777777766654311122   22222111 122455666666655432  12233444555666666766666555


Q ss_pred             hcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhc---cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHH
Q 012108          132 KVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKM---LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVT  208 (471)
Q Consensus       132 ~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~  208 (471)
                      . .+.+...-.....+....|+..+|......+   ....+..++.++..+.+.|                ...+...+.
T Consensus        97 ~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~g----------------~lt~~~~~~  159 (618)
T 1qsa_A           97 E-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASG----------------KQDPLAYLE  159 (618)
T ss_dssp             S-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTT----------------CSCHHHHHH
T ss_pred             C-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHCC----------------CCCHHHHHH
Confidence            4 3334444444555566666655555544443   1112233333333333322                211111121


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHHcCCCCchh-HHHHHHHHHHhcCChHHHHHHHhcCCCCC--hhhHHHHHHHHHhcCC
Q 012108          209 SVLSACANLGSLETGARIHVYATDNGLASNPH-ATTALIDMYAKCGSIEQSLEVFYKSQVKD--VFCWNAMILGLALHGY  285 (471)
Q Consensus       209 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-~~~~l~~~~~~~~~~~~a~~~~~~~~~~~--~~~~~~l~~~~~~~~~  285 (471)
                       -+......|+...|..+...     ++++.. ....++..+.   +...+..........+  ...+..-+.-+.+ .+
T Consensus       160 -R~~~al~~~~~~~a~~l~~~-----l~~~~~~~a~~~~al~~---~p~~~~~~~~~~~~~~~~~~~~~~~~~rlar-~d  229 (618)
T 1qsa_A          160 -RIRLAMKAGNTGLVTVLAGQ-----MPADYQTIASAIISLAN---NPNTVLTFARTTGATDFTRQMAAVAFASVAR-QD  229 (618)
T ss_dssp             -HHHHHHHTTCHHHHHHHHHT-----CCGGGHHHHHHHHHHHH---CGGGHHHHHHHSCCCHHHHHHHHHHHHHHHH-HC
T ss_pred             -HHHHHHHCCCHHHHHHHHHh-----CCHHHHHHHHHHHHHHh---ChHhHHHHHhccCCChhhHHHHHHHHHHHHh-cC
Confidence             12233344555555444332     223322 2233333322   2233333333222111  1112222333333 37


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHH----HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHH
Q 012108          286 GYAALKLLGEMNDSCVKADDIT----FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAI  361 (471)
Q Consensus       286 ~~~a~~~~~~~~~~~~~p~~~~----~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~  361 (471)
                      .+.|...+......+ ..+...    ...+.......+...++...+.....  . ..+.....-.+....+.|+++.|.
T Consensus       230 ~~~A~~~~~~~~~~~-~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~--~-~~~~~~~e~~~r~Alr~~d~~~a~  305 (618)
T 1qsa_A          230 AENARLMIPSLAQAQ-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIM--R-SQSTSLIERRVRMALGTGDRRGLN  305 (618)
T ss_dssp             HHHHHHHHHHHHHHT-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHH--T-CCCHHHHHHHHHHHHHHTCHHHHH
T ss_pred             HHHHHHHHHhhhhcc-CCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhccc--c-CCChHHHHHHHHHHHHCCCHHHHH
Confidence            788999998876543 223322    22233334445535566666666544  1 233333334444455779999999


Q ss_pred             HHHHhCCCCC--CHhHHHHHHHHHhhcCCchHHHHHHHHHHH
Q 012108          362 ELIEAMPFEP--TESILGALLSACVIHQDLEIGDRVAKMVCA  401 (471)
Q Consensus       362 ~~~~~~~~~p--~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~  401 (471)
                      ..|+.|+..+  ...-.-=+..++...|+.++|..+|+.+.+
T Consensus       306 ~~~~~l~~~~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~  347 (618)
T 1qsa_A          306 TWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLMQ  347 (618)
T ss_dssp             HHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHccccccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence            9999995433  233333456677788999999999988864

>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=96.58  E-value=0.0088  Score=50.58  Aligned_cols=54  Identities=4%  Similarity=-0.081  Sum_probs=26.5

Q ss_pred             CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhc-CCHHHHHHHHHHhhhCCCc
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASC-GQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~-g~~~~A~~~~~~m~~~~~~  440 (471)
                      |+.++|.+.|+++++.+|.-+..++..+++.+++. |+.++|.+.+++.....+.
T Consensus       218 Gd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd~~~a~~~L~kAL~a~p~  272 (301)
T 3u64_A          218 GGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNNRAGFDEALDRALAIDPE  272 (301)
T ss_dssp             CCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTCHHHHHHHHHHHHHCCGG
T ss_pred             CCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCCHHHHHHHHHHHHcCCCC
Confidence            45555555555555555531244555555554442 5555555555555544444

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=96.57  E-value=0.52  Score=47.20  Aligned_cols=37  Identities=14%  Similarity=0.192  Sum_probs=22.9

Q ss_pred             HHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcC
Q 012108           95 AMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVP  134 (471)
Q Consensus        95 A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~  134 (471)
                      +.++|.++..   .-|..+++++.+.++.+.+.++|..+.
T Consensus       221 l~~Iy~k~~~---~dy~~a~~~ai~LnD~~li~~if~~l~  257 (963)
T 4ady_A          221 SFDFLMNMPN---CDYLTLNKVVVNLNDAGLALQLFKKLK  257 (963)
T ss_dssp             HHHHHHHSSS---CCHHHHHHHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHHhCCc---hhHHHHHHHHHHcCCHHHHHHHHHHHH
Confidence            4455555432   235666777777777777777777753

>1wy6_A Hypothetical protein ST1625; helical repeat protein, structural genomics, unknown function; 2.20A {Sulfolobus tokodaii} SCOP: a.118.20.1

Probab=96.43  E-value=0.13  Score=37.52  Aligned_cols=138  Identities=12%  Similarity=0.057  Sum_probs=82.2

Q ss_pred             HcCCCHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC-CChhhHHHHHHHHHhCCCHHHHHHHHHhc
Q 012108           87 ASCGQMDHAMKLIDLMPLK-DVTSFNIMISGYARIGKIHSARYIFDKVPA-KDVVSWNSLILAYTNAGEMEKAGEMFKKM  164 (471)
Q Consensus        87 ~~~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  164 (471)
                      .-.|..++..++..+...+ +..-+|.++--....-+-+...++++.+-+ -|.          ..+|++......+-.+
T Consensus        18 ildG~v~qGveii~k~~~ssni~E~NW~ICNiiD~a~C~y~v~vLd~IGkiFDi----------s~C~NlKrVi~C~~~~   87 (172)
T 1wy6_A           18 LLDGYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL----------DKCQNLKSVVECGVIN   87 (172)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG----------GGCSCTHHHHHHHHHT
T ss_pred             HHhhhHHHHHHHHHHHcCCCCccccceeeeecchhhchhHHHHHHHHHhhhcCc----------HhhhcHHHHHHHHHHh
Confidence            4456666666666665544 445566666555555555555555544411 011          1233344333333332


Q ss_pred             cccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 012108          165 LVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA  236 (471)
Q Consensus       165 ~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  236 (471)
                      -. +....+..+.....+|.-++-.+++..+.. +.+|+......+..+|.+.|+..++.+++.++.+.|++
T Consensus        88 n~-~se~vd~ALd~lv~~~KkDqLdki~~~~l~-n~~~~~~~l~kia~Ay~Klg~~r~a~eLl~~AC~kG~k  157 (172)
T 1wy6_A           88 NT-LNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGEK  157 (172)
T ss_dssp             TC-CCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             cc-hHHHHHHHHHHHHHhccHhHHHHHHHHHhc-cCCCChHHHHHHHHHHHHhcchhhHHHHHHHHHHhhhH
Confidence            22 334455666777778888888888887644 24667777777788888888888888888888887753

>3bee_A Putative YFRE protein; putaive YFRE protein, structural GE PSI-2, protein structure initiative; 2.15A {Vibrio parahaemolyticus rimd 2210633}

Probab=96.31  E-value=0.015  Score=40.15  Aligned_cols=67  Identities=13%  Similarity=0.093  Sum_probs=40.9

Q ss_pred             CChhHHHHHHHHHhhcCC---HHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          339 RKLEHYGCMVDLLGRARL---LDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       339 ~~~~~~~~l~~~~~~~g~---~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .++..+..+..++...++   .++|..++++. ...| ++.....+...+.+.|++++|+..|+++++..|.
T Consensus         4 ~~~~~~~~~a~al~~~~~~~~~~~A~~~l~~AL~~dp~~~rA~~~lg~~~~~~g~y~~Ai~~w~~~l~~~p~   75 (93)
T 3bee_A            4 VTATQLAAKATTLYYLHKQAMTDEVSLLLEQALQLEPYNEAALSLIANDHFISFRFQEAIDTWVLLLDSNDP   75 (93)
T ss_dssp             CCHHHHHHHHHHHHHTTTTCCCHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTCCCT
T ss_pred             CCHHHHHHHHHHHHHhcCCCCCHHHHHHHHHHHHHCcCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHhhCCC
Confidence            445555555555543333   46666666665 2233 4556666666677777777777777777776665

>3mkq_B Coatomer subunit alpha; beta-propeller, alpha-solenoid, transport protein; 2.50A {Saccharomyces cerevisiae}

Probab=96.31  E-value=0.26  Score=38.24  Aligned_cols=44  Identities=11%  Similarity=0.101  Sum_probs=22.2

Q ss_pred             ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcC
Q 012108          216 NLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKS  265 (471)
Q Consensus       216 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~  265 (471)
                      ..|+++.|.++.+.+      .+...|..|.+.....|+++-|++.|.+.
T Consensus        17 ~lg~l~~A~e~a~~l------~~~~~Wk~Lg~~AL~~gn~~lAe~cy~~~   60 (177)
T 3mkq_B           17 EYGNLDAALDEAKKL------NDSITWERLIQEALAQGNASLAEMIYQTQ   60 (177)
T ss_dssp             HTTCHHHHHHHHHHH------CCHHHHHHHHHHHHHTTCHHHHHHHHHHT
T ss_pred             hcCCHHHHHHHHHHh------CCHHHHHHHHHHHHHcCChHHHHHHHHHh
Confidence            445555555554433      23445555555555555555555555444

>1pc2_A Mitochondria fission protein; unknown function; NMR {Homo sapiens} SCOP: a.118.8.1

Probab=96.22  E-value=0.031  Score=42.25  Aligned_cols=69  Identities=13%  Similarity=0.011  Sum_probs=34.7

Q ss_pred             CCHhHHHHHHHHHhhcC---CchHHHHHHHHHHHcC-CCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          371 PTESILGALLSACVIHQ---DLEIGDRVAKMVCAKS-NYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       371 p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ++..+...+..++++.+   +.++++.+|+...+.+ |.-....+..|+-+|.+.|++++|.++++++.+..|
T Consensus        30 ~~~~~~F~ya~~Lv~S~~~~~~~~gI~lLe~ll~~~~p~~~rd~lY~LAv~~~kl~~Y~~A~~y~~~lL~ieP  102 (152)
T 1pc2_A           30 VSKSTQFEYAWCLVRSKYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEP  102 (152)
T ss_dssp             CCHHHHHHHHHHHHTCSSHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHTSCHHHHHHHHHHHHHHCT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCccchHHHHHHHHHHHHHccCHHHHHHHHHHHHhcCC
Confidence            34444444555555544   3445555555555554 310344555555555555555555555555555444

>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=96.13  E-value=0.057  Score=40.29  Aligned_cols=100  Identities=5%  Similarity=0.037  Sum_probs=50.7

Q ss_pred             CHHHHHHHHHHHhccCcH------HHHHHHHHHhHHhcCCCCCh-hHHHHHHHHH------hhcCCHHHHHHHHHhC-C-
Q 012108          304 DDITFIGLLSACSHAGLV------QEGCELFSRMEKDFGVTRKL-EHYGCMVDLL------GRARLLDRAIELIEAM-P-  368 (471)
Q Consensus       304 ~~~~~~~l~~~~~~~~~~------~~a~~~~~~~~~~~~~~~~~-~~~~~l~~~~------~~~g~~~~A~~~~~~~-~-  368 (471)
                      |..++-..+...-+.|+.      ++..++|+++..  .++|+. ..|...+..+      ...++.++|.++|+.+ . 
T Consensus        12 ~yd~W~~yl~llE~~g~p~~d~~l~rlrd~YerAia--~~Pp~k~~~wrrYI~LWIrYA~~~ei~D~d~aR~vy~~a~~~   89 (161)
T 4h7y_A           12 NPEDWLSLLLKLEKNSVPLSDALLNKLIGRYSQAIE--ALPPDKYGQNESFARIQVRFAELKAIQEPDDARDYFQMARAN   89 (161)
T ss_dssp             SHHHHHHHHHHHHHHTCSCCHHHHHHHHHHHHHHHH--HSCGGGGTTCHHHHHHHHHHHHHHHHHCGGGCHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHcCCCchhhHHHHHHHHHHHHHH--cCCccccccHHHHHHHHHHHHHHHHhcCHHHHHHHHHHHHHH
Confidence            556666666666666776      677777777776  455542 1122222111      2234555555555544 0 


Q ss_pred             CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          369 FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       369 ~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+--...|.....--.+.|+...|.+++.+++..+|.
T Consensus        90 hKkFAKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           90 CKKFAFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             CTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             hHHHHHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            0111444444444444555555555555555555555

>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=96.04  E-value=0.034  Score=47.05  Aligned_cols=103  Identities=11%  Similarity=0.052  Sum_probs=69.6

Q ss_pred             HHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHhhc-----CCHHHHHHHHHhC-CCCCC--HhHHHHHHHHHhh-cCC
Q 012108          321 VQEGCELFSRMEKDFGVTRK---LEHYGCMVDLLGRA-----RLLDRAIELIEAM-PFEPT--ESILGALLSACVI-HQD  388 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~-----g~~~~A~~~~~~~-~~~p~--~~~~~~l~~~~~~-~g~  388 (471)
                      ...|...++++.+   +.|+   ...|..+...|.+.     |+.++|.+.|++. .+.|+  ..++......++. .|+
T Consensus       179 l~~A~a~lerAle---LDP~~~~GsA~~~LG~lY~~vPp~~gGd~ekA~~~ferAL~LnP~~~id~~v~YA~~l~~~~gd  255 (301)
T 3u64_A          179 VHAAVMMLERACD---LWPSYQEGAVWNVLTKFYAAAPESFGGGMEKAHTAFEHLTRYCSAHDPDHHITYADALCIPLNN  255 (301)
T ss_dssp             HHHHHHHHHHHHH---HCTTHHHHHHHHHHHHHHHHSCTTTTCCHHHHHHHHHHHHHHCCTTCSHHHHHHHHHTTTTTTC
T ss_pred             HHHHHHHHHHHHH---hCCCcccCHHHHHHHHHHHhCCCccCCCHHHHHHHHHHHHHhCCCCCchHHHHHHHHHHHhcCC
Confidence            4566666666666   3444   55777788888774     8888888888887 45563  5666667777777 488


Q ss_pred             chHHHHHHHHHHHcCCC--CCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          389 LEIGDRVAKMVCAKSNY--LSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~--~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      .+++.+.+++++...|.  |+....+.+        .-.+|..+++++
T Consensus       256 ~~~a~~~L~kAL~a~p~~~P~~~lan~~--------~q~eA~~LL~~~  295 (301)
T 3u64_A          256 RAGFDEALDRALAIDPESVPHNKLLVIL--------SQKRARWLKAHV  295 (301)
T ss_dssp             HHHHHHHHHHHHHCCGGGCSSCHHHHHH--------HHHHHHHHHHTH
T ss_pred             HHHHHHHHHHHHcCCCCCCCChhHHHHH--------HHHHHHHHHHHh
Confidence            99999999999988887  554433333        234555555544

>2v5f_A Prolyl 4-hydroxylase subunit alpha-1; endoplasmic reticulum, metal-binding, oxidoreductase; 2.03A {Homo sapiens} PDB: 1tjc_A

Probab=95.96  E-value=0.077  Score=37.46  Aligned_cols=64  Identities=6%  Similarity=-0.097  Sum_probs=35.5

Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCC------CCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGN------VKPDYLTVTSVLSACANLGSLETGARIHVYATDN  233 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g------~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  233 (471)
                      ..+..|...+.+.|++..|...|+...+.-      -.+....+..+..++.+.|+++.|...++.+.+.
T Consensus         6 ~dc~~lG~~~~~~~~y~~A~~W~~~Al~~~~~~~~~~~~~~~i~~~L~~~~~~~g~~~~A~~~~~~al~l   75 (104)
T 2v5f_A            6 EDCFELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLEL   75 (104)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHccchHHHHHHHHHHHHhhhccCCCcccHHHHHHHHHHHHHHccCHHHHHHHHHHHHhc
Confidence            334455556666666666666666554320      1123344555666666666666666666666654

>4ady_A RPN2, 26S proteasome regulatory subunit RPN2; protein binding, PC repeat; 2.70A {Saccharomyces cerevisiae} PDB: 4b4t_N

Probab=95.77  E-value=1.6  Score=43.75  Aligned_cols=20  Identities=15%  Similarity=-0.007  Sum_probs=9.4

Q ss_pred             HHhccCcHHHHHHHHHHhHH
Q 012108          314 ACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       314 ~~~~~~~~~~a~~~~~~~~~  333 (471)
                      +|+..|+.....+++..+.+
T Consensus       569 AyaGTGn~~aIq~LL~~~~~  588 (963)
T 4ady_A          569 AYAGTGNNSAVKRLLHVAVS  588 (963)
T ss_dssp             HTTTSCCHHHHHHHHHHHHH
T ss_pred             HhcCCCCHHHHHHHHHHhcc
Confidence            34445554444445544444

>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=95.65  E-value=0.075  Score=39.67  Aligned_cols=53  Identities=17%  Similarity=0.139  Sum_probs=27.8

Q ss_pred             CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +|.++|.++|+.+++..... ...|...+..-.++|+...|..++.+....++.
T Consensus        74 ~D~d~aR~vy~~a~~~hKkF-AKiwi~~AqFEiRqgnl~kARkILg~AiG~~~k  126 (161)
T 4h7y_A           74 QEPDDARDYFQMARANCKKF-AFVHISFAQFELSQGNVKKSKQLLQKAVERGAV  126 (161)
T ss_dssp             HCGGGCHHHHHHHHHHCTTB-HHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             cCHHHHHHHHHHHHHHhHHH-HHHHHHHHHHHHHcccHHHHHHHHHHHhccCCC
Confidence            45555555555555544332 444445555555555555555555555554443

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=95.34  E-value=1.7  Score=40.00  Aligned_cols=246  Identities=12%  Similarity=0.085  Sum_probs=140.5

Q ss_pred             ccchhHHHHHHHHHHHhc-----cCCchhHHHHHHHHHhccCCHhHHHHHhcccCCC---CcccHHHHHHH----HHcCC
Q 012108           23 LSSSCIGLMLHGQTIKTG-----FCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEK---DIIAWNSMLDA----FASCG   90 (471)
Q Consensus        23 ~g~~~~a~~~~~~~~~~~-----~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~li~~----~~~~g   90 (471)
                      .|+++.|.+.+-.+.+..     ...+..+...++..|...|+++.....+.-+.+.   .......+++.    .....
T Consensus        29 ~~~~~~a~e~ll~lEK~~r~~~d~~s~~r~l~~iv~l~~~~~~~~~l~e~i~~Lskkr~qlk~ai~~~V~~~~~~l~~~~  108 (445)
T 4b4t_P           29 QNDCNSALDQLLVLEKKTRQASDLASSKEVLAKIVDLLASRNKWDDLNEQLTLLSKKHGQLKLSIQYMIQKVMEYLKSSK  108 (445)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSSCSTTTCHHHHHHHHHHHHHHSCHHHHHHHHHHHHTTTTTSHHHHHHHHHHHHHHHHHHC
T ss_pred             cCCHHHHHHHHHHHHHHhhhccchhhHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhcCC
Confidence            377888888776665432     2335567888899999999999886666554331   11222233332    22222


Q ss_pred             --CHHHHHHHHhcCCCC----------ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC----CC-----hhhHHHHHHHHH
Q 012108           91 --QMDHAMKLIDLMPLK----------DVTSFNIMISGYARIGKIHSARYIFDKVPA----KD-----VVSWNSLILAYT  149 (471)
Q Consensus        91 --~~~~A~~~~~~~~~~----------~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~----~~-----~~~~~~l~~~~~  149 (471)
                        +.+.-+.+.+.....          .......+...+...|++.+|..++..+..    .+     ...+...+..|.
T Consensus       109 ~~d~~~~~~~i~~l~~vte~kiflE~erarl~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l  188 (445)
T 4b4t_P          109 SLDLNTRISVIETIRVVTENKIFVEVERARVTKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSI  188 (445)
T ss_dssp             TTHHHHHHHHHHCCSSSSSCCCCCCHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHHHHhccchHHHHHHHHHHHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHH
Confidence              233334444444322          112345678888899999999988888721    11     345666778888


Q ss_pred             hCCCHHHHHHHHHhccc------cC----hHHHHHHHHHHHhcCCHHHHHHHHHHHHhC-CCCCCHHHHHH----HHHHH
Q 012108          150 NAGEMEKAGEMFKKMLV------KN----VITWNTMVTGYLRSQLYIEVVDLFDEMKAG-NVKPDYLTVTS----VLSAC  214 (471)
Q Consensus       150 ~~~~~~~A~~~~~~~~~------~~----~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~-g~~p~~~~~~~----l~~~~  214 (471)
                      ..+++.+|..+++++..      ++    ...+...+..+...++|.+|.+.|.+.... .+..|...+..    ++.+.
T Consensus       189 ~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~  268 (445)
T 4b4t_P          189 LKGDYSQATVLSRKILKKTFKNPKYESLKLEYYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFL  268 (445)
T ss_dssp             HHTCHHHHHHHHHHHHHHHHHSSCCHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHH
T ss_pred             HCCCHHHHHHHHHHHHHhhcccCCcHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHH
Confidence            89999999888887611      11    234666777788888998888888777542 11112222211    11111


Q ss_pred             HccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhc--CChHHHHHHHhcCCCC
Q 012108          215 ANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKC--GSIEQSLEVFYKSQVK  268 (471)
Q Consensus       215 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~--~~~~~a~~~~~~~~~~  268 (471)
                      .-.+....-..+.........-++...+..++.+|...  .+++...+.|.....+
T Consensus       269 iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L~k~f~~~~L~~~~~~~~~~~~~L~~  324 (445)
T 4b4t_P          269 VLSPYGNLQNDLIHKIQNDNNLKKLESQESLVKLFTTNELMRWPIVQKTYEPVLNE  324 (445)
T ss_dssp             HHSSCSSTTHHHHHSHHHHSSCHHHHHHHHHHHHHHHCCSSSHHHHHHHTCSSTTT
T ss_pred             HhCCCCchHHHHHHHHhhcccccccHHHHHHHHHHHhchHhhhHHHHHHHHHHhcc
Confidence            11111122222223322222235566777788887654  4567777777665443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=95.30  E-value=0.033  Score=40.46  Aligned_cols=94  Identities=13%  Similarity=-0.009  Sum_probs=53.9

Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH---HHHHHHhC-CCC-C--CHhHHHHHHHHHhhc
Q 012108          314 ACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR---AIELIEAM-PFE-P--TESILGALLSACVIH  386 (471)
Q Consensus       314 ~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~---A~~~~~~~-~~~-p--~~~~~~~l~~~~~~~  386 (471)
                      .-........+.+-|..... .+. ++..+--.+..++.+..+...   ++.+++++ ... |  .....-.|.-++.+.
T Consensus        10 ~~~~~~~l~~~~~~y~~e~~-~~~-~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~ykl   87 (126)
T 1nzn_A           10 ELVSVEDLLKFEKKFQSEKA-AGS-VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRL   87 (126)
T ss_dssp             HHHHHHHHHHHHHHHHHHHH-HSC-CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHT
T ss_pred             ccCCHHHHHHHHHHHHHHhc-cCC-CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHh
Confidence            33334445555565655554 232 555665566667776665554   66666665 222 3  122333455566777


Q ss_pred             CCchHHHHHHHHHHHcCCCCCchh
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGE  410 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~  410 (471)
                      |++++|.+.++.+++..|. +...
T Consensus        88 g~Y~~A~~~~~~lL~~eP~-n~QA  110 (126)
T 1nzn_A           88 KEYEKALKYVRGLLQTEPQ-NNQA  110 (126)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             hhHHHHHHHHHHHHHhCCC-CHHH
Confidence            7777777777777777776 4443

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=95.20  E-value=0.12  Score=50.48  Aligned_cols=54  Identities=17%  Similarity=-0.022  Sum_probs=49.8

Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhh
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~  435 (471)
                      .-|...|+++.|+.+.+++....|. +-.+|..|+.+|.+.|+|+.|+-.++.+-
T Consensus       345 ~FLl~K~~~elAL~~Ak~AV~~aPs-eF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          345 NFLLNRGDYELALGVSNTSTELALD-SFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             HHHhccCcHHHHHHHHHHHHhcCch-hhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence            4466789999999999999999999 99999999999999999999999999883

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=94.97  E-value=1.2  Score=36.04  Aligned_cols=79  Identities=10%  Similarity=0.033  Sum_probs=29.4

Q ss_pred             ChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCC
Q 012108          106 DVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQL  184 (471)
Q Consensus       106 ~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~  184 (471)
                      +...-...+.++...++.+....+.+.+..++..+....+.++.+.++.+....+.+.+..++...-...+.++.+.|+
T Consensus        63 ~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~  141 (211)
T 3ltm_A           63 DAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGD  141 (211)
T ss_dssp             CHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCC
T ss_pred             CHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCcHHHHHHHHHHHhCCCHHHHHHHHHHHHHcCC
Confidence            3333333444444444333322333333334444444444444444443322222222233343333333444444333

>3ltm_A Alpha-REP4; protein engineering, heat-like repeat, protein binding; HET: 1PE 12P; 2.15A {Synthetic}

Probab=94.94  E-value=1.2  Score=35.99  Aligned_cols=154  Identities=12%  Similarity=0.094  Sum_probs=104.6

Q ss_pred             CchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 012108           43 GHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGK  122 (471)
Q Consensus        43 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~  122 (471)
                      ++..+-...+..+.+.|+.+....+.+.+..++...-...+.++.+.|+.+..-.+.+.+..+++..-...+.++.+.|+
T Consensus        31 ~~~~vR~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~~~~~~vr~~a~~aL~~~~~  110 (211)
T 3ltm_A           31 DSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIGD  110 (211)
T ss_dssp             SSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHHhCCccHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc
Confidence            56666667777777777766566666666667777777778888888876555555566666688888888999999988


Q ss_pred             HHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012108          123 IHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKA  197 (471)
Q Consensus       123 ~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  197 (471)
                      .+....+.+.+..++..+....+.++.+.++.+....+...+..++...-...+.++.+.+. ..+...+..+.+
T Consensus       111 ~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~-~~~~~~L~~~l~  184 (211)
T 3ltm_A          111 ERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGG-ERVRAAMEKLAE  184 (211)
T ss_dssp             GGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCS-HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc-hhHHHHHHHHHh
Confidence            76666666666667888888888888888775544444444455666665566666666665 344555555544

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=94.84  E-value=1.7  Score=37.43  Aligned_cols=168  Identities=10%  Similarity=0.064  Sum_probs=101.0

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHH----HHHHHHhCCCCCCHHHHHHHHHHHH
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVD----LFDEMKAGNVKPDYLTVTSVLSACA  215 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~----~~~~m~~~g~~p~~~~~~~l~~~~~  215 (471)
                      .|.++..-|.+++++++|.+++..           -...+.+.|++..|-+    +++-..+.+++++......++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            345566777888888888887755           2334566677665554    4555666788888888888877765


Q ss_pred             ccCCh-----HHHHHHHHHHHHcCC--CCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhc---CC
Q 012108          216 NLGSL-----ETGARIHVYATDNGL--ASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALH---GY  285 (471)
Q Consensus       216 ~~~~~-----~~a~~~~~~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~---~~  285 (471)
                      .....     +-..+......+.|-  .-++..+..+...|.+.|++.+|...|--....+...+..++.-+...   |.
T Consensus       104 ~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i~~~~~s~~~~a~~l~~w~~~~~~~~  183 (312)
T 2wpv_A          104 ELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFMLGTHDSMIKYVDLLWDWLCQVDDIE  183 (312)
T ss_dssp             TCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHHTSCHHHHHHHHHHHHHHHHHTTCCC
T ss_pred             HCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHHhCCCccHHHHHHHHHHHHHhcCCCC
Confidence            53221     222233333334432  247888999999999999999999987643333444444444333332   22


Q ss_pred             hHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          286 GYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       286 ~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      ..++              +...-..++ -|.-.++...|..+++...+
T Consensus       184 ~~e~--------------dlf~~RaVL-~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          184 DSTV--------------AEFFSRLVF-NYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             HHHH--------------HHHHHHHHH-HHHHTTBHHHHHHHHHHHHH
T ss_pred             cchH--------------HHHHHHHHH-HHHHhcCHHHHHHHHHHHHH
Confidence            1111              111112222 34457889888888887765

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=94.83  E-value=1.2  Score=35.58  Aligned_cols=171  Identities=11%  Similarity=0.067  Sum_probs=102.4

Q ss_pred             CchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCC
Q 012108           43 GHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGK  122 (471)
Q Consensus        43 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~  122 (471)
                      ++..+-...+..+.+.|+.+....+.+.+..++...-...+.++.+.|..+..-.+.+.+..+++..-...+.++.+.++
T Consensus        26 ~~~~vr~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~  105 (201)
T 3ltj_A           26 DSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQSAAVALGQIGD  105 (201)
T ss_dssp             SCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCC
T ss_pred             CCHHHHHHHHHHHHhcCChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCc
Confidence            34444444555555555544444455555556665556666666666665555455555555677777778888888887


Q ss_pred             HHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCC
Q 012108          123 IHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKP  202 (471)
Q Consensus       123 ~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p  202 (471)
                      .+....+.+.+..++..+....+.++.+.++.+....+...+..++...-...+.++.+.|.. ++...+..+.+.   +
T Consensus       106 ~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~A~~aL~~~~~~-~~~~~L~~~l~d---~  181 (201)
T 3ltj_A          106 ERAVEPLIKALKDEDWFVRIAAAFALGEIGDERAVEPLIKALKDEDGWVRQSAADALGEIGGE-RVRAAMEKLAET---G  181 (201)
T ss_dssp             GGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCSH-HHHHHHHHHHHH---C
T ss_pred             HHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCch-hHHHHHHHHHhC---C
Confidence            665555555556677777777777777777655444444444556666666666777776653 455556665542   4


Q ss_pred             CHHHHHHHHHHHHcc
Q 012108          203 DYLTVTSVLSACANL  217 (471)
Q Consensus       203 ~~~~~~~l~~~~~~~  217 (471)
                      +...-...+.++.+.
T Consensus       182 ~~~vr~~A~~aL~~l  196 (201)
T 3ltj_A          182 TGFARKVAVNYLETH  196 (201)
T ss_dssp             CHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHH
Confidence            444444445555443

>3ltj_A Alpharep-4; protein engineering, heat-like repeat, protein binding; 1.80A {Synthetic}

Probab=94.77  E-value=1.3  Score=35.49  Aligned_cols=182  Identities=10%  Similarity=0.036  Sum_probs=116.4

Q ss_pred             HHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHH
Q 012108           64 AFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNS  143 (471)
Q Consensus        64 A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~  143 (471)
                      -..+++.+..++...-...+..+.+.|..+..-.+.+.+..++...-...+.++...|..+....+.+.+..++..+...
T Consensus        16 ~~~~i~~L~~~~~~vr~~A~~~L~~~~~~~~~~~L~~~l~~~~~~vr~~a~~~L~~~~~~~~~~~L~~~l~d~~~~vr~~   95 (201)
T 3ltj_A           16 VEMYIKNLQDDSYYVRRAAAYALGKIGDERAVEPLIKALKDEDAWVRRAAADALGQIGDERAVEPLIKALKDEDGWVRQS   95 (201)
T ss_dssp             HHHHHHHTTCSCHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHCCGGGHHHHHHHTTCSSHHHHHH
T ss_pred             hHHHHHHhcCCCHHHHHHHHHHHHhcCChhHHHHHHHHHcCCCHHHHHHHHHHHHhhCCHHHHHHHHHHHcCCCHHHHHH
Confidence            33444445556666666666777777765555555555656677777778888888887766666666666778888888


Q ss_pred             HHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHH
Q 012108          144 LILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETG  223 (471)
Q Consensus       144 l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a  223 (471)
                      .+.++.+.++.+....+.+.+..++...-...+.++.+.++. .+...+..+..   .++...-...+.++...|.. .+
T Consensus        96 a~~aL~~~~~~~~~~~L~~~l~d~~~~vr~~a~~aL~~~~~~-~~~~~L~~~l~---d~~~~vr~~A~~aL~~~~~~-~~  170 (201)
T 3ltj_A           96 AAVALGQIGDERAVEPLIKALKDEDWFVRIAAAFALGEIGDE-RAVEPLIKALK---DEDGWVRQSAADALGEIGGE-RV  170 (201)
T ss_dssp             HHHHHHHHCCGGGHHHHHHHTTCSSHHHHHHHHHHHHHHTCG-GGHHHHHHHTT---CSSHHHHHHHHHHHHHHCSH-HH
T ss_pred             HHHHHHHhCcHHHHHHHHHHHcCCCHHHHHHHHHHHHHhCCH-HHHHHHHHHHc---CCCHHHHHHHHHHHHHhCch-hH
Confidence            888888888766555555555666776666667777777764 34455555554   35666666677777777764 45


Q ss_pred             HHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 012108          224 ARIHVYATDNGLASNPHATTALIDMYAKCG  253 (471)
Q Consensus       224 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  253 (471)
                      ...+..+.+.   ++..+-...+.++.+.+
T Consensus       171 ~~~L~~~l~d---~~~~vr~~A~~aL~~l~  197 (201)
T 3ltj_A          171 RAAMEKLAET---GTGFARKVAVNYLETHK  197 (201)
T ss_dssp             HHHHHHHHHH---CCHHHHHHHHHHHHHCC
T ss_pred             HHHHHHHHhC---CCHHHHHHHHHHHHHHH
Confidence            5555555543   34555555555555443

>1y8m_A FIS1; mitochondria, unknown function; NMR {Saccharomyces cerevisiae} SCOP: a.118.8.1

Probab=94.60  E-value=0.51  Score=34.93  Aligned_cols=50  Identities=10%  Similarity=0.129  Sum_probs=24.8

Q ss_pred             HHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          391 IGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       391 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +++.+++.....+|.-.......|+-++.+.|++++|.++.+.+++..|.
T Consensus        60 ~GI~LLe~l~~~~~~~~RdcLYyLAvg~ykl~~Y~~Ar~y~d~lL~~eP~  109 (144)
T 1y8m_A           60 LGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  109 (144)
T ss_dssp             HHHHHHHHHHHHCCSTHHHHHHHHHHHHHTTTCHHHHHHHHHHHHHTCCC
T ss_pred             HHHHHHHHHHhcCccchhHHHHHHHHHHHHhhhHHHHHHHHHHHHhcCCC
Confidence            44555555555444323444445555555555555555555555544443

>1nzn_A CGI-135 protein, fission protein FIS1P; TPR, unknown function; 2.00A {Homo sapiens} SCOP: a.118.8.1 PDB: 1iyg_A

Probab=94.53  E-value=0.47  Score=34.45  Aligned_cols=69  Identities=12%  Similarity=-0.051  Sum_probs=31.4

Q ss_pred             CCHhHHHHHHHHHhhcCCchH---HHHHHHHHHHcC-CCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          371 PTESILGALLSACVIHQDLEI---GDRVAKMVCAKS-NYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       371 p~~~~~~~l~~~~~~~g~~~~---a~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      |+..+--.+..++.+..+...   ++.+++.....+ |.-.......|+-++.+.|++++|.++++.+++..|
T Consensus        33 ~s~~~~F~yAw~Lv~S~~~~d~~~GI~lLe~l~~~~~p~~~Rd~lY~LAvg~yklg~Y~~A~~~~~~lL~~eP  105 (126)
T 1nzn_A           33 VSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGNYRLKEYEKALKYVRGLLQTEP  105 (126)
T ss_dssp             CCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCT
T ss_pred             CcHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCCcchHHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhCC
Confidence            344444444444444443333   445555544443 211334444455555555555555555555544444

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=94.44  E-value=2.3  Score=36.99  Aligned_cols=167  Identities=14%  Similarity=0.075  Sum_probs=98.6

Q ss_pred             HHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHH----HHHHHhCCCCCCHHHHHHHHHHHHc
Q 012108          141 WNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDL----FDEMKAGNVKPDYLTVTSVLSACAN  216 (471)
Q Consensus       141 ~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~m~~~g~~p~~~~~~~l~~~~~~  216 (471)
                      |.++..-|.+.+++++|.+++..           -...+.+.|+...+-++    ++-+.+.++++|......++..+..
T Consensus        38 ~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~~  106 (336)
T 3lpz_A           38 TRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLRL  106 (336)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHh
Confidence            45566778888888888887754           23345556665554443    3555666788888877777777665


Q ss_pred             cCChH-HHHHHHHH----HHHcC--CCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHH
Q 012108          217 LGSLE-TGARIHVY----ATDNG--LASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAA  289 (471)
Q Consensus       217 ~~~~~-~a~~~~~~----~~~~~--~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a  289 (471)
                      ...-+ .=..+.+.    -.+.|  ..-++.....+...|.+.+++.+|...|--...+.+..+..++.-+...+...  
T Consensus       107 ~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~ilg~~~s~~~~a~mL~ew~~~~~~~--  184 (336)
T 3lpz_A          107 FQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLVLGTKESPEVLARMEYEWYKQDESH--  184 (336)
T ss_dssp             SCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHTTSCTTHHHHHHHHHHHHHHTSCGG--
T ss_pred             CCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHHhcCCchHHHHHHHHHHHHHhcCCc--
Confidence            44321 11222322    33333  33477888899999999999999999885333233355544444333332211  


Q ss_pred             HHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          290 LKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       290 ~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                                  .++...-..++ -|...++...|..+++...+
T Consensus       185 ------------e~dlfiaRaVL-~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          185 ------------TAPLYCARAVL-PYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             ------------GHHHHHHHHHH-HHHHTTCHHHHHHHHHHHHH
T ss_pred             ------------cHHHHHHHHHH-HHHHhCCHHHHHHHHHHHHH
Confidence                        11222222233 34556788888887766654

>4b4t_P 26S proteasome regulatory subunit RPN5; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.19  E-value=3.4  Score=38.01  Aligned_cols=163  Identities=10%  Similarity=0.044  Sum_probs=84.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhC--CCCCC---HHHHHHHHHHHhccCcHHHHHHHHHHhHHhc-CCC--CC--hh
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDS--CVKAD---DITFIGLLSACSHAGLVQEGCELFSRMEKDF-GVT--RK--LE  342 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~p~---~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~--~~--~~  342 (471)
                      ...|...+...|++.+|..++..+...  |....   ...+...++.|...+++..|..++.++.... ...  |+  ..
T Consensus       140 ~~~La~i~e~~g~~~eA~~iL~~l~~Et~~~~~~~~kve~~l~q~rl~l~~~d~~~a~~~~~ki~~~~~~~~~~~~lk~~  219 (445)
T 4b4t_P          140 TKDLVEIKKEEGKIDEAADILCELQVETYGSMEMSEKIQFILEQMELSILKGDYSQATVLSRKILKKTFKNPKYESLKLE  219 (445)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHCSSSCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHSSCCHHHHHH
T ss_pred             HHHHHHHHHHccCHHHHHHHHHHHHHHHHhcccHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhhcccCCcHHHHHH
Confidence            345667777778888888877776532  22211   1345555677777888888887777764211 111  21  23


Q ss_pred             HHHHHHHHHhhcCCHHHHHHHHHhCC----CCCCHhHHH----HHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHH
Q 012108          343 HYGCMVDLLGRARLLDRAIELIEAMP----FEPTESILG----ALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMF  414 (471)
Q Consensus       343 ~~~~l~~~~~~~g~~~~A~~~~~~~~----~~p~~~~~~----~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  414 (471)
                      .+...+..+...+++.+|.+.|.++-    ...+...+.    .++.+..-.+....-..++........-++...+..+
T Consensus       220 ~~~~~~~~~~~e~~y~~a~~~y~e~~~~~~~~~d~~~~~~~L~~~v~~~iLa~~~~~~~~ll~~~~~~~~~~~l~~~~~L  299 (445)
T 4b4t_P          220 YYNLLVKISLHKREYLEVAQYLQEIYQTDAIKSDEAKWKPVLSHIVYFLVLSPYGNLQNDLIHKIQNDNNLKKLESQESL  299 (445)
T ss_dssp             HHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHHHHSSCSSTTHHHHHSHHHHSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhHHHHHHHHHHHHhcccccCCHHHHHHHHHHHHHHHHhCCCCchHHHHHHHHhhcccccccHHHHHH
Confidence            45566666677778877777766651    111222111    1111111112112222222222222222245667777


Q ss_pred             HHHHHhc--CCHHHHHHHHHHhh
Q 012108          415 ANLYASC--GQWEEANRWRNMMN  435 (471)
Q Consensus       415 ~~~~~~~--g~~~~A~~~~~~m~  435 (471)
                      ..+|...  .+|+.+.+.|+...
T Consensus       300 ~k~f~~~~L~~~~~~~~~~~~~L  322 (445)
T 4b4t_P          300 VKLFTTNELMRWPIVQKTYEPVL  322 (445)
T ss_dssp             HHHHHHCCSSSHHHHHHHTCSST
T ss_pred             HHHHHhchHhhhHHHHHHHHHHh
Confidence            7777654  45666666555443

>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=93.64  E-value=0.33  Score=35.42  Aligned_cols=72  Identities=10%  Similarity=0.040  Sum_probs=41.9

Q ss_pred             CCCHhHHHHHHHHHhhcC---CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          370 EPTESILGALLSACVIHQ---DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       370 ~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      .|+..+--.+..++.+..   +..+++.+++...+.+|.-....+..|+-++.+.|++++|.++.+.+.+..|..
T Consensus        37 ~vs~qt~F~yAw~Lv~S~~~~d~~~GI~LLe~l~~~~~~~~Rd~LYyLAvg~yklgdY~~Ar~y~d~lL~~eP~N  111 (134)
T 3o48_A           37 TATIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERNN  111 (134)
T ss_dssp             GSCHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHTTCTTC
T ss_pred             CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHhcCcchhHHHHHHHHHHHHHhhhHHHHHHHHHHHHhhCCCC
Confidence            344444444444555443   334566666666666653245566666677777777777777777666655543

>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=93.42  E-value=0.21  Score=45.18  Aligned_cols=54  Identities=7%  Similarity=-0.072  Sum_probs=26.2

Q ss_pred             HHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          380 LSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       380 ~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                      +..+...|++.++...++.+....|- +...+..++.+|.+.|+..+|.+.|+++
T Consensus       178 ~~~~l~~g~~~~a~~~l~~~~~~~P~-~E~~~~~lm~al~~~Gr~~~Al~~y~~~  231 (388)
T 2ff4_A          178 AEAEIACGRASAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRV  231 (388)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHH
Confidence            33344444555555444444444444 4444555555555555555554444443

>3lpz_A GET4 (YOR164C homolog); protein targeting, tail-anchored protein biogenesis, GET PAT GET5 binding, protein transport; 1.98A {Chaetomium thermophilum}

Probab=92.02  E-value=5.7  Score=34.52  Aligned_cols=168  Identities=13%  Similarity=0.071  Sum_probs=105.5

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHH----HHHHhCCCCCCHHHHHHHHHHHh
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLL----GEMNDSCVKADDITFIGLLSACS  316 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~----~~~~~~~~~p~~~~~~~l~~~~~  316 (471)
                      +|.++..-|.+.+++++|++++..           -...+.+.|+...|-++-    +-..+.++++|......++..+.
T Consensus        37 ~~RTi~~Ry~~~k~y~eAidLL~~-----------GA~~ll~~~Q~~sg~DL~~llvevy~~~~~~~~~~~~~rL~~L~~  105 (336)
T 3lpz_A           37 ETRLVAARYSKQGNWAAAVDILAS-----------VSQTLLRSGQGGSGGDLAVLLVDTFRQAGQRVDGASRGKLLGCLR  105 (336)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHHTCCCCHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            455667778899999999988643           234455667766655544    55556678888888888887776


Q ss_pred             ccCcHH-HHHHHHHHhHH---hcCC--CCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCch
Q 012108          317 HAGLVQ-EGCELFSRMEK---DFGV--TRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLE  390 (471)
Q Consensus       317 ~~~~~~-~a~~~~~~~~~---~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~  390 (471)
                      ....-+ .=..+.+++.+   ..|-  .-++.....+...|.+.+++.+|...|= .+-.+++..+..++..+...+...
T Consensus       106 ~~~~~~p~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~ig~~~~~e~~~~~Ae~H~i-lg~~~s~~~~a~mL~ew~~~~~~~  184 (336)
T 3lpz_A          106 LFQPGEPVRKRFVKEMIDWSKKFGDYPAGDPELHHVVGTLYVEEGEFEAAEKHLV-LGTKESPEVLARMEYEWYKQDESH  184 (336)
T ss_dssp             TSCTTCHHHHHHHHHHHHHHHHHSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHT-TSCTTHHHHHHHHHHHHHHTSCGG
T ss_pred             hCCCCCcHHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHccCCHHHHHHHHH-hcCCchHHHHHHHHHHHHHhcCCc
Confidence            544311 11223333332   1232  2367888889999999999999998883 343444567766655444433322


Q ss_pred             HHHHHHHHHHHcCCCCCchhHH-HHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          391 IGDRVAKMVCAKSNYLSDGELM-MFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       391 ~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                                      ....|. ..+--|...|+...|..+++...+
T Consensus       185 ----------------e~dlfiaRaVL~yL~l~n~~~A~~~~~~f~~  215 (336)
T 3lpz_A          185 ----------------TAPLYCARAVLPYLLVANVRAANTAYRIFTS  215 (336)
T ss_dssp             ----------------GHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             ----------------cHHHHHHHHHHHHHHhCCHHHHHHHHHHHHH
Confidence                            233333 234456778899999887776654

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=91.76  E-value=1.2  Score=34.04  Aligned_cols=58  Identities=7%  Similarity=-0.040  Sum_probs=32.0

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC-CCCCC-------HHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          276 MILGLALHGYGYAALKLLGEMNDS-CVKAD-------DITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~-~~~p~-------~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      -+..+...|.++.|+-+.+.+... +..|+       ..++..+..++...+++.+|...|+++.+
T Consensus        26 qik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq   91 (167)
T 3ffl_A           26 HVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQ   91 (167)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHH
Confidence            344555556666666555554321 01222       12445566677777777777777777644

>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=91.43  E-value=1.3  Score=30.32  Aligned_cols=63  Identities=11%  Similarity=0.149  Sum_probs=51.4

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|..+|+-++.+.+  +...+|..+++
T Consensus        25 D~~e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~~--~~~~iY~~~lq   87 (109)
T 1v54_E           25 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   87 (109)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CchhhHHHHHH
Confidence            4556777888888888999999999999999999999999999999987443  33556777765

>4gns_B Protein CSD3, chitin biosynthesis protein CHS6; FN3, BRCT, tetratricopeptide repeat, cargo adaptor, transpor; HET: EPE; 2.75A {Saccharomyces cerevisiae}

Probab=91.11  E-value=1.6  Score=42.91  Aligned_cols=124  Identities=14%  Similarity=0.053  Sum_probs=80.1

Q ss_pred             HHHHHHHHhCCC-HHHHHHHHHhccccChH--H--HHHHHHHHHhcC-CHHHHHHHHHHHHhC------CCCCCH-----
Q 012108          142 NSLILAYTNAGE-MEKAGEMFKKMLVKNVI--T--WNTMVTGYLRSQ-LYIEVVDLFDEMKAG------NVKPDY-----  204 (471)
Q Consensus       142 ~~l~~~~~~~~~-~~~A~~~~~~~~~~~~~--~--~~~l~~~~~~~~-~~~~a~~~~~~m~~~------g~~p~~-----  204 (471)
                      ..++..+...++ ++.|.++|+++...++.  .  ...++..+.+.+ +--+|.+++.+.++.      ...+..     
T Consensus       252 ~~Ll~~~~~t~~~~~~a~~~le~L~~~~p~~~~~~~~~~i~~~~~~~~~Ev~av~ll~~~l~~~~~~~~~l~~~~~~~~~  331 (754)
T 4gns_B          252 YSLKSFIAITPSLVDFTIDYLKGLTKKDPIHDIYYKTAMITILDHIETKELDMITILNETLDPLLSLLNDLPPRDADSAR  331 (754)
T ss_dssp             HHHHHHHHTCGGGHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHTTCGGGHHHHHHHHHHHHHHHHHHHHTCSSCCHHHHH
T ss_pred             HHHHHHHcccccHHHHHHHHHHHHHhhCCchhHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHhhhhhhhhccccccccc
Confidence            455666666766 58899999998544332  2  222333333332 233456666554421      112111     


Q ss_pred             ------HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCC
Q 012108          205 ------LTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQ  266 (471)
Q Consensus       205 ------~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  266 (471)
                            .....-...|...|+++.|.++-++..... |.+-.+|..|..+|...|+++.|+-.++.++
T Consensus       332 ~~~~~~~LL~~Qa~FLl~K~~~elAL~~Ak~AV~~a-PseF~tW~~La~vYi~l~d~e~ALLtLNScP  398 (754)
T 4gns_B          332 LMNCMSDLLNIQTNFLLNRGDYELALGVSNTSTELA-LDSFESWYNLARCHIKKEEYEKALFAINSMP  398 (754)
T ss_dssp             HHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SSCHHHHHHHHHHHHHTTCHHHHHHHHHHSC
T ss_pred             ccCcchHHHHHHHHHHhccCcHHHHHHHHHHHHhcC-chhhHHHHHHHHHHHHhccHHHHHHHHhcCC
Confidence                  112222345667899999999999998874 6678899999999999999999999887764

>3ffl_A Anaphase-promoting complex subunit 7; tetratricopeptide repeat motif, helis-turn-helix, cell cycle division, mitosis, TPR repeat; 2.50A {Homo sapiens}

Probab=90.83  E-value=1.3  Score=33.74  Aligned_cols=120  Identities=12%  Similarity=-0.067  Sum_probs=66.8

Q ss_pred             CCCCCH--HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCCh-------hHHHHHHHHHhhcCCHHHHHHHHHhC---
Q 012108          300 CVKADD--ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKL-------EHYGCMVDLLGRARLLDRAIELIEAM---  367 (471)
Q Consensus       300 ~~~p~~--~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~-------~~~~~l~~~~~~~g~~~~A~~~~~~~---  367 (471)
                      |+.|..  .++..-+..+...|.++.|+-+.+.+....+..|+.       .++..+.+++...|++.+|...|++.   
T Consensus        13 ~~~~~~~~~~l~dqik~L~d~~LY~sA~~La~lLlSl~~~~~~~~sp~~~~~~l~~ladalf~~~eyrrA~~~y~qALq~   92 (167)
T 3ffl_A           13 GLVPRGSHMNVIDHVRDMAAAGLHSNVRLLSSLLLTLSNNNPELFSPPQKYQLLVYHADSLFHDKEYRNAVSKYTMALQQ   92 (167)
T ss_dssp             --------CCHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSTTSSCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHH
T ss_pred             CCCCCccHHHHHHHHHHHHHhhhHHHHHHHHHHHHHhhcCCcccccHHHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHH
Confidence            444433  345555677788899999988888766533333442       35566778888889998888888774   


Q ss_pred             ----CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHh
Q 012108          368 ----PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMM  434 (471)
Q Consensus       368 ----~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m  434 (471)
                          .-.++.  ...+.    .......         ......+.+.-..+..+|.+.|++++|+.+++.+
T Consensus        93 ~k~l~k~~s~--~~~~~----~~ss~p~---------s~~~~~e~Elkykia~C~~~l~~~~~Ai~~Le~I  148 (167)
T 3ffl_A           93 KKALSKTSKV--RPSTG----NSASTPQ---------SQCLPSEIEVKYKLAECYTVLKQDKDAIAILDGI  148 (167)
T ss_dssp             HHCC-----------------------------------CCCCHHHHHHHHHHHHHHTTCHHHHHHHHHTS
T ss_pred             HHHHhcCCCc--ccccc----ccCCCcc---------cccccchHHHHHHHHHHHHHHCCHHHHHHHHhcC
Confidence                111111  11110    0000000         0001113456667888899999999999888876

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=90.64  E-value=9.1  Score=34.30  Aligned_cols=154  Identities=15%  Similarity=0.111  Sum_probs=81.0

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCC--------CChhhHHHHHHHHHhC-CCHHHHHHHHHhccc---cChHHH-----
Q 012108          110 FNIMISGYARIGKIHSARYIFDKVPA--------KDVVSWNSLILAYTNA-GEMEKAGEMFKKMLV---KNVITW-----  172 (471)
Q Consensus       110 ~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~l~~~~~~~-~~~~~A~~~~~~~~~---~~~~~~-----  172 (471)
                      ...+...|.+.|+.++..+++....+        ........+++.+... +..+.-.++..+..+   .+-.+|     
T Consensus        22 ~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~~l  101 (394)
T 3txn_A           22 ILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQSL  101 (394)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            34455555555555555555555422        1223344455555443 223333333333311   111222     


Q ss_pred             -HHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHHccCChHHHHHHHHHHHHc--CCCCchhHHHH
Q 012108          173 -NTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDY-----LTVTSVLSACANLGSLETGARIHVYATDN--GLASNPHATTA  244 (471)
Q Consensus       173 -~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~~~~~  244 (471)
                       ..++..|...|++.+|.+++.++.+.--..|.     ..+..-+..|...+++.++...+......  .+.+++.+...
T Consensus       102 ~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~a~  181 (394)
T 3txn_A          102 EARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQGA  181 (394)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHHHH
T ss_pred             HHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHHHH
Confidence             25677888888888888888887653112221     23445566777888888888888777542  22233333221


Q ss_pred             ----HHHHHH-hcCChHHHHHHHh
Q 012108          245 ----LIDMYA-KCGSIEQSLEVFY  263 (471)
Q Consensus       245 ----l~~~~~-~~~~~~~a~~~~~  263 (471)
                          -+..+. ..+++..|...|-
T Consensus       182 i~~~~Gi~~l~~~rdyk~A~~~F~  205 (394)
T 3txn_A          182 LDLQSGILHAADERDFKTAFSYFY  205 (394)
T ss_dssp             HHHHHHHHHHHTTSCHHHHHHHHH
T ss_pred             HHHHhhHHHHHhccCHHHHHHHHH
Confidence                123344 5677777766654

>3txn_A 26S proteasome regulatory complex subunit P42B; PCI domain, alpha solenoid, regulatory PART LID, hydrolase, protein binding; 2.50A {Drosophila melanogaster} PDB: 3txm_A

Probab=90.13  E-value=10  Score=34.02  Aligned_cols=163  Identities=10%  Similarity=-0.018  Sum_probs=95.2

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcC-CCC---chhHHHHHHHHHHhcCC-hHHHHHHHhcCCC---CChhhH---
Q 012108          205 LTVTSVLSACANLGSLETGARIHVYATDNG-LAS---NPHATTALIDMYAKCGS-IEQSLEVFYKSQV---KDVFCW---  273 (471)
Q Consensus       205 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~---~~~~~~~l~~~~~~~~~-~~~a~~~~~~~~~---~~~~~~---  273 (471)
                      .....+...|.+.|+.++..+++......= ..+   .......+++.+....+ .+.-.++..+..+   .+-.+|   
T Consensus        20 ~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~kak~~k~v~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~~~r~flr~   99 (394)
T 3txn_A           20 QGILQQGELYKQEGKAKELADLIKVTRPFLSSISKAKAAKLVRSLVDMFLDMDAGTGIEVQLCKDCIEWAKQEKRTFLRQ   99 (394)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHTTTGGGGSCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence            455667788888898888888877654321 111   23445667777666433 3333333332221   111223   


Q ss_pred             ---HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCH-----HHHHHHHHHHhccCcHHHHHHHHHHhHHhcC-CCCChhHH
Q 012108          274 ---NAMILGLALHGYGYAALKLLGEMNDSCVKADD-----ITFIGLLSACSHAGLVQEGCELFSRMEKDFG-VTRKLEHY  344 (471)
Q Consensus       274 ---~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~-----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~-~~~~~~~~  344 (471)
                         ..++..|...|++.+|.+++.++...=-..|.     ..+..-++.|...+++.++...+.......+ +.+++...
T Consensus       100 ~l~~kL~~l~~~~~~y~~a~~~i~~l~~~~~~~dd~~~llev~lle~~~~~~~~n~~k~k~~l~~a~~~~~ai~~~p~i~  179 (394)
T 3txn_A          100 SLEARLIALYFDTALYTEALALGAQLLRELKKLDDKNLLVEVQLLESKTYHALSNLPKARAALTSARTTANAIYCPPKVQ  179 (394)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTSSCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHSCCCHHHH
T ss_pred             HHHHHHHHHHHHhhhHHHHHHHHHHHHHHHhccccchhHHHHHHHHHHHHHHhccHHHHHHHHHHHHhhhccCCCCHHHH
Confidence               25678888899999998888887753111121     2344456677788888888888887765321 21333222


Q ss_pred             HH----HHHHHh-hcCCHHHHHHHHHhC
Q 012108          345 GC----MVDLLG-RARLLDRAIELIEAM  367 (471)
Q Consensus       345 ~~----l~~~~~-~~g~~~~A~~~~~~~  367 (471)
                      ..    -...+. ..+++..|...|-+.
T Consensus       180 a~i~~~~Gi~~l~~~rdyk~A~~~F~ea  207 (394)
T 3txn_A          180 GALDLQSGILHAADERDFKTAFSYFYEA  207 (394)
T ss_dssp             HHHHHHHHHHHHHTTSCHHHHHHHHHHH
T ss_pred             HHHHHHhhHHHHHhccCHHHHHHHHHHH
Confidence            11    122344 678888888887665

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.94  E-value=13  Score=38.94  Aligned_cols=80  Identities=8%  Similarity=0.048  Sum_probs=41.2

Q ss_pred             HHHHHHHHHHccCChHHHHHHHHHHHHcCCCCch----hHHHHHHHHHHhcCChHHHHHHHhcCCCC--ChhhHHHHHHH
Q 012108          206 TVTSVLSACANLGSLETGARIHVYATDNGLASNP----HATTALIDMYAKCGSIEQSLEVFYKSQVK--DVFCWNAMILG  279 (471)
Q Consensus       206 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~l~~~~~~~~~~~~a~~~~~~~~~~--~~~~~~~l~~~  279 (471)
                      -|..++..+.+.+.++.+.++-..+++...+.+.    ..|..+.+.+...|++++|...+-.+...  -......|+..
T Consensus       901 YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~~r~~cLr~LV~~  980 (1139)
T 4fhn_B          901 YYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTPLKKSCLLDFVNQ  980 (1139)
T ss_dssp             HHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSSSCHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHHHHHHHHHHHHHH
Confidence            3455555666666666666665555543211111    24555666666666666666665443321  22344455555


Q ss_pred             HHhcCC
Q 012108          280 LALHGY  285 (471)
Q Consensus       280 ~~~~~~  285 (471)
                      +|..|+
T Consensus       981 lce~~~  986 (1139)
T 4fhn_B          981 LTKQGK  986 (1139)
T ss_dssp             HHHHCC
T ss_pred             HHhCCC
Confidence            555444

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=89.85  E-value=3.3  Score=28.26  Aligned_cols=77  Identities=8%  Similarity=-0.012  Sum_probs=58.3

Q ss_pred             chhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 012108           25 SSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPL  104 (471)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  104 (471)
                      .-++|.-|-+.+...+-  ...+-..-+..+.+.|++++|..+.+...-||...|-+|-.  .+.|-.+++...+..+..
T Consensus        21 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   96 (115)
T 2uwj_G           21 CHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLGG   96 (115)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            56888888888887653  44444455667788999999999999988899988887765  567887888777755554


Q ss_pred             C
Q 012108          105 K  105 (471)
Q Consensus       105 ~  105 (471)
                      .
T Consensus        97 s   97 (115)
T 2uwj_G           97 S   97 (115)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=89.85  E-value=2.5  Score=38.04  Aligned_cols=70  Identities=13%  Similarity=0.099  Sum_probs=49.9

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH----hcCCCCChhHH
Q 012108          274 NAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK----DFGVTRKLEHY  344 (471)
Q Consensus       274 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~----~~~~~~~~~~~  344 (471)
                      ..++..+...|+++++...+..+... -+.+...+..+|.++.+.|+..+|++.|+.+.+    +.|+.|.+.+-
T Consensus       175 ~~~~~~~l~~g~~~~a~~~l~~~~~~-~P~~E~~~~~lm~al~~~Gr~~~Al~~y~~~r~~L~~eLG~~P~~~l~  248 (388)
T 2ff4_A          175 TAKAEAEIACGRASAVIAELEALTFE-HPYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLR  248 (388)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHH-STTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHh-CCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHhCCCCCHHHH
Confidence            34556667778888888777777665 244677788888888888888888888777554    45777776553

>4fhn_B Nucleoporin NUP120; protein complex,structural protein,nuclear pore complex,mRNA transport,protein transport, WD repeat; 6.99A {Schizosaccharomyces pombe 972h-}

Probab=89.78  E-value=3.4  Score=43.31  Aligned_cols=144  Identities=13%  Similarity=0.051  Sum_probs=91.8

Q ss_pred             HHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCC--------------
Q 012108          274 NAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTR--------------  339 (471)
Q Consensus       274 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~--------------  339 (471)
                      ..++..+...+.++-+.++..-.     +-++..-..+..++...|++++|.+.|+++..  ++..              
T Consensus       816 ~~l~~~l~~~~~~~~~~~l~~~~-----~~~~~~~yl~g~~~L~~ge~~~A~~~F~kaa~--~~~~~~~l~~~~~~~~~~  888 (1139)
T 4fhn_B          816 TELVEKLFLFKQYNACMQLIGWL-----NSDPIAVYLKALIYLKSKEAVKAVRCFKTTSL--VLYSHTSQFAVLREFQEI  888 (1139)
T ss_dssp             HHHHHHHHHHSCTTHHHHHHHHS-----CCCHHHHHHHHHHHHHTTCHHHHHHHHHTCCC--SCTTCCCSCSSHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhc-----cCCcHHHHHHHHHHHhcCCHHHHHHHHHHHhh--hhcccchhhhhhcccccc
Confidence            34555666677776666544332     22444444566777888888888888877653  2211              


Q ss_pred             ---------ChhHHHHHHHHHhhcCCHHHHHHHHHhC----C-CCCCH--hHHHHHHHHHhhcCCchHHHHHHHHHHHcC
Q 012108          340 ---------KLEHYGCMVDLLGRARLLDRAIELIEAM----P-FEPTE--SILGALLSACVIHQDLEIGDRVAKMVCAKS  403 (471)
Q Consensus       340 ---------~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~-~~p~~--~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~  403 (471)
                               -...|.-++..+.+.|.++.+.++-+..    . ..++.  ..|..++..+...|++++|-..+-.+....
T Consensus       889 ~~~~~~~~~l~~YY~hv~~LFe~~~~~~~vi~fa~lAi~~~~~~~~~~~~~l~~~iFk~~L~l~~ye~Ay~aL~~~pd~~  968 (1139)
T 4fhn_B          889 AEKYHHQNLLSCYYLHLSKKLFEESAYIDALEFSLLADASKETDDEDLSIAITHETLKTACAAGKFDAAHVALMVLSTTP  968 (1139)
T ss_dssp             HHTTTSCCSSHHHHHHHHHHHHHTSCCHHHHHHHHHHHHHCCSCCHHHHHHHHHHHHHHHHHHCCSGGGGHHHHHHHHSS
T ss_pred             cccccccccHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhccCCChhhHHHHHHHHHHHHHhhCCHHHHHHHHHhCCCHH
Confidence                     1234666777777888887777665543    2 12221  257788888889999999988887776555


Q ss_pred             CCCCchhHHHHHHHHHhcCCHHH
Q 012108          404 NYLSDGELMMFANLYASCGQWEE  426 (471)
Q Consensus       404 ~~~~~~~~~~l~~~~~~~g~~~~  426 (471)
                      .+  ...+..|+...+..|..+.
T Consensus       969 ~r--~~cLr~LV~~lce~~~~~~  989 (1139)
T 4fhn_B          969 LK--KSCLLDFVNQLTKQGKINQ  989 (1139)
T ss_dssp             SC--HHHHHHHHHHHHHHCCHHH
T ss_pred             HH--HHHHHHHHHHHHhCCChhh
Confidence            44  6677777777776665444

>2p58_C Putative type III secretion protein YSCG; type III secretion system, structure, needle protein, YSCE, YSCF, transport protein/chaperone complex; 1.80A {Yersinia pestis}

Probab=89.77  E-value=3.5  Score=28.18  Aligned_cols=77  Identities=12%  Similarity=-0.014  Sum_probs=58.5

Q ss_pred             chhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCC
Q 012108           25 SSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPL  104 (471)
Q Consensus        25 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~  104 (471)
                      .-++|.-|-+.+...+-  ...+-..-+..+.+.|++++|..+.+...-||...|-+|-.  .+.|-.+++...+..+..
T Consensus        22 ~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la~   97 (116)
T 2p58_C           22 YHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLAR   97 (116)
T ss_dssp             CHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHHh
Confidence            56888888888887653  44444455667788999999999999998899998887765  467777888777756655


Q ss_pred             C
Q 012108          105 K  105 (471)
Q Consensus       105 ~  105 (471)
                      .
T Consensus        98 s   98 (116)
T 2p58_C           98 S   98 (116)
T ss_dssp             C
T ss_pred             C
Confidence            4

>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=89.63  E-value=15  Score=35.30  Aligned_cols=382  Identities=9%  Similarity=-0.048  Sum_probs=210.9

Q ss_pred             cHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC-CCc-ccHHHHHHHHHcC
Q 012108           12 SFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE-KDI-IAWNSMLDAFASC   89 (471)
Q Consensus        12 ~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~~-~~~~~li~~~~~~   89 (471)
                      .|.....++ +.|++..+.++...+....+. .-..|..+...+ ......+...++++... |-. ..-+.-+..+.+.
T Consensus         9 ~~~~a~~a~-~~~~~~~~~~l~~~l~~~pL~-~yl~y~~l~~~l-~~~~~~ev~~Fl~~~~~~p~~~~Lr~~~l~~l~~~   85 (618)
T 1qsa_A            9 RYAQIKQAW-DNRQMDVVEQMMPGLKDYPLY-PYLEYRQITDDL-MNQPAVTVTNFVRANPTLPPARTLQSRFVNELARR   85 (618)
T ss_dssp             HHHHHHHHH-HTTCHHHHHHHSGGGTTSTTH-HHHHHHHHHHTG-GGCCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHH-HCCCHHHHHHHHHhhcCCCcH-HHHHHHHHHhCc-ccCCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhC
Confidence            344444444 468888777776665432221 112344433322 23467788888777654 322 2334556777889


Q ss_pred             CCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhc---CCCChhhHHHHHHHHHhCCCHHHHHHHHHhccc
Q 012108           90 GQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKV---PAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV  166 (471)
Q Consensus        90 g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~---~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~  166 (471)
                      +++...+..+.. ...+...-.....+....|+..+|......+   ....+..+..++..+.+.|.+....        
T Consensus        86 ~~w~~~l~~~~~-~p~~~~~~c~~~~A~~~~G~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~g~lt~~~--------  156 (618)
T 1qsa_A           86 EDWRGLLAFSPE-KPGTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQDPLA--------  156 (618)
T ss_dssp             TCHHHHHHHCCS-CCSSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSCHHH--------
T ss_pred             CCHHHHHHhccC-CCCCHHHHHHHHHHHHHcCChhHHHHHHHHHHhCCCCCcHHHHHHHHHHHHCCCCCHHH--------
Confidence            999999997776 4346777777888899999987777666555   2345666777777777666543321        


Q ss_pred             cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHH-HHHHHHHHccCChHHHHHHHHHHHHcCCCCchh---HH
Q 012108          167 KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTV-TSVLSACANLGSLETGARIHVYATDNGLASNPH---AT  242 (471)
Q Consensus       167 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~---~~  242 (471)
                          .|. -+......|+...|..+...+     .++.... ..++....+   ...+.....   .  ..++..   .+
T Consensus       157 ----~~~-R~~~al~~~~~~~a~~l~~~l-----~~~~~~~a~~~~al~~~---p~~~~~~~~---~--~~~~~~~~~~~  218 (618)
T 1qsa_A          157 ----YLE-RIRLAMKAGNTGLVTVLAGQM-----PADYQTIASAIISLANN---PNTVLTFAR---T--TGATDFTRQMA  218 (618)
T ss_dssp             ----HHH-HHHHHHHTTCHHHHHHHHHTC-----CGGGHHHHHHHHHHHHC---GGGHHHHHH---H--SCCCHHHHHHH
T ss_pred             ----HHH-HHHHHHHCCCHHHHHHHHHhC-----CHHHHHHHHHHHHHHhC---hHhHHHHHh---c--cCCChhhHHHH
Confidence                222 234566678888777765432     3343222 233333322   223322221   1  123322   22


Q ss_pred             HHHHHHHHhcCChHHHHHHHhcCCC---CChh----hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH
Q 012108          243 TALIDMYAKCGSIEQSLEVFYKSQV---KDVF----CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC  315 (471)
Q Consensus       243 ~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~----~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~  315 (471)
                      ..-+.-+.+ .+.+.|...+.....   -+..    .+..++..+...+...++...+......  .++.....-.+...
T Consensus       219 ~~~~~rlar-~d~~~A~~~~~~~~~~~~~~~~~~~~~~~~ia~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~e~~~r~A  295 (618)
T 1qsa_A          219 AVAFASVAR-QDAENARLMIPSLAQAQQLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR--SQSTSLIERRVRMA  295 (618)
T ss_dssp             HHHHHHHHH-HCHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT--CCCHHHHHHHHHHH
T ss_pred             HHHHHHHHh-cCHHHHHHHHHhhhhccCCCHHHHHHHHHHHHHHHHHcCCChHHHHHHHhcccc--CCChHHHHHHHHHH
Confidence            222333333 378999999876532   1222    2333333344455466777777776554  34444455555556


Q ss_pred             hccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHH
Q 012108          316 SHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRV  395 (471)
Q Consensus       316 ~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~  395 (471)
                      .+.|+++.|...|+.+...  ........-=+..++...|+.++|..+|+.+.- +  .+|..++.+ .+.|..-.. ..
T Consensus       296 lr~~d~~~a~~~~~~l~~~--~~~~~r~~YW~~ra~~~~g~~~~a~~~~~~~a~-~--~~fYg~lAa-~~Lg~~~~~-~~  368 (618)
T 1qsa_A          296 LGTGDRRGLNTWLARLPME--AKEKDEWRYWQADLLLERGREAEAKEILHQLMQ-Q--RGFYPMVAA-QRIGEEYEL-KI  368 (618)
T ss_dssp             HHHTCHHHHHHHHHHSCTT--GGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHHT-S--CSHHHHHHH-HHTTCCCCC-CC
T ss_pred             HHCCCHHHHHHHHHHcccc--ccccHhHHHHHHHHHHHcCCHHHHHHHHHHHhc-C--CChHHHHHH-HHcCCCCCC-CC
Confidence            6789999999999988762  112233233355677889999999999999842 2  234333322 233321100 00


Q ss_pred             HHHHHHcCCCCCc----hhHHHHHHHHHhcCCHHHHHHHHHHhhhC
Q 012108          396 AKMVCAKSNYLSD----GELMMFANLYASCGQWEEANRWRNMMNDT  437 (471)
Q Consensus       396 ~~~~~~~~~~~~~----~~~~~l~~~~~~~g~~~~A~~~~~~m~~~  437 (471)
                          ....+....    ..-...+..+...|....|...+..+.+.
T Consensus       369 ----~~~~~~~~~~~~~~~~~~r~~~L~~~g~~~~a~~ew~~~~~~  410 (618)
T 1qsa_A          369 ----DKAPQNVDSALTQGPEMARVRELMYWNLDNTARSEWANLVKS  410 (618)
T ss_dssp             ----CCCCSCCCCHHHHSHHHHHHHHHHHTTCHHHHHHHHHHHHTT
T ss_pred             ----CCCChhHHhhhccChHHHHHHHHHHCCChhhHHHHHHHHHhc
Confidence                000010000    01123455677889999998888777543

>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=89.02  E-value=2.8  Score=28.76  Aligned_cols=60  Identities=17%  Similarity=0.291  Sum_probs=39.2

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 012108          187 EVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALID  247 (471)
Q Consensus       187 ~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  247 (471)
                      ++.+-++.+....+.|+.......+++|.+.+++..|.++++-++..- .+...+|..+++
T Consensus        28 e~rrglN~l~~~DlVP~P~ii~aaLrAcRRvND~alAVR~lE~iK~K~-~~~~~iY~~~lq   87 (109)
T 1v54_E           28 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ   87 (109)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCchhhHHHHHH
Confidence            455566666666677777777777777777777777777777766543 233445555543

>2wpv_A GET4, UPF0363 protein YOR164C; golgi-ER trafficking, tail-anchored protein, protein binding GET4; 1.99A {Saccharomyces cerevisiae} PDB: 3lku_A

Probab=88.37  E-value=12  Score=32.33  Aligned_cols=168  Identities=14%  Similarity=0.096  Sum_probs=103.6

Q ss_pred             HHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHH----HHHHHhCCCCCCHHHHHHHHHHHh
Q 012108          241 ATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKL----LGEMNDSCVKADDITFIGLLSACS  316 (471)
Q Consensus       241 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~----~~~~~~~~~~p~~~~~~~l~~~~~  316 (471)
                      +|.++..-|.+.+++++|++++..           -...+.+.|+...|-++    ++-..+.+++++......++..+.
T Consensus        35 ~~Rtl~~Ry~~~~~~~eAidlL~~-----------ga~~ll~~~Q~~sa~DLa~llvev~~~~~~~~~~~~~~rl~~l~~  103 (312)
T 2wpv_A           35 TLRTIANRYVRSKSYEHAIELISQ-----------GALSFLKAKQGGSGTDLIFYLLEVYDLAEVKVDDISVARLVRLIA  103 (312)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHH-----------HHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCCSHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhcCHHHHHHHHHH-----------HHHHHHHCCCcchHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence            455677778889999999988643           23445667776666554    555566788899888888887765


Q ss_pred             ccCcHH-HHHHHHHHhHH---hcCC--CCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhc---C
Q 012108          317 HAGLVQ-EGCELFSRMEK---DFGV--TRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIH---Q  387 (471)
Q Consensus       317 ~~~~~~-~a~~~~~~~~~---~~~~--~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~---g  387 (471)
                      .....+ .=.++++++.+   +.|-  .-++.....+...|.+.|++.+|...|- .+-..|...+..++.-+...   |
T Consensus       104 ~~p~~~~~r~~fi~~ai~WS~~~g~~~~Gdp~LH~~~a~~~~~e~~~~~A~~H~i-~~~~~s~~~~a~~l~~w~~~~~~~  182 (312)
T 2wpv_A          104 ELDPSEPNLKDVITGMNNWSIKFSEYKFGDPYLHNTIGSKLLEGDFVYEAERYFM-LGTHDSMIKYVDLLWDWLCQVDDI  182 (312)
T ss_dssp             TCCTTCTTHHHHHHHHHHHHHHTSSCTTCCHHHHHHHHHHHHHTTCHHHHHHHHH-TSCHHHHHHHHHHHHHHHHHTTCC
T ss_pred             HCCCCCchHHHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHhhcCCHHHHHHHHH-hCCCccHHHHHHHHHHHHHhcCCC
Confidence            532111 11233333332   1122  2367888899999999999999998775 32122455555555444333   3


Q ss_pred             CchHHHHHHHHHHHcCCCCCchhHH-HHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          388 DLEIGDRVAKMVCAKSNYLSDGELM-MFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~~~~~~-~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      ...+                ...|. ..+--|...|+...|..+++...+
T Consensus       183 ~~~e----------------~dlf~~RaVL~yL~l~n~~~A~~~~~~f~~  216 (312)
T 2wpv_A          183 EDST----------------VAEFFSRLVFNYLFISNISFAHESKDIFLE  216 (312)
T ss_dssp             CHHH----------------HHHHHHHHHHHHHHTTBHHHHHHHHHHHHH
T ss_pred             Ccch----------------HHHHHHHHHHHHHHhcCHHHHHHHHHHHHH
Confidence            3222                22221 223346677899999888887653

>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=87.77  E-value=3.1  Score=30.28  Aligned_cols=63  Identities=10%  Similarity=0.109  Sum_probs=51.6

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      +.-+..+-++.+....+.|++......+++|.+.+++..|..+|+-++.+.  .+...+|..+++
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            444677777888888899999999999999999999999999999998843  444666777765

>2uwj_G Type III export protein PSCG; virulence, chaperones, coiled coil, needle formation, type III secretion, bacterial pathogenicity; 2.0A {Pseudomonas aeruginosa}

Probab=87.75  E-value=5  Score=27.40  Aligned_cols=88  Identities=18%  Similarity=0.123  Sum_probs=62.6

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 012108          218 GSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMN  297 (471)
Q Consensus       218 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  297 (471)
                      ..-++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+...-||...|-+|..  .+.|..+++...+.++.
T Consensus        20 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   95 (115)
T 2uwj_G           20 HCHEEALCIAEWLERLGQ--DEAARLIRISSLANQGRYQEALAFAHGNPWPALEPWFALCE--WHLGLGAALDRRLAGLG   95 (115)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHGGGTTCCCGGGHHHHHHHH--HHTTCHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            346677777777766552  33333334556778999999999999999899998877654  47788888888888888


Q ss_pred             hCCCCCCHHHHHH
Q 012108          298 DSCVKADDITFIG  310 (471)
Q Consensus       298 ~~~~~p~~~~~~~  310 (471)
                      .+| .|....|..
T Consensus        96 ~sg-~p~~q~Fa~  107 (115)
T 2uwj_G           96 GSS-DPALADFAA  107 (115)
T ss_dssp             TCS-SHHHHHHHH
T ss_pred             hCC-CHHHHHHHH
Confidence            776 455555543

>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=87.28  E-value=5.4  Score=27.28  Aligned_cols=88  Identities=18%  Similarity=0.110  Sum_probs=62.1

Q ss_pred             CChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHH
Q 012108          218 GSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMN  297 (471)
Q Consensus       218 ~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~  297 (471)
                      ..-++|..+-+.+...+.  ...+--+-+..+...|++++|..+.+...-||...|-+|..  .+.|..+++...+.++.
T Consensus        21 H~HqEA~tIAdwL~~~~~--~E~v~lIR~sSLmNrG~Yq~Al~l~~~~c~pdlepw~ALce--~rlGl~s~le~rL~~la   96 (116)
T 2p58_C           21 HYHEEANCIAEWLHLKGE--EEAVQLIRLSSLMNRGDYASALQQGNKLAYPDLEPWLALCE--YRLGLGSALESRLNRLA   96 (116)
T ss_dssp             TCHHHHHHHHHHHHHTTC--HHHHHHHHHHHHHHTTCHHHHHHHHTTSCCGGGHHHHHHHH--HHHTCHHHHHHHHHHHT
T ss_pred             hHHHHHHHHHHHHHhCCc--HHHHHHHHHHHHHcchhHHHHHHhcCCCCCchHHHHHHHHH--HhcccHHHHHHHHHHHH
Confidence            346777777777766552  33333334456778999999999999999899998877754  36788888888887887


Q ss_pred             hCCCCCCHHHHHH
Q 012108          298 DSCVKADDITFIG  310 (471)
Q Consensus       298 ~~~~~p~~~~~~~  310 (471)
                      .+| .|....|..
T Consensus        97 ~sg-~p~~q~Fa~  108 (116)
T 2p58_C           97 RSQ-DPRIQTFVN  108 (116)
T ss_dssp             TCC-CHHHHHHHH
T ss_pred             hCC-CHHHHHHHH
Confidence            776 455555543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=86.32  E-value=1.9  Score=35.94  Aligned_cols=56  Identities=18%  Similarity=0.118  Sum_probs=38.6

Q ss_pred             HHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          350 LLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       350 ~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+.+.|++++|++....- +-.| |...-..++..+|-.|++++|.+-++...+.+|.
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~l~p~   63 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPE   63 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGG
T ss_pred             HHHhCCCHHHHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhCch
Confidence            455677777777766544 3334 5556666777777788888888877777777766

>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=82.97  E-value=7.4  Score=28.41  Aligned_cols=60  Identities=17%  Similarity=0.291  Sum_probs=40.2

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHH
Q 012108          187 EVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALID  247 (471)
Q Consensus       187 ~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~  247 (471)
                      +..+-++.+....+.|+.......+++|.+.+++..|.++++-++..- .+...+|..+++
T Consensus        71 ElrrglN~l~~~DlVPeP~Ii~AALrAcRRvNDfalAVR~lE~vK~K~-~~~~~iY~y~lq  130 (152)
T 2y69_E           71 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVIQ  130 (152)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHhc-CCchhhHHHHHH
Confidence            355556666666777777777777788888888888888777776543 333445655543

>1zbp_A Hypothetical protein VPA1032; alpha-beta protein, structural genomics, PSI, protein struct initiative; 2.40A {Vibrio parahaemolyticus} SCOP: e.61.1.1

Probab=82.26  E-value=21  Score=29.83  Aligned_cols=116  Identities=16%  Similarity=0.110  Sum_probs=61.4

Q ss_pred             HHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC----hhHHHHHHHHHhhc
Q 012108          279 GLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK----LEHYGCMVDLLGRA  354 (471)
Q Consensus       279 ~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~  354 (471)
                      .+.+.|++++++.....-++.. +-|...-..+++.+|-.|++++|.+-++...+   ..|+    ...|..+|.+    
T Consensus         6 ~ll~~g~L~~al~~~~~~VR~~-P~da~~R~~LfqLLcv~G~w~RA~~QL~~~a~---l~p~~~~~a~~yr~lI~a----   77 (273)
T 1zbp_A            6 NALSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK---LFPEYLPGASQLRHLVKA----   77 (273)
T ss_dssp             HHTTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH---HCGGGHHHHHHHHHHHHH----
T ss_pred             HHHhCCCHHHHHHHHHHHHHhC-CcCHHHHHHHHHHHHhcCCHHHHHHHHHHHHH---hCchhhHHHHHHHHHHHH----
Confidence            3456677777777776666652 44555566677777777777777777776665   2233    2233333321    


Q ss_pred             CCHHHHH-HHHHhC--C--CCCCHhHHHHHHHHHh--hcCCchHHHHHHHHHHHcCCC
Q 012108          355 RLLDRAI-ELIEAM--P--FEPTESILGALLSACV--IHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       355 g~~~~A~-~~~~~~--~--~~p~~~~~~~l~~~~~--~~g~~~~a~~~~~~~~~~~~~  405 (471)
                         +... ++|.--  +  +.....-...++.+..  ..|+.++|..+-.++.+.-|.
T Consensus        78 ---E~~R~~vfaG~~~P~~~g~~~~w~~~ll~Al~~~~~G~~~~A~~lr~~A~e~ap~  132 (273)
T 1zbp_A           78 ---AQARKDFAQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQE  132 (273)
T ss_dssp             ---HHHHHHHTTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC
T ss_pred             ---HHHHHHHHcCCCCCCCCCCCHHHHHHHHHHHHHhhcCCHHHHHHHHHHHHhcCcc
Confidence               1111 122111  0  1112223344444433  457777777777777766655

>4b4t_R RPN7, 26S proteasome regulatory subunit RPN7; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=82.03  E-value=8.8  Score=35.03  Aligned_cols=93  Identities=14%  Similarity=0.120  Sum_probs=57.7

Q ss_pred             hHHHHHHHHHhCCCHHHHHHHHHhccc------cChHHHHHHHHHHHhcCCHHHHHHHHHHHHh---CCCCCCHHHH--H
Q 012108          140 SWNSLILAYTNAGEMEKAGEMFKKMLV------KNVITWNTMVTGYLRSQLYIEVVDLFDEMKA---GNVKPDYLTV--T  208 (471)
Q Consensus       140 ~~~~l~~~~~~~~~~~~A~~~~~~~~~------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~---~g~~p~~~~~--~  208 (471)
                      +...+...|.+.|++++|.+.|.++..      .-...+-.+++.+...+++..+...+.+...   .+-.|+....  .
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            556677888888888888888887732      2345666777888888888888888877643   2222222110  1


Q ss_pred             HHHHHHHccCChHHHHHHHHHHHH
Q 012108          209 SVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       209 ~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      .-...+...+++..|...|-+...
T Consensus       213 ~~gl~~l~~r~f~~Aa~~f~e~~~  236 (429)
T 4b4t_R          213 YYGIHCLAVRNFKEAAKLLVDSLA  236 (429)
T ss_dssp             HHHHGGGGTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhChHHHHHHHHHHHhc
Confidence            111223456777777776665543

>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=81.66  E-value=18  Score=28.70  Aligned_cols=52  Identities=4%  Similarity=-0.096  Sum_probs=30.5

Q ss_pred             cCCHHHHHHHHHhC---CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          354 ARLLDRAIELIEAM---PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       354 ~g~~~~A~~~~~~~---~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .+...++.++|..|   ++ .--...|......+...|++++|..+|+..++.+-.
T Consensus        92 ~~~~~~p~~if~~L~~~~IG~~~AlfYe~wA~~lE~~g~~~~A~~Vy~~GI~~~A~  147 (202)
T 3esl_A           92 SNNFHESENTFKYMFNKGIGTKLSLFYEEFSKLLENAQFFLEAKVLLELGAENNCR  147 (202)
T ss_dssp             TTCHHHHHHHHHHHHHHTSSTTBHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCB
T ss_pred             ccccCCHHHHHHHHHHCCCcHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHcCCc
Confidence            34344555555554   22 223455666666666677777777777777766655

>1oyz_A Hypothetical protein YIBA; structural genomics, PSI, protein structure initiative, northeast structural genomics consortium, NESG; 2.10A {Escherichia coli} SCOP: a.118.1.16

Probab=81.59  E-value=23  Score=29.78  Aligned_cols=19  Identities=21%  Similarity=0.153  Sum_probs=8.9

Q ss_pred             CChhhHHHHHHHHHhcCCh
Q 012108          268 KDVFCWNAMILGLALHGYG  286 (471)
Q Consensus       268 ~~~~~~~~l~~~~~~~~~~  286 (471)
                      ++...-...+.++.+.|+.
T Consensus       204 ~~~~vR~~A~~aL~~~~~~  222 (280)
T 1oyz_A          204 KNEEVRIEAIIGLSYRKDK  222 (280)
T ss_dssp             SCHHHHHHHHHHHHHTTCG
T ss_pred             CCHHHHHHHHHHHHHhCCH
Confidence            4444444444555555543

---

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	471
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.94
d1w3ba_	388	O-GlcNAc transferase p110 subunit, OGT {Human (Hom	99.93
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.69
d1fcha_	323	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	99.65
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.34
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.24
d2h6fa1	315	Protein farnesyltransferase alpha-subunit {Human (	99.23
d1hz4a_	366	Transcription factor MalT domain III {Escherichia	99.22
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.22
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.22
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.22
d1xnfa_	259	Lipoprotein NlpI {Escherichia coli [TaxId: 562]}	99.21
d2onda1	308	Cleavage stimulation factor 77 kDa subunit CSTF3 {	99.21
d1dcea1	334	Rab geranylgeranyltransferase alpha-subunit, N-ter	99.03
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.86
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.77
d1elwa_	117	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.76
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.74
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.74
d1qqea_	290	Vesicular transport protein sec17 {Baker's yeast (	98.74
d1hh8a_	192	Neutrophil cytosolic factor 2 (NCF-2, p67-phox) {H	98.73
d2c2la1	201	STIP1 homology and U box-containing protein 1, STU	98.7
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.68
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.61
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.61
d1a17a_	159	Protein phosphatase 5 {Human (Homo sapiens) [TaxId	98.6
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.54
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.48
d1nzna_	122	Mitochondria fission protein Fis1 {Human (Homo sap	98.46
d1ouva_	265	Cysteine rich protein C (HcpC) {Helicobacter pylor	98.43
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.42
d1p5qa1	170	FKBP52 (FKBP4), C-terminal domain {Human (Homo sap	98.38
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.3
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.29
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.29
d1b89a_	336	Clathrin heavy chain proximal leg segment {Cow (Bo	98.27
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.27
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.2
d1hxia_	112	Peroxin pex5 (peroxisomal targeting signal 1 (PTS1	98.19
d2fbna1	153	Putative 70 kda peptidylprolyl isomerase PFL2275c	98.17
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	98.13
d1kt1a1	168	FKBP51, C-terminal domain {Monkey (Saimiri bolivie	98.13
d1ihga1	169	Cyclophilin 40 {Cow (Bos taurus) [TaxId: 9913]}	98.11
d1ya0a1	497	SMG-7 {Human (Homo sapiens) [TaxId: 9606]}	98.09
d1elra_	128	Hop {Human (Homo sapiens) [TaxId: 9606]}	98.0
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.74
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.73
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.71
d1zu2a1	145	Mitochondrial import receptor subunit tom20-3 {Tha	97.68
d1zbpa1	264	Hypothetical protein VPA1032 {Vibrio parahaemolyti	97.66
d2ff4a2	179	Probable regulatory protein EmbR, middle domain {M	97.63
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.59
d1tjca_	95	Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human	97.55
d2hr2a1	156	Hypothetical protein CT2138 {Chlorobium tepidum [T	97.44
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	96.75
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	96.58
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.38
d1wy6a1	161	Hypothetical protein ST1625 {Archaeon Sulfolobus t	96.03
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	95.9
d1qsaa1	450	70 KDa soluble lytic transglycosylase (SLT70), sup	95.87
d1klxa_	133	Cysteine rich protein B (HcpB) {Helicobacter pylor	95.59
d2pqrb1	124	Mitochondria fission protein Fis1 {Baker's yeast (	92.82
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	90.78
d1v54e_	105	Cytochrome c oxidase subunit E {Cow (Bos taurus) [	88.54

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.94  E-value=1.7e-23  Score=191.07  Aligned_cols=373  Identities=10%  Similarity=-0.013  Sum_probs=256.0

Q ss_pred             HHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC--C-CcccHHHHHHHHHcCCCH
Q 012108           16 LLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE--K-DIIAWNSMLDAFASCGQM   92 (471)
Q Consensus        16 ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~--~-~~~~~~~li~~~~~~g~~   92 (471)
                      +...+.+.|++++|.+.++++++.. |-+..++..+..+|.+.|++++|...|++..+  | +..+|..+..++.+.|++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~-p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~   83 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQE-PDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQL   83 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhccc
Confidence            3455667788888888888887764 33566777777777778888888887777543  2 344556666666666666


Q ss_pred             HHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhc---cccCh
Q 012108           93 DHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKM---LVKNV  169 (471)
Q Consensus        93 ~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~---~~~~~  169 (471)
                      ++|+..+......++                            .+..............+....+.......   .....
T Consensus        84 ~~A~~~~~~~~~~~~----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  135 (388)
T d1w3ba_          84 QEAIEHYRHALRLKP----------------------------DFIDGYINLAAALVAAGDMEGAVQAYVSALQYNPDLY  135 (388)
T ss_dssp             HHHHHHHHHHHHHCT----------------------------TCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHCTTCT
T ss_pred             ccccccccccccccc----------------------------ccccccccccccccccccccccccccccccccccccc
Confidence            666666555432211                            11112222222222223333322222222   22233


Q ss_pred             HHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 012108          170 ITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMY  249 (471)
Q Consensus       170 ~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  249 (471)
                      .............+....+...+.+..... +.+...+..+...+...|+++.|...++...+.. +.+...+..+...+
T Consensus       136 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~  213 (388)
T d1w3ba_         136 CVRSDLGNLLKALGRLEEAKACYLKAIETQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLD-PNFLDAYINLGNVL  213 (388)
T ss_dssp             HHHHHHHHHHHTTSCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             cccccccccccccchhhhhHHHHHHhhccC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhC-cccHHHHHHHhhhh
Confidence            344444455555666666666666555432 2234455556666667777777777777766654 44566677777777


Q ss_pred             HhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHH
Q 012108          250 AKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCE  326 (471)
Q Consensus       250 ~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~  326 (471)
                      ...|++++|+..+++...   .+...+..+...+.+.|++++|+..|++..+.. +-+..++..+...+...|++++|.+
T Consensus       214 ~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~l~~~~~~~~~~~~A~~  292 (388)
T d1w3ba_         214 KEARIFDRAVAAYLRALSLSPNHAVVHGNLACVYYEQGLIDLAIDTYRRAIELQ-PHFPDAYCNLANALKEKGSVAEAED  292 (388)
T ss_dssp             HTTTCTTHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTC-SSCHHHHHHHHHHHHHHSCHHHHHH
T ss_pred             hccccHHHHHHHHHHhHHHhhhHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCCHHHHHH
Confidence            777777777777765443   355667777788888888888888888887752 3356778888899999999999999


Q ss_pred             HHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCC
Q 012108          327 LFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSN  404 (471)
Q Consensus       327 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~  404 (471)
                      .++....  ..+.+...+..+...+...|++++|.+.|++. ...| +..++..+..++...|++++|...|+++++.+|
T Consensus       293 ~~~~~~~--~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P  370 (388)
T d1w3ba_         293 CYNTALR--LCPTHADSLNNLANIKREQGNIEEAVRLYRKALEVFPEFAAAHSNLASVLQQQGKLQEALMHYKEAIRISP  370 (388)
T ss_dssp             HHHHHHH--HCTTCHHHHHHHHHHHHTTTCHHHHHHHHHHHTTSCTTCHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCT
T ss_pred             HHHhhhc--cCCccchhhhHHHHHHHHCCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCC
Confidence            9999887  45667888889999999999999999999986 5555 467888899999999999999999999999999


Q ss_pred             CCCchhHHHHHHHHHhcCC
Q 012108          405 YLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       405 ~~~~~~~~~l~~~~~~~g~  423 (471)
                      . ++..|..++.+|.+.||
T Consensus       371 ~-~~~a~~~lg~~~~~~~D  388 (388)
T d1w3ba_         371 T-FADAYSNMGNTLKEMQD  388 (388)
T ss_dssp             T-CHHHHHHHHHHHHHTCC
T ss_pred             C-CHHHHHHHHHHHHHcCC
Confidence            9 89999999999998886

>d1w3ba_ a.118.8.1 (A:) O-GlcNAc transferase p110 subunit, OGT {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: O-GlcNAc transferase p110 subunit, OGT
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.93  E-value=1.2e-22  Score=185.41  Aligned_cols=354  Identities=11%  Similarity=0.019  Sum_probs=284.5

Q ss_pred             HHHHHHcCCCHHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC---CChhhHHHHHHHHHhCCCHH
Q 012108           82 MLDAFASCGQMDHAMKLIDLMPLK---DVTSFNIMISGYARIGKIHSARYIFDKVPA---KDVVSWNSLILAYTNAGEME  155 (471)
Q Consensus        82 li~~~~~~g~~~~A~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~  155 (471)
                      +...+.+.|++++|.+.++++.+.   ++..+..+..++.+.|++++|...|+++.+   .+..++..+..+|.+.|+++
T Consensus         5 la~~~~~~G~~~~A~~~~~~~l~~~p~~~~~~~~la~~~~~~~~~~~A~~~~~~al~~~p~~~~a~~~l~~~~~~~g~~~   84 (388)
T d1w3ba_           5 LAHREYQAGDFEAAERHCMQLWRQEPDNTGVLLLLSSIHFQCRRLDRSAHFSTLAIKQNPLLAEAYSNLGNVYKERGQLQ   84 (388)
T ss_dssp             HHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHH
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHhhhhcccc
Confidence            345566777888888777776432   566777778888888888888888887733   35677888889999999999


Q ss_pred             HHHHHHHhcccc---ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHH
Q 012108          156 KAGEMFKKMLVK---NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATD  232 (471)
Q Consensus       156 ~A~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  232 (471)
                      +|.+.+......   +...+..........+....+........... .................+....+...+.....
T Consensus        85 ~A~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (388)
T d1w3ba_          85 EAIEHYRHALRLKPDFIDGYINLAAALVAAGDMEGAVQAYVSALQYN-PDLYCVRSDLGNLLKALGRLEEAKACYLKAIE  163 (388)
T ss_dssp             HHHHHHHHHHHHCTTCHHHHHHHHHHHHHHSCSSHHHHHHHHHHHHC-TTCTHHHHHHHHHHHTTSCHHHHHHHHHHHHH
T ss_pred             ccccccccccccccccccccccccccccccccccccccccccccccc-cccccccccccccccccchhhhhHHHHHHhhc
Confidence            999999888432   34445555555566666666666665555443 23344444555566777888888888888877


Q ss_pred             cCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHH
Q 012108          233 NGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFI  309 (471)
Q Consensus       233 ~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~  309 (471)
                      .. +.+...+..+...+...|++++|...+++...   .+..+|..+...+...|++++|...+++....+ +.+...+.
T Consensus       164 ~~-~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~-~~~~~~~~  241 (388)
T d1w3ba_         164 TQ-PNFAVAWSNLGCVFNAQGEIWLAIHHFEKAVTLDPNFLDAYINLGNVLKEARIFDRAVAAYLRALSLS-PNHAVVHG  241 (388)
T ss_dssp             HC-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTTCTTHHHHHHHHHHHHC-TTCHHHHH
T ss_pred             cC-cchhHHHHhhcccccccCcHHHHHHHHHHHHHhCcccHHHHHHHhhhhhccccHHHHHHHHHHhHHHh-hhHHHHHH
Confidence            65 56778888899999999999999999987543   466788999999999999999999999988764 44667788


Q ss_pred             HHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcC
Q 012108          310 GLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQ  387 (471)
Q Consensus       310 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g  387 (471)
                      .+...+.+.|++++|...|+++.+  ..+.++..+..+...+...|++++|.+.++..  ..+.+...+..+...+...|
T Consensus       242 ~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  319 (388)
T d1w3ba_         242 NLACVYYEQGLIDLAIDTYRRAIE--LQPHFPDAYCNLANALKEKGSVAEAEDCYNTALRLCPTHADSLNNLANIKREQG  319 (388)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHH--TCSSCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTTT
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHH--hCCCCHHHHHHHHHHHHHcCCHHHHHHHHHhhhccCCccchhhhHHHHHHHHCC
Confidence            889999999999999999999987  44556888999999999999999999999987  34557788889999999999


Q ss_pred             CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          388 DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ++++|+..++++++..|. ++.++..++.+|.+.|++++|.+.|++..+..|..
T Consensus       320 ~~~~A~~~~~~al~~~p~-~~~~~~~la~~~~~~g~~~~A~~~~~~al~l~P~~  372 (388)
T d1w3ba_         320 NIEEAVRLYRKALEVFPE-FAAAHSNLASVLQQQGKLQEALMHYKEAIRISPTF  372 (388)
T ss_dssp             CHHHHHHHHHHHTTSCTT-CHHHHHHHHHHHHTTTCCHHHHHHHHHHHTTCTTC
T ss_pred             CHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            999999999999999999 89999999999999999999999999998876653

>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=99.69  E-value=1.4e-15  Score=134.49  Aligned_cols=243  Identities=12%  Similarity=-0.079  Sum_probs=156.2

Q ss_pred             HHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC
Q 012108          174 TMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG  253 (471)
Q Consensus       174 ~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~  253 (471)
                      .....+.+.|++++|+..|+++++.. +-+...|..+..++...|++++|...+.++.+.. +.+...+..++..|...|
T Consensus        24 ~~g~~~~~~g~~~~A~~~~~~al~~~-P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          24 EEGLRRLQEGDLPNAVLLFEAAVQQD-PKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHSC-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            34556777778888888887777653 2245566777777777777777777777777664 445666777777777777


Q ss_pred             ChHHHHHHHhcCCCCChh---hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHH
Q 012108          254 SIEQSLEVFYKSQVKDVF---CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSR  330 (471)
Q Consensus       254 ~~~~a~~~~~~~~~~~~~---~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~  330 (471)
                      ++++|.+.+++....++.   .+.......                    ...+.......+..+...+.+.++...+.+
T Consensus       102 ~~~~A~~~~~~~~~~~~~~~~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~  161 (323)
T d1fcha_         102 LQRQACEILRDWLRYTPAYAHLVTPAEEGA--------------------GGAGLGPSKRILGSLLSDSLFLEVKELFLA  161 (323)
T ss_dssp             CHHHHHHHHHHHHHTSTTTGGGCC-----------------------------------CTTHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhccchHHHHHhhhhhh--------------------hhcccccchhhHHHHHHhhHHHHHHHHHHH
Confidence            777777766653321110   000000000                    000000111112223344566677777777


Q ss_pred             hHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCc
Q 012108          331 MEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSD  408 (471)
Q Consensus       331 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~  408 (471)
                      +.+.....++...+..+...+...|++++|...+++. ...| +..+|..+...+...|++++|.+.++++++..|. ++
T Consensus       162 al~~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~-~~  240 (323)
T d1fcha_         162 AVRLDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALSVRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPG-YI  240 (323)
T ss_dssp             HHHHSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CH
T ss_pred             HHHHhhcccccccchhhHHHHHHHHHHhhhhcccccccccccccccchhhhhhcccccccchhHHHHHHHHHHHhhc-cH
Confidence            6653333445666777777888888888888888776 2233 4667777888888888888888888888888887 78


Q ss_pred             hhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          409 GELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       409 ~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      .++..++.+|.+.|++++|++.|++..+..+
T Consensus       241 ~a~~~lg~~~~~~g~~~~A~~~~~~al~l~p  271 (323)
T d1fcha_         241 RSRYNLGISCINLGAHREAVEHFLEALNMQR  271 (323)
T ss_dssp             HHHHHHHHHHHHHTCHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHCCCHHHHHHHHHHHHHhCC
Confidence            8888888888888888888888888776543

>d1fcha_ a.118.8.1 (A:) Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor) {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Peroxin pex5 (peroxisomal targeting signal 1 (PTS1) receptor)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=1.5e-14  Score=127.76  Aligned_cols=266  Identities=10%  Similarity=-0.014  Sum_probs=194.6

Q ss_pred             HHHHHHHHhCCCHHHHHHHHHhccc--c-ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccC
Q 012108          142 NSLILAYTNAGEMEKAGEMFKKMLV--K-NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLG  218 (471)
Q Consensus       142 ~~l~~~~~~~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~  218 (471)
                      -.....+.+.|++++|...|+++++  | +..+|..+..++...|++++|...|.+..+.. +-+...+..+...+...|
T Consensus        23 ~~~g~~~~~~g~~~~A~~~~~~al~~~P~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~-p~~~~~~~~la~~~~~~~  101 (323)
T d1fcha_          23 FEEGLRRLQEGDLPNAVLLFEAAVQQDPKHMEAWQYLGTTQAENEQELLAISALRRCLELK-PDNQTALMALAVSFTNES  101 (323)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHSCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHcCChHHHHHHHHhhhccc-cccccccccccccccccc
Confidence            3566778999999999999999843  3 56789999999999999999999999988753 334667788888999999


Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHh
Q 012108          219 SLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMND  298 (471)
Q Consensus       219 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  298 (471)
                      ++++|.+.++.+.... +.............. .               .+.......+..+...+.+.+|...+.+...
T Consensus       102 ~~~~A~~~~~~~~~~~-~~~~~~~~~~~~~~~-~---------------~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~  164 (323)
T d1fcha_         102 LQRQACEILRDWLRYT-PAYAHLVTPAEEGAG-G---------------AGLGPSKRILGSLLSDSLFLEVKELFLAAVR  164 (323)
T ss_dssp             CHHHHHHHHHHHHHTS-TTTGGGCC-------------------------------CTTHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccccccchhhHHHhc-cchHHHHHhhhhhhh-h---------------cccccchhhHHHHHHhhHHHHHHHHHHHHHH
Confidence            9999999999998764 221111111000000 0               0011111122233445667788888887765


Q ss_pred             CC-CCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhH
Q 012108          299 SC-VKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESI  375 (471)
Q Consensus       299 ~~-~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~  375 (471)
                      .. -.++...+..+...+...|++++|...+++...  ..+.+...|..+..+|...|++++|.+.|++. ...| +..+
T Consensus       165 ~~p~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~~~~a  242 (323)
T d1fcha_         165 LDPTSIDPDVQCGLGVLFNLSGEYDKAVDCFTAALS--VRPNDYLLWNKLGATLANGNQSEEAVAAYRRALELQPGYIRS  242 (323)
T ss_dssp             HSTTSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHH
T ss_pred             HhhcccccccchhhHHHHHHHHHHhhhhcccccccc--cccccccchhhhhhcccccccchhHHHHHHHHHHHhhccHHH
Confidence            42 234567788888899999999999999999987  33456788999999999999999999999987 3444 5678


Q ss_pred             HHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCch-----------hHHHHHHHHHhcCCHHHHH
Q 012108          376 LGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDG-----------ELMMFANLYASCGQWEEAN  428 (471)
Q Consensus       376 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~-----------~~~~l~~~~~~~g~~~~A~  428 (471)
                      +..++.+|.+.|++++|+..|+++++..|. +..           .|..+..++...|+.+.+.
T Consensus       243 ~~~lg~~~~~~g~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~~~~~~~l~~al~~~~~~d~~~  305 (323)
T d1fcha_         243 RYNLGISCINLGAHREAVEHFLEALNMQRK-SRGPRGEGGAMSENIWSTLRLALSMLGQSDAYG  305 (323)
T ss_dssp             HHHHHHHHHHHTCHHHHHHHHHHHHHHHHT-C------CCCCCHHHHHHHHHHHHHHTCGGGHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHHHHHhCCc-ChhhhhhhHHHHHHHHHHHHHHHHHcCCHHHHH
Confidence            899999999999999999999999997665 333           4455666777777766543

>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=99.34  E-value=3.1e-10  Score=100.76  Aligned_cols=160  Identities=12%  Similarity=-0.009  Sum_probs=68.2

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhC----CCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC-----hhHHHH
Q 012108          276 MILGLALHGYGYAALKLLGEMNDS----CVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK-----LEHYGC  346 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~----~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~-----~~~~~~  346 (471)
                      +...+...|+++.+...+......    +.......+......+...++...+...+.+..........     ...+..
T Consensus       139 la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~  218 (366)
T d1hz4a_         139 RAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAMLIQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKV  218 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHH
T ss_pred             HHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHH
Confidence            334444455555555544444322    11111223333334444455555555444444331111110     122333


Q ss_pred             HHHHHhhcCCHHHHHHHHHhC-CCCC-----CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcC----CCC-CchhHHHHH
Q 012108          347 MVDLLGRARLLDRAIELIEAM-PFEP-----TESILGALLSACVIHQDLEIGDRVAKMVCAKS----NYL-SDGELMMFA  415 (471)
Q Consensus       347 l~~~~~~~g~~~~A~~~~~~~-~~~p-----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~----~~~-~~~~~~~l~  415 (471)
                      +...+...|++++|...+++. ...|     ....+..+..++...|++++|...++++....    ..| ....+..++
T Consensus       219 ~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la  298 (366)
T d1hz4a_         219 RVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIARAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLN  298 (366)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHH
Confidence            344445555555555555544 1111     12233344455555555555555555544321    110 223444555


Q ss_pred             HHHHhcCCHHHHHHHHHHhh
Q 012108          416 NLYASCGQWEEANRWRNMMN  435 (471)
Q Consensus       416 ~~~~~~g~~~~A~~~~~~m~  435 (471)
                      .+|.+.|++++|.+.+++..
T Consensus       299 ~~~~~~g~~~~A~~~l~~Al  318 (366)
T d1hz4a_         299 QLYWQAGRKSDAQRVLLDAL  318 (366)
T ss_dssp             HHHHHHTCHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHH
Confidence            55555555555555555543

>d2h6fa1 a.118.6.1 (A:55-369) Protein farnesyltransferase alpha-subunit {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Protein prenylyltransferase
family: Protein prenylyltransferase
domain: Protein farnesyltransferase alpha-subunit
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.24  E-value=1.2e-09  Score=94.86  Aligned_cols=178  Identities=10%  Similarity=0.021  Sum_probs=95.0

Q ss_pred             HHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccC-ChHHHHHHHHHHHHcCCCCchhHHHHHHHHH
Q 012108          171 TWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLG-SLETGARIHVYATDNGLASNPHATTALIDMY  249 (471)
Q Consensus       171 ~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  249 (471)
                      +|+.+...+.+.+.+++|+++++++++.+ +-+...|+....++...| ++++|...++.+.+.. +-+..+|..+...+
T Consensus        45 a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~-p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          45 VYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQ-PKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHH-HhhhhHHHHHhHHH
Confidence            44455555555666666666666665532 222334444444544444 3566666666665554 44555666666666


Q ss_pred             HhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccC------c
Q 012108          250 AKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAG------L  320 (471)
Q Consensus       250 ~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~------~  320 (471)
                      .+.|++++|++.++++..   .+..+|..+...+...|++++|+..++++++.+ +-+...|+.+...+.+.+      .
T Consensus       123 ~~l~~~~eAl~~~~kal~~dp~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~~~-p~n~~a~~~r~~~l~~~~~~~~~~~  201 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQDAKNYHAWQHRQWVIQEFKLWDNELQYVDQLLKED-VRNNSVWNQRYFVISNTTGYNDRAV  201 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCSCSHHH
T ss_pred             HhhccHHHHHHHHhhhhhhhhcchHHHHHHHHHHHHHHhhHHHHHHHHHHHHHC-CccHHHHHHHHHHHHHccccchhhh
Confidence            666666666666655443   245556666666666666666666666666542 223444544443333322      2


Q ss_pred             HHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh
Q 012108          321 VQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR  353 (471)
Q Consensus       321 ~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~  353 (471)
                      +++|.+.+.++.+  ..+.+...|..+...+..
T Consensus       202 ~~~ai~~~~~al~--~~P~~~~~~~~l~~ll~~  232 (315)
T d2h6fa1         202 LEREVQYTLEMIK--LVPHNESAWNYLKGILQD  232 (315)
T ss_dssp             HHHHHHHHHHHHH--HSTTCHHHHHHHHHHHTT
T ss_pred             hHHhHHHHHHHHH--hCCCchHHHHHHHHHHHh
Confidence            4566666666655  233345555555444443

>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=99.23  E-value=5.3e-10  Score=97.11  Aligned_cols=225  Identities=10%  Similarity=0.031  Sum_probs=174.6

Q ss_pred             HHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcC-ChHHHHHHHhcCCC---CChhhHHHHHHHH
Q 012108          205 LTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCG-SIEQSLEVFYKSQV---KDVFCWNAMILGL  280 (471)
Q Consensus       205 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~-~~~~a~~~~~~~~~---~~~~~~~~l~~~~  280 (471)
                      ..++.+...+.+.+..++|.+.++.+++.+ |-+...|+....++...| ++++|+..+++...   .+..+|..+...+
T Consensus        44 ~a~~~~~~~~~~~e~~~~Al~~~~~ai~ln-P~~~~a~~~r~~~l~~l~~~~~eal~~~~~al~~~p~~~~a~~~~~~~~  122 (315)
T d2h6fa1          44 DVYDYFRAVLQRDERSERAFKLTRDAIELN-AANYTVWHFRRVLLKSLQKDLHEEMNYITAIIEEQPKNYQVWHHRRVLV  122 (315)
T ss_dssp             HHHHHHHHHHHHTCCCHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHCTTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCCchHHHHHHHHHHHHHC-CCChHHHHHHHHHHHHhCcCHHHHHHHHHHHHHHHHhhhhHHHHHhHHH
Confidence            345566667788899999999999999986 777888999999988876 58999999987654   4678999999999


Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC----
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL----  356 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~----  356 (471)
                      .+.|++++|+..++++.+.. +-+...|..+...+...|++++|++.++++.+  -.+.+...|+.+..++.+.+.    
T Consensus       123 ~~l~~~~eAl~~~~kal~~d-p~n~~a~~~~~~~~~~~~~~~~Al~~~~~al~--~~p~n~~a~~~r~~~l~~~~~~~~~  199 (315)
T d2h6fa1         123 EWLRDPSQELEFIADILNQD-AKNYHAWQHRQWVIQEFKLWDNELQYVDQLLK--EDVRNNSVWNQRYFVISNTTGYNDR  199 (315)
T ss_dssp             HHHTCCTTHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCCTTHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTCSCSH
T ss_pred             HhhccHHHHHHHHhhhhhhh-hcchHHHHHHHHHHHHHHhhHHHHHHHHHHHH--HCCccHHHHHHHHHHHHHccccchh
Confidence            99999999999999999863 34678999999999999999999999999998  344567788877777666554    


Q ss_pred             --HHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCC-chhHHHHHHHHHhc--CC------
Q 012108          357 --LDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLS-DGELMMFANLYASC--GQ------  423 (471)
Q Consensus       357 --~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~--g~------  423 (471)
                        +++|++.+.+. ...| +...|..+...+. ....+++...++...+..|.+. +..+..++..|...  +.      
T Consensus       200 ~~~~~ai~~~~~al~~~P~~~~~~~~l~~ll~-~~~~~~~~~~~~~~~~l~~~~~~~~~~~~l~~~y~~~~~~~~~~~~~  278 (315)
T d2h6fa1         200 AVLEREVQYTLEMIKLVPHNESAWNYLKGILQ-DRGLSKYPNLLNQLLDLQPSHSSPYLIAFLVDIYEDMLENQCDNKED  278 (315)
T ss_dssp             HHHHHHHHHHHHHHHHSTTCHHHHHHHHHHHT-TTCGGGCHHHHHHHHHHTTTCCCHHHHHHHHHHHHHHHHTTCSSHHH
T ss_pred             hhhHHhHHHHHHHHHhCCCchHHHHHHHHHHH-hcChHHHHHHHHHHHHhCCCcCCHHHHHHHHHHHHHHHhcCHHHHHH
Confidence              67888888776 4445 5667777766554 4457889999999988887743 34556677777543  33      


Q ss_pred             -HHHHHHHHHHh
Q 012108          424 -WEEANRWRNMM  434 (471)
Q Consensus       424 -~~~A~~~~~~m  434 (471)
                       +++|.++++..
T Consensus       279 ~~~ka~~l~~~l  290 (315)
T d2h6fa1         279 ILNKALELCEIL  290 (315)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence             44555555543

>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=99.22  E-value=1.1e-09  Score=97.06  Aligned_cols=247  Identities=9%  Similarity=-0.002  Sum_probs=131.1

Q ss_pred             HHHHhhccchhHHHHHHHHHHHhccCCc----hhHHHHHHHHHhccCCHhHHHHHhcccCC-----CC----cccHHHHH
Q 012108           17 LKAAGILSSSCIGLMLHGQTIKTGFCGH----VYVQTALLKMYGSLRCIDDAFKVFEKMPE-----KD----IIAWNSML   83 (471)
Q Consensus        17 l~~~~~~g~~~~a~~~~~~~~~~~~~~~----~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-----~~----~~~~~~li   83 (471)
                      ...+...|++++|.+++++.++..+..+    ..++..+..++...|++++|...|++..+     ++    ..++..+.
T Consensus        19 A~~~~~~g~~~~A~~~~~~aL~~~~~~~~~~~~~a~~~lg~~~~~~g~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~~~   98 (366)
T d1hz4a_          19 AQVAINDGNPDEAERLAKLALEELPPGWFYSRIVATSVLGEVLHCKGELTRSLALMQQTEQMARQHDVWHYALWSLIQQS   98 (366)
T ss_dssp             HHHHHHTTCHHHHHHHHHHHHHTCCTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHHHhhCcCCCcHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHhhcchHHHHHHHHHHH
Confidence            3446678888888888888877643222    23566677788888888888888887643     11    22345556


Q ss_pred             HHHHcCCCHHHHHHHHhcCCC-------C----ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC--------CChhhHHHH
Q 012108           84 DAFASCGQMDHAMKLIDLMPL-------K----DVTSFNIMISGYARIGKIHSARYIFDKVPA--------KDVVSWNSL  144 (471)
Q Consensus        84 ~~~~~~g~~~~A~~~~~~~~~-------~----~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~--------~~~~~~~~l  144 (471)
                      ..+...|++..+...+.....       +    ....+..+...+...|+++.+...+.....        .....+...
T Consensus        99 ~~~~~~~~~~~a~~~~~~al~~~~~~~~~~~~~~~~~~~~la~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~  178 (366)
T d1hz4a_          99 EILFAQGFLQTAWETQEKAFQLINEQHLEQLPMHEFLVRIRAQLLWAWARLDEAEASARSGIEVLSSYQPQQQLQCLAML  178 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCTTSTHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTTTSCGGGGHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhHhcccchhhHHHHHHHHHHHHHHHhcchhhhHHHHHHHHHHhhhhhhhhHHHHHHHH
Confidence            667777777777766654421       1    112344455556666666666666555511        012233334


Q ss_pred             HHHHHhCCCHHHHHHHHHhccc----------cChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCC---HHHHHHHH
Q 012108          145 ILAYTNAGEMEKAGEMFKKMLV----------KNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPD---YLTVTSVL  211 (471)
Q Consensus       145 ~~~~~~~~~~~~A~~~~~~~~~----------~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~---~~~~~~l~  211 (471)
                      ...+...++...+...+.+...          .....+..+...+...|+++.|...+.+........+   ...+..+.
T Consensus       179 ~~~~~~~~~~~~a~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~la  258 (366)
T d1hz4a_         179 IQCSLARGDLDNARSQLNRLENLLGNGKYHSDWISNANKVRVIYWQMTGDKAAAANWLRHTAKPEFANNHFLQGQWRNIA  258 (366)
T ss_dssp             HHHHHHHTCHHHHHHHHHHHHHHHTTSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHSCCCCCTTCGGGHHHHHHHH
T ss_pred             HHHHHhhhhHHHHHHHHHHHHHHHHHhcccCchHHHHHHHHHHHHHhcccHHHHHHHHHHHHHhccccchHHHHHHHHHH
Confidence            4445555565555555544310          0122344444555556666666666555443321111   12233344


Q ss_pred             HHHHccCChHHHHHHHHHHHH----cCCCC-chhHHHHHHHHHHhcCChHHHHHHHh
Q 012108          212 SACANLGSLETGARIHVYATD----NGLAS-NPHATTALIDMYAKCGSIEQSLEVFY  263 (471)
Q Consensus       212 ~~~~~~~~~~~a~~~~~~~~~----~~~~~-~~~~~~~l~~~~~~~~~~~~a~~~~~  263 (471)
                      ..+...|++++|...++.+..    .+..| ...++..+..+|...|++++|.+.++
T Consensus       259 ~~~~~~g~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~la~~~~~~g~~~~A~~~l~  315 (366)
T d1hz4a_         259 RAQILLGEFEPAEIVLEELNENARSLRLMSDLNRNLLLLNQLYWQAGRKSDAQRVLL  315 (366)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHTCHHHHHHHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHHHHhhcccChHHHHHHHHHHHHHHHCCCHHHHHHHHH
Confidence            555555666666655555432    12122 12344445555555555555555544

>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=99.22  E-value=2.1e-10  Score=97.05  Aligned_cols=215  Identities=13%  Similarity=-0.002  Sum_probs=124.3

Q ss_pred             HHHHHHHHHHHHhCCC-CC--CHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHH
Q 012108          185 YIEVVDLFDEMKAGNV-KP--DYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEV  261 (471)
Q Consensus       185 ~~~a~~~~~~m~~~g~-~p--~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~  261 (471)
                      .+.++.-+++...... .+  ...++..+..++.+.|++++|...|++.++.. |.++.++..+..+|.+.|++++|++.
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~-p~~~~a~~~lg~~~~~~g~~~~A~~~   93 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIR-PDMPEVFNYLGIYLTQAGNFDAAYEA   93 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccC-CCCHHHHhhhchHHHHHHHHHHhhhh
Confidence            4455555555554321 11  11345555667777777777777777777765 55677777777777777777777777


Q ss_pred             HhcCCC---CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCC
Q 012108          262 FYKSQV---KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVT  338 (471)
Q Consensus       262 ~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  338 (471)
                      |+++..   .+..++..+...+...|++++|...|++..+.. +.+......+...+.+.+..+....+......   ..
T Consensus        94 ~~~al~~~p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~~-p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~  169 (259)
T d1xnfa_          94 FDSVLELDPTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQDD-PNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEK---SD  169 (259)
T ss_dssp             HHHHHHHCTTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHH---SC
T ss_pred             hhHHHHHHhhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhhc-cccHHHHHHHHHHHHHhhhHHHHHHHHHHhhc---cc
Confidence            776543   245567777777788888888888888777652 22343333344444555555555555444443   12


Q ss_pred             CChhHHHHHHHHHhhcCC----HHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          339 RKLEHYGCMVDLLGRARL----LDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       339 ~~~~~~~~l~~~~~~~g~----~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +....+. ++..+.....    .+.+...+... ...|+ ..+|..+...+...|++++|.+.|++++..+|.
T Consensus       170 ~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  241 (259)
T d1xnfa_         170 KEQWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEHLSETNFYLGKYYLSLGDLDSATALFKLAVANNVH  241 (259)
T ss_dssp             CCSTHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT
T ss_pred             hhhhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcccHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            2222222 2222222211    22222222111 11222 345666777888888888888888888888776

>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=99.22  E-value=1.2e-10  Score=102.55  Aligned_cols=260  Identities=10%  Similarity=-0.064  Sum_probs=181.6

Q ss_pred             CCCHHHHHHHHHhccc--c-ChHHHHHHHHH----------HHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHcc
Q 012108          151 AGEMEKAGEMFKKMLV--K-NVITWNTMVTG----------YLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANL  217 (471)
Q Consensus       151 ~~~~~~A~~~~~~~~~--~-~~~~~~~l~~~----------~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~  217 (471)
                      .+..++|++++++...  | +...|+..-..          +...|++++|+..++...+.. +-+...|..+..++...
T Consensus        42 ~~~~~~al~~~~~~l~~~P~~~~a~~~r~~~l~~l~~~~~~~~~~~~~~~al~~~~~~l~~~-pk~~~~~~~~~~~~~~~  120 (334)
T d1dcea1          42 GELDESVLELTSQILGANPDFATLWNCRREVLQHLETEKSPEESAALVKAELGFLESCLRVN-PKSYGTWHHRCWLLSRL  120 (334)
T ss_dssp             TCCSHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHHTTSCHHHHHHHHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHTC
T ss_pred             ccccHHHHHHHHHHHHHCCCcHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHHHHHHHHHhC-CCcHHHHHHhhHHHHHh
Confidence            3344777777777733  3 22334332222          233455788888888887753 33455566666665555


Q ss_pred             C--ChHHHHHHHHHHHHcCCCCchhHH-HHHHHHHHhcCChHHHHHHHhcCCCC---ChhhHHHHHHHHHhcCChHHHHH
Q 012108          218 G--SLETGARIHVYATDNGLASNPHAT-TALIDMYAKCGSIEQSLEVFYKSQVK---DVFCWNAMILGLALHGYGYAALK  291 (471)
Q Consensus       218 ~--~~~~a~~~~~~~~~~~~~~~~~~~-~~l~~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~  291 (471)
                      +  ++++|...++.+.+.. +++...+ ......+...+.+++|+..+++....   +..+|+.+...+.+.|++++|..
T Consensus       121 ~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~Al~~~~~~i~~~p~~~~a~~~l~~~~~~~~~~~~A~~  199 (334)
T d1dcea1         121 PEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAEELAFTDSLITRNFSNYSSWHYRSCLLPQLHPQPDSGP  199 (334)
T ss_dssp             SSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHHHHHHHHTTTTTTCCCHHHHHHHHHHHHHHSCCCCSSS
T ss_pred             ccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHHHHHHHHHHHHcCCCCHHHHHHHHHHHHHhcCHHHHHH
Confidence            4  5788999999988875 4445554 44557777889999999999887763   56788888889999999888766


Q ss_pred             HHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCC
Q 012108          292 LLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFE  370 (471)
Q Consensus       292 ~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~  370 (471)
                      .+......  .|+.   ..+...+...+..+++...+.....  ..+++...+..+...+...|+.++|...+.+. ...
T Consensus       200 ~~~~~~~~--~~~~---~~~~~~~~~l~~~~~a~~~~~~~l~--~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  272 (334)
T d1dcea1         200 QGRLPENV--LLKE---LELVQNAFFTDPNDQSAWFYHRWLL--GRAEPLFRCELSVEKSTVLQSELESCKELQELEPEN  272 (334)
T ss_dssp             CCSSCHHH--HHHH---HHHHHHHHHHCSSCSHHHHHHHHHH--SCCCCSSSCCCCHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHhHHh--HHHH---HHHHHHHHHhcchhHHHHHHHHHHH--hCcchhhHHHHHHHHHHHHhhHHHHHHHHHHHHhhC
Confidence            55544332  1221   2233344555667777888887776  44556666777778888889999999998877 455


Q ss_pred             C-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          371 P-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       371 p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      | +..++..++.++...|++++|.+.++++++.+|. +...|..|...+.-
T Consensus       273 p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~-~~~y~~~L~~~~~~  322 (334)
T d1dcea1         273 KWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPM-RAAYLDDLRSKFLL  322 (334)
T ss_dssp             HHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcc-cHHHHHHHHHHHhH
Confidence            5 4567888889999999999999999999999997 77788878776653

>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=99.22  E-value=1.2e-09  Score=94.83  Aligned_cols=163  Identities=8%  Similarity=-0.028  Sum_probs=67.8

Q ss_pred             hHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHH-
Q 012108          272 CWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDL-  350 (471)
Q Consensus       272 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~-  350 (471)
                      .|...+..+.+.|+++.|..+|+++...........|...+..+.+.|+.+.|.++|+++.+  ..+.+...|...... 
T Consensus       101 l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~~al~--~~~~~~~~~~~~a~~e  178 (308)
T d2onda1         101 LYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFKKARE--DARTRHHVYVTAALME  178 (308)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHHHHHT--STTCCTHHHHHHHHHH
T ss_pred             HHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHHHHHH--hCCCcHHHHHHHHHHH
Confidence            34444444444444444444444444331111122344444444444444445555544443  122222222222221 


Q ss_pred             HhhcCCHHHHHHHHHhC--CCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCC---CchhHHHHHHHHHhcCCHH
Q 012108          351 LGRARLLDRAIELIEAM--PFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYL---SDGELMMFANLYASCGQWE  425 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~--~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~g~~~  425 (471)
                      +...|+.+.|..+|+.+  ..+.+...|...+..+...|++++|..+|+++++..|.+   ....|...+..-...|+.+
T Consensus       179 ~~~~~~~~~a~~i~e~~l~~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~~~~~~~~iw~~~~~fE~~~G~~~  258 (308)
T d2onda1         179 YYCSKDKSVAFKIFELGLKKYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSLPPEKSGEIWARFLAFESNIGDLA  258 (308)
T ss_dssp             HHTSCCHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSSCGGGCHHHHHHHHHHHHHHSCHH
T ss_pred             HHhccCHHHHHHHHHHHHHhhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCCChHHHHHHHHHHHHHHHHcCCHH
Confidence            12234444444444444  112233444444444445555555555555554444320   0123444444444445555


Q ss_pred             HHHHHHHHhhh
Q 012108          426 EANRWRNMMND  436 (471)
Q Consensus       426 ~A~~~~~~m~~  436 (471)
                      .+..+++++.+
T Consensus       259 ~~~~~~~r~~~  269 (308)
T d2onda1         259 SILKVEKRRFT  269 (308)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            55555554433

>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=99.21  E-value=1.1e-10  Score=98.70  Aligned_cols=216  Identities=9%  Similarity=-0.077  Sum_probs=149.2

Q ss_pred             hHHHHHHHHHHHHcCCCC---chhHHHHHHHHHHhcCChHHHHHHHhcCCC---CChhhHHHHHHHHHhcCChHHHHHHH
Q 012108          220 LETGARIHVYATDNGLAS---NPHATTALIDMYAKCGSIEQSLEVFYKSQV---KDVFCWNAMILGLALHGYGYAALKLL  293 (471)
Q Consensus       220 ~~~a~~~~~~~~~~~~~~---~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~~  293 (471)
                      .+.+...++++.......   ...++..+...|.+.|++++|+..|++...   .++.+|..+..++.+.|++++|+..|
T Consensus        15 ~e~al~~~~e~l~~~~~~~~~~a~~~~~~G~~y~~~g~~~~A~~~~~~al~l~p~~~~a~~~lg~~~~~~g~~~~A~~~~   94 (259)
T d1xnfa_          15 QEVILARMEQILASRALTDDERAQLLYERGVLYDSLGLRALARNDFSQALAIRPDMPEVFNYLGIYLTQAGNFDAAYEAF   94 (259)
T ss_dssp             HHHHHHHHHHHHTSSCCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCCCCHHHHHHHHHHHHHTTCHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhcCCHHHHHHHHHHHHHHHHCCCHHHHHHHHHHhhccCCCCHHHHhhhchHHHHHHHHHHhhhhh
Confidence            344555566665542111   245777789999999999999999988654   57789999999999999999999999


Q ss_pred             HHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC
Q 012108          294 GEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT  372 (471)
Q Consensus       294 ~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~  372 (471)
                      +++.... +-+..++..+..++...|++++|.+.|++..+.  .+.+......+...+.+.+..+.+..+.... ...++
T Consensus        95 ~~al~~~-p~~~~a~~~lg~~~~~~g~~~~A~~~~~~al~~--~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  171 (259)
T d1xnfa_          95 DSVLELD-PTYNYAHLNRGIALYYGGRDKLAQDDLLAFYQD--DPNDPFRSLWLYLAEQKLDEKQAKEVLKQHFEKSDKE  171 (259)
T ss_dssp             HHHHHHC-TTCTHHHHHHHHHHHHTTCHHHHHHHHHHHHHH--CTTCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHSCCC
T ss_pred             hHHHHHH-hhhhhhHHHHHHHHHHHhhHHHHHHHHHHHHhh--ccccHHHHHHHHHHHHHhhhHHHHHHHHHHhhccchh
Confidence            9999863 234567888899999999999999999999883  3344444444445555666555554444433 11222


Q ss_pred             HhHHHHHHHHHh----hcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          373 ESILGALLSACV----IHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       373 ~~~~~~l~~~~~----~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      ...+. ++..+.    ..+..+.+...+.......|. ...+|..++..|...|++++|.+.|++....+|.
T Consensus       172 ~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~lg~~~~~~g~~~~A~~~~~~al~~~p~  241 (259)
T d1xnfa_         172 QWGWN-IVEFYLGNISEQTLMERLKADATDNTSLAEH-LSETNFYLGKYYLSLGDLDSATALFKLAVANNVH  241 (259)
T ss_dssp             STHHH-HHHHHTTSSCHHHHHHHHHHHCCSHHHHHHH-HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCT
T ss_pred             hhhhh-HHHHHHHHHHHHHHHHHHHHHHHHhhhcCcc-cHHHHHHHHHHHHHCCCHHHHHHHHHHHHHcCCC
Confidence            22222 222221    222344444444444444555 5667888999999999999999999999887664

>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=99.21  E-value=1.8e-09  Score=93.58  Aligned_cols=184  Identities=13%  Similarity=-0.000  Sum_probs=145.9

Q ss_pred             ChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCC--C-C-hhhHHHHHHHHHhcCChHHHHHHHH
Q 012108          219 SLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQV--K-D-VFCWNAMILGLALHGYGYAALKLLG  294 (471)
Q Consensus       219 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~-~-~~~~~~l~~~~~~~~~~~~a~~~~~  294 (471)
                      ..++|..+|+..++...+.+...+..++..+.+.|+++.|..+|+++..  + + ...|...+..+.+.|+.+.|.++|.
T Consensus        79 ~~~~a~~i~~ral~~~~p~~~~l~~~ya~~~~~~~~~~~a~~i~~~~l~~~~~~~~~~w~~~~~~~~~~~~~~~ar~i~~  158 (308)
T d2onda1          79 FSDEAANIYERAISTLLKKNMLLYFAYADYEESRMKYEKVHSIYNRLLAIEDIDPTLVYIQYMKFARRAEGIKSGRMIFK  158 (308)
T ss_dssp             HHHHHHHHHHHHHTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHTSSSSCTHHHHHHHHHHHHHHHCHHHHHHHHH
T ss_pred             chHHHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcccHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHcCChHHHHHHHH
Confidence            4577888888888765566777888888889999999999999987644  2 3 3468888899999999999999999


Q ss_pred             HHHhCCCCCCHHHHHHHHHH-HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC----CC
Q 012108          295 EMNDSCVKADDITFIGLLSA-CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM----PF  369 (471)
Q Consensus       295 ~~~~~~~~p~~~~~~~l~~~-~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~----~~  369 (471)
                      ++...+ +.+...|...... +...|+.+.|..+|+.+.+  ..+.++..|...++.+.+.|+++.|..+|++.    +.
T Consensus       159 ~al~~~-~~~~~~~~~~a~~e~~~~~~~~~a~~i~e~~l~--~~p~~~~~w~~y~~~~~~~g~~~~aR~~fe~ai~~~~~  235 (308)
T d2onda1         159 KAREDA-RTRHHVYVTAALMEYYCSKDKSVAFKIFELGLK--KYGDIPEYVLAYIDYLSHLNEDNNTRVLFERVLTSGSL  235 (308)
T ss_dssp             HHHTST-TCCTHHHHHHHHHHHHTSCCHHHHHHHHHHHHH--HHTTCHHHHHHHHHHHHTTCCHHHHHHHHHHHHHSSSS
T ss_pred             HHHHhC-CCcHHHHHHHHHHHHHhccCHHHHHHHHHHHHH--hhhhhHHHHHHHHHHHHHcCChHHHHHHHHHHHHhCCC
Confidence            998764 2233444444332 3456899999999999998  35567888999999999999999999999986    33


Q ss_pred             CCC--HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          370 EPT--ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       370 ~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .|+  ...|...+..-...|+.+.+..+.+++.+.-|.
T Consensus       236 ~~~~~~~iw~~~~~fE~~~G~~~~~~~~~~r~~~~~~~  273 (308)
T d2onda1         236 PPEKSGEIWARFLAFESNIGDLASILKVEKRRFTAFRE  273 (308)
T ss_dssp             CGGGCHHHHHHHHHHHHHHSCHHHHHHHHHHHHHHTTT
T ss_pred             ChHHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHCcc
Confidence            443  457888888888899999999999999888766

>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=99.03  E-value=8.4e-10  Score=97.09  Aligned_cols=230  Identities=9%  Similarity=-0.034  Sum_probs=157.7

Q ss_pred             HhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcC--CHHHHHHHHHHHHhCCCCCCHHHHH-HHHHHHHccCChHH
Q 012108          149 TNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQ--LYIEVVDLFDEMKAGNVKPDYLTVT-SVLSACANLGSLET  222 (471)
Q Consensus       149 ~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~--~~~~a~~~~~~m~~~g~~p~~~~~~-~l~~~~~~~~~~~~  222 (471)
                      ...|++++|+.+++....   .+...|..+..++...+  ++++|...+.++.+.. +++...+. .....+...+..+.
T Consensus        84 ~~~~~~~~al~~~~~~l~~~pk~~~~~~~~~~~~~~~~~~~~~~a~~~~~~al~~~-~~~~~~~~~~~~~~~~~~~~~~~  162 (334)
T d1dcea1          84 ESAALVKAELGFLESCLRVNPKSYGTWHHRCWLLSRLPEPNWARELELCARFLEAD-ERNFHCWDYRRFVAAQAAVAPAE  162 (334)
T ss_dssp             HHHHHHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHTCSSCCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHTCCCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhCCCcHHHHHHhhHHHHHhccccHHHHHHHHHHHHhhC-chhhhhhhhHHHHHHHhccccHH
Confidence            344557788888888733   35566666666666554  4788888888887753 23444443 34456667788888


Q ss_pred             HHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCC
Q 012108          223 GARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVK  302 (471)
Q Consensus       223 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  302 (471)
                      |...++.+.+.+ +.+...+..+..++.+.|++++|...+.+...-.+.. ......+...+..+++...+....... +
T Consensus       163 Al~~~~~~i~~~-p~~~~a~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~a~~~~~~~l~~~-~  239 (334)
T d1dcea1         163 ELAFTDSLITRN-FSNYSSWHYRSCLLPQLHPQPDSGPQGRLPENVLLKE-LELVQNAFFTDPNDQSAWFYHRWLLGR-A  239 (334)
T ss_dssp             HHHHHHTTTTTT-CCCHHHHHHHHHHHHHHSCCCCSSSCCSSCHHHHHHH-HHHHHHHHHHCSSCSHHHHHHHHHHSC-C
T ss_pred             HHHHHHHHHHcC-CCCHHHHHHHHHHHHHhcCHHHHHHHHHHhHHhHHHH-HHHHHHHHHhcchhHHHHHHHHHHHhC-c
Confidence            998888888776 5678888888888888888887766655444322222 223334556677778888888777653 3


Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHH
Q 012108          303 ADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALL  380 (471)
Q Consensus       303 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~  380 (471)
                      ++...+..+...+...++.++|...+.+..+  ..+.+...+..+..+|...|++++|.+.++++ .+.|+ ..-|..|.
T Consensus       240 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~--~~p~~~~~~~~l~~~~~~~~~~~eA~~~~~~ai~ldP~~~~y~~~L~  317 (334)
T d1dcea1         240 EPLFRCELSVEKSTVLQSELESCKELQELEP--ENKWCLLTIILLMRALDPLLYEKETLQYFSTLKAVDPMRAAYLDDLR  317 (334)
T ss_dssp             CCSSSCCCCHHHHHHHHHHHHHHHHHHHHCT--TCHHHHHHHHHHHHHHCTGGGHHHHHHHHHHHHHHCGGGHHHHHHHH
T ss_pred             chhhHHHHHHHHHHHHhhHHHHHHHHHHHHh--hCchHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHCcccHHHHHHHH
Confidence            4455566667777778888888888888876  33445777888888899999999999999887 45664 34555555


Q ss_pred             HHHh
Q 012108          381 SACV  384 (471)
Q Consensus       381 ~~~~  384 (471)
                      ..+.
T Consensus       318 ~~~~  321 (334)
T d1dcea1         318 SKFL  321 (334)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            4443

>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=98.86  E-value=3.6e-08  Score=84.37  Aligned_cols=156  Identities=10%  Similarity=-0.033  Sum_probs=74.5

Q ss_pred             HHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHHcCCCHHHHHHHHhcCCCC--
Q 012108           28 IGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFASCGQMDHAMKLIDLMPLK--  105 (471)
Q Consensus        28 ~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~~~g~~~~A~~~~~~~~~~--  105 (471)
                      ++.+++++..+.+ .|....+..+.  -...+++++|..+|.+           ....|...|++++|.+.|.+...-  
T Consensus         3 ~~~~~l~~aek~~-~~~~~~~~~~~--~~~~~~~~~Aa~~y~~-----------aa~~y~~~~~~~~A~~~y~kA~~~~~   68 (290)
T d1qqea_           3 DPVELLKRAEKKG-VPSSGFMKLFS--GSDSYKFEEAADLCVQ-----------AATIYRLRKELNLAGDSFLKAADYQK   68 (290)
T ss_dssp             CHHHHHHHHHHHS-SCCCTHHHHHS--CCSHHHHHHHHHHHHH-----------HHHHHHHTTCTHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhc-CcchhHHHHhc--CCccccHHHHHHHHHH-----------HHHHHHHCcCHHHHHHHHHHHHHHHH
Confidence            3556666666554 33333222111  0122345666665444           456677777777777776655321  


Q ss_pred             ---C----hhhHHHHHHHHHhcCCHHHHHHHHhhcCC-----C----ChhhHHHHHHHHHh-CCCHHHHHHHHHhccc--
Q 012108          106 ---D----VTSFNIMISGYARIGKIHSARYIFDKVPA-----K----DVVSWNSLILAYTN-AGEMEKAGEMFKKMLV--  166 (471)
Q Consensus       106 ---~----~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-----~----~~~~~~~l~~~~~~-~~~~~~A~~~~~~~~~--  166 (471)
                         +    ..+|..+..+|.+.|++++|.+.+++...     .    ...++..+...|.. .|++++|.+.|++...  
T Consensus        69 ~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~A~~~~~~A~~l~  148 (290)
T d1qqea_          69 KAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFELGEILENDLHDYAKAIDCYELAGEWY  148 (290)
T ss_dssp             HTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHH
T ss_pred             HcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHHHHHhHhhHHHHHHHHHHHHHHHHHHH
Confidence               1    23455555556666666666555554421     0    01223333333322 3555555555544411  


Q ss_pred             ---c----ChHHHHHHHHHHHhcCCHHHHHHHHHHHHh
Q 012108          167 ---K----NVITWNTMVTGYLRSQLYIEVVDLFDEMKA  197 (471)
Q Consensus       167 ---~----~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~  197 (471)
                         .    -..++..+...+...|++++|+..|++...
T Consensus       149 ~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~  186 (290)
T d1qqea_         149 AQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIK  186 (290)
T ss_dssp             HHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHH
T ss_pred             HhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHH
Confidence               0    112344444555555555555555555443

>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=98.77  E-value=3.7e-08  Score=71.16  Aligned_cols=91  Identities=10%  Similarity=-0.072  Sum_probs=51.0

Q ss_pred             HHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHH
Q 012108          349 DLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEE  426 (471)
Q Consensus       349 ~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  426 (471)
                      ..+.+.|++++|+..|++. .. +.+...|..+..++...|++++|+..++++++.+|. ++..|..++.++...|++++
T Consensus        11 ~~~~~~g~~~eAi~~~~~al~~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~-~~~~~~~~g~~~~~~~~~~~   89 (117)
T d1elwa_          11 NKALSVGNIDDALQCYSEAIKLDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPD-WGKGYSRKAAALEFLNRFEE   89 (117)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHH
T ss_pred             HHHHHcCCHHHHHHHHHHHHhcCCcchhhhhcccccccccccccccchhhhhHHHhccc-hhhHHHHHHHHHHHccCHHH
Confidence            3444555555555555554 22 224445555555555666666666666666666665 55666666666666666666


Q ss_pred             HHHHHHHhhhCCCc
Q 012108          427 ANRWRNMMNDTGIV  440 (471)
Q Consensus       427 A~~~~~~m~~~~~~  440 (471)
                      |+..+++..+..+.
T Consensus        90 A~~~~~~a~~~~p~  103 (117)
T d1elwa_          90 AKRTYEEGLKHEAN  103 (117)
T ss_dssp             HHHHHHHHHTTCTT
T ss_pred             HHHHHHHHHHhCCC
Confidence            66666666554443

>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=98.76  E-value=6.7e-08  Score=69.76  Aligned_cols=105  Identities=10%  Similarity=-0.091  Sum_probs=84.7

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCC
Q 012108          311 LLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQD  388 (471)
Q Consensus       311 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~  388 (471)
                      -...+...|++++|+..|+++.+  -.+.++..|..+..+|.+.|++++|+..+++. . .+.+...|..+..++...|+
T Consensus         9 ~g~~~~~~g~~~eAi~~~~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~~~p~~~~~~~~~g~~~~~~~~   86 (117)
T d1elwa_           9 KGNKALSVGNIDDALQCYSEAIK--LDPHNHVLYSNRSAAYAKKGDYQKAYEDGCKTVDLKPDWGKGYSRKAAALEFLNR   86 (117)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHcCCHHHHHHHHHHHHh--cCCcchhhhhcccccccccccccccchhhhhHHHhccchhhHHHHHHHHHHHccC
Confidence            45667788888888888888887  34556778888888888888888888888877 2 34467788888889999999


Q ss_pred             chHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          389 LEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       389 ~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      +++|+..++++++..|. ++..+..+.++-
T Consensus        87 ~~~A~~~~~~a~~~~p~-~~~~~~~l~~l~  115 (117)
T d1elwa_          87 FEEAKRTYEEGLKHEAN-NPQLKEGLQNME  115 (117)
T ss_dssp             HHHHHHHHHHHHTTCTT-CHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhCCC-CHHHHHHHHHHh
Confidence            99999999999999988 887777776654

>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=98.74  E-value=1.1e-07  Score=75.43  Aligned_cols=123  Identities=10%  Similarity=-0.034  Sum_probs=95.6

Q ss_pred             HHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCC
Q 012108          277 ILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARL  356 (471)
Q Consensus       277 ~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  356 (471)
                      ...+...|++++|++.|.++    .+|+..++..+..++...|++++|++.|++..+  -.+.++..|..+..+|.+.|+
T Consensus        12 g~~~~~~~d~~~Al~~~~~i----~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~--ldp~~~~a~~~~g~~~~~~g~   85 (192)
T d1hh8a_          12 GVLAADKKDWKGALDAFSAV----QDPHSRICFNIGCMYTILKNMTEAEKAFTRSIN--RDKHLAVAYFQRGMLYYQTEK   85 (192)
T ss_dssp             HHHHHHTTCHHHHHHHHHTS----SSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHCCCHHHHHHHHHhc----CCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHH--HhhhhhhhHHHHHHHHHhhcc
Confidence            55667889999999888764    256777888888899999999999999999987  334567888888888999999


Q ss_pred             HHHHHHHHHhC--CCCCC----------------HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          357 LDRAIELIEAM--PFEPT----------------ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       357 ~~~A~~~~~~~--~~~p~----------------~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      +++|.+.|++.  ..+++                ..++..+..++.+.|++++|.+.++++.+..|.
T Consensus        86 ~~~A~~~~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~~~  152 (192)
T d1hh8a_          86 YDLAIKDLKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMKSE  152 (192)
T ss_dssp             HHHHHHHHHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCCS
T ss_pred             HHHHHHHHHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcCCC
Confidence            99998888875  11111                234556777788888888888888888887776

>d2c2la1 a.118.8.1 (A:24-224) STIP1 homology and U box-containing protein 1, STUB1 {Mouse (Mus musculus) [TaxId: 10090]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: STIP1 homology and U box-containing protein 1, STUB1
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=98.74  E-value=2e-08  Score=80.86  Aligned_cols=122  Identities=4%  Similarity=-0.184  Sum_probs=94.7

Q ss_pred             CCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHH
Q 012108          303 ADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALL  380 (471)
Q Consensus       303 p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~  380 (471)
                      |+...+......+.+.|++++|+..|+++.+  -.+.++..|..+..+|.+.|++++|+..|++. .+.| +...|..+.
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~--~~p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~l~p~~~~a~~~lg   79 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAIT--RNPLVAVYYTNRALCYLKMQQPEQALADCRRALELDGQSVKAHFFLG   79 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSCTTCHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHH--hCCCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHHhCCCcHHHHHHHH
Confidence            6777778888889999999999999998887  34567888888899999999999999999887 5556 467888888


Q ss_pred             HHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHH
Q 012108          381 SACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEA  427 (471)
Q Consensus       381 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  427 (471)
                      .+|...|++++|...|+++++..|. +...+...+..+...+....+
T Consensus        80 ~~~~~l~~~~~A~~~~~~al~l~p~-~~~~~~~~~~~~l~~~~~~~~  125 (201)
T d2c2la1          80 QCQLEMESYDEAIANLQRAYSLAKE-QRLNFGDDIPSALRIAKKKRW  125 (201)
T ss_dssp             HHHHHTTCHHHHHHHHHHHHHHHHH-TTCCCCSHHHHHHHHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHHHHHhCcc-cHHHHHHHHHHHHHHHHHhHH
Confidence            8999999999999999998888776 444454455555544443333

>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=98.74  E-value=8.5e-08  Score=81.97  Aligned_cols=161  Identities=7%  Similarity=-0.076  Sum_probs=99.4

Q ss_pred             HHHHHHhcCChHHHHHHHhcCCC-----CC----hhhHHHHHHHHHhcCChHHHHHHHHHHHhC----CCC-CCHHHHHH
Q 012108          245 LIDMYAKCGSIEQSLEVFYKSQV-----KD----VFCWNAMILGLALHGYGYAALKLLGEMNDS----CVK-ADDITFIG  310 (471)
Q Consensus       245 l~~~~~~~~~~~~a~~~~~~~~~-----~~----~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~----~~~-p~~~~~~~  310 (471)
                      ....|...+++++|.+.|.+...     .+    ..+|..+..+|.+.|++++|...+++....    |.. ....++..
T Consensus        43 aa~~y~~~~~~~~A~~~y~kA~~~~~~~~~~~~~a~~~~~~g~~y~~~~~~~~A~~~~~~a~~~~~~~~~~~~~~~~~~~  122 (290)
T d1qqea_          43 AATIYRLRKELNLAGDSFLKAADYQKKAGNEDEAGNTYVEAYKCFKSGGNSVNAVDSLENAIQIFTHRGQFRRGANFKFE  122 (290)
T ss_dssp             HHHHHHHTTCTHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHH
T ss_pred             HHHHHHHCcCHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhCCcHHHHHHHHHhhHHhhhcccchhHHHHHHH
Confidence            45677788888888888876433     11    246777788888888888888888776542    211 11234555


Q ss_pred             HHHHHh-ccCcHHHHHHHHHHhHHhc---CCCC-ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-------CH-hHH
Q 012108          311 LLSACS-HAGLVQEGCELFSRMEKDF---GVTR-KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-------TE-SIL  376 (471)
Q Consensus       311 l~~~~~-~~~~~~~a~~~~~~~~~~~---~~~~-~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-------~~-~~~  376 (471)
                      +...|. ..|++++|.+.++++.+-.   +.++ ...++..+...|...|++++|.+.|+++ ...|       .. ..+
T Consensus       123 l~~~~~~~~~~~~~A~~~~~~A~~l~~~~~~~~~~~~~~~~la~~~~~~g~y~~A~~~~~~~~~~~~~~~~~~~~~~~~~  202 (290)
T d1qqea_         123 LGEILENDLHDYAKAIDCYELAGEWYAQDQSVALSNKCFIKCADLKALDGQYIEASDIYSKLIKSSMGNRLSQWSLKDYF  202 (290)
T ss_dssp             HHHHHHHTTCCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTSSCTTTGGGHHHHH
T ss_pred             HHHhHhhHHHHHHHHHHHHHHHHHHHHhcCchhhhhhHHHHHHHHHHHcChHHHHHHHHHHHHHhCccchhhhhhHHHHH
Confidence            555553 4588888888887775411   1111 1345666777788888888888888775 1111       11 123


Q ss_pred             HHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          377 GALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       377 ~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                      ...+..+...|+++.|.+.++++.+..|.
T Consensus       203 ~~~~~~~l~~~d~~~A~~~~~~~~~~~~~  231 (290)
T d1qqea_         203 LKKGLCQLAATDAVAAARTLQEGQSEDPN  231 (290)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHGGGCC---
T ss_pred             HHHHHHHHHhccHHHHHHHHHHHHHhCCC
Confidence            34444556678888888888887777665

>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=98.73  E-value=8e-07  Score=70.30  Aligned_cols=120  Identities=13%  Similarity=-0.008  Sum_probs=67.3

Q ss_pred             HHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccc---cChHHHHHHHHHHHhcCCHHHHHHH
Q 012108          115 SGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLV---KNVITWNTMVTGYLRSQLYIEVVDL  191 (471)
Q Consensus       115 ~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~---~~~~~~~~l~~~~~~~~~~~~a~~~  191 (471)
                      ..+...|+++.|++.|+++.++++.+|..+..+|...|++++|++.|++.++   .+...|..+..++.+.|++++|++.
T Consensus        13 ~~~~~~~d~~~Al~~~~~i~~~~~~~~~nlG~~~~~~g~~~~A~~~~~kAl~ldp~~~~a~~~~g~~~~~~g~~~~A~~~   92 (192)
T d1hh8a_          13 VLAADKKDWKGALDAFSAVQDPHSRICFNIGCMYTILKNMTEAEKAFTRSINRDKHLAVAYFQRGMLYYQTEKYDLAIKD   92 (192)
T ss_dssp             HHHHHTTCHHHHHHHHHTSSSCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHH
T ss_pred             HHHHHCCCHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCCchhHHHHHHHHHHHhhhhhhhHHHHHHHHHhhccHHHHHHH
Confidence            3445556666666666666555666666666666666666666666666522   2445566666666666666666666


Q ss_pred             HHHHHhCCCC--------------CC-HHHHHHHHHHHHccCChHHHHHHHHHHHHcC
Q 012108          192 FDEMKAGNVK--------------PD-YLTVTSVLSACANLGSLETGARIHVYATDNG  234 (471)
Q Consensus       192 ~~~m~~~g~~--------------p~-~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~  234 (471)
                      |++.......              ++ ..++..+..++.+.|++++|.+.+....+..
T Consensus        93 ~~kAl~~~~~n~~~~~~~~~~~~~~~~~e~~~n~a~~~~~~~~~~~A~~~l~~A~~~~  150 (192)
T d1hh8a_          93 LKEALIQLRGNQLIDYKILGLQFKLFACEVLYNIAFMYAKKEEWKKAEEQLALATSMK  150 (192)
T ss_dssp             HHHHHHTTTTCSEEECGGGTBCCEEEHHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHhCccCchHHHHHhhhhcccchHHHHHHHHHHHHHCCCHHHHHHHHHHHHhcC
Confidence            6665432100              00 1233344445556666666666666555543

>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=98.70  E-value=3.6e-08  Score=79.24  Aligned_cols=97  Identities=7%  Similarity=-0.147  Sum_probs=81.2

Q ss_pred             CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHH
Q 012108          268 KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCM  347 (471)
Q Consensus       268 ~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l  347 (471)
                      |+...+......+.+.|++++|+..|.+..... +-+...|..+..+|.+.|+++.|+..|+++.+  -.+-+...|..+
T Consensus         2 ~~a~~l~~~Gn~~~~~g~~~~Ai~~~~kal~~~-p~~~~~~~~lg~~y~~~~~~~~Ai~~~~~al~--l~p~~~~a~~~l   78 (201)
T d2c2la1           2 PSAQELKEQGNRLFVGRKYPEAAACYGRAITRN-PLVAVYYTNRALCYLKMQQPEQALADCRRALE--LDGQSVKAHFFL   78 (201)
T ss_dssp             CCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHC-SCCHHHHHHHHHHHHHTTCHHHHHHHHHHHTT--SCTTCHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhC-CCCHHHHHhHHHHHhhhhhhhhhhHHHHHHHH--hCCCcHHHHHHH
Confidence            445556677888999999999999999988763 44677888899999999999999999999986  334467888999


Q ss_pred             HHHHhhcCCHHHHHHHHHhC
Q 012108          348 VDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       348 ~~~~~~~g~~~~A~~~~~~~  367 (471)
                      ..+|.+.|++++|...|+++
T Consensus        79 g~~~~~l~~~~~A~~~~~~a   98 (201)
T d2c2la1          79 GQCQLEMESYDEAIANLQRA   98 (201)
T ss_dssp             HHHHHHTTCHHHHHHHHHHH
T ss_pred             HHHHHHCCCHHHHHHHHHHH
Confidence            99999999999999999876

>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=98.68  E-value=2e-07  Score=71.46  Aligned_cols=119  Identities=9%  Similarity=-0.069  Sum_probs=94.8

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhc
Q 012108          309 IGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIH  386 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~  386 (471)
                      ......|.+.|++++|...|+++.+  -.+.+...|..+..+|...|++++|.+.|+++ ...| +...|..++.++...
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~--~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~~~~a~~~~g~~~~~~   91 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIE--LNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKKYIKGYYRRAASNMAL   91 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccc--cchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHcccchHHHHHHHHHHHHc
Confidence            3445667889999999999999988  34557888888999999999999999999887 3344 567899999999999


Q ss_pred             CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHH--hcCCHHHHHHH
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYA--SCGQWEEANRW  430 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~--~~g~~~~A~~~  430 (471)
                      |++++|...++++.+..|. ++..+..+..+..  ..+.+++|...
T Consensus        92 g~~~eA~~~~~~a~~~~p~-~~~~~~~l~~~~~~~~~~~~~~a~~~  136 (159)
T d1a17a_          92 GKFRAALRDYETVVKVKPH-DKDAKMKYQECNKIVKQKAFERAIAG  136 (159)
T ss_dssp             TCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHcCCC-CHHHHHHHHHHHHHHHHHHHHHHHhC
Confidence            9999999999999999998 8888777765543  34456666544

>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=98.61  E-value=8.1e-08  Score=68.64  Aligned_cols=89  Identities=11%  Similarity=-0.162  Sum_probs=78.8

Q ss_pred             HHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCC
Q 012108          346 CMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQ  423 (471)
Q Consensus       346 ~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~  423 (471)
                      .+...+.+.|++++|...|++. ...| ++..|..+..++.+.|++++|+..++++++.+|. ++..+..++.+|...|+
T Consensus        21 ~~g~~~~~~g~~~~A~~~~~~al~~~p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~~~p~-~~~a~~~la~~y~~~g~   99 (112)
T d1hxia_          21 EEGLSMLKLANLAEAALAFEAVCQKEPEREEAWRSLGLTQAENEKDGLAIIALNHARMLDPK-DIAVHAALAVSHTNEHN   99 (112)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhhHHHHHHHhhhcccccccchhhhhhhhhhhhhhhHHHhhcccccccccccc-cccchHHHHHHHHHCCC
Confidence            4566788889999999999887 3345 5788999999999999999999999999999999 99999999999999999


Q ss_pred             HHHHHHHHHHhh
Q 012108          424 WEEANRWRNMMN  435 (471)
Q Consensus       424 ~~~A~~~~~~m~  435 (471)
                      +++|.+.+++.+
T Consensus       100 ~~~A~~~l~~~l  111 (112)
T d1hxia_         100 ANAALASLRAWL  111 (112)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998863

>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=98.61  E-value=7.2e-06  Score=68.57  Aligned_cols=230  Identities=9%  Similarity=-0.027  Sum_probs=118.8

Q ss_pred             ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc----cCChHHHHHHHHHHHHcCCCCchhHHH
Q 012108          168 NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACAN----LGSLETGARIHVYATDNGLASNPHATT  243 (471)
Q Consensus       168 ~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~  243 (471)
                      |+..+..|...+.+.+++++|+++|++..+.|   +...+..|...+..    ..+...+...++...+.+   ++....
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g---~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~---~~~a~~   74 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLK---ENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLN---YSNGCH   74 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTT---CHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCC---CHHHHHHHHHHHHcCCCcchhHHHHHHhhccccccc---ccchhh
Confidence            45566667777777778888888887777655   33444444444443    445666666666665554   122222


Q ss_pred             HHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHH----hccC
Q 012108          244 ALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSAC----SHAG  319 (471)
Q Consensus       244 ~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~----~~~~  319 (471)
                      .+...+....                           ...++.+.|...++.....|..   .....+...+    ....
T Consensus        75 ~l~~~~~~~~---------------------------~~~~~~~~a~~~~~~a~~~g~~---~a~~~l~~~~~~~~~~~~  124 (265)
T d1ouva_          75 LLGNLYYSGQ---------------------------GVSQNTNKALQYYSKACDLKYA---EGCASLGGIYHDGKVVTR  124 (265)
T ss_dssp             HHHHHHHHTS---------------------------SSCCCHHHHHHHHHHHHHTTCH---HHHHHHHHHHHHCSSSCC
T ss_pred             cccccccccc---------------------------ccchhhHHHHHHHhhhhhhhhh---hHHHhhcccccCCCcccc
Confidence            2222222110                           0123344455555555444321   1111111111    1233


Q ss_pred             cHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----cCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhh----cCCchH
Q 012108          320 LVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----ARLLDRAIELIEAMPFEPTESILGALLSACVI----HQDLEI  391 (471)
Q Consensus       320 ~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~  391 (471)
                      ....+...+.....    ..+...+..|...|..    ..+...+...++......+......+...+..    ..++++
T Consensus       125 ~~~~a~~~~~~~~~----~~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~~g~~~A~~~lg~~y~~g~~~~~d~~~  200 (265)
T d1ouva_         125 DFKKAVEYFTKACD----LNDGDGCTILGSLYDAGRGTPKDLKKALASYDKACDLKDSPGCFNAGNMYHHGEGATKNFKE  200 (265)
T ss_dssp             CHHHHHHHHHHHHH----TTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTCSSCCCHHH
T ss_pred             hhHHHHHHhhhhhc----ccccchhhhhhhhhccCCCcccccccchhhhhccccccccccccchhhhcccCcccccchhh
Confidence            44445555554444    1334444445555443    34445555555544223344444445544443    456777


Q ss_pred             HHHHHHHHHHcCCCCCchhHHHHHHHHHh----cCCHHHHHHHHHHhhhCCCc
Q 012108          392 GDRVAKMVCAKSNYLSDGELMMFANLYAS----CGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       392 a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A~~~~~~m~~~~~~  440 (471)
                      |+..|++..+.+   ++..+..|+.+|.+    ..+.++|.++|++..+.|..
T Consensus       201 A~~~~~~aa~~g---~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         201 ALARYSKACELE---NGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHTT---CHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhhHhhhhccc---CHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            777777777765   45666677777765    33677777777777666643

>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=98.60  E-value=1.7e-07  Score=71.94  Aligned_cols=97  Identities=11%  Similarity=-0.032  Sum_probs=86.1

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcC
Q 012108          345 GCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCG  422 (471)
Q Consensus       345 ~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  422 (471)
                      ......|.+.|++++|...|++. ...| +...|..+..+|...|++++|...|+++++.+|. +...|..++.+|...|
T Consensus        14 ~~~gn~~~~~~~y~~A~~~~~~al~~~p~~~~~~~~lg~~~~~~~~~~~A~~~~~kal~~~p~-~~~a~~~~g~~~~~~g   92 (159)
T d1a17a_          14 KTQANDYFKAKDYENAIKFYSQAIELNPSNAIYYGNRSLAYLRTECYGYALGDATRAIELDKK-YIKGYYRRAASNMALG   92 (159)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHcCCHHHHHHHhhhccccchhhhhhhhhhHHHHHhccccchHHHHHHHHHHHccc-chHHHHHHHHHHHHcC
Confidence            34456788999999999999988 3334 6788999999999999999999999999999999 9999999999999999


Q ss_pred             CHHHHHHHHHHhhhCCCccc
Q 012108          423 QWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       423 ~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ++++|.+.+++..+.++..+
T Consensus        93 ~~~eA~~~~~~a~~~~p~~~  112 (159)
T d1a17a_          93 KFRAALRDYETVVKVKPHDK  112 (159)
T ss_dssp             CHHHHHHHHHHHHHHSTTCH
T ss_pred             CHHHHHHHHHHHHHcCCCCH
Confidence            99999999999988776543

>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=98.54  E-value=0.00018  Score=61.21  Aligned_cols=276  Identities=11%  Similarity=0.048  Sum_probs=137.4

Q ss_pred             HHHHHHHHHhcCCHHHHHHHHhhcCCCChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHH
Q 012108          110 FNIMISGYARIGKIHSARYIFDKVPAKDVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVV  189 (471)
Q Consensus       110 ~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  189 (471)
                      ...+++-|.+.|.++.|..+|..+.     -|..++..+.+.++++.|.+.+.+.  .+..+|..+...+.+..+...+.
T Consensus        17 ~~~i~~~c~~~~lye~A~~lY~~~~-----d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~~~~e~~la~   89 (336)
T d1b89a_          17 IQQVGDRCYDEKMYDAAKLLYNNVS-----NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACVDGKEFRLAQ   89 (336)
T ss_dssp             ------------CTTTHHHHHHHTT-----CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHHHCCCHHHHHHHHHhCC-----CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHHhCcHHHHHH
Confidence            3345555556666666666665432     2445556666666666666665543  24456666666666655544331


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCC-
Q 012108          190 DLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVK-  268 (471)
Q Consensus       190 ~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~-  268 (471)
                           +...+...+......++..|...|.++....+++...... ..+...++.++..|++.+ .++-.+.++..... 
T Consensus        90 -----i~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~-~~~~~~~~~L~~lyak~~-~~kl~e~l~~~s~~y  162 (336)
T d1b89a_          90 -----MCGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLE-RAHMGMFTELAILYSKFK-PQKMREHLELFWSRV  162 (336)
T ss_dssp             -----HTTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTST-TCCHHHHHHHHHHHHTTC-HHHHHHHHHHHSTTS
T ss_pred             -----HHHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCC-ccchHHHHHHHHHHHHhC-hHHHHHHHHhccccC
Confidence                 2222233344444556666666666666666666654332 445556666666666543 33444444332110 


Q ss_pred             ----------ChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCC
Q 012108          269 ----------DVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVT  338 (471)
Q Consensus       269 ----------~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~  338 (471)
                                ....|..++-.|.+.|++++|..++-   .+  .++.......+..+.+..+.+...++.....+.    
T Consensus       163 ~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~i---~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~----  233 (336)
T d1b89a_         163 NIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITMM---NH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF----  233 (336)
T ss_dssp             CHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHHH---HS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH----
T ss_pred             CHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHHH---Hc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc----
Confidence                      11234455555666666666655432   22  333333444555566666666666665555541    


Q ss_pred             CChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          339 RKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       339 ~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                       ++...+.++......-+..+..+.+++                   .+++......++.....+   +..+...|...|
T Consensus       234 -~p~~i~~lL~~v~~~~d~~r~V~~~~k-------------------~~~l~li~p~Le~v~~~n---~~~vn~al~~ly  290 (336)
T d1b89a_         234 -KPLLLNDLLMVLSPRLDHTRAVNYFSK-------------------VKQLPLVKPYLRSVQNHN---NKSVNESLNNLF  290 (336)
T ss_dssp             -CGGGHHHHHHHHGGGCCHHHHHHHHHH-------------------TTCTTTTHHHHHHHHTTC---CHHHHHHHHHHH
T ss_pred             -CHHHHHHHHHHhccCCCHHHHHHHHHh-------------------cCCcHHHHHHHHHHHHcC---hHHHHHHHHHHH
Confidence             233445555555555555555555443                   344444445555544433   244666677777


Q ss_pred             HhcCCHHHHHHHH
Q 012108          419 ASCGQWEEANRWR  431 (471)
Q Consensus       419 ~~~g~~~~A~~~~  431 (471)
                      ...++++.-...+
T Consensus       291 ie~~d~~~l~~~i  303 (336)
T d1b89a_         291 ITEEDYQALRTSI  303 (336)
T ss_dssp             HHTTCHHHHHHHH
T ss_pred             hCcchhHHHHHHH
Confidence            7777655443333

>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=98.48  E-value=5.5e-07  Score=64.97  Aligned_cols=103  Identities=12%  Similarity=-0.012  Sum_probs=72.9

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC---CHHHHHHHHHhC-CCCCCH---hHHHHHHH
Q 012108          309 IGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR---LLDRAIELIEAM-PFEPTE---SILGALLS  381 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g---~~~~A~~~~~~~-~~~p~~---~~~~~l~~  381 (471)
                      ..+++.+...+++++|.+.|++..+  ..+.++.++..+..++.+.+   ++++|+++++++ ...|+.   .++..+..
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~--~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~   80 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKA--AGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAV   80 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHH--HSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHh--hCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHH
Confidence            3466677777888888888888887  34556777777777777644   444688888776 333332   36677788


Q ss_pred             HHhhcCCchHHHHHHHHHHHcCCCCCchhHHHH
Q 012108          382 ACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMF  414 (471)
Q Consensus       382 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  414 (471)
                      +|.+.|++++|++.|+++++.+|. +.......
T Consensus        81 ~y~~~g~~~~A~~~~~~aL~~~P~-~~~A~~l~  112 (122)
T d1nzna_          81 GNYRLKEYEKALKYVRGLLQTEPQ-NNQAKELE  112 (122)
T ss_dssp             HHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHhhhHHHHHHHHHHHHhCcC-CHHHHHHH
Confidence            888888888888888888888887 66554433

>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=98.46  E-value=1.4e-07  Score=68.13  Aligned_cols=98  Identities=11%  Similarity=-0.003  Sum_probs=81.7

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC-CC-CCCHhHHHHHHHHHhhcC---CchHHHHHHHHHHHcCCCCC-chhHHHHHHHH
Q 012108          345 GCMVDLLGRARLLDRAIELIEAM-PF-EPTESILGALLSACVIHQ---DLEIGDRVAKMVCAKSNYLS-DGELMMFANLY  418 (471)
Q Consensus       345 ~~l~~~~~~~g~~~~A~~~~~~~-~~-~p~~~~~~~l~~~~~~~g---~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~  418 (471)
                      ..++..+...+++++|.+.|++. .. +.++.++..+..++.+.+   ++++|+.+++++++.+|.|+ ..++..|+.+|
T Consensus         3 ~~l~n~~~~~~~l~~Ae~~Y~~aL~~~p~~~~~~~n~a~~L~~s~~~~d~~~Ai~~l~~~l~~~~~~~~~~~~~~Lg~~y   82 (122)
T d1nzna_           3 EAVLNELVSVEDLLKFEKKFQSEKAAGSVSKSTQFEYAWCLVRTRYNDDIRKGIVLLEELLPKGSKEEQRDYVFYLAVGN   82 (122)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHHHHHHSCCCHHHHHHHHHHHTTSSSHHHHHHHHHHHHHHTTTSCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhcCHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHhcchHHHHHHHHHHHHHHhccCCchHHHHHHHHHHHH
Confidence            45777888899999999999988 33 457788889999988654   55679999999999887744 35788999999


Q ss_pred             HhcCCHHHHHHHHHHhhhCCCccc
Q 012108          419 ASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       419 ~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      .+.|++++|++.|+++.+.+|...
T Consensus        83 ~~~g~~~~A~~~~~~aL~~~P~~~  106 (122)
T d1nzna_          83 YRLKEYEKALKYVRGLLQTEPQNN  106 (122)
T ss_dssp             HHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHhhhHHHHHHHHHHHHhCcCCH
Confidence            999999999999999999876544

>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=98.43  E-value=0.00024  Score=58.86  Aligned_cols=229  Identities=9%  Similarity=-0.060  Sum_probs=130.9

Q ss_pred             ChhhHHHHHHHHHhCCCHHHHHHHHHhccc-cChHHHHHHHHHHHh----cCCHHHHHHHHHHHHhCCCCCCHHHHHHHH
Q 012108          137 DVVSWNSLILAYTNAGEMEKAGEMFKKMLV-KNVITWNTMVTGYLR----SQLYIEVVDLFDEMKAGNVKPDYLTVTSVL  211 (471)
Q Consensus       137 ~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~-~~~~~~~~l~~~~~~----~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~  211 (471)
                      |+..+..|...+.+.+++++|.+.|++..+ .+...+..|...|..    ..++..|...+....+.+.   ......+.
T Consensus         1 ~p~~~~~lG~~~~~~~d~~~A~~~~~kAa~~g~~~A~~~Lg~~y~~G~~~~~d~~~a~~~~~~a~~~~~---~~a~~~l~   77 (265)
T d1ouva_           1 DPKELVGLGAKSYKEKDFTQAKKYFEKACDLKENSGCFNLGVLYYQGQGVEKNLKKAASFYAKACDLNY---SNGCHLLG   77 (265)
T ss_dssp             CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTC---HHHHHHHH
T ss_pred             CHHHHHHHHHHHHHCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHcCCCcchhHHHHHHhhcccccccc---cchhhccc
Confidence            456777888889999999999999999844 367777777777776    6689999999999887652   23333333


Q ss_pred             HHHH----ccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChH
Q 012108          212 SACA----NLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGY  287 (471)
Q Consensus       212 ~~~~----~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~  287 (471)
                      ..+.    ...+.+.|...++...+.|. +.  ....+...+.....                           ......
T Consensus        78 ~~~~~~~~~~~~~~~a~~~~~~a~~~g~-~~--a~~~l~~~~~~~~~---------------------------~~~~~~  127 (265)
T d1ouva_          78 NLYYSGQGVSQNTNKALQYYSKACDLKY-AE--GCASLGGIYHDGKV---------------------------VTRDFK  127 (265)
T ss_dssp             HHHHHTSSSCCCHHHHHHHHHHHHHTTC-HH--HHHHHHHHHHHCSS---------------------------SCCCHH
T ss_pred             cccccccccchhhHHHHHHHhhhhhhhh-hh--HHHhhcccccCCCc---------------------------ccchhH
Confidence            3332    24577888888888877762 22  22222222221100                           011222


Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHhc----cCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----cCCHHH
Q 012108          288 AALKLLGEMNDSCVKADDITFIGLLSACSH----AGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----ARLLDR  359 (471)
Q Consensus       288 ~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~----~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  359 (471)
                      .+...+......   .+...+..+...+..    ..+...+...++...+ .   .++.....+...|..    ..++++
T Consensus       128 ~a~~~~~~~~~~---~~~~~~~~L~~~~~~~~~~~~~~~~~~~~~~~a~~-~---g~~~A~~~lg~~y~~g~~~~~d~~~  200 (265)
T d1ouva_         128 KAVEYFTKACDL---NDGDGCTILGSLYDAGRGTPKDLKKALASYDKACD-L---KDSPGCFNAGNMYHHGEGATKNFKE  200 (265)
T ss_dssp             HHHHHHHHHHHT---TCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHH-T---TCHHHHHHHHHHHHHTCSSCCCHHH
T ss_pred             HHHHHhhhhhcc---cccchhhhhhhhhccCCCcccccccchhhhhcccc-c---cccccccchhhhcccCcccccchhh
Confidence            233333333321   122333333333332    3344445555555544 1   233334444444433    456777


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhh----cCCchHHHHHHHHHHHcCCC
Q 012108          360 AIELIEAMPFEPTESILGALLSACVI----HQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       360 A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~  405 (471)
                      |...|++....-++..+..|...|..    ..+.++|.+.|+++.+.|..
T Consensus       201 A~~~~~~aa~~g~~~a~~~LG~~y~~G~g~~~n~~~A~~~~~kAa~~g~~  250 (265)
T d1ouva_         201 ALARYSKACELENGGGCFNLGAMQYNGEGVTRNEKQAIENFKKGCKLGAK  250 (265)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHTTSSSSCCSTTHHHHHHHHHHHTCH
T ss_pred             hhhhHhhhhcccCHHHHHHHHHHHHcCCCCccCHHHHHHHHHHHHHCcCH
Confidence            77777666222345555566666654    34788888888888887754

>d1p5qa1 a.118.8.1 (A:258-427) FKBP52 (FKBP4), C-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: FKBP52 (FKBP4), C-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.42  E-value=3.4e-06  Score=65.06  Aligned_cols=85  Identities=12%  Similarity=-0.039  Sum_probs=69.6

Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHH
Q 012108          342 EHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYA  419 (471)
Q Consensus       342 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  419 (471)
                      .+|+.+..+|.+.|++++|+..+++. .+.| ++..+..+..++...|++++|...|+++++.+|. ++.+...+..+..
T Consensus        63 ~~~~nla~~y~k~~~~~~A~~~~~~al~~~p~~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  141 (170)
T d1p5qa1          63 ASHLNLAMCHLKLQAFSAAIESCNKALELDSNNEKGLSRRGEAHLAVNDFELARADFQKVLQLYPN-NKAAKTQLAVCQQ  141 (170)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSS-CHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhcccccchhhhhhhccccchhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            35667888889999999999998887 3345 6788888999999999999999999999999998 8888888888776


Q ss_pred             hcCCHHHH
Q 012108          420 SCGQWEEA  427 (471)
Q Consensus       420 ~~g~~~~A  427 (471)
                      +.+...+.
T Consensus       142 ~~~~~~~~  149 (170)
T d1p5qa1         142 RIRRQLAR  149 (170)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            66554443

>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=98.38  E-value=1.7e-06  Score=66.86  Aligned_cols=115  Identities=7%  Similarity=-0.088  Sum_probs=85.1

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhc
Q 012108          307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIH  386 (471)
Q Consensus       307 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~  386 (471)
                      .+......+.+.|++++|+..|.++.......+....-           .......+        -..+|+.+..+|.+.
T Consensus        15 ~l~~~G~~~~~~~~~~~Ai~~y~~al~~~~~~~~~~~~-----------~~~~~~~~--------~~~~~~nla~~y~k~   75 (170)
T d1p5qa1          15 IVKERGTVYFKEGKYKQALLQYKKIVSWLEYESSFSNE-----------EAQKAQAL--------RLASHLNLAMCHLKL   75 (170)
T ss_dssp             HHHHHHHHHHHHTCHHHHHHHHHHHHHHTTTCCCCCSH-----------HHHHHHHH--------HHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHHHhhhccccchH-----------HHhhhchh--------HHHHHHHHHHHHHhh
Confidence            34455667778888888888888887632211111000           00000000        124677788899999


Q ss_pred             CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      |++++|+..++++++.+|. ++.++..++.+|...|++++|...|++..+.+|..
T Consensus        76 ~~~~~A~~~~~~al~~~p~-~~~a~~~~g~~~~~~g~~~~A~~~~~~al~l~P~n  129 (170)
T d1p5qa1          76 QAFSAAIESCNKALELDSN-NEKGLSRRGEAHLAVNDFELARADFQKVLQLYPNN  129 (170)
T ss_dssp             TCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCSSC
T ss_pred             hhcccccchhhhhhhcccc-chhhhHHHHHHHHHhhhHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999 99999999999999999999999999999887653

>d1elra_ a.118.8.1 (A:) Hop {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Hop
species: Human (Homo sapiens) [TaxId: 9606]

Probab=98.30  E-value=1.3e-06  Score=63.83  Aligned_cols=57  Identities=7%  Similarity=-0.039  Sum_probs=28.3

Q ss_pred             HHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC
Q 012108          309 IGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM  367 (471)
Q Consensus       309 ~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~  367 (471)
                      ..+...+...|++++|+..|.++.+  -.+.+...+..+..+|.+.|++++|.+.++++
T Consensus         8 k~~G~~~~~~~~y~~Ai~~y~~al~--~~p~~~~~~~~~a~~~~~~~~~~~A~~~~~~a   64 (128)
T d1elra_           8 KELGNDAYKKKDFDTALKHYDKAKE--LDPTNMTYITNQAAVYFEKGDYNKCRELCEKA   64 (128)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHH
T ss_pred             HHHHHHHHHcCCHHHHHHHHHHHHH--hCcccHHHHHhHHHHHHHcCchHHHHHHHHHH
Confidence            3344455555555555555555554  12233444555555555555555555555443

>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=98.29  E-value=4.1e-06  Score=63.31  Aligned_cols=112  Identities=12%  Similarity=-0.113  Sum_probs=74.5

Q ss_pred             HHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCC---hhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHH
Q 012108          307 TFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRK---LEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSAC  383 (471)
Q Consensus       307 ~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~---~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~  383 (471)
                      .+..-...+.+.|++.+|+..|.++.......+.   ........                     .....+|..+..+|
T Consensus        19 ~~~~~G~~~f~~~~y~~A~~~Y~~al~~~~~~~~~~~~~~~~~~~---------------------~~~~~~~~Nla~~~   77 (153)
T d2fbna1          19 DIKEEGNEFFKKNEINEAIVKYKEALDFFIHTEEWDDQILLDKKK---------------------NIEISCNLNLATCY   77 (153)
T ss_dssp             HHHHHHHHHHHTTCHHHHHHHHHHHHHTTTTCTTCCCHHHHHHHH---------------------HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHcCCHHHHHHHHHHHHhhCcchhhhhhHHHHHhhh---------------------hHHHHHHhhHHHHH
Confidence            3445556677788888888888887762111111   00000000                     01123566677778


Q ss_pred             hhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          384 VIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       384 ~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      .+.|++++|++.++++++.+|. +..+|..++.+|...|++++|...|++..+.+|.
T Consensus        78 ~~l~~~~~Al~~~~~al~~~p~-~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~  133 (153)
T d2fbna1          78 NKNKDYPKAIDHASKVLKIDKN-NVKALYKLGVANMYFGFLEEAKENLYKAASLNPN  133 (153)
T ss_dssp             HHTTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT
T ss_pred             HHhcccchhhhhhhccccccch-hhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC
Confidence            8888888888888888888887 7888888888888888888888888888777654

>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=98.29  E-value=7.8e-08  Score=88.87  Aligned_cols=100  Identities=6%  Similarity=-0.137  Sum_probs=47.2

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHH
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAMPFEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLY  418 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~  418 (471)
                      +...+..+...+.+.|+.++|...++... .++ ...+..+...+...|++++|+..++++.+..|. +...|+.|+.+|
T Consensus       119 ~~~~~~~lg~~~~~~~~~~~A~~~~~~al-~~~~~~~~~~LG~l~~~~~~~~~A~~~y~~A~~l~P~-~~~~~~~Lg~~~  196 (497)
T d1ya0a1         119 CRVKSSQLGIISNKQTHTSAIVKPQSSSC-SYICQHCLVHLGDIARYRNQTSQAESYYRHAAQLVPS-NGQPYNQLAILA  196 (497)
T ss_dssp             ------------------------CCHHH-HHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-BSHHHHHHHHHH
T ss_pred             hHHHHHHhHHHHHhCCCHHHHHHHHHHHh-CCCHHHHHHHHHHHHHHcccHHHHHHHHHHHHHHCCC-chHHHHHHHHHH
Confidence            34455555556666666666665544331 111 234555666666667777777777777777776 667777777777


Q ss_pred             HhcCCHHHHHHHHHHhhhCCCcc
Q 012108          419 ASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       419 ~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      ...|+..+|...|.+.....++.
T Consensus       197 ~~~~~~~~A~~~y~ral~~~~~~  219 (497)
T d1ya0a1         197 SSKGDHLTTIFYYCRSIAVKFPF  219 (497)
T ss_dssp             HHTTCHHHHHHHHHHHHSSSBCC
T ss_pred             HHcCCHHHHHHHHHHHHhCCCCC
Confidence            77777777777776666555443

>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=98.27  E-value=0.00084  Score=56.96  Aligned_cols=273  Identities=11%  Similarity=0.029  Sum_probs=136.7

Q ss_pred             CCcccHHHHHHHHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCCCCcccHHHHHHHHH
Q 012108            8 ADNYSFPLLLKAAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPEKDIIAWNSMLDAFA   87 (471)
Q Consensus         8 p~~~~~~~ll~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~~~~~~~~li~~~~   87 (471)
                      ||..--..+.+-|...|.++.|..++..+.         -|..++..+.+.++++.|..++.+.  .+..+|..+...+.
T Consensus        12 ~n~~d~~~i~~~c~~~~lye~A~~lY~~~~---------d~~rl~~~~v~l~~~~~avd~~~k~--~~~~~~k~~~~~l~   80 (336)
T d1b89a_          12 PNNAHIQQVGDRCYDEKMYDAAKLLYNNVS---------NFGRLASTLVHLGEYQAAVDGARKA--NSTRTWKEVCFACV   80 (336)
T ss_dssp             C----------------CTTTHHHHHHHTT---------CHHHHHHHHHTTTCHHHHHHHHHHH--TCHHHHHHHHHHHH
T ss_pred             CCcCCHHHHHHHHHHCCCHHHHHHHHHhCC---------CHHHHHHHHHhhccHHHHHHHHHHc--CCHHHHHHHHHHHH
Confidence            454455566677778888888888887543         2456677777788888888777654  35567777888887


Q ss_pred             cCCCHHHHHHHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhcC---CCChhhHHHHHHHHHhCCCHHHHHHHHHhc
Q 012108           88 SCGQMDHAMKLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKVP---AKDVVSWNSLILAYTNAGEMEKAGEMFKKM  164 (471)
Q Consensus        88 ~~g~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~~---~~~~~~~~~l~~~~~~~~~~~~A~~~~~~~  164 (471)
                      +.....-|.- .......++.....++..|-..|.+++...+++...   ..+...++.++..|++.+ .++-.+.++..
T Consensus        81 ~~~e~~la~i-~~~~~~~~~d~l~~~v~~ye~~~~~e~Li~~Le~~~~~~~~~~~~~~~L~~lyak~~-~~kl~e~l~~~  158 (336)
T d1b89a_          81 DGKEFRLAQM-CGLHIVVHADELEELINYYQDRGYFEELITMLEAALGLERAHMGMFTELAILYSKFK-PQKMREHLELF  158 (336)
T ss_dssp             HTTCHHHHHH-TTTTTTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHTTSTTCCHHHHHHHHHHHHTTC-HHHHHHHHHHH
T ss_pred             hCcHHHHHHH-HHHHhhcCHHHHHHHHHHHHHcCChHHHHHHHHHHHcCCccchHHHHHHHHHHHHhC-hHHHHHHHHhc
Confidence            7776655432 222222355566677888888888888888888653   345566777777777764 34444444443


Q ss_pred             cc-c----------ChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHc
Q 012108          165 LV-K----------NVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDN  233 (471)
Q Consensus       165 ~~-~----------~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~  233 (471)
                      .. -          ....|.-++..|.+.|+++.|..++   .+.  .++.......+..+.+..+.+...++.....+.
T Consensus       159 s~~y~~~k~~~~c~~~~l~~elv~Ly~~~~~~~~A~~~~---i~~--~~~~~~~~~f~e~~~k~~N~e~~~~~i~~yL~~  233 (336)
T d1b89a_         159 WSRVNIPKVLRAAEQAHLWAELVFLYDKYEEYDNAIITM---MNH--PTDAWKEGQFKDIITKVANVELYYRAIQFYLEF  233 (336)
T ss_dssp             STTSCHHHHHHHHHTTTCHHHHHHHHHHTTCHHHHHHHH---HHS--TTTTCCHHHHHHHHHHCSSTHHHHHHHHHHHHH
T ss_pred             cccCCHHHHHHHHHHcCChHHHHHHHHhcCCHHHHHHHH---HHc--chhhhhHHHHHHHHHccCChHHHHHHHHHHHHc
Confidence            11 1          1122344444455555555544432   211  223323333444455555555444444444332


Q ss_pred             CCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHH
Q 012108          234 GLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLS  313 (471)
Q Consensus       234 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~  313 (471)
                        .  +...+.++......-+..+..+.+                  .+.++..-....++.....|   +....+.+..
T Consensus       234 --~--p~~i~~lL~~v~~~~d~~r~V~~~------------------~k~~~l~li~p~Le~v~~~n---~~~vn~al~~  288 (336)
T d1b89a_         234 --K--PLLLNDLLMVLSPRLDHTRAVNYF------------------SKVKQLPLVKPYLRSVQNHN---NKSVNESLNN  288 (336)
T ss_dssp             --C--GGGHHHHHHHHGGGCCHHHHHHHH------------------HHTTCTTTTHHHHHHHHTTC---CHHHHHHHHH
T ss_pred             --C--HHHHHHHHHHhccCCCHHHHHHHH------------------HhcCCcHHHHHHHHHHHHcC---hHHHHHHHHH
Confidence              1  222333443333333333333332                  33444444445554444433   2345555556


Q ss_pred             HHhccCcHHH
Q 012108          314 ACSHAGLVQE  323 (471)
Q Consensus       314 ~~~~~~~~~~  323 (471)
                      .|...++++.
T Consensus       289 lyie~~d~~~  298 (336)
T d1b89a_         289 LFITEEDYQA  298 (336)
T ss_dssp             HHHHTTCHHH
T ss_pred             HHhCcchhHH
Confidence            6666555433

>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=98.27  E-value=1.4e-05  Score=61.41  Aligned_cols=93  Identities=12%  Similarity=-0.017  Sum_probs=71.9

Q ss_pred             hHHHHHHHHHhhcCCHHHHHHHHHhC-C-CCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHH
Q 012108          342 EHYGCMVDLLGRARLLDRAIELIEAM-P-FEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYA  419 (471)
Q Consensus       342 ~~~~~l~~~~~~~g~~~~A~~~~~~~-~-~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~  419 (471)
                      .+|..+..+|.+.|++++|+..+++. . .+.+...|..+..++...|++++|...|+++++.+|. ++.+...+..+..
T Consensus        65 ~~~~Nla~~~~~l~~~~~Ai~~~~~al~l~p~~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~  143 (168)
T d1kt1a1          65 AAFLNLAMCYLKLREYTKAVECCDKALGLDSANEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQ-NKAARLQIFMCQK  143 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTT-CHHHHHHHHHHHH
T ss_pred             HHHHhHHHHHHHhhhcccchhhhhhhhhcccchHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHH
Confidence            34666778888999999999998887 3 3446778888899999999999999999999999998 8888888887776


Q ss_pred             hcCCHHH-HHHHHHHhh
Q 012108          420 SCGQWEE-ANRWRNMMN  435 (471)
Q Consensus       420 ~~g~~~~-A~~~~~~m~  435 (471)
                      +.+...+ ..+++.+|.
T Consensus       144 ~~~~~~e~~kk~~~~~f  160 (168)
T d1kt1a1         144 KAKEHNERDRRTYANMF  160 (168)
T ss_dssp             HHHHHHHHHHHHHHHHH
T ss_pred             HHHhHHHHHHHHHHHHH
Confidence            6655443 444544443

>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=98.20  E-value=9.2e-06  Score=62.57  Aligned_cols=85  Identities=6%  Similarity=-0.129  Sum_probs=60.0

Q ss_pred             ChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHH
Q 012108          340 KLEHYGCMVDLLGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANL  417 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~  417 (471)
                      ....+..+..+|.+.|++++|+..++++ .+.| ++..|..+..++...|++++|+..|+++++..|. +..+...+..+
T Consensus        76 ~~~~~~nla~~~~~~~~~~~Ai~~~~~al~~~p~~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~-n~~~~~~l~~~  154 (169)
T d1ihga1          76 ALSCVLNIGACKLKMSDWQGAVDSCLEALEIDPSNTKALYRRAQGWQGLKEYDQALADLKKAQEIAPE-DKAIQAELLKV  154 (169)
T ss_dssp             HHHHHHHHHHHHHHTTCHHHHHHHHHHHHTTCTTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHhhcccchhhhhhhhhhhhhhhhhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCC-CHHHHHHHHHH
Confidence            3445666777777788888888877776 4444 4667777777888888888888888888888877 77777776666


Q ss_pred             HHhcCCHH
Q 012108          418 YASCGQWE  425 (471)
Q Consensus       418 ~~~~g~~~  425 (471)
                      ..+.....
T Consensus       155 ~~~l~~~~  162 (169)
T d1ihga1         155 KQKIKAQK  162 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            55444333

>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=98.19  E-value=5.9e-06  Score=58.56  Aligned_cols=88  Identities=6%  Similarity=-0.117  Sum_probs=49.3

Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC
Q 012108          276 MILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                      +...+.+.|++++|+..|++..... +-+...|..+..++.+.|++++|+..|+++.+  ..+.+...+..+..+|...|
T Consensus        22 ~g~~~~~~g~~~~A~~~~~~al~~~-p~~~~a~~~lg~~~~~~~~~~~A~~~~~~al~--~~p~~~~a~~~la~~y~~~g   98 (112)
T d1hxia_          22 EGLSMLKLANLAEAALAFEAVCQKE-PEREEAWRSLGLTQAENEKDGLAIIALNHARM--LDPKDIAVHAALAVSHTNEH   98 (112)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHS-TTCHHHHHHHHHHHHHTTCHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhHHHHHHHhhhcccc-cccchhhhhhhhhhhhhhhHHHhhcccccccc--cccccccchHHHHHHHHHCC
Confidence            4445555666666666666655542 22345555566666666666666666666655  23334555555555666666


Q ss_pred             CHHHHHHHHHh
Q 012108          356 LLDRAIELIEA  366 (471)
Q Consensus       356 ~~~~A~~~~~~  366 (471)
                      ++++|.+.+++
T Consensus        99 ~~~~A~~~l~~  109 (112)
T d1hxia_          99 NANAALASLRA  109 (112)
T ss_dssp             HHHHHHHHHHH
T ss_pred             CHHHHHHHHHH
Confidence            66666555543

>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=98.17  E-value=2.6e-05  Score=58.76  Aligned_cols=128  Identities=9%  Similarity=-0.117  Sum_probs=92.5

Q ss_pred             hhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHH
Q 012108          271 FCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDL  350 (471)
Q Consensus       271 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~  350 (471)
                      ..+......+.+.|++.+|+..|.+....  .|..           .........   .....     ....+|..+..+
T Consensus        18 ~~~~~~G~~~f~~~~y~~A~~~Y~~al~~--~~~~-----------~~~~~~~~~---~~~~~-----~~~~~~~Nla~~   76 (153)
T d2fbna1          18 FDIKEEGNEFFKKNEINEAIVKYKEALDF--FIHT-----------EEWDDQILL---DKKKN-----IEISCNLNLATC   76 (153)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHT--TTTC-----------TTCCCHHHH---HHHHH-----HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHhh--Ccch-----------hhhhhHHHH---Hhhhh-----HHHHHHhhHHHH
Confidence            45666778899999999999999998864  1110           000000000   11111     123467788889


Q ss_pred             HhhcCCHHHHHHHHHhC-CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh
Q 012108          351 LGRARLLDRAIELIEAM-PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS  420 (471)
Q Consensus       351 ~~~~g~~~~A~~~~~~~-~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~  420 (471)
                      |.+.|++++|++.++++ ...| +..+|..++.++...|++++|...|+++++.+|. +..+...+..+..+
T Consensus        77 ~~~l~~~~~Al~~~~~al~~~p~~~ka~~~~g~~~~~lg~~~~A~~~~~~al~l~P~-n~~~~~~l~~~~~k  147 (153)
T d2fbna1          77 YNKNKDYPKAIDHASKVLKIDKNNVKALYKLGVANMYFGFLEEAKENLYKAASLNPN-NLDIRNSYELCVNK  147 (153)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHSTT-CHHHHHHHHHHHHH
T ss_pred             HHHhcccchhhhhhhccccccchhhhhhHHhHHHHHHcCCHHHHHHHHHHHHHhCCC-CHHHHHHHHHHHHH
Confidence            99999999999999887 3344 6789999999999999999999999999999999 88887776665443

>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=1.1e-05  Score=62.53  Aligned_cols=120  Identities=10%  Similarity=-0.029  Sum_probs=84.2

Q ss_pred             HHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCH-HHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCc
Q 012108          311 LLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLL-DRAIELIEAMPFEPTESILGALLSACVIHQDL  389 (471)
Q Consensus       311 l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~-~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~  389 (471)
                      ........|++++|.+.|.+...-..-.+-..        +. .+.+ .....-++    ......+..+..++...|++
T Consensus        17 ~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l~~--------~~-~~~w~~~~r~~l~----~~~~~a~~~la~~~~~~g~~   83 (179)
T d2ff4a2          17 AGVHAAAAGRFEQASRHLSAALREWRGPVLDD--------LR-DFQFVEPFATALV----EDKVLAHTAKAEAEIACGRA   83 (179)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHTTCCSSTTGG--------GT-TSTTHHHHHHHHH----HHHHHHHHHHHHHHHHTTCH
T ss_pred             HHHHHHHCCCHHHHHHHHHHHHhhCccccccc--------Cc-chHHHHHHHHHHH----HHHHHHHHHHHHHHHHCCCc
Confidence            34566788999999999999887211111000        00 0000 00000010    01234667788899999999


Q ss_pred             hHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh-----CCCcccCc
Q 012108          390 EIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND-----TGIVKTAG  444 (471)
Q Consensus       390 ~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~-----~~~~~~~~  444 (471)
                      ++|+..++++++.+|. +...|..++.+|.+.|++++|++.|+++.+     .|+.|.+.
T Consensus        84 ~~Al~~~~~al~~~P~-~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~  142 (179)
T d2ff4a2          84 SAVIAELEALTFEHPY-REPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPT  142 (179)
T ss_dssp             HHHHHHHHHHHHHSTT-CHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHH
T ss_pred             hHHHHHHHHHHHhCCc-cHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHH
Confidence            9999999999999999 999999999999999999999999999843     57777654

>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=98.13  E-value=1.4e-05  Score=61.31  Aligned_cols=116  Identities=7%  Similarity=-0.061  Sum_probs=84.0

Q ss_pred             HHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhh
Q 012108          306 ITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVI  385 (471)
Q Consensus       306 ~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~  385 (471)
                      ..+......+.+.|++++|...|.++.......+....-            .......       -...+|..+..+|.+
T Consensus        16 ~~~~e~G~~~~~~~~~~~A~~~Y~~al~~~~~~~~~~~~------------~~~~~~~-------~~~~~~~Nla~~~~~   76 (168)
T d1kt1a1          16 AIVKEKGTVYFKGGKYVQAVIQYGKIVSWLEMEYGLSEK------------ESKASES-------FLLAAFLNLAMCYLK   76 (168)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHTTCCSCCHH------------HHHHHHH-------HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHhhccchh------------hhhhcch-------hHHHHHHhHHHHHHH
Confidence            445556666777777888877777766522211111000            0000000       013456778888999


Q ss_pred             cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          386 HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       386 ~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      .|++++|+..++++++.+|. +...|..++.+|...|++++|...|+++.+.+|..
T Consensus        77 l~~~~~Ai~~~~~al~l~p~-~~~a~~~~~~~~~~l~~~~~A~~~~~~al~l~P~n  131 (168)
T d1kt1a1          77 LREYTKAVECCDKALGLDSA-NEKGLYRRGEAQLLMNEFESAKGDFEKVLEVNPQN  131 (168)
T ss_dssp             TTCHHHHHHHHHHHHHHCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHSCTTC
T ss_pred             hhhcccchhhhhhhhhcccc-hHHHHHHHHHHHHHcCCHHHHHHHHHHHHHhCCCC
Confidence            99999999999999999999 99999999999999999999999999999887654

>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=98.11  E-value=4.9e-06  Score=64.18  Aligned_cols=114  Identities=7%  Similarity=-0.057  Sum_probs=83.1

Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCC-CHhHHHHHHHHHhhc
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEP-TESILGALLSACVIH  386 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p-~~~~~~~l~~~~~~~  386 (471)
                      +......+...|+++.|++.|.++.+.             ...........+.      ....| ....+..+..++.+.
T Consensus        30 ~~~~~~~~~~~~~y~~Ai~~y~~al~~-------------~~~~~~~~~~~~~------~~~~~~~~~~~~nla~~~~~~   90 (169)
T d1ihga1          30 LKNIGNTFFKSQNWEMAIKKYTKVLRY-------------VEGSRAAAEDADG------AKLQPVALSCVLNIGACKLKM   90 (169)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHH-------------HHHHHHHSCHHHH------GGGHHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHh-------------hhhhhhhhhhHHH------HHhChhhHHHHHHHHHHHHhh
Confidence            444555666777788787777776541             0000000011110      11123 455778888999999


Q ss_pred             CCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCcc
Q 012108          387 QDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       387 g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~  441 (471)
                      |++++|+..++++++.+|. ++..|..++.+|.+.|++++|++.|++..+..+..
T Consensus        91 ~~~~~Ai~~~~~al~~~p~-~~~a~~~~g~~~~~l~~~~~A~~~~~~al~l~p~n  144 (169)
T d1ihga1          91 SDWQGAVDSCLEALEIDPS-NTKALYRRAQGWQGLKEYDQALADLKKAQEIAPED  144 (169)
T ss_dssp             TCHHHHHHHHHHHHTTCTT-CHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTC
T ss_pred             cccchhhhhhhhhhhhhhh-hhhHHHhHHHHHHHccCHHHHHHHHHHHHHhCCCC
Confidence            9999999999999999999 99999999999999999999999999999877653

>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=98.09  E-value=5.1e-07  Score=83.29  Aligned_cols=222  Identities=11%  Similarity=-0.034  Sum_probs=113.9

Q ss_pred             HHHHHHhhcC--CC-ChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHH---HHHHHHHHHhcCCHHHHHHHHHHHHhC
Q 012108          125 SARYIFDKVP--AK-DVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVIT---WNTMVTGYLRSQLYIEVVDLFDEMKAG  198 (471)
Q Consensus       125 ~a~~~~~~~~--~~-~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~---~~~l~~~~~~~~~~~~a~~~~~~m~~~  198 (471)
                      +|.+.|+++.  +| ....+..+..++...+++++|   |++++..|+..   ++..  .......+..+.+.++...+.
T Consensus         4 eA~q~~~qA~~l~p~~a~a~~~la~~~~~~~~l~ea---ye~~i~~dp~~a~~~~~e--~~Lw~~~y~~~ie~~r~~~k~   78 (497)
T d1ya0a1           4 QSAQYLRQAEVLKADMTDSKLGPAEVWTSRQALQDL---YQKMLVTDLEYALDKKVE--QDLWNHAFKNQITTLQGQAKN   78 (497)
T ss_dssp             HHHHHHHHHHHHHGGGTCSSSCSSSSHHHHHHHHHH---HHHHHHHCHHHHHHHTHH--HHHHHHHTHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHHcCCCCHHHHhhHHHHHHHHchHHHH---HHHHHHcChhhHHHHhHH--HHHHHHHHHHHHHHHHHhccc
Confidence            4555555552  22 233444555566666666655   55553333221   1111  111111244566666666654


Q ss_pred             CCCCCHHHHHHHHHH--HHccCChHHHHHHHHHHHHcCCCCchhHHHHHHHHHHhcCChHHHHHHHhcCCCCC-hhhHHH
Q 012108          199 NVKPDYLTVTSVLSA--CANLGSLETGARIHVYATDNGLASNPHATTALIDMYAKCGSIEQSLEVFYKSQVKD-VFCWNA  275 (471)
Q Consensus       199 g~~p~~~~~~~l~~~--~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~-~~~~~~  275 (471)
                      ...++.......+..  ....+.++.+...+....+.. +++...+..+...+.+.|+.++|...+.+...++ ..++..
T Consensus        79 ~~~~~~~~~~~~~~~~l~~a~~~Y~~ai~~l~~~~~l~-~~~~~~~~~lg~~~~~~~~~~~A~~~~~~al~~~~~~~~~~  157 (497)
T d1ya0a1          79 RANPNRSEVQANLSLFLEAASGFYTQLLQELCTVFNVD-LPCRVKSSQLGIISNKQTHTSAIVKPQSSSCSYICQHCLVH  157 (497)
T ss_dssp             SSCTTTTHHHHHHHHHHHHHHHHHHHHHHHHTC--------------------------------CCHHHHHHHHHHHHH
T ss_pred             ccCccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-hhhHHHHHHhHHHHHhCCCHHHHHHHHHHHhCCCHHHHHHH
Confidence            433433322221111  122344455554444443332 4456667778888888888888887776544432 356777


Q ss_pred             HHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcC
Q 012108          276 MILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRAR  355 (471)
Q Consensus       276 l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g  355 (471)
                      +...+...|++++|...|.+..... +-+...|+.+...+...|+..+|...|.+...  -.+|.+.++..|...+.+..
T Consensus       158 LG~l~~~~~~~~~A~~~y~~A~~l~-P~~~~~~~~Lg~~~~~~~~~~~A~~~y~ral~--~~~~~~~a~~nL~~~~~~~~  234 (497)
T d1ya0a1         158 LGDIARYRNQTSQAESYYRHAAQLV-PSNGQPYNQLAILASSKGDHLTTIFYYCRSIA--VKFPFPAASTNLQKALSKAL  234 (497)
T ss_dssp             HHHHHHHTTCHHHHHHHHHHHHHHC-TTBSHHHHHHHHHHHHTTCHHHHHHHHHHHHS--SSBCCHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHcccHHHHHHHHHHHHHHC-CCchHHHHHHHHHHHHcCCHHHHHHHHHHHHh--CCCCCHHHHHHHHHHHHHhh
Confidence            8888999999999999999988752 33457899999999999999999999999987  45677888888888776543

>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=98.00  E-value=3.8e-05  Score=55.71  Aligned_cols=60  Identities=10%  Similarity=-0.100  Sum_probs=38.2

Q ss_pred             HHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHH
Q 012108          273 WNAMILGLALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEK  333 (471)
Q Consensus       273 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~  333 (471)
                      +..+...+.+.|++++|+..|.+.+..+ +.+...+..+..+|.+.|++++|.+.++++.+
T Consensus         7 ~k~~G~~~~~~~~y~~Ai~~y~~al~~~-p~~~~~~~~~a~~~~~~~~~~~A~~~~~~al~   66 (128)
T d1elra_           7 EKELGNDAYKKKDFDTALKHYDKAKELD-PTNMTYITNQAAVYFEKGDYNKCRELCEKAIE   66 (128)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHHHC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHcCCHHHHHHHHHHHHHhC-cccHHHHHhHHHHHHHcCchHHHHHHHHHHHH
Confidence            4445566666677777777776666652 23455666666667777777777777666655

>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=97.74  E-value=7e-05  Score=56.50  Aligned_cols=65  Identities=12%  Similarity=-0.147  Sum_probs=50.2

Q ss_pred             hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC-----C-----CchhHHHHHHHHHhcCCHHHHHHHHHHhhhCC
Q 012108          374 SILGALLSACVIHQDLEIGDRVAKMVCAKSNY-----L-----SDGELMMFANLYASCGQWEEANRWRNMMNDTG  438 (471)
Q Consensus       374 ~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~-----~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~  438 (471)
                      ..|+.+..+|...|++++|...+++.++..+.     +     ....+..++.+|...|++++|++.|++..+..
T Consensus        56 ~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~  130 (156)
T d2hr2a1          56 FCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGKLWISAVYSRALALDGLGRGAEAMPEFKKVVEMI  130 (156)
T ss_dssp             HHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccchhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhh
Confidence            46777888888889999888888888765321     1     12256778999999999999999999987643

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.73  E-value=4.3e-05  Score=63.07  Aligned_cols=126  Identities=14%  Similarity=-0.034  Sum_probs=79.0

Q ss_pred             HhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHH
Q 012108          281 ALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRA  360 (471)
Q Consensus       281 ~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A  360 (471)
                      .+.|++++|+..+++.++.. +-+...+..+...++..|++++|.+.++...+  -.+.+...+..+...+...+..+++
T Consensus         7 L~~G~l~eAl~~l~~al~~~-P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~--l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           7 LSEGQLQQALELLIEAIKAS-PKDASLRSSFIELLCIDGDFERADEQLMQSIK--LFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             TTTTCHHHHHHHHHHHHHTC-TTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHH--HCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHCCCHHHHHHHHHHHHHHC-CCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHH--hCCCcHHHHHHHHHHHHhccccHHH
Confidence            45688888888888887763 44667778888888888888888888888876  2223344555555555444444443


Q ss_pred             HHHHHhC--CCCC-CHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchh
Q 012108          361 IELIEAM--PFEP-TESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGE  410 (471)
Q Consensus       361 ~~~~~~~--~~~p-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  410 (471)
                      ..-....  ...| +...+......+...|+.++|...++++.+..|. .+..
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~-~~~~  135 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQE-KGFL  135 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCC-CCEE
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCC-CCcc
Confidence            3322221  1122 2334444455566778888888888888877776 4443

>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=97.71  E-value=3.3e-05  Score=57.47  Aligned_cols=44  Identities=7%  Similarity=0.105  Sum_probs=30.4

Q ss_pred             CchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          388 DLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      .+++|.+.|+++++..|. +...+..|...       ..|.+++.+..+.|+
T Consensus       101 ~~~~A~~~~~kal~l~P~-~~~~~~~L~~~-------~ka~~~~~e~~k~~~  144 (145)
T d1zu2a1         101 NFDLATQFFQQAVDEQPD-NTHYLKSLEMT-------AKAPQLHAEAYKQGL  144 (145)
T ss_dssp             HHHHHHHHHHHHHHHCTT-CHHHHHHHHHH-------HTHHHHHHHHHHSSS
T ss_pred             hHHHhhhhhhcccccCCC-HHHHHHHHHHH-------HHHHHHHHHHHHHhc
Confidence            467899999999999988 66655555554       355566666655543

>d1zu2a1 a.118.8.1 (A:1-145) Mitochondrial import receptor subunit tom20-3 {Thale cress (Arabidopsis thaliana) [TaxId: 3702]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Mitochondrial import receptor subunit tom20-3
species: Thale cress (Arabidopsis thaliana) [TaxId: 3702]

Probab=97.68  E-value=2.1e-05  Score=58.57  Aligned_cols=100  Identities=10%  Similarity=-0.029  Sum_probs=67.5

Q ss_pred             ccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHH
Q 012108          317 HAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVA  396 (471)
Q Consensus       317 ~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~  396 (471)
                      +.+.+++|.+.|+.+.+  ..|.++..+..+..+|...+++..+.+                      ..+.+++|+..|
T Consensus         9 r~~~fe~A~~~~e~al~--~~P~~~~~~~~~g~~l~~~~~~~~~~e----------------------~~~~~~~Ai~~~   64 (145)
T d1zu2a1           9 RILLFEQIRQDAENTYK--SNPLDADNLTRWGGVLLELSQFHSISD----------------------AKQMIQEAITKF   64 (145)
T ss_dssp             HHHHHHHHHHHHHHHHH--HCTTCHHHHHHHHHHHHHHHHHSCHHH----------------------HHHHHHHHHHHH
T ss_pred             HHccHHHHHHHHHHHHh--hCCcchHHHHHHHHHHHHhhhhhhhhH----------------------HHHHHHHHHHHH
Confidence            34455566666666555  233345555555555544433332222                      234567899999


Q ss_pred             HHHHHcCCCCCchhHHHHHHHHHhcCC-----------HHHHHHHHHHhhhCCCcc
Q 012108          397 KMVCAKSNYLSDGELMMFANLYASCGQ-----------WEEANRWRNMMNDTGIVK  441 (471)
Q Consensus       397 ~~~~~~~~~~~~~~~~~l~~~~~~~g~-----------~~~A~~~~~~m~~~~~~~  441 (471)
                      +++++.+|+ ++.+|..++.+|...|+           +++|.+.|++..+..|..
T Consensus        65 ~kAl~l~P~-~~~a~~~lG~~y~~~g~~~~~~~~~~~~~~~A~~~~~kal~l~P~~  119 (145)
T d1zu2a1          65 EEALLIDPK-KDEAVWCIGNAYTSFAFLTPDETEAKHNFDLATQFFQQAVDEQPDN  119 (145)
T ss_dssp             HHHHHHCTT-CHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCTTC
T ss_pred             HHHHHhcch-hhHHHhhHHHHHHHcccchhhHHHHHHhHHHhhhhhhcccccCCCH
Confidence            999999999 99999999999987654           688999999998877653

>d1zbpa1 e.61.1.1 (A:2-265) Hypothetical protein VPA1032 {Vibrio parahaemolyticus [TaxId: 670]}

class: Multi-domain proteins (alpha and beta)
fold: ImpE-like
superfamily: ImpE-like
family: ImpE-like
domain: Hypothetical protein VPA1032
species: Vibrio parahaemolyticus [TaxId: 670]

Probab=97.66  E-value=2.3e-05  Score=64.81  Aligned_cols=126  Identities=14%  Similarity=0.038  Sum_probs=87.7

Q ss_pred             HhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHHHhC-CCCCC-HhHHHHHHHHHhhcCCchHH
Q 012108          315 CSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELIEAM-PFEPT-ESILGALLSACVIHQDLEIG  392 (471)
Q Consensus       315 ~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~-~~~p~-~~~~~~l~~~~~~~g~~~~a  392 (471)
                      ..+.|++++|+..+++..+  ..+.+...+..+...|+..|++++|.+.++.. ...|+ ...+..+...+...+..+++
T Consensus         6 aL~~G~l~eAl~~l~~al~--~~P~d~~ar~~La~lL~~~G~~e~A~~~l~~a~~l~P~~~~~~~~l~~ll~a~~~~~~a   83 (264)
T d1zbpa1           6 ALSEGQLQQALELLIEAIK--ASPKDASLRSSFIELLCIDGDFERADEQLMQSIKLFPEYLPGASQLRHLVKAAQARKDF   83 (264)
T ss_dssp             HTTTTCHHHHHHHHHHHHH--TCTTCHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHCCCHHHHHHHHHHHHH--HCCCCHHHHHHHHHHHHHCCCHHHHHHHHHHHHHhCCCcHHHHHHHHHHHHhccccHHH
Confidence            4567999999999999998  56678999999999999999999999999988 45564 44555555444433333332


Q ss_pred             HHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          393 DRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       393 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      ..-.......++.++...+...+..+.+.|+.++|.+.++++.+..+..+
T Consensus        84 ~~~~~~~~~~~~p~~~~~~l~~a~~~~~~gd~~~A~~~~~~a~e~~p~~~  133 (264)
T d1zbpa1          84 AQGAATAKVLGENEELTKSLVSFNLSMVSQDYEQVSELALQIEELRQEKG  133 (264)
T ss_dssp             TTSCCCEECCCSCHHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCCCCC
T ss_pred             HHHhhhhhcccCchHHHHHHHHHHHHHhCCCHHHHHHHHHHHHhcCCCCC
Confidence            22111111111111334444566778899999999999999987665543

>d2ff4a2 a.118.8.3 (A:105-283) Probable regulatory protein EmbR, middle domain {Mycobacterium tuberculosis [TaxId: 1773]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: BTAD-like
domain: Probable regulatory protein EmbR, middle domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.63  E-value=0.00076  Score=51.72  Aligned_cols=123  Identities=9%  Similarity=0.032  Sum_probs=78.6

Q ss_pred             HHHHHHHhcCCHHHHHHHHhhcCCC--ChhhHHHHHHHHHhCCCHHHHHHHHHhccccChHHHHHHHHHHHhcCCHHHHH
Q 012108          112 IMISGYARIGKIHSARYIFDKVPAK--DVVSWNSLILAYTNAGEMEKAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVV  189 (471)
Q Consensus       112 ~l~~~~~~~g~~~~a~~~~~~~~~~--~~~~~~~l~~~~~~~~~~~~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~  189 (471)
                      .........|++++|.+.|.+...-  ....        ......+.+...-..+.......+..++..+...|++++|+
T Consensus        16 ~~g~~~~~~g~~e~A~~~~~~AL~l~rG~~l--------~~~~~~~w~~~~r~~l~~~~~~a~~~la~~~~~~g~~~~Al   87 (179)
T d2ff4a2          16 TAGVHAAAAGRFEQASRHLSAALREWRGPVL--------DDLRDFQFVEPFATALVEDKVLAHTAKAEAEIACGRASAVI   87 (179)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHTTCCSSTT--------GGGTTSTTHHHHHHHHHHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHhhCccccc--------ccCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCchHHH
Confidence            3445667777777777777776331  1100        00000001111111122223456777888888999999999


Q ss_pred             HHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHH-----HcCCCCchhHHH
Q 012108          190 DLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYAT-----DNGLASNPHATT  243 (471)
Q Consensus       190 ~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~-----~~~~~~~~~~~~  243 (471)
                      ..++++++.. +-+...|..++.++.+.|+..+|.+.|+++.     +.|+.|+..+-.
T Consensus        88 ~~~~~al~~~-P~~e~~~~~l~~al~~~Gr~~eAl~~y~~~~~~L~~eLG~~P~~~l~~  145 (179)
T d2ff4a2          88 AELEALTFEH-PYREPLWTQLITAYYLSDRQSDALGAYRRVKTTLADDLGIDPGPTLRA  145 (179)
T ss_dssp             HHHHHHHHHS-TTCHHHHHHHHHHHHTTTCHHHHHHHHHHHHHHHHHHHSCCCCHHHHH
T ss_pred             HHHHHHHHhC-CccHHHHHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHhCCCcCHHHHH
Confidence            9999888764 4577788888999999999999998888874     368888776543

>d1tjca_ a.118.8.1 (A:) Prolyl 4-hydroxylase alpha-1 subunit, P4HA1 {Human (Homo sapiens) [TaxId: 9606]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: TPR-like
family: Tetratricopeptide repeat (TPR)
domain: Prolyl 4-hydroxylase alpha-1 subunit, P4HA1
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.59  E-value=8.8e-05  Score=50.35  Aligned_cols=69  Identities=12%  Similarity=-0.115  Sum_probs=39.9

Q ss_pred             HHHHHHHhhcCCHHHHHHHHHhC----C----CCCC-HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHH
Q 012108          345 GCMVDLLGRARLLDRAIELIEAM----P----FEPT-ESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMF  414 (471)
Q Consensus       345 ~~l~~~~~~~g~~~~A~~~~~~~----~----~~p~-~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l  414 (471)
                      -.+...+.+.|++++|...|++.    +    ..++ ..++..+..++.+.|++++|+..++++++.+|. ++.++..+
T Consensus         9 ~~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~-~~~a~~Nl   86 (95)
T d1tjca_           9 FELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPE-HQRANGNL   86 (95)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTT-CHHHHHHH
T ss_pred             HHHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcC-CHHHHHHH
Confidence            34555666666666666666554    0    1111 345566666666666666666666666666666 55555544

>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=97.55  E-value=0.00026  Score=47.93  Aligned_cols=65  Identities=8%  Similarity=-0.049  Sum_probs=38.2

Q ss_pred             HHHHHHhhcCCchHHHHHHHHHHHcCCC-----C-CchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCccc
Q 012108          378 ALLSACVIHQDLEIGDRVAKMVCAKSNY-----L-SDGELMMFANLYASCGQWEEANRWRNMMNDTGIVKT  442 (471)
Q Consensus       378 ~l~~~~~~~g~~~~a~~~~~~~~~~~~~-----~-~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~~~  442 (471)
                      .+...+.+.|++++|+..|+++++..+.     + ...++..|+.+|.+.|++++|++.++++.+.+|..+
T Consensus        10 ~lG~~~~~~g~y~~A~~~~~~Al~~~~~~~~~~~~~~~~l~~Lg~~~~~~g~~~~A~~~y~~aL~l~P~~~   80 (95)
T d1tjca_          10 ELGKVAYTEADYYHTELWMEQALRQLDEGEISTIDKVSVLDYLSYAVYQQGDLDKALLLTKKLLELDPEHQ   80 (95)
T ss_dssp             HHHHHHHHTTCHHHHHHHHHHHHHHHHTTCCCSSCHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHCTTCH
T ss_pred             HHHHHHHHCCCHHHHHHHHHHHHHHHhhhhccCccHHHHHHHHhhHHHhcCChHHHHHHHHHHHHhCcCCH
Confidence            4555566666666666666666554321     1 134566666666666666666666666666555443

>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=97.44  E-value=0.00079  Score=50.43  Aligned_cols=92  Identities=13%  Similarity=-0.094  Sum_probs=57.9

Q ss_pred             HHhccCcHHHHHHHHHHhHHhcCCCCC----------hhHHHHHHHHHhhcCCHHHHHHHHHhC--------CCCCC---
Q 012108          314 ACSHAGLVQEGCELFSRMEKDFGVTRK----------LEHYGCMVDLLGRARLLDRAIELIEAM--------PFEPT---  372 (471)
Q Consensus       314 ~~~~~~~~~~a~~~~~~~~~~~~~~~~----------~~~~~~l~~~~~~~g~~~~A~~~~~~~--------~~~p~---  372 (471)
                      .+...|++++|++.|++..+-....|+          ..+|+.+..+|.+.|++++|.+.+++.        ...++   
T Consensus        18 ~~~~~g~y~~Ai~~y~~Al~i~~~~~~~~~~~~~~~~a~~~~nlg~~~~~lg~~~~A~~~~~~al~~~~~~~~~~~~~~~   97 (156)
T d2hr2a1          18 RQLVAGEYDEAAANCRRAMEISHTMPPEEAFDHAGFDAFCHAGLAEALAGLRSFDEALHSADKALHYFNRRGELNQDEGK   97 (156)
T ss_dssp             HHHHHTCHHHHHHHHHHHHHHHTTSCTTSCCCHHHHHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHHHCCTTSTHHH
T ss_pred             HHHHcCCHHHHHHHHHHHHHhChhhhhhhhcccchhHHHHHHHHHHHHHHcCccchhhHhhhhhhhcccccccccccccc
Confidence            344556666666666666542221121          245666666777777777766666554        11121   


Q ss_pred             --HhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCC
Q 012108          373 --ESILGALLSACVIHQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       373 --~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~  405 (471)
                        ...+..+..+|...|++++|+..|+++++..|.
T Consensus        98 ~~~~a~~~~g~~~~~lg~~eeA~~~~~~Al~l~~~  132 (156)
T d2hr2a1          98 LWISAVYSRALALDGLGRGAEAMPEFKKVVEMIEE  132 (156)
T ss_dssp             HHHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHhhhHHHHHHHHHHHHHHHHHHHHHHhhHH
Confidence              235677888999999999999999998887543

>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=96.75  E-value=0.16  Score=44.81  Aligned_cols=113  Identities=4%  Similarity=-0.095  Sum_probs=55.8

Q ss_pred             CChHHHHHHHHHHHhCCCCCCHHHHHH----HHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH
Q 012108          284 GYGYAALKLLGEMNDSCVKADDITFIG----LLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR  359 (471)
Q Consensus       284 ~~~~~a~~~~~~~~~~~~~p~~~~~~~----l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  359 (471)
                      .+.+.+..++......... +......    +.......+..+.+...+......   ..+.....-.+......++...
T Consensus       228 ~d~~~a~~~l~~~~~~~~~-~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~---~~~~~~~~w~~~~al~~~~~~~  303 (450)
T d1qsaa1         228 QDAENARLMIPSLAQAQQL-NEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMR---SQSTSLIERRVRMALGTGDRRG  303 (450)
T ss_dssp             HCHHHHHHHHHHHHHHTTC-CHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHT---CCCHHHHHHHHHHHHHHTCHHH
T ss_pred             cChhHHHHHHHhhhhcccc-cHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhccc---ccchHHHHHHHHHHHHcCChHH
Confidence            4566666666665543211 2111111    222233445556666666555441   1233333334444455566777


Q ss_pred             HHHHHHhCCCCCC--HhHHHHHHHHHhhcCCchHHHHHHHHHH
Q 012108          360 AIELIEAMPFEPT--ESILGALLSACVIHQDLEIGDRVAKMVC  400 (471)
Q Consensus       360 A~~~~~~~~~~p~--~~~~~~l~~~~~~~g~~~~a~~~~~~~~  400 (471)
                      +...+..+...|.  ..-.-=+..++...|+.+.|...|..+.
T Consensus       304 ~~~~~~~l~~~~~~~~r~~YW~gRa~~~~G~~~~A~~~~~~~a  346 (450)
T d1qsaa1         304 LNTWLARLPMEAKEKDEWRYWQADLLLERGREAEAKEILHQLM  346 (450)
T ss_dssp             HHHHHHHSCTTGGGSHHHHHHHHHHHHHTTCHHHHHHHHHHHH
T ss_pred             HHHHHHhcCcccccHHHHHHHHHHHHHHcCChhhHHHHHHHHh
Confidence            7777776643321  2222334566666777777777766654

>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=96.58  E-value=0.015  Score=41.63  Aligned_cols=83  Identities=7%  Similarity=-0.061  Sum_probs=47.7

Q ss_pred             CCHHHHHHHHHhCCCCCCHhHHHHHHHHHhh----cCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHh----cCCHHH
Q 012108          355 RLLDRAIELIEAMPFEPTESILGALLSACVI----HQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYAS----CGQWEE  426 (471)
Q Consensus       355 g~~~~A~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~  426 (471)
                      .+.++|.+.+++....-++.....|...|..    ..+.++|.++|++..+.+   ++.....|+..|..    ..+.++
T Consensus        37 ~~~~~a~~~~~~aa~~g~~~a~~~Lg~~y~~g~~~~~d~~~A~~~~~~aa~~g---~~~a~~~Lg~~y~~G~gv~~d~~~  113 (133)
T d1klxa_          37 INKQKLFQYLSKACELNSGNGCRFLGDFYENGKYVKKDLRKAAQYYSKACGLN---DQDGCLILGYKQYAGKGVVKNEKQ  113 (133)
T ss_dssp             SCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHCSSSCCCHHHHHHHHHHHHHTT---CHHHHHHHHHHHHHTSSSCCCHHH
T ss_pred             cCHHHHHHHHhhhhcccchhhhhhHHHhhhhccccchhhHHHHHHHhhhhccC---cchHHHHHHHHHHcCCccCCCHHH
Confidence            3445555555544212233333334433332    345677777777777665   45566667777665    356777


Q ss_pred             HHHHHHHhhhCCCc
Q 012108          427 ANRWRNMMNDTGIV  440 (471)
Q Consensus       427 A~~~~~~m~~~~~~  440 (471)
                      |.++|++..+.|..
T Consensus       114 A~~~~~~Aa~~G~~  127 (133)
T d1klxa_         114 AVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHHTTCH
T ss_pred             HHHHHHHHHHCCCH
Confidence            88888777766643

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.38  E-value=0.075  Score=36.40  Aligned_cols=141  Identities=14%  Similarity=0.139  Sum_probs=97.8

Q ss_pred             HHhcCChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHH
Q 012108          280 LALHGYGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDR  359 (471)
Q Consensus       280 ~~~~~~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~  359 (471)
                      +.-.|..++..+++.+....   .+..-|+.++--....-+-+...++++.+-+-+.+              ..++++..
T Consensus        12 ~ildG~ve~Gveii~k~~~s---s~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl--------------s~C~Nlk~   74 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKS---STKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL--------------DKCQNLKS   74 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHH---SCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG--------------GGCSCTHH
T ss_pred             HHHhhhHHhHHHHHHHHccc---CCccccceeeeecccccchHHHHHHHHHHhhhcCc--------------hhhhcHHH
Confidence            45578888888888887763   35556777776666666777777777777662222              23444444


Q ss_pred             HHHHHHhCCCCCCHhHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhhCCC
Q 012108          360 AIELIEAMPFEPTESILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMNDTGI  439 (471)
Q Consensus       360 A~~~~~~~~~~p~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~  439 (471)
                      ....+-.+.  .+...++..++....+|.-+.-.++.+.+.+ +-.|++.....++.+|.+.|...++-+++.+.-+.|.
T Consensus        75 vv~C~~~~n--~~se~vdlALd~lv~~~kkd~Ld~i~~~l~k-n~~i~~~~llkia~A~kkig~~re~nell~~ACe~G~  151 (161)
T d1wy6a1          75 VVECGVINN--TLNEHVNKALDILVIQGKRDKLEEIGREILK-NNEVSASILVAIANALRRVGDERDATTLLIEACKKGE  151 (161)
T ss_dssp             HHHHHHHTT--CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC---CCSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHhc--chHHHHHHHHHHHHHhccHHHHHHHHHHHHh-cCCCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhH
Confidence            444444443  2344556667777888888888888888766 4444788888999999999999999999988888876


Q ss_pred             c
Q 012108          440 V  440 (471)
Q Consensus       440 ~  440 (471)
                      .
T Consensus       152 K  152 (161)
T d1wy6a1         152 K  152 (161)
T ss_dssp             H
T ss_pred             H
Confidence            4

>d1wy6a1 a.118.20.1 (A:7-167) Hypothetical protein ST1625 {Archaeon Sulfolobus tokodaii [TaxId: 111955]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Hypothetical protein ST1625
family: Hypothetical protein ST1625
domain: Hypothetical protein ST1625
species: Archaeon Sulfolobus tokodaii [TaxId: 111955]

Probab=96.03  E-value=0.12  Score=35.44  Aligned_cols=139  Identities=12%  Similarity=0.079  Sum_probs=83.9

Q ss_pred             HHcCCCHHHHHHHHhcCCCC-ChhhHHHHHHHHHhcCCHHHHHHHHhhcCC-CChhhHHHHHHHHHhCCCHHHHHHHHHh
Q 012108           86 FASCGQMDHAMKLIDLMPLK-DVTSFNIMISGYARIGKIHSARYIFDKVPA-KDVVSWNSLILAYTNAGEMEKAGEMFKK  163 (471)
Q Consensus        86 ~~~~g~~~~A~~~~~~~~~~-~~~~~~~l~~~~~~~g~~~~a~~~~~~~~~-~~~~~~~~l~~~~~~~~~~~~A~~~~~~  163 (471)
                      +.-.|..++..+++.+...+ +..-||+++--....-+-+...+.++.+-+ -|.          ..++++......+-.
T Consensus        12 ~ildG~ve~Gveii~k~~~ss~~~E~NW~ICNiidt~dC~~v~~~Ld~IG~~FDl----------s~C~Nlk~vv~C~~~   81 (161)
T d1wy6a1          12 FLLDGYIDEGVKIVLEITKSSTKSEYNWFICNLLESIDCRYMFQVLDKIGSYFDL----------DKCQNLKSVVECGVI   81 (161)
T ss_dssp             HHHTTCHHHHHHHHHHHHHHSCHHHHTHHHHHHHHHCCHHHHHHHHHHHGGGSCG----------GGCSCTHHHHHHHHH
T ss_pred             HHHhhhHHhHHHHHHHHcccCCccccceeeeecccccchHHHHHHHHHHhhhcCc----------hhhhcHHHHHHHHHH
Confidence            34456666666666655444 445566666555555555555555544411 011          122333333333322


Q ss_pred             ccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCC
Q 012108          164 MLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLA  236 (471)
Q Consensus       164 ~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~  236 (471)
                      +- .+....+..+....++|+-++-.++++.+.+.+ +|+......+..+|.+.|+..++.+++.++.+.|++
T Consensus        82 ~n-~~se~vdlALd~lv~~~kkd~Ld~i~~~l~kn~-~i~~~~llkia~A~kkig~~re~nell~~ACe~G~K  152 (161)
T d1wy6a1          82 NN-TLNEHVNKALDILVIQGKRDKLEEIGREILKNN-EVSASILVAIANALRRVGDERDATTLLIEACKKGEK  152 (161)
T ss_dssp             TT-CCCHHHHHHHHHHHHTTCHHHHHHHHHHHC--C-CSCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHTTCH
T ss_pred             hc-chHHHHHHHHHHHHHhccHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHhcchhhHHHHHHHHHHHhHH
Confidence            21 133445666777888888888888888877754 677777777888888888888888888888888754

>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=95.90  E-value=0.017  Score=39.99  Aligned_cols=52  Identities=12%  Similarity=0.153  Sum_probs=28.1

Q ss_pred             CchHHHHHHHHHHHcCCCCC-chhHHHHHHHHHhcCCHHHHHHHHHHhhhCCCc
Q 012108          388 DLEIGDRVAKMVCAKSNYLS-DGELMMFANLYASCGQWEEANRWRNMMNDTGIV  440 (471)
Q Consensus       388 ~~~~a~~~~~~~~~~~~~~~-~~~~~~l~~~~~~~g~~~~A~~~~~~m~~~~~~  440 (471)
                      +.++++.+|++..+.+|. + ...+..|+-+|.+.|++++|.+.++++++..|.
T Consensus        53 d~~~gI~lLe~~~~~~p~-~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~  105 (124)
T d2pqrb1          53 DERLGVKILTDIYKEAES-RRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN  105 (124)
T ss_dssp             HHHHHHHHHHHHHHHCGG-GHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT
T ss_pred             HHHHHHHHHHHHHhcCch-hHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC
Confidence            344555555555555443 2 245555555566666666666666555555443

>d1qsaa1 a.118.5.1 (A:1-450) 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain {Escherichia coli [TaxId: 562]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: Bacterial muramidases
family: Bacterial muramidases
domain: 70 KDa soluble lytic transglycosylase (SLT70), superhelical domain
species: Escherichia coli [TaxId: 562]

Probab=95.87  E-value=0.52  Score=41.41  Aligned_cols=391  Identities=9%  Similarity=-0.076  Sum_probs=215.6

Q ss_pred             HHhhccchhHHHHHHHHHHHhccCCchhHHHHHHHHHhccCCHhHHHHHhcccCC-CC-cccHHHHHHHHHcCCCHHHHH
Q 012108           19 AAGILSSSCIGLMLHGQTIKTGFCGHVYVQTALLKMYGSLRCIDDAFKVFEKMPE-KD-IIAWNSMLDAFASCGQMDHAM   96 (471)
Q Consensus        19 ~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~~~~-~~-~~~~~~li~~~~~~g~~~~A~   96 (471)
                      .....|+...+.++...+..  .+.-+..--.-+..-.......+...++++-+. |- .......+..+.+.++++..+
T Consensus        15 ~a~~~~~~~~~~~~~~~L~d--ypL~pYl~~~~l~~~~~~~~~~~i~~Fl~~~p~~P~~~~lr~~~l~~L~~~~~w~~~~   92 (450)
T d1qsaa1          15 QAWDNRQMDVVEQMMPGLKD--YPLYPYLEYRQITDDLMNQPAVTVTNFVRANPTLPPARTLQSRFVNELARREDWRGLL   92 (450)
T ss_dssp             HHHHTTCHHHHHHHSGGGTT--STTHHHHHHHHHHHTGGGCCHHHHHHHHHHCTTCHHHHHHHHHHHHHHHHTTCHHHHH
T ss_pred             HHHHCCCHHHHHHHHhhhcC--CCCHHHHHHHHHHhccccCCHHHHHHHHHHCCCChhHHHHHHHHHHHHHhccCHHHHH
Confidence            34466788877777777632  222222111112222234566677777766543 21 112233456677788888777


Q ss_pred             HHHhcCCCCChhhHHHHHHHHHhcCCHHHHHHHHhhc---CCCChhhHH------------------HHHHHHHhCCCHH
Q 012108           97 KLIDLMPLKDVTSFNIMISGYARIGKIHSARYIFDKV---PAKDVVSWN------------------SLILAYTNAGEME  155 (471)
Q Consensus        97 ~~~~~~~~~~~~~~~~l~~~~~~~g~~~~a~~~~~~~---~~~~~~~~~------------------~l~~~~~~~~~~~  155 (471)
                      ..+..-. .+...-...+.+....|+.+.|...+..+   ....+..+.                  .-+......|++.
T Consensus        93 ~~~~~~p-~~~~~~c~~~~A~~~~g~~~~a~~~~~~lW~~~~~~p~~c~~l~~~~~~~~~lt~~~~~~R~~~~l~~~~~~  171 (450)
T d1qsaa1          93 AFSPEKP-GTTEAQCNYYYAKWNTGQSEEAWQGAKELWLTGKSQPNACDKLFSVWRASGKQDPLAYLERIRLAMKAGNTG  171 (450)
T ss_dssp             HHCCSCC-SSHHHHHHHHHHHHHTTCHHHHHHHHHHHHSCSSCCCTHHHHHHHHHHHTTCSCHHHHHHHHHHHHHTTCHH
T ss_pred             HhccCCC-CCHHHHHHHHHHHHHcCChHHHHHHHHHHHhcCCCCchHHHHHHHHHHhcCCCCHHHHHHHHHHHHHcCChh
Confidence            6664322 25555566777788888888887776655   111222222                  2334455566677


Q ss_pred             HHHHHHHhccccChHHHHHHHHHHHhcCCHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHHc--cCChHHHHHHHHHHHHc
Q 012108          156 KAGEMFKKMLVKNVITWNTMVTGYLRSQLYIEVVDLFDEMKAGNVKPDYLTVTSVLSACAN--LGSLETGARIHVYATDN  233 (471)
Q Consensus       156 ~A~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~--~~~~~~a~~~~~~~~~~  233 (471)
                      .|..+...+...........+......   ..+.....   ..  .++......+..++.+  ..+.+.+..++......
T Consensus       172 ~a~~l~~~l~~~~~~~~~a~~~l~~~p---~~~~~~~~---~~--~~~~~~~~~~~~~l~rla~~d~~~a~~~l~~~~~~  243 (450)
T d1qsaa1         172 LVTVLAGQMPADYQTIASAIISLANNP---NTVLTFAR---TT--GATDFTRQMAAVAFASVARQDAENARLMIPSLAQA  243 (450)
T ss_dssp             HHHHHHHTCCGGGHHHHHHHHHHHHCG---GGHHHHHH---HS--CCCHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHH
T ss_pred             hHHHHHhhCChhHHHHHHHHHHHHhCh---HhHHHHHh---cC--CCChhhhHHHHHHHHHHhccChhHHHHHHHhhhhc
Confidence            777776666554444445555443322   22222211   11  2233333333333332  35677788888777665


Q ss_pred             CCCCchhHHHHHH----HHHHhcCChHHHHHHHhcCCC--CChhhHHHHHHHHHhcCChHHHHHHHHHHHhCCCCCCHHH
Q 012108          234 GLASNPHATTALI----DMYAKCGSIEQSLEVFYKSQV--KDVFCWNAMILGLALHGYGYAALKLLGEMNDSCVKADDIT  307 (471)
Q Consensus       234 ~~~~~~~~~~~l~----~~~~~~~~~~~a~~~~~~~~~--~~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~p~~~~  307 (471)
                      . ..+..-....-    ..+...+..+.+...+.....  .+.....-.+......+++..+...+..|... ......-
T Consensus       244 ~-~~~~~~~~~~~~~~a~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~w~~~~al~~~~~~~~~~~~~~l~~~-~~~~~r~  321 (450)
T d1qsaa1         244 Q-QLNEDQIQELRDIVAWRLMGNDVTDEQAKWRDDAIMRSQSTSLIERRVRMALGTGDRRGLNTWLARLPME-AKEKDEW  321 (450)
T ss_dssp             T-TCCHHHHHHHHHHHHHTSCSTTCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHHTCHHHHHHHHHHSCTT-GGGSHHH
T ss_pred             c-cccHHHHHHHHHHHHHHHHHcCchHHHHHHHHhhcccccchHHHHHHHHHHHHcCChHHHHHHHHhcCcc-cccHHHH
Confidence            4 22222222222    222334556667666654332  23333333444556678899999888887543 2223444


Q ss_pred             HHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhhcCCHHHHHHHH-HhCCCCCCHh----HHHHHHHH
Q 012108          308 FIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGRARLLDRAIELI-EAMPFEPTES----ILGALLSA  382 (471)
Q Consensus       308 ~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~-~~~~~~p~~~----~~~~l~~~  382 (471)
                      ..-+.+++...|+.+.|...|..+..    .++  .|..|...  +.|..-.   +- ......+...    .-...+..
T Consensus       322 ~YW~gRa~~~~G~~~~A~~~~~~~a~----~~~--fYG~LAa~--~Lg~~~~---~~~~~~~~~~~~~~~~~~~~~ra~~  390 (450)
T d1qsaa1         322 RYWQADLLLERGREAEAKEILHQLMQ----QRG--FYPMVAAQ--RIGEEYE---LKIDKAPQNVDSALTQGPEMARVRE  390 (450)
T ss_dssp             HHHHHHHHHHTTCHHHHHHHHHHHHT----SCS--HHHHHHHH--HTTCCCC---CCCCCCCSCCCCHHHHSHHHHHHHH
T ss_pred             HHHHHHHHHHcCChhhHHHHHHHHhc----CCC--hHHHHHHH--HcCCCCC---CCcCCCCccHHHhhhcChHHHHHHH
Confidence            56677888899999999999998875    233  44443322  2221100   00 0001111110    11123455


Q ss_pred             HhhcCCchHHHHHHHHHHHcCCCCCchhHHHHHHHHHhcCCHHHHHHHHHHhhh
Q 012108          383 CVIHQDLEIGDRVAKMVCAKSNYLSDGELMMFANLYASCGQWEEANRWRNMMND  436 (471)
Q Consensus       383 ~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~l~~~~~~~g~~~~A~~~~~~m~~  436 (471)
                      +...|....|.+.+..+....   ++.....++....+.|.++.|+....+...
T Consensus       391 L~~~g~~~~A~~e~~~l~~~~---~~~~~~~la~lA~~~g~~~~aI~a~~~~~~  441 (450)
T d1qsaa1         391 LMYWNLDNTARSEWANLVKSK---SKTEQAQLARYAFNNQWWDLSVQATIAGKL  441 (450)
T ss_dssp             HHHTTCHHHHHHHHHHHHTTC---CHHHHHHHHHHHHHTTCHHHHHHHHHHTTC
T ss_pred             HHHcCCchHHHHHHHHHHhCC---CHHHHHHHHHHHHHCCChhHHHHHHHHHHc
Confidence            778899999999998887532   577788889999999999999988777643

>d1klxa_ a.118.18.1 (A:) Cysteine rich protein B (HcpB) {Helicobacter pylori [TaxId: 210]}

class: All alpha proteins
fold: alpha-alpha superhelix
superfamily: HCP-like
family: HCP-like
domain: Cysteine rich protein B (HcpB)
species: Helicobacter pylori [TaxId: 210]

Probab=95.59  E-value=0.12  Score=36.61  Aligned_cols=112  Identities=8%  Similarity=-0.071  Sum_probs=71.5

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHHHHhh----cCCHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVDLLGR----ARLLDRA  360 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~g~~~~A  360 (471)
                      ++++|+++|++..+.|..   .....+.  .....+.++|...+++..+ .|   ++.....|...|..    ..+.++|
T Consensus         8 d~~~A~~~~~kaa~~g~~---~a~~~l~--~~~~~~~~~a~~~~~~aa~-~g---~~~a~~~Lg~~y~~g~~~~~d~~~A   78 (133)
T d1klxa_           8 DLKKAIQYYVKACELNEM---FGCLSLV--SNSQINKQKLFQYLSKACE-LN---SGNGCRFLGDFYENGKYVKKDLRKA   78 (133)
T ss_dssp             HHHHHHHHHHHHHHTTCT---THHHHHH--TCTTSCHHHHHHHHHHHHH-TT---CHHHHHHHHHHHHHCSSSCCCHHHH
T ss_pred             CHHHHHHHHHHHHHCCCh---hhhhhhc--cccccCHHHHHHHHhhhhc-cc---chhhhhhHHHhhhhccccchhhHHH
Confidence            567778888877776522   2222232  2345677888888888877 23   34445555555543    4567888


Q ss_pred             HHHHHhCCCCCCHhHHHHHHHHHhh----cCCchHHHHHHHHHHHcCCC
Q 012108          361 IELIEAMPFEPTESILGALLSACVI----HQDLEIGDRVAKMVCAKSNY  405 (471)
Q Consensus       361 ~~~~~~~~~~p~~~~~~~l~~~~~~----~g~~~~a~~~~~~~~~~~~~  405 (471)
                      .++|++.-..-++.....|...|..    ..+.++|.++++++.+.|..
T Consensus        79 ~~~~~~aa~~g~~~a~~~Lg~~y~~G~gv~~d~~~A~~~~~~Aa~~G~~  127 (133)
T d1klxa_          79 AQYYSKACGLNDQDGCLILGYKQYAGKGVVKNEKQAVKTFEKACRLGSE  127 (133)
T ss_dssp             HHHHHHHHHTTCHHHHHHHHHHHHHTSSSCCCHHHHHHHHHHHHHTTCH
T ss_pred             HHHHhhhhccCcchHHHHHHHHHHcCCccCCCHHHHHHHHHHHHHCCCH
Confidence            8888887223345555556655554    45788899999998887754

>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=92.82  E-value=0.54  Score=32.25  Aligned_cols=70  Identities=7%  Similarity=0.006  Sum_probs=42.0

Q ss_pred             ChhHHHHHHHHHhhc---CCHHHHHHHHHhC-CCCC-CH-hHHHHHHHHHhhcCCchHHHHHHHHHHHcCCCCCchh
Q 012108          340 KLEHYGCMVDLLGRA---RLLDRAIELIEAM-PFEP-TE-SILGALLSACVIHQDLEIGDRVAKMVCAKSNYLSDGE  410 (471)
Q Consensus       340 ~~~~~~~l~~~~~~~---g~~~~A~~~~~~~-~~~p-~~-~~~~~l~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~  410 (471)
                      ++.+--....++.+.   .+.++++.+++++ ...| +. ..+..|.-+|.+.|++++|.+.++++++..|. +...
T Consensus        34 s~qt~F~YAw~Lv~S~~~~d~~~gI~lLe~~~~~~p~~~rd~lY~Lav~yyklgdy~~A~~~~~~~L~ieP~-n~qA  109 (124)
T d2pqrb1          34 TIQSRFNYAWGLIKSTDVNDERLGVKILTDIYKEAESRRRECLYYLTIGCYKLGEYSMAKRYVDTLFEHERN-NKQV  109 (124)
T ss_dssp             CHHHHHHHHHHHHHSSCHHHHHHHHHHHHHHHHHCGGGHHHHHHHHHHHHHHHTCHHHHHHHHHHHHHHCTT-CHHH
T ss_pred             CcchHHHHHHHHHcCCcHHHHHHHHHHHHHHHhcCchhHHHHHHHHHHHHHHHhhHHHHHHHHHHHHccCCC-cHHH
Confidence            333333344444433   3345666666665 2223 22 34456667788888888888888888888887 5444

>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=90.78  E-value=0.82  Score=29.49  Aligned_cols=63  Identities=11%  Similarity=0.149  Sum_probs=51.0

Q ss_pred             ChHHHHHHHHHHHhCCCCCCHHHHHHHHHHHhccCcHHHHHHHHHHhHHhcCCCCChhHHHHHHH
Q 012108          285 YGYAALKLLGEMNDSCVKADDITFIGLLSACSHAGLVQEGCELFSRMEKDFGVTRKLEHYGCMVD  349 (471)
Q Consensus       285 ~~~~a~~~~~~~~~~~~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~l~~  349 (471)
                      +.-++.+-++.+....+.|++......+++|.+.+++..|..+|+-++.+.|  ++...|..+++
T Consensus        21 D~we~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~~--~~k~~y~yilq   83 (105)
T d1v54e_          21 DAWELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAG--PHKEIYPYVIQ   83 (105)
T ss_dssp             CHHHHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHTT--TCTTHHHHHHH
T ss_pred             cHHHHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHhc--CcHHHHHHHHH
Confidence            4556777788888888899999999999999999999999999999987443  34556776654

>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=88.54  E-value=1.6  Score=28.17  Aligned_cols=59  Identities=17%  Similarity=0.291  Sum_probs=38.9

Q ss_pred             HHHHHHHHHHhCCCCCCHHHHHHHHHHHHccCChHHHHHHHHHHHHcCCCCchhHHHHHH
Q 012108          187 EVVDLFDEMKAGNVKPDYLTVTSVLSACANLGSLETGARIHVYATDNGLASNPHATTALI  246 (471)
Q Consensus       187 ~a~~~~~~m~~~g~~p~~~~~~~l~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~l~  246 (471)
                      ++.+-++.+....+.|+.......+++|.+.+++..|.++++..+... .++...|..++
T Consensus        24 e~rrgmN~l~~~DlVPeP~Ii~aALrAcRRvND~alAVR~lE~vK~K~-~~~k~~y~yil   82 (105)
T d1v54e_          24 ELRKGMNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKA-GPHKEIYPYVI   82 (105)
T ss_dssp             HHHHHHHHHTTSSBCCCHHHHHHHHHHHHHTTCHHHHHHHHHHHHHHT-TTCTTHHHHHH
T ss_pred             HHHHHHHHHhccccCCCcHHHHHHHHHHHHhhhHHHHHHHHHHHHHHh-cCcHHHHHHHH
Confidence            455666666666677777777777777777777777777777766543 23344555444